Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009205.1 Hibiscus syriacus cultivar Beakdansim tig00112791_pilon, 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: 274913
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
File 1 of 2
Found at i:2383 original size:105 final size:104
Alignment explanation
Indices: 2238--2434 Score: 272
Period size: 105 Copynumber: 1.9 Consensus size: 104
2228 GACACGAACA
2238 TTTGAGATAGTTTTCTTAAAAACAAATTTCATCTCGCTTGAGACAGTTTCCCTCAAAACA-AAAA
1 TTTGAGATAGTTTTCTTAAAAACAAATTTCATCTCGCTTGAGACAGTTTCCCTCAAAACATAAAA
2302 AATTTGGAAATTGTTTCACTTGAAACAAAATTGATAAACC
66 AATTT-GAAATTGTTTCACTTGAAACAAAATTGATAAACC
* * * * **
2342 TTTGAGATTGTTTCTCTTGAAAAA-AAGTTTTATCTCGCTTGAGACAGTTTCTCTTGAAACATAA
1 TTTGAGATAGTTT-TCTT-AAAAACAAATTTCATCTCGCTTGAGACAGTTTCCCTCAAAACATAA
* * *
2406 AAACTTTGATATTGTTTCTCTTGAAACAA
64 AAAATTTGAAATTGTTTCACTTGAAACAA
2435 GTTTTGTCTT
Statistics
Matches: 81, Mismatches: 9, Indels: 5
0.85 0.09 0.05
Matches are distributed among these distances:
104 12 0.15
105 56 0.69
106 13 0.16
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.37
Consensus pattern (104 bp):
TTTGAGATAGTTTTCTTAAAAACAAATTTCATCTCGCTTGAGACAGTTTCCCTCAAAACATAAAA
AATTTGAAATTGTTTCACTTGAAACAAAATTGATAAACC
Found at i:2454 original size:67 final size:66
Alignment explanation
Indices: 2335--2645 Score: 387
Period size: 63 Copynumber: 4.9 Consensus size: 66
2325 AACAAAATTG
* * *
2335 ATAAACCTTTGAGATTGTTTCTCTTGAAAAAAAGTTTTATCTCGCTTGAGACAGTTTCTCTTGAA
1 ATAAAACTTTGAGATTGTTTCTCTTG-AAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAA
2400 AC
65 AC
* *
2402 ATAAAAACTTTGATATTGTTTCTCTTGAAACAAGTTTTGTCTTGCTTGAGACAGTTTCTCTTGAA
1 AT-AAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAA
2467 AC
65 AC
** *
2469 ATAAAACTTTGAGATTG--T-TCTTGAAACAAGTTTTGTCTCATTTGAGACAGTTTGTCTTGAAA
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
2531 C
66 C
* *
2532 ATAAAACATTGAGATTGTTTCCCTTGAAACAAAGTTTTG--T--C-T--GACAGTTTCTCTTG-A
1 ATAAAACTTTGAGATTGTTTCTCTTGAAAC-AAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAA
2589 A-
65 AC
* * *
2590 AT-AAACATTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTC
1 ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTC
2646 CCTTAAAAAC
Statistics
Matches: 217, Mismatches: 15, Indels: 28
0.83 0.06 0.11
Matches are distributed among these distances:
56 7 0.03
57 27 0.12
58 3 0.01
59 2 0.01
60 14 0.06
61 1 0.00
62 1 0.00
63 66 0.30
64 1 0.00
65 2 0.01
66 22 0.10
67 49 0.23
68 22 0.10
ACGTcount: A:0.30, C:0.15, G:0.16, T:0.39
Consensus pattern (66 bp):
ATAAAACTTTGAGATTGTTTCTCTTGAAACAAGTTTTGTCTCGCTTGAGACAGTTTCTCTTGAAA
C
Found at i:2607 original size:57 final size:59
Alignment explanation
Indices: 2514--2629 Score: 193
Period size: 57 Copynumber: 2.0 Consensus size: 59
2504 TCTCATTTGA
*
2514 GACAGTTTGTCTTGAAACATAAAACATTGAGATTGTTTCCCTTGAAACAAAGTTTTGTCT
1 GACAGTTTCTCTTGAAACATAAAACATTGAGATTGTTTCCCTTGAAACAAA-TTTTGTCT
2574 GACAGTTTCTCTTG-AA-AT-AAACATTGAGATTGTTTCCCTTGAAACAAATTTTGTCT
1 GACAGTTTCTCTTGAAACATAAAACATTGAGATTGTTTCCCTTGAAACAAATTTTGTCT
2630 CGCTTGAGAC
Statistics
Matches: 55, Mismatches: 1, Indels: 4
0.92 0.02 0.07
Matches are distributed among these distances:
56 8 0.15
57 30 0.55
58 2 0.04
59 2 0.04
60 13 0.24
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.38
Consensus pattern (59 bp):
GACAGTTTCTCTTGAAACATAAAACATTGAGATTGTTTCCCTTGAAACAAATTTTGTCT
Found at i:2614 original size:27 final size:27
Alignment explanation
Indices: 2535--2621 Score: 84
Period size: 27 Copynumber: 3.1 Consensus size: 27
2525 TTGAAACATA
2535 AAACATTGAGATTGTTTCCCTTGAAAC
1 AAACATTGAGATTGTTTCCCTTGAAAC
** * ** * *
2562 AAAGTTTTGTCTGACAGTTTCTCTTGAAAT
1 AAA-CATTG--AGATTGTTTCCCTTGAAAC
2592 AAACATTGAGATTGTTTCCCTTGAAAC
1 AAACATTGAGATTGTTTCCCTTGAAAC
2619 AAA
1 AAA
2622 TTTTGTCTCG
Statistics
Matches: 43, Mismatches: 14, Indels: 6
0.68 0.22 0.10
Matches are distributed among these distances:
27 20 0.47
28 3 0.07
29 3 0.07
30 17 0.40
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (27 bp):
AAACATTGAGATTGTTTCCCTTGAAAC
Found at i:2637 original size:123 final size:129
Alignment explanation
Indices: 2343--2645 Score: 383
Period size: 123 Copynumber: 2.4 Consensus size: 129
2333 TGATAAACCT
* *
2343 TTGAGATTGTTTCTCTTGAAAAAAAGTTTTATCTCGCTTGAGACAGTTTCTCTTGAAACATAAAA
1 TTGAGATTGTTTC-CTTGAAACAAA-TTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAA
* * *
2408 ACTTTGATATTGTTTCTCTTGAAACAAGTTTTGTCTTGCTTGAGACAGTTTCTCTTGAAACATAA
64 ACATTGAGATTGTTTCCCTTGAAACAAGTTTTG--TTGCTT-AGACAGTTTCTCTTGAAACATAA
*
2473 AACT
126 AACA
* ** *
2477 TTGAGATTG-TT-CTTGAAACAAGTTTTGTCTCATTTGAGACAGTTTGTCTTGAAACAT-AAAAC
1 TTGAGATTGTTTCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAAAC
2539 ATTGAGATTGTTTCCCTTGAAACAAAGTTTTG-T-C-T-GACAGTTTCTCTTG-AA-AT-AAACA
66 ATTGAGATTGTTTCCCTTGAAAC-AAGTTTTGTTGCTTAGACAGTTTCTCTTGAAACATAAAACA
2597 TTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTC
1 TTGAGATTGTTT-CCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTC
2646 CCTTAAAAAC
Statistics
Matches: 151, Mismatches: 14, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
120 13 0.09
121 4 0.03
122 2 0.01
123 45 0.30
125 1 0.01
126 1 0.01
127 1 0.01
129 25 0.17
130 39 0.26
131 9 0.06
133 2 0.01
134 9 0.06
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (129 bp):
TTGAGATTGTTTCCTTGAAACAAATTTTGTCTCGCTTGAGACAGTTTCTCTTGAAACATAAAAAC
ATTGAGATTGTTTCCCTTGAAACAAGTTTTGTTGCTTAGACAGTTTCTCTTGAAACATAAAACA
Found at i:2955 original size:137 final size:136
Alignment explanation
Indices: 2657--3041 Score: 433
Period size: 136 Copynumber: 2.9 Consensus size: 136
2647 CTTAAAAACA
* * *
2657 AATTATCCCAAAAAATGGCCAGATGTCCT-ATCACGTAGGAACTGTGTCATCCACCGACCAGA-T
1 AATTATCCCTAAAGATGGCCAGATGTCCTCATCACGTAGGAACAGTGTCATCCACCGACCAGACT
* * * * *
2720 -CTCATCACGTAGGAGTCGCGTCATCCTTAGATAGCCAGACTTCCTCATCACGTAGGAACCGTGT
66 CCTCATCACGTAGGAGTCGCATCATCCTTAGATAGCCAGAATTCCTCATCACATAGAAACCATGT
2784 TATCTC
131 TATCTC
* *
2790 CATTATCCCTAAAGATGGCCAGATGTCCTCATCACGTAGGAACCGTGTCATCCACCGACCAGATC
1 AATTATCCCTAAAGATGGCCAGATGTCCTCATCACGTAGGAACAGTGTCATCCACCGACCAGA-C
* * * * *
2855 TCCTCATCACGTAGGAGTCGTATC-TCCTTAGATAGCCATAATTTCTTATCGCATAGAAACCATG
65 TCCTCATCACGTAGGAGTCGCATCATCCTTAGATAGCCAGAATTCCTCATCACATAGAAACCATG
2919 TTATCTC
130 TTATCTC
* * * * * *
2926 AATTTATCCCTAAAGATGGCTAGACGTCCTC--CACTTAGGAACAATGTCATCTACCGACGAGAC
1 AA-TTATCCCTAAAGATGGCCAGATGTCCTCATCACGTAGGAACAGTGTCATCCACCGACCAGA-
* * ** * * *
2989 CTCCTCATTACATAGGAG-CAGTGTCACCCTTAGATAACCAGATTTCCTCATCA
64 CTCCTCATCACGTAGGAGTC-GCATCATCCTTAGATAGCCAGAATTCCTCATCA
3042 TGTAGGAACC
Statistics
Matches: 212, Mismatches: 33, Indels: 11
0.83 0.13 0.04
Matches are distributed among these distances:
133 26 0.12
134 33 0.16
135 46 0.22
136 61 0.29
137 46 0.22
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (136 bp):
AATTATCCCTAAAGATGGCCAGATGTCCTCATCACGTAGGAACAGTGTCATCCACCGACCAGACT
CCTCATCACGTAGGAGTCGCATCATCCTTAGATAGCCAGAATTCCTCATCACATAGAAACCATGT
TATCTC
Found at i:10745 original size:69 final size:74
Alignment explanation
Indices: 10670--10822 Score: 181
Period size: 69 Copynumber: 2.1 Consensus size: 74
10660 ATACTATCAG
*
10670 TTTTAAAATTAATAGAATTA-AATATTAATC-CAAAATTT-ATATGATTTAATTA-TTTTTAAGA
1 TTTTAAAATTAATAGAATTATAATATCAATCTCAAAATTTCATATGATTTAATTACTTTTTAAGA
10731 TATT-TAAA
66 TATTATAAA
* * ** * *
10739 TTTTAAAATTAGTAGAATTATATTATCAATCTCTTAATTTCTTATTATTTAATTACTTTTTAAGA
1 TTTTAAAATTAATAGAATTATAATATCAATCTCAAAATTTCATATGATTTAATTACTTTTTAAGA
* **
10804 TCTTATTTA
66 TATTATAAA
10813 TTTTAAAATT
1 TTTTAAAATT
10823 TAACAACTTG
Statistics
Matches: 69, Mismatches: 10, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
69 19 0.28
70 8 0.12
71 6 0.09
72 12 0.17
73 12 0.17
74 12 0.17
ACGTcount: A:0.40, C:0.05, G:0.04, T:0.51
Consensus pattern (74 bp):
TTTTAAAATTAATAGAATTATAATATCAATCTCAAAATTTCATATGATTTAATTACTTTTTAAGA
TATTATAAA
Found at i:11622 original size:3 final size:3
Alignment explanation
Indices: 11614--11650 Score: 56
Period size: 3 Copynumber: 12.0 Consensus size: 3
11604 TGTCCCGATC
*
11614 TTA TTA TTA TTA TTA TTA TTA TATA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
11651 AATAAATATT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
3 28 0.90
4 3 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:13104 original size:16 final size:15
Alignment explanation
Indices: 13072--13102 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
13062 TAAAATATTA
*
13072 TATTTAATTTATTTT
1 TATTTAAATTATTTT
13087 TATTTAAATTATTTT
1 TATTTAAATTATTTT
13102 T
1 T
13103 TAGGAAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TATTTAAATTATTTT
Found at i:18416 original size:8 final size:8
Alignment explanation
Indices: 18403--18459 Score: 52
Period size: 8 Copynumber: 7.5 Consensus size: 8
18393 CTCATTCATC
18403 AGAAAAAA
1 AGAAAAAA
18411 AGAAAAAA
1 AGAAAAAA
18419 AG---AAA
1 AGAAAAAA
18424 AGAAAAAA
1 AGAAAAAA
*
18432 GAGATGAAAA
1 -AGA-AAAAA
18442 AG--AAAA
1 AGAAAAAA
18448 AGAAAAAA
1 AGAAAAAA
18456 AGAA
1 AGAA
18460 TTTGAATCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
5 5 0.12
6 6 0.15
8 21 0.51
9 5 0.12
10 4 0.10
ACGTcount: A:0.81, C:0.00, G:0.18, T:0.02
Consensus pattern (8 bp):
AGAAAAAA
Found at i:18431 original size:12 final size:12
Alignment explanation
Indices: 18408--18455 Score: 53
Period size: 12 Copynumber: 3.9 Consensus size: 12
18398 TCATCAGAAA
18408 AAAAGAAAAAAAG
1 AAAAG-AAAAAAG
18421 AAAAGAAAAAAG
1 AAAAGAAAAAAG
* *
18433 AGATG-AAAAAG
1 AAAAGAAAAAAG
18444 AAAAAGAAAAAA
1 -AAAAGAAAAAA
18456 AGAATTTGAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 6 0.21
12 13 0.45
13 10 0.34
ACGTcount: A:0.81, C:0.00, G:0.17, T:0.02
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:19939 original size:117 final size:117
Alignment explanation
Indices: 19648--19942 Score: 369
Period size: 117 Copynumber: 2.5 Consensus size: 117
19638 CCAGAAATAG
* * * * *
19648 AATATTGAGGCATTTCGAAAGCCCATTTCAGACAAAAATGATCTATATGGGTATTTTGAAGGCCC
1 AATATTGGGGCATTTCGAAAGCCCATTTCAGACAGAAATGATCAATGTGGGCATTTTGAAGGCCC
* * * *
19713 GCGTTAGTATGAATATTTGGGCATTTTTGAAAGTTCATATTAGCAAGAAGCA
66 ACGTCAGTATGAATATTTGGGCATTTTTGAAAGCTCATATTAGAAAGAAGCA
* * * *
19765 AATATTGGAGCATCTCGAAAGACCATTTTAGACAGAAATGA-CATATGTGGGGCATTTTGAAGGC
1 AATATTGGGGCATTTCGAAAGCCCATTTCAGACAGAAATGATCA-ATGT-GGGCATTTTGAAGGC
*
19829 CCACGTCAGTATGAATATTTGGGCATTTTTTAAA-CTCATATTAGAAAGAAGCA
64 CCACGTCAGTATGAATATTTGGGCATTTTTGAAAGCTCATATTAGAAAGAAGCA
* * * * * *
19882 AATGTTGGGGCATTTTGAAGGCCCGTTTCAGATAGAAATGATCAATGCGAGGCATTTTGAA
1 AATATTGGGGCATTTCGAAAGCCCATTTCAGACAGAAATGATCAATGTG-GGCATTTTGAA
19943 AGCTTATTTT
Statistics
Matches: 150, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
116 2 0.01
117 101 0.67
118 47 0.31
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (117 bp):
AATATTGGGGCATTTCGAAAGCCCATTTCAGACAGAAATGATCAATGTGGGCATTTTGAAGGCCC
ACGTCAGTATGAATATTTGGGCATTTTTGAAAGCTCATATTAGAAAGAAGCA
Found at i:20479 original size:53 final size:54
Alignment explanation
Indices: 20298--20504 Score: 265
Period size: 54 Copynumber: 3.9 Consensus size: 54
20288 AAATCTAGGA
* * *
20298 AGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATACTTTACGAACATCTGGGT
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGC
* *
20352 AGAAGACAAAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGC
* * * * * * **
20406 AGAAGCCACGGGAAATGATGAATGTGTTATCAAATGTTTTATGAAAATC-CAGC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGC
*
20459 AGAAGCCACAGGAAAGGATGAATGTTTTGTCAAATG-TTCTACGAAC
1 AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTT-TACGAAC
20505 CAGTGATTAT
Statistics
Matches: 132, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
52 2 0.02
53 39 0.30
54 91 0.69
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (54 bp):
AGAAGCCACAGGAAAGGATGAATGTGTTGTCAAATGCTTTACGAACATCTGGGC
Found at i:20494 original size:107 final size:108
Alignment explanation
Indices: 20298--20504 Score: 265
Period size: 107 Copynumber: 1.9 Consensus size: 108
20288 AAATCTAGGA
* * * ** *
20298 AGAAGCCATAGGAAAGGATGAATGTGTTGTCAAATACTTTACGAACATCTGGGTAGAAGACAAAG
1 AGAAGCCACAGGAAAGGATGAATGTGTTATCAAATACTTTACGAAAATCTCAGCAGAAGACAAAG
20363 GAAAGGATGAATGTGTTGTCAAATGCTT-TACGAACATCTGGGC
66 GAAAGGATGAATGTGTTGTCAAATG-TTCTACGAACATCTGGGC
* * ** * * *
20406 AGAAGCCACGGGAAATGATGAATGTGTTATCAAATGTTTTATGAAAATC-CAGCAGAAGCCACAG
1 AGAAGCCACAGGAAAGGATGAATGTGTTATCAAATACTTTACGAAAATCTCAGCAGAAGACAAAG
*
20470 GAAAGGATGAATGTTTTGTCAAATGTTCTACGAAC
66 GAAAGGATGAATGTGTTGTCAAATGTTCTACGAAC
20505 CAGTGATTAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
106 2 0.02
107 41 0.49
108 41 0.49
ACGTcount: A:0.37, C:0.14, G:0.25, T:0.25
Consensus pattern (108 bp):
AGAAGCCACAGGAAAGGATGAATGTGTTATCAAATACTTTACGAAAATCTCAGCAGAAGACAAAG
GAAAGGATGAATGTGTTGTCAAATGTTCTACGAACATCTGGGC
Found at i:20884 original size:22 final size:22
Alignment explanation
Indices: 20856--20937 Score: 105
Period size: 22 Copynumber: 3.7 Consensus size: 22
20846 TCTACATCTA
*
20856 CATTCTTCAAAAATGATAGATT
1 CATTCTTCAAAGATGATAGATT
20878 CATTCTTCAAAGATGATAGATT
1 CATTCTTCAAAGATGATAGATT
*
20900 C-TCTCTTCAAAGATGATAAATT
1 CAT-TCTTCAAAGATGATAGATT
*
20922 C-TCTTTTCAAAGATGA
1 CAT-TCTTCAAAGATGA
20938 AAGCTTTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
21 1 0.02
22 55 0.98
ACGTcount: A:0.37, C:0.16, G:0.11, T:0.37
Consensus pattern (22 bp):
CATTCTTCAAAGATGATAGATT
Found at i:21746 original size:14 final size:14
Alignment explanation
Indices: 21729--21757 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21719 TAAGACCTTC
21729 AGTGCAAGATGTTA
1 AGTGCAAGATGTTA
21743 AGTGCAAGATGTTA
1 AGTGCAAGATGTTA
21757 A
1 A
21758 AGCCTTCGGG
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:0.38, C:0.07, G:0.28, T:0.28
Consensus pattern (14 bp):
AGTGCAAGATGTTA
Found at i:21881 original size:144 final size:144
Alignment explanation
Indices: 21621--22014 Score: 575
Period size: 130 Copynumber: 2.8 Consensus size: 144
21611 TCCTTCGGGT
21621 GGGTCATCCATAAGACCTTCAATACAAGATATTTTCAAATGAGATTTTAGAAACTAAGCCTTTGG
1 GGGTCATCCATAAGACCTTCAATACAAGATATTTTCAAATGAGATTTTAGAAACTAAGCCTTTGG
21686 GGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGTTAAGTGCAAG
66 GGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGTTAAGTGCAAG
21751 ATGTTAAAGCCTTC
131 ATGTTAAAGCCTTC
* * * *
21765 GGGTCATCCA-ATAGACCTTTAGTGCAGGATATTTTCAAATGAGATTTTAGAAACTAAGCCTTTG
1 GGGTCATCCATA-AGACCTTCAATACAAGATATTTTCAAATGAGATTTTAGAAACTAAGCCTTTG
21829 GGGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACC-T---T-C---------AGTGCAA
65 GGGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGTTAAGTGCAA
*
21880 GATGTTAAAGCGTTC
130 GATGTTAAAGCCTTC
* * * *
21895 GGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAACCTTTGG
1 GGGTCATCCATAAGACCTTCAATACAAGATATTTTCAAATGAGATTTTAGAAACTAAGCCTTTGG
* *
21960 GGGTTTCTTAATTTAAATCCTTTGGGTCATCTGTAAGACCTTCAGTGCAATATGT
66 GGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGT
22015 CAAAGCCTTC
Statistics
Matches: 226, Mismatches: 10, Indels: 30
0.85 0.04 0.11
Matches are distributed among these distances:
130 119 0.53
131 2 0.01
134 1 0.00
135 1 0.00
139 1 0.00
140 1 0.00
143 2 0.01
144 99 0.44
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (144 bp):
GGGTCATCCATAAGACCTTCAATACAAGATATTTTCAAATGAGATTTTAGAAACTAAGCCTTTGG
GGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGTTAAGTGCAAG
ATGTTAAAGCCTTC
Found at i:21976 original size:130 final size:130
Alignment explanation
Indices: 21743--22057 Score: 497
Period size: 130 Copynumber: 2.4 Consensus size: 130
21733 CAAGATGTTA
* * *
21743 AGTGCAAGATGTTAAAGCCTTCGGGTCATCCA-ATAGACCTTTAGTGCAGGATATTTTCAAATGA
1 AGTGCAAGATGTTAAAGCCTTCGGGTCATCCATA-AGACCTTCAGTGCAAGATGTTTTCAAATGA
*
21807 GATTTTAGAAACTAAGCCTTTGGGGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTT
65 GATTTTAGAAACTAAACCTTTGGGGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTT
21872 C
130 C
*
21873 AGTGCAAGATGTTAAAGCGTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAG
1 AGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAG
*
21938 ATTTTAGAAACTAAACCTTTGGGGGTTTCTTAATTTAAATCCTTTGGGTCATCTGTAAGACCTTC
66 ATTTTAGAAACTAAACCTTTGGGGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTC
* * ** * **
22003 AGTGCAATATGTCAAAGCCTTCATGTTATCTGTAAGACCTTCAGTGCAAGATGTT
1 AGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTT
22058 AAAGCCTTCG
Statistics
Matches: 170, Mismatches: 14, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
130 169 0.99
131 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.21, T:0.34
Consensus pattern (130 bp):
AGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAG
ATTTTAGAAACTAAACCTTTGGGGGTTTCTTAATTTAAATCCTTCGGGTCATCTGTAAGACCTTC
Found at i:22070 original size:172 final size:172
Alignment explanation
Indices: 21848--22309 Score: 708
Period size: 172 Copynumber: 2.7 Consensus size: 172
21838 TAATTTAAAT
* * *
21848 CCTTCGGGTCATCTGTAAGACCTTCAGTGCAAGATGTTAAAGCGTTCGGGTCATCCATAAGACCT
1 CCTTCAGGTAATCTGTAAGACCTTCAGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCT
* * *
21913 TCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAACCTTTGGGGGTTTCTTAATTTAAAT
66 TCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAACCTTCGGGGGTTTCTTAATTTAAAA
* * * * *
21978 CCTTTGGGTCATCTGTAAGACCTTCAGTGCAATATGTCAAAG
131 CATTCGGATCATCTATAAGACCTTCAGTGCAAGATGTCAAAG
* *
22020 CCTTCATGTTATCTGTAAGACCTTCAGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCT
1 CCTTCAGGTAATCTGTAAGACCTTCAGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCT
* *
22085 TCAGTGCAGGATGTTTTCAATTGAGATTTTAGAAACTAAACCTTCAGGGGTTTCTTAATTTAAAA
66 TCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAACCTTCGGGGGTTTCTTAATTTAAAA
*
22150 CATTCGGATCATCTATAAGACCTTCAGTGCAAGATGTTAAAG
131 CATTCGGATCATCTATAAGACCTTCAGTGCAAGATGTCAAAG
** * * *
22192 CCTTTGGGTAATCTTTAAGACCTTCAGTGTAAGATGTTAAAGCCTTCGGGTCATCTATAAGACCT
1 CCTTCAGGTAATCTGTAAGACCTTCAGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCT
* * *
22257 TCAGTGCAGGATGTATTCAAAGGAGATTTTAGAAACCAAACCTTCGGGGGTTT
66 TCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAACCTTCGGGGGTTT
22310 ACTAATTATC
Statistics
Matches: 263, Mismatches: 27, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
172 263 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (172 bp):
CCTTCAGGTAATCTGTAAGACCTTCAGTGCAAGATGTTAAAGCCTTCGGGTCATCCATAAGACCT
TCAGTGCAGGATGTTTTCAAATGAGATTTTAGAAACTAAACCTTCGGGGGTTTCTTAATTTAAAA
CATTCGGATCATCTATAAGACCTTCAGTGCAAGATGTCAAAG
Found at i:22099 original size:42 final size:42
Alignment explanation
Indices: 21972--22270 Score: 207
Period size: 42 Copynumber: 7.0 Consensus size: 42
21962 GTTTCTTAAT
* * * *
21972 TTAAATCCTTTGGGTCATCTGTAAGACCTTCAGTGCAATATG
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
* ** * *
22014 TCAAAGCCTTCATGTTATCTGTAAGACCTTCAGTGCAAGATG
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
* *
22056 TTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATG
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
* * * *** * *
22098 TTTTCAA---TT-GAGATTTTAGAAACTAA-ACCTTCAGGGGTTTCTTA-AT-
1 --TTAAAGCCTTCG-G--GTCATCTA-TAAGACCTTCA---G-TGC-AAGATG
* * *
22144 TTAAAACATTCGGATCATCTATAAGACCTTCAGTGCAAGATG
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
* * * *
22186 TTAAAGCCTTTGGGTAATCTTTAAGACCTTCAGTGTAAGATG
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
*
22228 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAGGATG
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
22270 T
1 T
22271 ATTCAAAGGA
Statistics
Matches: 196, Mismatches: 43, Indels: 36
0.71 0.16 0.13
Matches are distributed among these distances:
40 2 0.01
41 7 0.04
42 144 0.73
43 10 0.05
44 14 0.07
45 10 0.05
46 1 0.01
47 7 0.04
48 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (42 bp):
TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG
Found at i:22168 original size:88 final size:87
Alignment explanation
Indices: 21892--22187 Score: 270
Period size: 88 Copynumber: 3.4 Consensus size: 87
21882 TGTTAAAGCG
21892 TTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAAATGAGATTTTAGAAACTAAACCTT
1 TTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTC-AATGAGATTTTAGAAACTAAACCTT
** *
21957 TGGGGGTTTCTTAATTTAAATCC
65 CAGGGGTTTCTTAATTTAAAACC
* ** * ** * * *
21980 TTTGGGTCATCTGTAAGACCTTCAGTGCAATATG---TCAA--AGCCTTCATGTTATCTGTAAGA
1 TTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAATGAGATTTTA-G-AAAC--TAA-A
* * *
22040 CCTTCA---G-TGC-AAGATGTTAAAGCC
61 CCTTCAGGGGTTTCTTA-AT-TTAAAACC
*
22064 TTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAATTGAGATTTTAGAAACTAAACCTT
1 TTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAA-TGAGATTTTAGAAACTAAACCTT
*
22129 CAGGGGTTTCTTAATTTAAAACA
65 CAGGGGTTTCTTAATTTAAAACC
* *
22152 TTCGGATCATCTATAAGACCTTCAGTGCAAGATGTT
1 TTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTT
22188 AAAGCCTTTG
Statistics
Matches: 159, Mismatches: 31, Indels: 36
0.70 0.14 0.16
Matches are distributed among these distances:
82 6 0.04
83 5 0.03
84 41 0.26
85 9 0.06
86 6 0.04
87 9 0.06
88 72 0.45
89 5 0.03
90 6 0.04
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.34
Consensus pattern (87 bp):
TTCGGGTCATCCATAAGACCTTCAGTGCAAGATGTTTTCAATGAGATTTTAGAAACTAAACCTTC
AGGGGTTTCTTAATTTAAAACC
Found at i:22231 original size:22 final size:22
Alignment explanation
Indices: 22165--22231 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 22
22155 GGATCATCTA
*
22165 TAAGACCTTCAGTGCAAGATGT
1 TAAGACCTTCAGTGTAAGATGT
* * **
22187 TAA-AGCCTT-TGGGTAATCT-T
1 TAAGA-CCTTCAGTGTAAGATGT
22207 TAAGACCTTCAGTGTAAGATGT
1 TAAGACCTTCAGTGTAAGATGT
22229 TAA
1 TAA
22232 AGCCTTCGGG
Statistics
Matches: 32, Mismatches: 9, Indels: 8
0.65 0.18 0.16
Matches are distributed among these distances:
20 8 0.25
21 13 0.41
22 11 0.34
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (22 bp):
TAAGACCTTCAGTGTAAGATGT
Found at i:22237 original size:22 final size:22
Alignment explanation
Indices: 22170--22238 Score: 63
Period size: 22 Copynumber: 3.2 Consensus size: 22
22160 ATCTATAAGA
*
22170 CCTTCAGTGCAAGATGTTAAAG
1 CCTTCAGTGTAAGATGTTAAAG
* * * *
22192 CCTT-TGGGT-A-ATCTTTAAG
1 CCTTCAGTGTAAGATGTTAAAG
22211 ACCTTCAGTGTAAGATGTTAAAG
1 -CCTTCAGTGTAAGATGTTAAAG
22234 CCTTC
1 CCTTC
22239 GGGTCATCTA
Statistics
Matches: 34, Mismatches: 9, Indels: 8
0.67 0.18 0.16
Matches are distributed among these distances:
19 7 0.21
20 5 0.15
21 5 0.15
22 10 0.29
23 7 0.21
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (22 bp):
CCTTCAGTGTAAGATGTTAAAG
Found at i:22254 original size:84 final size:83
Alignment explanation
Indices: 21972--22270 Score: 241
Period size: 84 Copynumber: 3.5 Consensus size: 83
21962 GTTTCTTAAT
* * * * * * * *
21972 TTAAATCCTTTGGGTCATCTGTAAGACCTTCAGTGCAATATGTCAAAGCCTTCATGTTATCTGTA
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATGTTAAAGCCTTTAAGTAATCT-TA
*
22037 AGACCTTCAGTGCAAGATG
65 AGACCTTCAGTGTAAGATG
* * * *
22056 TTAAAGCCTTCGGGTCATCCATAAGACCTTCAGTGCAGGATGTTTTCAATTGAG-ATTTTAG-AA
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATG--TT-AA---AGCCTTTAAGTAA
* * *
22119 AC-TAA-ACCTTCAGGGGTTTCTTA-AT-
60 TCTTAAGACCTTCA---G--TGTAAGATG
* * * **
22144 TTAAAACATTCGGATCATCTATAAGACCTTCAGTGCAAGATGTTAAAGCCTTTGGGTAATCTTTA
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATGTTAAAGCCTTTAAGTAATC-TTA
22209 AGACCTTCAGTGTAAGATG
65 AGACCTTCAGTGTAAGATG
*
22228 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAGGATGT
1 TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATGT
22271 ATTCAAAGGA
Statistics
Matches: 166, Mismatches: 31, Indels: 36
0.71 0.13 0.15
Matches are distributed among these distances:
82 5 0.03
83 6 0.04
84 79 0.48
85 9 0.05
86 9 0.05
87 9 0.05
88 40 0.24
89 5 0.03
90 4 0.02
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.33
Consensus pattern (83 bp):
TTAAAGCCTTCGGGTCATCTATAAGACCTTCAGTGCAAGATGTTAAAGCCTTTAAGTAATCTTAA
GACCTTCAGTGTAAGATG
Found at i:22589 original size:3 final size:3
Alignment explanation
Indices: 22581--22626 Score: 74
Period size: 3 Copynumber: 15.0 Consensus size: 3
22571 TGTCTCAATC
*
22581 TTA TTA TTA TTA TTA TTA TTA ATA TTA TATA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA
22627 AATAAATATT
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
3 37 0.93
4 3 0.08
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:22635 original size:25 final size:25
Alignment explanation
Indices: 22585--22637 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
22575 TCAATCTTAT
*
22585 TATTATTATTATTATTAATATTATA
1 TATTATTATTATTATTAATATAATA
22610 TATTATTATTATTATTAA-ATAA-A
1 TATTATTATTATTATTAATATAATA
22633 TATTA
1 TATTA
22638 CAGGCCAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 6 0.22
24 3 0.11
25 18 0.67
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (25 bp):
TATTATTATTATTATTAATATAATA
Found at i:22802 original size:16 final size:16
Alignment explanation
Indices: 22781--22812 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22771 ACCTTTCTTC
22781 TCCACCGTTGGATATG
1 TCCACCGTTGGATATG
22797 TCCACCGTTGGATATG
1 TCCACCGTTGGATATG
22813 GCCTTGATCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (16 bp):
TCCACCGTTGGATATG
Found at i:24797 original size:45 final size:45
Alignment explanation
Indices: 24683--25007 Score: 271
Period size: 45 Copynumber: 7.5 Consensus size: 45
24673 GCCAATAATT
* * *
24683 CTTTTCTGTTGATAACGTACCCATATACATATCAACTATAGCATA
1 CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
* * **
24728 -TTTTCTGTTGCTAATATACCCATATACATATCAACTATAGCATA
1 CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
* * * *
24772 CTTTTATGTTGATAATGCACCCATATGA-ATTTCAACTTTGGCATC
1 CTTTTATGTTGATAATGCACCCATAT-ACATATCAACTATAGCATA
* * *
24817 CTTTTATGCTAATAATGCACCCATATGCAT-T--A-T-T--C-TA
1 CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
* * * *
24854 ---TTATGTCGATAATGTACCTATATACATATCAACTATAGTATA
1 CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
* * * *
24896 CTATTCTGTTGATAATGTACCCATATACATATCAACTATATCATA
1 CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
* * * * * *
24941 CTTTCATGTTGATAATGCACCCATATGCATTTCAACTTTGGCATC
1 CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
***
24986 CTTTTATGCCAATAATGCACCC
1 CTTTTATGTTGATAATGCACCC
25008 TTTTATGCCA
Statistics
Matches: 225, Mismatches: 41, Indels: 28
0.77 0.14 0.10
Matches are distributed among these distances:
34 21 0.09
35 1 0.00
37 2 0.01
38 2 0.01
39 1 0.00
40 1 0.00
41 1 0.00
42 3 0.01
44 42 0.19
45 150 0.67
46 1 0.00
ACGTcount: A:0.31, C:0.21, G:0.10, T:0.38
Consensus pattern (45 bp):
CTTTTATGTTGATAATGCACCCATATACATATCAACTATAGCATA
Found at i:24969 original size:124 final size:124
Alignment explanation
Indices: 24739--24971 Score: 324
Period size: 124 Copynumber: 1.9 Consensus size: 124
24729 TTTCTGTTGC
* *
24739 TAATATACCCATATACATATCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGAATTT
1 TAATATACCCATATACATATCAACTATAGCATACTATTATGTTGATAATGCACCCATATGAATAT
* * * *
24804 CAACTTTGGCATCCTTTTATGCTAATAATGCACCCATATGCATTATTCTATTATGTCGA
66 CAACTATAGCATACTTTCATGCTAATAATGCACCCATATGCATTATTCTATTATGTCGA
* * * * *
24863 TAATGTACCTATATACATATCAACTATAGTATACTATTCTGTTGATAATGTACCCATAT-ACATA
1 TAATATACCCATATACATATCAACTATAGCATACTATTATGTTGATAATGCACCCATATGA-ATA
* * *
24927 TCAACTATATCATACTTTCATGTTGATAATGCACCCATATGCATT
65 TCAACTATAGCATACTTTCATGCTAATAATGCACCCATATGCATT
24972 TCAACTTTGG
Statistics
Matches: 94, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
123 1 0.01
124 93 0.99
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.38
Consensus pattern (124 bp):
TAATATACCCATATACATATCAACTATAGCATACTATTATGTTGATAATGCACCCATATGAATAT
CAACTATAGCATACTTTCATGCTAATAATGCACCCATATGCATTATTCTATTATGTCGA
Found at i:24983 original size:169 final size:168
Alignment explanation
Indices: 24693--25007 Score: 531
Period size: 169 Copynumber: 1.9 Consensus size: 168
24683 CTTTTCTGTT
* *
24693 GATAACGTACCCATATACATATCAACTATAGCATATTTTCTGTTGCTAATATACCCATATACATA
1 GATAACGTACCCATATACATATCAACTATAGCATATATTCTGTTGATAATATACCCATATACATA
*
24758 TCAACTATAGCATACTTTTATGTTGATAATGCACCCATATGAATTTCAACTTTGGCATCCTTTTA
66 TCAACTATAGCATACTTTCATGTTGATAATGCACCCATATGAATTTCAACTTTGGCATCCTTTTA
*
24823 TGCTAATAATGCACCCATATGCATTATTCTATTATGTC
131 TGCCAATAATGCACCCATATGCATTATTCTATTATGTC
* * * *
24861 GATAATGTACCTATATACATATCAACTATAGTATACTATTCTGTTGATAATGTACCCATATACAT
1 GATAACGTACCCATATACATATCAACTATAGCATA-TATTCTGTTGATAATATACCCATATACAT
* *
24926 ATCAACTATATCATACTTTCATGTTGATAATGCACCCATATGCATTTCAACTTTGGCATCCTTTT
65 ATCAACTATAGCATACTTTCATGTTGATAATGCACCCATATGAATTTCAACTTTGGCATCCTTTT
24991 ATGCCAATAATGCACCC
130 ATGCCAATAATGCACCC
25008 TTTTATGCCA
Statistics
Matches: 136, Mismatches: 10, Indels: 1
0.93 0.07 0.01
Matches are distributed among these distances:
168 32 0.24
169 104 0.76
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (168 bp):
GATAACGTACCCATATACATATCAACTATAGCATATATTCTGTTGATAATATACCCATATACATA
TCAACTATAGCATACTTTCATGTTGATAATGCACCCATATGAATTTCAACTTTGGCATCCTTTTA
TGCCAATAATGCACCCATATGCATTATTCTATTATGTC
Found at i:25011 original size:21 final size:21
Alignment explanation
Indices: 24985--25028 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
24975 ACTTTGGCAT
24985 CCTTTTATGCCAATAATGCAC
1 CCTTTTATGCCAATAATGCAC
25006 CCTTTTATGCCAATAATGCAC
1 CCTTTTATGCCAATAATGCAC
25027 CC
1 CC
25029 ATATACATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.27, C:0.32, G:0.09, T:0.32
Consensus pattern (21 bp):
CCTTTTATGCCAATAATGCAC
Found at i:25556 original size:22 final size:21
Alignment explanation
Indices: 25507--25563 Score: 71
Period size: 22 Copynumber: 2.7 Consensus size: 21
25497 ATGGCCCTTA
* *
25507 GGTATCGATACCCCTGCTTAT
1 GGTATCGATACCCCTGATTAG
25528 GGTATCGATACTACCCT-ATTAG
1 GGTATCGATAC--CCCTGATTAG
25550 GGTATCGATACCCC
1 GGTATCGATACCCC
25564 CTTCATGTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
20 3 0.09
21 11 0.34
22 14 0.44
23 4 0.12
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (21 bp):
GGTATCGATACCCCTGATTAG
Found at i:25749 original size:95 final size:94
Alignment explanation
Indices: 25546--25750 Score: 218
Period size: 95 Copynumber: 2.2 Consensus size: 94
25536 TACTACCCTA
* * **
25546 TTAGGGTATCGATACCCCCTTCATGTATCGATACCAAATTTAGTTTTGATGTATCTTGGTATCGA
1 TTAGGGTATCGATACCCCCTTCAGGTATCGATACCAAATTTAG-TTCGATGTATAATGGTATCGA
* *
25611 TACCCTCACCATGGTATCGATACCTCTATG
65 TACCCTCACCATGATATCGATACCACTATG
* * * * *
25641 TTATGGTACCGATACCCCCTTTAGGTATCGATACCCATATTATA-TTCGATGTTTAATGGTATCG
1 TTAGGGTATCGATACCCCCTTCAGGTATCGATA-CCAAATT-TAGTTCGATGTATAATGGTATCG
* * *
25705 ATACCCTTACCATGATGTTGATACCAC-ATTG
64 ATACCCTCACCATGATATCGATACCACTA-TG
25736 ATT-GGGTATCGATAC
1 -TTAGGGTATCGATAC
25751 TGGATGAAGA
Statistics
Matches: 90, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
94 1 0.01
95 79 0.88
96 8 0.09
97 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (94 bp):
TTAGGGTATCGATACCCCCTTCAGGTATCGATACCAAATTTAGTTCGATGTATAATGGTATCGAT
ACCCTCACCATGATATCGATACCACTATG
Found at i:28269 original size:19 final size:18
Alignment explanation
Indices: 28230--28291 Score: 67
Period size: 19 Copynumber: 3.4 Consensus size: 18
28220 TTTGGAGTAC
*
28230 AAAAAGAAAGAAAAG--AC
1 AAAAAG-AAGAAAAGAAAA
28247 AAAAAGAAGAAAA-AAATCA
1 AAAAAGAAGAAAAGAAA--A
28266 AAAAAGAAGAAAAGAAAA
1 AAAAAGAAGAAAAGAAAA
28284 AAAAAGAA
1 AAAAAGAA
28292 ATTCAAAAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
16 7 0.18
17 7 0.18
18 9 0.23
19 13 0.33
20 3 0.08
ACGTcount: A:0.81, C:0.03, G:0.15, T:0.02
Consensus pattern (18 bp):
AAAAAGAAGAAAAGAAAA
Found at i:31736 original size:20 final size:20
Alignment explanation
Indices: 31716--31754 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
31706 CTTTTATTTA
*
31716 TATTCTTTCTATTTTCATTAT
1 TATTCTTT-TATTCTCATTAT
*
31737 TATTGTTTTATTCTCATT
1 TATTCTTTTATTCTCATT
31755 CTATCAAATC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.18, C:0.13, G:0.03, T:0.67
Consensus pattern (20 bp):
TATTCTTTTATTCTCATTAT
Found at i:41113 original size:6 final size:6
Alignment explanation
Indices: 41104--41181 Score: 111
Period size: 6 Copynumber: 13.0 Consensus size: 6
41094 TCTTTTTGTT
* * * * *
41104 TAATTT TAATTT TAATTT TAATTT TAATTT TAATTC TAATTC TAATTC
1 TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC TAATTC
41152 TAATTC TAATTC TAATTC TAATTC TAATTC
1 TAATTC TAATTC TAATTC TAATTC TAATTC
41182 AAATCCTTCT
Statistics
Matches: 71, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
6 71 1.00
ACGTcount: A:0.33, C:0.10, G:0.00, T:0.56
Consensus pattern (6 bp):
TAATTC
Found at i:51695 original size:30 final size:30
Alignment explanation
Indices: 51661--51735 Score: 114
Period size: 30 Copynumber: 2.5 Consensus size: 30
51651 CTTATGATAT
*
51661 GTTTATGCGTCATTATATAGCTCATTTTAA
1 GTTTATGCATCATTATATAGCTCATTTTAA
*
51691 GTTTATGCATCATTCTATAGCTCATTTTAA
1 GTTTATGCATCATTATATAGCTCATTTTAA
*
51721 GTTTATTCATTCATT
1 GTTTATGCA-TCATT
51736 GTTAACTCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 36 0.88
31 5 0.12
ACGTcount: A:0.25, C:0.15, G:0.11, T:0.49
Consensus pattern (30 bp):
GTTTATGCATCATTATATAGCTCATTTTAA
Found at i:51745 original size:30 final size:30
Alignment explanation
Indices: 51661--51747 Score: 104
Period size: 30 Copynumber: 2.9 Consensus size: 30
51651 CTTATGATAT
* * *
51661 GTTTATGCGTCATTATATAGCTCATTTTAA
1 GTTTATGCATCATTCTATAACTCATTTTAA
*
51691 GTTTATGCATCATTCTATAGCTCATTTTAA
1 GTTTATGCATCATTCTATAACTCATTTTAA
* *
51721 GTTTATTCATTCATTGT-TAACTCATTT
1 GTTTATGCA-TCATTCTATAACTCATTT
51748 GCATCCTAGC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
30 45 0.88
31 6 0.12
ACGTcount: A:0.25, C:0.15, G:0.10, T:0.49
Consensus pattern (30 bp):
GTTTATGCATCATTCTATAACTCATTTTAA
Found at i:53497 original size:14 final size:15
Alignment explanation
Indices: 53462--53498 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
53452 AAAGTATTTA
53462 ATATAT-ATATATAT
1 ATATATAATATATAT
*
53476 ATATATAATA-ATCT
1 ATATATAATATATAT
53490 ATATATAAT
1 ATATATAAT
53499 TTAGTGACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 18 0.86
15 3 0.14
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (15 bp):
ATATATAATATATAT
Found at i:54979 original size:17 final size:17
Alignment explanation
Indices: 54957--54990 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
54947 GATCACCCAA
54957 AAAATTATCATTTTAAT
1 AAAATTATCATTTTAAT
*
54974 AAAATTGTCATTTTAAT
1 AAAATTATCATTTTAAT
54991 CACCCAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
AAAATTATCATTTTAAT
Found at i:59016 original size:54 final size:54
Alignment explanation
Indices: 58931--59357 Score: 529
Period size: 54 Copynumber: 7.9 Consensus size: 54
58921 CTGTAGGTAG
* * *
58931 TAAGTGTGCAAACCCAC-ATAATTCATCATATGTTGATGAATGACCGTATAGGCAT
1 TAAGTGTAC-AACCCACGA-AATTCATCATATGTTGATGAACGACCGTATAGGCAC
** * * * *
58986 TAAGTGTGTAACCTACGAAATTTATCATATGTTGATGTACGACAGTATAGGCAC
1 TAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCAC
* * *
59040 TAAGTGTGCAACCCACGTAATTCATCATATGTTGATGAACGACTGTATAGGCAC
1 TAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCAC
* *
59094 TAAGTGTACAACCCAC-ATAATTAATCATATGTTGATGAAGGACCGTATAGGCAC
1 TAAGTGTACAACCCACGA-AATTCATCATATGTTGATGAACGACCGTATAGGCAC
* *
59148 TAAGTGTACAACCCACAAAATTCATCATATGTTGATGAACGACCATATAGGCAC
1 TAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCAC
* * * * *
59202 TAAGTGTGCAACCCAC-ATAATTCATCATATGTTAATGAACGACCATATAAGCAT
1 TAAGTGTACAACCCACGA-AATTCATCATATGTTGATGAACGACCGTATAGGCAC
* * * *
59256 TAAGTG-ACCAACCCATGAAATTTATCATATGTTGATGAACGACCATATAGGAAC
1 TAAGTGTA-CAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCAC
* * *
59310 TAAGTGTACAACCTACAAAATTCATTATATGTTGATGAACGACCGTAT
1 TAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACGACCGTAT
59358 CGACACTATG
Statistics
Matches: 327, Mismatches: 38, Indels: 15
0.86 0.10 0.04
Matches are distributed among these distances:
53 1 0.00
54 314 0.96
55 12 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (54 bp):
TAAGTGTACAACCCACGAAATTCATCATATGTTGATGAACGACCGTATAGGCAC
Found at i:59208 original size:162 final size:162
Alignment explanation
Indices: 58931--59373 Score: 595
Period size: 162 Copynumber: 2.7 Consensus size: 162
58921 CTGTAGGTAG
* * * * **
58931 TAAGTGTGCAAACCCACATAATTCATCATATGTTGATGAATGACCGTATAGGCATTAAGTGTGTA
1 TAAGTGTAC-AACCCACATAATTAATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTACA
* * * *
58996 ACCTACGAAATTTATCATATGTTGATGTACGA-CAGTATAGGCACTAAGTGTGCAACCCACGTAA
65 ACCTACAAAATTCATCATATGTTGATGAACGACCA-TATAGGCACTAAGTGTGCAACCCACATAA
* ** *
59060 TTCATCATATGTTGATGAACGACTGTATAGGCAC
129 TTCATCATATGTTAATGAACGACCATATAAGCAC
*
59094 TAAGTGTACAACCCACATAATTAATCATATGTTGATGAAGGACCGTATAGGCACTAAGTGTACAA
1 TAAGTGTACAACCCACATAATTAATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTACAA
*
59159 CCCACAAAATTCATCATATGTTGATGAACGACCATATAGGCACTAAGTGTGCAACCCACATAATT
66 CCTACAAAATTCATCATATGTTGATGAACGACCATATAGGCACTAAGTGTGCAACCCACATAATT
*
59224 CATCATATGTTAATGAACGACCATATAAGCAT
131 CATCATATGTTAATGAACGACCATATAAGCAC
* * * *
59256 TAAGTG-ACCAACCCATGA-AATTTATCATATGTTGATGAACGACCATATAGGAACTAAGTGTAC
1 TAAGTGTA-CAACCCA-CATAATTAATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTAC
* * * * *
59319 AACCTACAAAATTCATTATATGTTGATGAACGACCGTATCGACACTATGTGTGCA
64 AACCTACAAAATTCATCATATGTTGATGAACGACCATATAGGCACTAAGTGTGCA
59374 TCTCAAAGAA
Statistics
Matches: 250, Mismatches: 27, Indels: 7
0.88 0.10 0.02
Matches are distributed among these distances:
161 1 0.00
162 238 0.95
163 11 0.04
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (162 bp):
TAAGTGTACAACCCACATAATTAATCATATGTTGATGAACGACCGTATAGGCACTAAGTGTACAA
CCTACAAAATTCATCATATGTTGATGAACGACCATATAGGCACTAAGTGTGCAACCCACATAATT
CATCATATGTTAATGAACGACCATATAAGCAC
Found at i:71919 original size:61 final size:61
Alignment explanation
Indices: 71821--71955 Score: 252
Period size: 61 Copynumber: 2.2 Consensus size: 61
71811 CCTTGCAGTT
*
71821 GGTTTTAGCTTCCATTCATAGCTTTGAGCTACGTAGTAGTTGGTTCAGCTCCCTCGTCTTA
1 GGTTTGAGCTTCCATTCATAGCTTTGAGCTACGTAGTAGTTGGTTCAGCTCCCTCGTCTTA
*
71882 GGTTTGAGCTTCCATTCATAGCTTTGAGCTACTTAGTAGTTGGTTCAGCTCCCTCGTCTTA
1 GGTTTGAGCTTCCATTCATAGCTTTGAGCTACGTAGTAGTTGGTTCAGCTCCCTCGTCTTA
71943 GGTTTGAGCTTCC
1 GGTTTGAGCTTCC
71956 TATTAGTTGA
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
61 72 1.00
ACGTcount: A:0.16, C:0.23, G:0.22, T:0.39
Consensus pattern (61 bp):
GGTTTGAGCTTCCATTCATAGCTTTGAGCTACGTAGTAGTTGGTTCAGCTCCCTCGTCTTA
Found at i:79459 original size:31 final size:31
Alignment explanation
Indices: 79419--79502 Score: 100
Period size: 31 Copynumber: 2.7 Consensus size: 31
79409 TAAGGTGACC
*
79419 CTTGGGTAGGCTCTGCGGTCCCGAGATCTTT
1 CTTGGGTAGGCTCTGCGGCCCCGAGATCTTT
* * *
79450 CTTGTGTAGGC-CTTGTGGCCCCGAGATTTTT
1 CTTGGGTAGGCTC-TGCGGCCCCGAGATCTTT
79481 CTTGGGTAGGCTCT-CAGGCCCC
1 CTTGGGTAGGCTCTGC-GGCCCC
79503 AAGGTGTTCC
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
30 1 0.02
31 42 0.95
32 1 0.02
ACGTcount: A:0.10, C:0.27, G:0.31, T:0.32
Consensus pattern (31 bp):
CTTGGGTAGGCTCTGCGGCCCCGAGATCTTT
Found at i:86527 original size:5 final size:5
Alignment explanation
Indices: 86490--86514 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
86480 ACTGGTCATA
86490 ACCCG ACCCG ACCCG ACCCG ACCCG
1 ACCCG ACCCG ACCCG ACCCG ACCCG
86515 TTTACCCGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.60, G:0.20, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:86537 original size:31 final size:31
Alignment explanation
Indices: 86488--86564 Score: 97
Period size: 31 Copynumber: 2.6 Consensus size: 31
86478 TGACTGGTCA
86488 TAACCCGACCC---GACCCGACCCGACCCGT
1 TAACCCGACCCATTGACCCGACCCGACCCGT
* * * *
86516 TTACCCGACCCGTTGACCCGACCTGACCTGT
1 TAACCCGACCCATTGACCCGACCCGACCCGT
86547 TAACCCGACCCATTGACC
1 TAACCCGACCCATTGACC
86565 TGTTGACCGT
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
28 10 0.24
31 31 0.76
ACGTcount: A:0.21, C:0.47, G:0.17, T:0.16
Consensus pattern (31 bp):
TAACCCGACCCATTGACCCGACCCGACCCGT
Found at i:86543 original size:18 final size:18
Alignment explanation
Indices: 86522--86556 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86512 CCGTTTACCC
*
86522 GACCCGTTGACCCGACCT
1 GACCCGTTAACCCGACCT
*
86540 GACCTGTTAACCCGACC
1 GACCCGTTAACCCGACC
86557 CATTGACCTG
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:0.20, C:0.43, G:0.20, T:0.17
Consensus pattern (18 bp):
GACCCGTTAACCCGACCT
Found at i:86556 original size:13 final size:13
Alignment explanation
Indices: 86504--86538 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
86494 GACCCGACCC
86504 GACCCGACCCGTT
1 GACCCGACCCGTT
*
86517 TACCCGACCCGTT
1 GACCCGACCCGTT
86530 GACCCGACC
1 GACCCGACC
86539 TGACCTGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.17, C:0.49, G:0.20, T:0.14
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:86579 original size:15 final size:15
Alignment explanation
Indices: 86559--86588 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
86549 ACCCGACCCA
*
86559 TTGACCTGTTGACCG
1 TTGACCCGTTGACCG
86574 TTGACCCGTTGACCG
1 TTGACCCGTTGACCG
86589 GCGTTGACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.30, G:0.27, T:0.30
Consensus pattern (15 bp):
TTGACCCGTTGACCG
Found at i:89099 original size:24 final size:24
Alignment explanation
Indices: 89072--89117 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
89062 TCTGATCTAG
*
89072 ATTCTGTTTTGATATCTGATATGA
1 ATTCTGTTTTGATATCTAATATGA
*
89096 ATTCTGTTTTGATTTCTAATAT
1 ATTCTGTTTTGATATCTAATAT
89118 CTCCGTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.13, T:0.54
Consensus pattern (24 bp):
ATTCTGTTTTGATATCTAATATGA
Found at i:90090 original size:30 final size:31
Alignment explanation
Indices: 90042--90114 Score: 82
Period size: 30 Copynumber: 2.5 Consensus size: 31
90032 AATGGATTTA
* * *
90042 TTTA-GTGACCAAATTATAAA-TTTGGTAAAG
1 TTTAGGTGACTAAAGTATAAACTTT-GAAAAG
90072 TTT-GGTGACTAAAGTATAAACTTTGAAAAG
1 TTTAGGTGACTAAAGTATAAACTTTGAAAAG
90102 TTTAGG-GACTAAA
1 TTTAGGTGACTAAA
90115 ATGTAATTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 32 0.86
31 5 0.14
ACGTcount: A:0.40, C:0.07, G:0.19, T:0.34
Consensus pattern (31 bp):
TTTAGGTGACTAAAGTATAAACTTTGAAAAG
Found at i:90130 original size:30 final size:31
Alignment explanation
Indices: 90046--90130 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 31
90036 GATTTATTTA
* * *
90046 GTGACCAAATTATAAA-TTTGGTAAAGTTTG
1 GTGACTAAAATATAAACTTTGGAAAAGTTTG
*
90076 GTGACTAAAGTATAAACTTT-GAAAAGTTTAG
1 GTGACTAAAATATAAACTTTGGAAAAGTTT-G
* *
90107 G-GACTAAAATGT-AATTTTGGAAAA
1 GTGACTAAAATATAAACTTTGGAAAA
90131 ATTACAAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 5 0.11
30 36 0.78
31 5 0.11
ACGTcount: A:0.41, C:0.06, G:0.20, T:0.33
Consensus pattern (31 bp):
GTGACTAAAATATAAACTTTGGAAAAGTTTG
Found at i:92298 original size:45 final size:45
Alignment explanation
Indices: 92209--92433 Score: 380
Period size: 45 Copynumber: 5.0 Consensus size: 45
92199 GTAACCATGC
* * *
92209 AAATAAGCTTACGAGCTTATGGAAT-AATGGCAAGTATATGGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
92253 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
92298 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
*
92343 AAATAAGCTTACGAGCTTATAGGATAAATGGTAAGTATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
* * *
92388 AAATAAGCTTACGAGTTTATGGGATAAATGTTAAATATATTGGTA
1 AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
92433 A
1 A
92434 GAAATTTTAT
Statistics
Matches: 172, Mismatches: 8, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
44 24 0.14
45 148 0.86
ACGTcount: A:0.39, C:0.07, G:0.23, T:0.31
Consensus pattern (45 bp):
AAATAAGCTTACGAGCTTATGGGATAAATGGTAAGTATATTGGTA
Found at i:92326 original size:25 final size:25
Alignment explanation
Indices: 92245--92325 Score: 66
Period size: 25 Copynumber: 3.4 Consensus size: 25
92235 ATGGCAAGTA
92245 TATGGGTAAAATAAGCTTACGAGCT
1 TATGGGTAAAATAAGCTTACGAGCT
* **
92270 TATGGG-ATAAAT--G-GTA--AGTA
1 TATGGGTA-AAATAAGCTTACGAGCT
*
92290 TATTGGTAAAATAAGCTTACGAGCT
1 TATGGGTAAAATAAGCTTACGAGCT
92315 TATGGGATAAA
1 TATGGG-TAAA
92326 TGGTAAGTAT
Statistics
Matches: 40, Mismatches: 8, Indels: 15
0.63 0.13 0.24
Matches are distributed among these distances:
20 11 0.28
21 1 0.03
22 3 0.08
23 3 0.08
24 1 0.03
25 17 0.43
26 4 0.10
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (25 bp):
TATGGGTAAAATAAGCTTACGAGCT
Found at i:99169 original size:18 final size:17
Alignment explanation
Indices: 99131--99179 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
99121 TTATAATCAG
99131 AAATTAATATTTGTTAT
1 AAATTAATATTTGTTAT
*
99148 AAATTATTATTTTGATTA-
1 AAATTAATA-TTTG-TTAT
99166 AAA-TAA-ATTTGTTA
1 AAATTAATATTTGTTA
99180 CAATTTTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
14 3 0.11
15 4 0.14
16 1 0.04
17 10 0.36
18 7 0.25
19 3 0.11
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (17 bp):
AAATTAATATTTGTTAT
Found at i:99259 original size:198 final size:198
Alignment explanation
Indices: 98910--99610 Score: 779
Period size: 198 Copynumber: 3.5 Consensus size: 198
98900 ACTAAATAAT
* * * * * *
98910 TTTGTTACAATTTTTTATAATGATAAATTAATATTTTTTATAATTTGTTATTTTTATTAAATACA
1 TTTGTCACAATTTTTTATAATGAGAAATTAATATTTGTTATAAATTGTTATTTTGATTAAATAAA
* * *
98975 TTTGTCACAATATTTCATTTTGATAAAATATTG-GAACGAAATAAATTTGACATAACTTTTTACT
66 TTTGTCACAATTTTTTATTTTGATAAAATATTGTG-ACGAAATAAATTTGACATAAATTTTTA-T
* * * * *
99039 ATT-A-TAAAACTTAAC-GTGTTATTGTGACTAAATCAGTTTGTTACAATTTGTTATTGTGAAAG
129 TTTGACT-AAA-TTTACTATGTTATTGTGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAG
99101 AATATTA
192 AATATTA
* * *
99108 CTTGTCACAA-TTTTTATAATCAGAAATTAATATTTGTTATAAATTATTATTTTGATTAAAATAA
1 TTTGTCACAATTTTTTATAATGAGAAATTAATATTTGTTATAAATTGTTATTTTGATT-AAATAA
* * * *
99172 ATTTGTTACAATTTTTTATTTAT-ATAAAATATTGTGACAAAATAAATTGGACATAAAATTTTAT
65 ATTTGTCACAATTTTTTATTT-TGATAAAATATTGTGACGAAATAAATTTGACATAAATTTTTAT
* * * *
99236 TTTGACTAAATTTACTATGTTATTCTAACTAAATAAATTTGTTACACTTTGTTATTGTAAAAGAA
129 TTTGACTAAATTTACTATGTTATTGTGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAA
99301 TATTA
194 TATTA
** * * *
99306 TTTGTCACAATTTTTTATTTTGAGGAATTAATATTTGTTATAAATTGTTATTATGACTAAATAAA
1 TTTGTCACAATTTTTTATAATGAGAAATTAATATTTGTTATAAATTGTTATTTTGATTAAATAAA
* * * *
99371 TTTGTCAAAAGTTTTTATTTTGAGAAAATATTGTGACGAAATAAATTTAACATAAATTTTTATTT
66 TTTGTCACAATTTTTTATTTTGATAAAATATTGTGACGAAATAAATTTGACATAAATTTTTATTT
* * * * *
99436 TGACTAAATTTAATATGTTATTGTGTCTAAATAAACTTGTTATAA-TTGATTATTGTGAAAAAAT
131 TGACTAAATTTACTATGTTATTGTGACTAAATAAATTTGTTACAATTTG-TTATTGTGAAAGAAT
99500 ATTA
195 ATTA
* * * ** * * * * **
99504 TTTGTCATAAATTTTTATATTGAGAAATTAATATTTACTATAATTTGTTATTATAACTATTTAAA
1 TTTGTCACAATTTTTTATAATGAGAAATTAATATTTGTTATAAATTGTTATTTTGATTAAATAAA
* * * * *
99569 TTAGTC-CTAATTTCTTATTTTGAGAAAATATTTTGACTAAAT
66 TTTGTCAC-AATTTTTTATTTTGATAAAATATTGTGACGAAAT
99611 TTAATTTTTT
Statistics
Matches: 427, Mismatches: 66, Indels: 20
0.83 0.13 0.04
Matches are distributed among these distances:
197 52 0.12
198 332 0.78
199 43 0.10
ACGTcount: A:0.38, C:0.06, G:0.09, T:0.47
Consensus pattern (198 bp):
TTTGTCACAATTTTTTATAATGAGAAATTAATATTTGTTATAAATTGTTATTTTGATTAAATAAA
TTTGTCACAATTTTTTATTTTGATAAAATATTGTGACGAAATAAATTTGACATAAATTTTTATTT
TGACTAAATTTACTATGTTATTGTGACTAAATAAATTTGTTACAATTTGTTATTGTGAAAGAATA
TTA
Found at i:99400 original size:32 final size:32
Alignment explanation
Indices: 99299--99400 Score: 89
Period size: 33 Copynumber: 3.1 Consensus size: 32
99289 ATTGTAAAAG
* * *
99299 AATATTATTTGTCACAATTTTTTATTTTGAGGA
1 AATAATATTTGTCA-AAATTTTTATTTTGAGAA
* * * * **
99332 ATTAATATTTGTTATAAATTGTTATTATGACTA
1 AATAATATTTGTCA-AAATTTTTATTTTGAGAA
99365 AATAA-ATTTGTCAAAAGTTTTTATTTTGAGAA
1 AATAATATTTGTCAAAA-TTTTTATTTTGAGAA
99397 AATA
1 AATA
99401 TTGTGACGAA
Statistics
Matches: 53, Mismatches: 15, Indels: 3
0.75 0.21 0.04
Matches are distributed among these distances:
31 3 0.06
32 22 0.42
33 28 0.53
ACGTcount: A:0.37, C:0.04, G:0.11, T:0.48
Consensus pattern (32 bp):
AATAATATTTGTCAAAATTTTTATTTTGAGAA
Found at i:104453 original size:3 final size:3
Alignment explanation
Indices: 104445--104495 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
104435 TTCTTAAGAA
104445 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
104493 AAT
1 AAT
104496 TAAAGCATAG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:111431 original size:27 final size:26
Alignment explanation
Indices: 111366--111431 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
111356 GAAGGTGATG
**
111366 ATGATGATGATTATTATTATTATTATT
1 ATGATGATGA-TACCATTATTATTATT
*
111393 ATGATTATGATACCATTATTAATTACTT
1 ATGATGATGATACCATTATT-ATTA-TT
111421 A-GATGATGATA
1 ATGATGATGATA
111432 GTGATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
26 8 0.24
27 22 0.67
28 3 0.09
ACGTcount: A:0.36, C:0.05, G:0.12, T:0.47
Consensus pattern (26 bp):
ATGATGATGATACCATTATTATTATT
Found at i:111773 original size:2 final size:2
Alignment explanation
Indices: 111766--111823 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
111756 GCCATTGAAT
111766 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
111808 TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA
111824 CACACAACAT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:112811 original size:179 final size:173
Alignment explanation
Indices: 112625--113106 Score: 472
Period size: 179 Copynumber: 2.7 Consensus size: 173
112615 ATATATGCTA
* * * *
112625 TCACTATAGTTAAAATTTATAACTACAAATATAATTTGTTACAAAAACGTCAATATCATTATTTT
1 TCACTATAATTAAAATATATAACTACAAATATAATTTGTTACAAAAAC-TAAATCTCATTATTTT
* *
112690 TTGTGACAATGTTTTTGTAATAATTATTAACACTTATAATTACAAAATTTGTCACTATATGACTT
65 TTGTGACAATGTTTTTGTAATAATTATTAA-ACTTATAGTTACAAAACTTGTCACTATATGACTT
* * *
112755 TTTTGGCGCAAAAAAATATGGAGGGA-AATC-TTTGTGA-TAATATATTTTG
129 TTTTGAC-C--AAAAAT-TGGA--GATAATCATTTGTGACT-ATACAATTTG
* * * * *
112804 TCACTATAATTAAAACATATAACAACAAATATTAGTTT-TTATTAAAAACTTGAATCTCATTATT
1 TCACTATAATTAAAATATATAACTACAAATA-TAATTTGTTA-CAAAAAC-TAAATCTCATTATT
* * * * * * *
112868 TGTTGTGACAAT-TTTTTGTAACAATAATTATAGCTTATAGTTACAAAACATGCCACTATATGAT
63 TTTTGTGACAATGTTTTTGTAATAATTATTA-AACTTATAGTTACAAAACTTGTCACTATATGAC
*
112932 TTTTTTTACCAAAAATTGGAGATAATCATTTGTGACTATACAATTTG
127 TTTTTTGACCAAAAATTGGAGATAATCATTTGTGACTATACAATTTG
* * *
112979 TCACTATAATTAAAATATATAATTACAAACATAATTTGTCACAATAAATCTAAATCTCATT-TTT
1 TCACTATAATTAAAATATATAACTACAAATATAATTTGTTACAA-AAA-CTAAATCTCATTATTT
* * * * * * *
113043 TGTTGTGACAATTGTTTTTGTCATAGTTACTAAAACTTTTAGTTATAAAAGTTGTCAATATATG
64 T-TTGTGACAA-TGTTTTTGTAATAATTA-TTAAACTTATAGTTACAAAACTTGTCACTATATG
113107 CCTTCAATTT
Statistics
Matches: 247, Mismatches: 43, Indels: 28
0.78 0.14 0.09
Matches are distributed among these distances:
173 2 0.01
174 14 0.06
175 70 0.28
176 9 0.04
177 35 0.14
178 3 0.01
179 79 0.32
180 35 0.14
ACGTcount: A:0.38, C:0.11, G:0.10, T:0.41
Consensus pattern (173 bp):
TCACTATAATTAAAATATATAACTACAAATATAATTTGTTACAAAAACTAAATCTCATTATTTTT
TGTGACAATGTTTTTGTAATAATTATTAAACTTATAGTTACAAAACTTGTCACTATATGACTTTT
TTGACCAAAAATTGGAGATAATCATTTGTGACTATACAATTTG
Found at i:120324 original size:20 final size:20
Alignment explanation
Indices: 120299--120337 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
120289 TTATAAATAG
* *
120299 TGAACAATACCCGTGAACAA
1 TGAACAATAACAGTGAACAA
120319 TGAACAATAACAGTGAACA
1 TGAACAATAACAGTGAACA
120338 GTACCCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.49, C:0.21, G:0.15, T:0.15
Consensus pattern (20 bp):
TGAACAATAACAGTGAACAA
Found at i:120836 original size:24 final size:24
Alignment explanation
Indices: 120809--120879 Score: 73
Period size: 24 Copynumber: 3.1 Consensus size: 24
120799 ACCATTTATC
120809 CCATAAGCTGGTAAGCTTATTTTA
1 CCATAAGCTGGTAAGCTTATTTTA
*
120833 CCATATA-CT--T-A-C-CATTTATA
1 CCATA-AGCTGGTAAGCTTATTT-TA
120853 CCATAAGCTGGTAAGCTTATTTTA
1 CCATAAGCTGGTAAGCTTATTTTA
120877 CCA
1 CCA
120880 ATATACTTGC
Statistics
Matches: 37, Mismatches: 2, Indels: 16
0.67 0.04 0.29
Matches are distributed among these distances:
19 5 0.14
20 10 0.27
21 1 0.03
22 2 0.05
23 1 0.03
24 13 0.35
25 5 0.14
ACGTcount: A:0.31, C:0.21, G:0.11, T:0.37
Consensus pattern (24 bp):
CCATAAGCTGGTAAGCTTATTTTA
Found at i:120857 original size:44 final size:45
Alignment explanation
Indices: 120742--120918 Score: 252
Period size: 44 Copynumber: 4.0 Consensus size: 45
120732 ATTTGCATAT
* *
120742 CCAATAT-TTTACCATTTATTAACCATAAGCTTGTAAGCTTATTTTA
1 CCAATATACTTACCATTTA-T-ACCATAAGCTGGTAAGCTTATTTTA
* *
120788 CCAAAATACTTACCATTTATCCCATAAGCTGGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATACCATAAGCTGGTAAGCTTATTTTA
120833 CC-ATATACTTACCATTTATACCATAAGCTGGTAAGCTTATTTTA
1 CCAATATACTTACCATTTATACCATAAGCTGGTAAGCTTATTTTA
* * *
120877 CCAATATACTTGCCA-TTATTCCATAAGCTCGTAAGCTTATTT
1 CCAATATACTTACCATTTATACCATAAGCTGGTAAGCTTATTT
120919 GCATACTTAC
Statistics
Matches: 120, Mismatches: 9, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
44 67 0.56
45 36 0.30
46 7 0.06
47 10 0.08
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (45 bp):
CCAATATACTTACCATTTATACCATAAGCTGGTAAGCTTATTTTA
Found at i:120868 original size:89 final size:90
Alignment explanation
Indices: 120750--120941 Score: 279
Period size: 89 Copynumber: 2.2 Consensus size: 90
120740 ATCCAATATT
*
120750 TTACCATTTATTAACCATAAGCTTGTAAGCTTATTTTACCAAAATACTTACCATTTATCCCATAA
1 TTACCATTTATTAACCATAAGCTGGTAAGCTTATTTTACCAAAATACTTACCA-TTATCCCATAA
*
120815 GCTGGTAAGCTTATTTTACCATATAC
65 GCTCGTAAGCTTATTTTACCATATAC
* * *
120841 TTACCATTTA-T-ACCATAAGCTGGTAAGCTTATTTTACCAATATACTTGCCATTATTCCATAAG
1 TTACCATTTATTAACCATAAGCTGGTAAGCTTATTTTACCAAAATACTTACCATTATCCCATAAG
*
120904 CTCGTAAGCTTA-TTT-GC--ATAC
66 CTCGTAAGCTTATTTTACCATATAC
120925 TTACCATTTATTAACCA
1 TTACCATTTATTAACCA
120942 ATAAACCATA
Statistics
Matches: 93, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
84 14 0.15
85 1 0.01
86 5 0.05
87 3 0.03
88 22 0.24
89 37 0.40
90 1 0.01
91 10 0.11
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (90 bp):
TTACCATTTATTAACCATAAGCTGGTAAGCTTATTTTACCAAAATACTTACCATTATCCCATAAG
CTCGTAAGCTTATTTTACCATATAC
Found at i:130063 original size:22 final size:22
Alignment explanation
Indices: 130037--130117 Score: 87
Period size: 23 Copynumber: 3.8 Consensus size: 22
130027 ATAGGGTAGA
*
130037 GGGAATCGATACCCCCTTGAAG
1 GGGAACCGATACCCCCTTGAAG
* *
130059 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATACCCCC-TTGAAG
*
130082 GGGAACCGATTCCCCC-T--AG
1 GGGAACCGATACCCCCTTGAAG
*
130101 GGGAATCGATACCCCCT
1 GGGAACCGATACCCCCT
130118 GGGGTTCTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
19 15 0.29
21 1 0.02
22 14 0.27
23 21 0.41
ACGTcount: A:0.23, C:0.32, G:0.25, T:0.20
Consensus pattern (22 bp):
GGGAACCGATACCCCCTTGAAG
Found at i:130079 original size:23 final size:23
Alignment explanation
Indices: 130037--130098 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
130027 ATAGGGTAGA
* *
130037 GGGAATCGATACCCCC-TTGAAG
1 GGGAACCGATTCCCCCTTTGAAG
*
130059 GGGAACCGATTCCCCCTTTGAAT
1 GGGAACCGATTCCCCCTTTGAAG
130082 GGGAACCGATTCCCCCT
1 GGGAACCGATTCCCCCT
130099 AGGGGAATCG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
22 14 0.39
23 22 0.61
ACGTcount: A:0.23, C:0.32, G:0.24, T:0.21
Consensus pattern (23 bp):
GGGAACCGATTCCCCCTTTGAAG
Found at i:130121 original size:18 final size:19
Alignment explanation
Indices: 130082--130121 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
130072 CCCTTTGAAT
*
130082 GGGAACCGATTCCCCCTAG
1 GGGAACCGATACCCCCTAG
*
130101 GGGAATCGATACCCCCT-G
1 GGGAACCGATACCCCCTAG
130119 GGG
1 GGG
130122 TTCTGGTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.20, C:0.33, G:0.33, T:0.15
Consensus pattern (19 bp):
GGGAACCGATACCCCCTAG
Found at i:133414 original size:463 final size:463
Alignment explanation
Indices: 132543--133471 Score: 1560
Period size: 463 Copynumber: 2.0 Consensus size: 463
132533 AGAGAGAATG
132543 AAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTT
1 AAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTT
* * * *
132608 TCTTTCAAGAACACTTATTGTGCTAAATTGTATTATTCTTGAGTGTTCTTTCTTTTTTCTAAAAT
66 GCTTTCAAGAACACTTATTATGCTAAATTATATTATTCTTGAGTGTTCTTTCTTTGTTCTAAAAT
* *
132673 TGTGCAAACATATTTGCCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATCTTCTCTTTG
131 TGTGCAAACATATTTACCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATATTCTCTTTG
132738 AGTAAAGAGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTGTAAGGTTATCTCTTTGGCC
196 AGTAAAGAGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTGTAAGGTTATCTCTTTGGCC
* * *
132803 TCAAAAGAAAGAACAAATTAGTGAATTTGTTGGAAAATCCTTAGTGTGTATAGCTAAGGTAGTGG
261 TCAAAAGAAAGAACAAATTAGTAAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGCAGTGG
*
132868 ACGTAGACTTTGGTTGATAAAGTCGAACCACTCTAAATCGCTGTGCAATTACTTTCAATTTTCTG
326 ACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCGCTGTGCAATTACTTTCAATTTTCTG
* *
132933 CAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCGATTCCGTCAATCGATT
391 CAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCAATTCCATCAATCGATT
132998 AACTCAAC
456 AACTCAAC
* *
133006 AAAGAGAAAGCATCAAACCTTAAGTTTGAGCATTTCAAGCCTATTTTTTATTCAATATTCATTTT
1 AAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTT
* *
133071 GCTTTCAAGAACACTTATTATGCTCAATTATATTTATTCTTGAGTGTTCTTTCTTTGTTCTAGAA
66 GCTTTCAAGAACACTTATTATGCTAAATTATA-TTATTCTTGAGTGTTCTTTCTTTGTTCTAAAA
133136 TTGTGCAAACATA-TTACCTTGTGAGG-TTTTCTTGTAAGTTTGCAAAATTTGTAATATTCTCTT
130 TTGTGCAAACATATTTACCTTGTGAGGTTTTTCTTGTAAGTTTGC-AAATTTGTAATATTCTCTT
*
133199 TGAG-AATGAGTGTTCTCAAGAATTGGGGTATAATTCTTGAGGGAGTTGTAAGGTTATCTCTTTG
194 TGAGTAAAGAGTGTTCTCAAGAATTGGGGTAT-ATTCTTGAGGGAGTTGTAAGGTTATCTCTTTG
* * *
133263 GCCTCAAAAGAAATATCAAATTAGTAAATTTGTTGGAAAATCCTTAGTGTGGATATCTAAGGCAG
258 GCCTCAAAAGAAAGAACAAATTAGTAAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGCAG
* * *
133328 TGGATGTAGTCTTT-GTTGAGAAAGTCGAACCACTGTAAATCGCTGTGCAATTACTTTCAATTTT
323 TGGACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCGCTGTGCAATTACTTTCAATTTT
* * *
133392 CTGCAAAAGCTTCCACCAAAATTTTAATTGCCAATTCACCCCCCTCTTGGTCAATTTCATCGATC
388 CTGCAAAAGCTTCCA-CAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCAATTCCATCAATC
133457 GATTAACTCAAC
452 GATTAACTCAAC
133469 AAA
1 AAA
133472 TATCATATAT
Statistics
Matches: 436, Mismatches: 26, Indels: 8
0.93 0.06 0.02
Matches are distributed among these distances:
462 106 0.24
463 287 0.66
464 43 0.10
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (463 bp):
AAAGAGAAAGCATCAAACCTCAAGTTTGAGCATTTCAAGCCTATTTTTCATTCAATATTCATTTT
GCTTTCAAGAACACTTATTATGCTAAATTATATTATTCTTGAGTGTTCTTTCTTTGTTCTAAAAT
TGTGCAAACATATTTACCTTGTGAGGTTTTTCTTGTAAGTTTGCAAATTTGTAATATTCTCTTTG
AGTAAAGAGTGTTCTCAAGAATTGGGGTATATTCTTGAGGGAGTTGTAAGGTTATCTCTTTGGCC
TCAAAAGAAAGAACAAATTAGTAAATTTGTTGGAAAATCCTTAGTGTGGATAGCTAAGGCAGTGG
ACGTAGACTTTGGTTGAGAAAGTCGAACCACTCTAAATCGCTGTGCAATTACTTTCAATTTTCTG
CAAAAGCTTCCACAAAATTTTAATTGCCAATTCACCCCCCTCTTGGCCAATTCCATCAATCGATT
AACTCAAC
Found at i:134189 original size:90 final size:89
Alignment explanation
Indices: 134036--134206 Score: 290
Period size: 90 Copynumber: 1.9 Consensus size: 89
134026 ACACACCCTT
134036 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAAATTAAATCTATATTT
1 TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAAATTAAATCTATATTT
*
134101 AATTAATTAGAATTTAATAATCCTC
66 AATTAATT-GAAATTAATAATCCTC
* *
134126 TTATATCCAAGTTACCCTAATCATATTTGGGATTTTATTATTTCAAATT-AATTAAATCTATATT
1 TTATAGCCAAGTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAAATTAAATCTATATT
134190 TAATTAATTGAAATTAA
65 TAATTAATTGAAATTAA
134207 ATATTTGGGA
Statistics
Matches: 77, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
89 7 0.09
90 53 0.69
91 17 0.22
ACGTcount: A:0.38, C:0.11, G:0.06, T:0.44
Consensus pattern (89 bp):
TTATAGCCAAGTTACCCTAATCATATTAGGGTTTTATTATTTCAAATTAAATTAAATCTATATTT
AATTAATTGAAATTAATAATCCTC
Found at i:138588 original size:138 final size:138
Alignment explanation
Indices: 138342--138597 Score: 383
Period size: 138 Copynumber: 1.9 Consensus size: 138
138332 CGTGTATGAT
* *
138342 AGTTATCGATCAATTTTGATTAATGCATAATGGTGCATTTTCGTATCAGTACTATGTGTACTTTT
1 AGTTATCGATCAATTTTGATTAATGCATAACGGTGCATTTTCGTATAAGTACTATGTGTACTTTT
* *
138407 GGTACTAGATGTGTAATCATGGTATTCATAATGAGTTTATGAATTGT-CATTTCAATATACAATT
66 GGCACTAGATGTGTAATCATGGAATTCATAATGAGTTTATGAATT-TCCATTTCAATATACAATT
138471 ATGTATAAA
130 ATGTATAAA
* *
138480 AGTTATCGATCGATTTTGTTTAATGCATAACGGTGCATTTTCGTATAAGTACTATGTGTACTTTT
1 AGTTATCGATCAATTTTGATTAATGCATAACGGTGCATTTTCGTATAAGTACTATGTGTACTTTT
* * *
138545 GGCACTATGA-GTG-CATCCATGGAATTCATAATGTGTTTGTGAATTTCCATTTC
66 GGCACTA-GATGTGTAAT-CATGGAATTCATAATGAGTTTATGAATTTCCATTTC
138598 GACACTTCGG
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
137 3 0.03
138 101 0.95
139 2 0.02
ACGTcount: A:0.28, C:0.12, G:0.18, T:0.42
Consensus pattern (138 bp):
AGTTATCGATCAATTTTGATTAATGCATAACGGTGCATTTTCGTATAAGTACTATGTGTACTTTT
GGCACTAGATGTGTAATCATGGAATTCATAATGAGTTTATGAATTTCCATTTCAATATACAATTA
TGTATAAA
Found at i:141636 original size:22 final size:22
Alignment explanation
Indices: 141601--141656 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
141591 AGATTTTTTT
* *
141601 ATGAATAGTTATGAACA-ACACC
1 ATGAACAGTGATGAACAGAC-CC
*
141623 GTGAACAGTGATGAACAGTACCC
1 ATGAACAGTGATGAACAG-ACCC
141646 ATGAACAGTGA
1 ATGAACAGTGA
141657 ACAGTGTATC
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
22 14 0.50
23 12 0.43
24 2 0.07
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (22 bp):
ATGAACAGTGATGAACAGACCC
Found at i:142218 original size:47 final size:45
Alignment explanation
Indices: 142150--142321 Score: 229
Period size: 47 Copynumber: 3.8 Consensus size: 45
142140 ATAAAATCTT
*
142150 TTACCATTTATCCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
142195 TTACCATTTAAATTCCATAAGCTCATAAGCTTATTTTATACAAAATAC
1 TTACCATTT--ATTCCATAAGCTCGTAAGCTTATTTTA-CCAAAATAC
* * *
142243 TTACCATTTAATCTCATAAGCTCGTAAGCTTATTTTACCCATATAC
1 TTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTACCAAAATAC
* *
142289 TTGCCA-TTATTCCAAAAGCTCGTAAGCTTATTT
1 TTACCATTTATTCCATAAGCTCGTAAGCTTATTT
142322 GTATGCTTAC
Statistics
Matches: 112, Mismatches: 11, Indels: 9
0.85 0.08 0.07
Matches are distributed among these distances:
44 20 0.18
45 14 0.12
46 14 0.12
47 47 0.42
48 17 0.15
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.38
Consensus pattern (45 bp):
TTACCATTTATTCCATAAGCTCGTAAGCTTATTTTACCAAAATAC
Found at i:142484 original size:40 final size:40
Alignment explanation
Indices: 142426--142507 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
142416 ACAGTAGTGC
* *
142426 TACATATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
*
142466 TACACATAAGGCCGTGCCCACCATATACACTGAAGTGTAT
1 TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
142506 TA
1 TA
142508 TAAACCTGCA
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.24
Consensus pattern (40 bp):
TACACATAAGGCCGTGCCCACCATATACACCGAAGTGTAT
Found at i:147238 original size:43 final size:43
Alignment explanation
Indices: 147151--147240 Score: 105
Period size: 43 Copynumber: 2.1 Consensus size: 43
147141 TCATATGAAT
*
147151 TAAATATATAAAGAAAAAAAAAACAAAGCATAAGAGTAACAAAA
1 TAAAAATATAAAGAAAAAAAAAACAAAGCATAAGAG-AACAAAA
*
147195 TAAAAATATAAA-AAAGAAAAAACATATAGCATGAAGA-AA-AAAA
1 TAAAAATATAAAGAAAAAAAAAACA-A-AGCAT-AAGAGAACAAAA
147238 TAA
1 TAA
147241 GTTAAGGTTA
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
43 18 0.44
44 14 0.34
45 5 0.12
46 4 0.10
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (43 bp):
TAAAAATATAAAGAAAAAAAAAACAAAGCATAAGAGAACAAAA
Found at i:155795 original size:2 final size:2
Alignment explanation
Indices: 155788--155843 Score: 85
Period size: 2 Copynumber: 27.5 Consensus size: 2
155778 TATAAGTTAG
* *
155788 TA TA TA TA TA TA CA CTA AA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
155831 TA TA TA TA TA TA T
1 TA TA TA TA TA TA T
155844 TCTAAAACCA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
2 48 0.98
3 1 0.02
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:156102 original size:29 final size:26
Alignment explanation
Indices: 156060--156123 Score: 65
Period size: 29 Copynumber: 2.3 Consensus size: 26
156050 AGACATTTTC
* * *
156060 AAATATAAAGTAAAACATATTAATGTAT
1 AAATATCATGTAAAACATAAT-ATGT-T
*
156088 AAAATATCATGTAAACCATAATATGTT
1 -AAATATCATGTAAAACATAATATGTT
156115 AAATATCAT
1 AAATATCAT
156124 ATAGTAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 9 0.29
27 1 0.03
28 4 0.13
29 17 0.55
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (26 bp):
AAATATCATGTAAAACATAATATGTT
Found at i:178552 original size:76 final size:76
Alignment explanation
Indices: 178441--178581 Score: 223
Period size: 76 Copynumber: 1.9 Consensus size: 76
178431 ATTTTAAATA
* * *
178441 TTATATTTTATCTTTGTTTTAGGTATTTTTGTTTAAATAGGTTTT-AGTATTTTAATTAGGTTTT
1 TTATATTTTATCTTTATTTTAGGTATTTTTGTTTAAATA-GTTTTAAGTATTTTAATCAGGATTT
178505 AGGATATTATTT
65 AGGATATTATTT
178517 TTATATTTTATCTTTATTTTAGGTATTTTAT-TTTAAATAGTTTTAAGTATTTTAATCAGGATTT
1 TTATATTTTATCTTTATTTTAGGTATTTT-TGTTTAAATAGTTTTAAGTATTTTAATCAGGATTT
178581 A
65 A
178582 AGATGTTTTA
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
75 5 0.08
76 54 0.90
77 1 0.02
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (76 bp):
TTATATTTTATCTTTATTTTAGGTATTTTTGTTTAAATAGTTTTAAGTATTTTAATCAGGATTTA
GGATATTATTT
Found at i:179225 original size:17 final size:18
Alignment explanation
Indices: 179202--179244 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
179192 TCTTTAAATT
179202 ATTTATTTAATTATT-TC
1 ATTTATTTAATTATTATC
* *
179219 TTTTATTTAATTCTTATC
1 ATTTATTTAATTATTATC
179237 ATTTATTT
1 ATTTATTT
179245 TAAAAACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
17 13 0.59
18 9 0.41
ACGTcount: A:0.26, C:0.07, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTATTTAATTATTATC
Found at i:189845 original size:17 final size:17
Alignment explanation
Indices: 189794--189864 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
189784 AATTAAGAGT
*
189794 TAGTTTAATAAATGAAC
1 TAGTTTAATTAATGAAC
* * ** *
189811 TAGTCTGACGAATTAAC
1 TAGTTTAATTAATGAAC
189828 TAGTTTAATTAATGAAC
1 TAGTTTAATTAATGAAC
*
189845 TAACTTT-ATTCAATGAAC
1 T-AGTTTAATT-AATGAAC
189863 TA
1 TA
189865 TAACTTTATT
Statistics
Matches: 41, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
17 29 0.71
18 12 0.29
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (17 bp):
TAGTTTAATTAATGAAC
Found at i:189859 original size:18 final size:18
Alignment explanation
Indices: 189838--189884 Score: 76
Period size: 20 Copynumber: 2.5 Consensus size: 18
189828 TAGTTTAATT
189838 AATGAACTAACTTTATTC
1 AATGAACTAACTTTATTC
189856 AATGAACTATAACTTTATTC
1 AATGAAC--TAACTTTATTC
189876 AATGAACTA
1 AATGAACTA
189885 GATGATTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 9 0.33
20 18 0.67
ACGTcount: A:0.43, C:0.15, G:0.06, T:0.36
Consensus pattern (18 bp):
AATGAACTAACTTTATTC
Found at i:189870 original size:20 final size:20
Alignment explanation
Indices: 189845--189884 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
189835 ATTAATGAAC
189845 TAACTTTATTCAATGAACTA
1 TAACTTTATTCAATGAACTA
189865 TAACTTTATTCAATGAACTA
1 TAACTTTATTCAATGAACTA
189885 GATGATTGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.05, T:0.40
Consensus pattern (20 bp):
TAACTTTATTCAATGAACTA
Found at i:193866 original size:17 final size:17
Alignment explanation
Indices: 193844--193886 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
193834 AATTAAGAGT
193844 TAGTTTAATAAATAAAC
1 TAGTTTAATAAATAAAC
* * *
193861 TAGTTTGATGAATTAAC
1 TAGTTTAATAAATAAAC
193878 TAGTTTAAT
1 TAGTTTAAT
193887 TAATGACCTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.42, C:0.05, G:0.12, T:0.42
Consensus pattern (17 bp):
TAGTTTAATAAATAAAC
Found at i:193921 original size:20 final size:20
Alignment explanation
Indices: 193896--193936 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
193886 TTAATGACCT
193896 AACTTTATTCAATGAACTAG
1 AACTTTATTCAATGAACTAG
193916 AACTTTATTCAATGAACTAG
1 AACTTTATTCAATGAACTAG
193936 A
1 A
193937 TGCATGAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (20 bp):
AACTTTATTCAATGAACTAG
Found at i:199952 original size:18 final size:19
Alignment explanation
Indices: 199910--199952 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
199900 TTGGTTCACA
*
199910 GAATGTGAGATTACCAGTAG
1 GAATGTAAGATTACCAG-AG
*
199930 GAATGTAAGATTATCAG-G
1 GAATGTAAGATTACCAGAG
199948 GAATG
1 GAATG
199953 GGATTACTGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 6 0.29
20 15 0.71
ACGTcount: A:0.37, C:0.07, G:0.30, T:0.26
Consensus pattern (19 bp):
GAATGTAAGATTACCAGAG
Found at i:201918 original size:32 final size:32
Alignment explanation
Indices: 201882--201967 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
201872 TTCTTTTTAT
201882 AATAACATTTATTTGAACATAATA-TTTAATAA
1 AATAACATTTATTTGAACATAATACTTTAAT-A
** *
201914 AATAACATTTATTCAAACATAATACTTTTATA
1 AATAACATTTATTTGAACATAATACTTTAATA
* * *
201946 TATAATATTTATTTGAATATAA
1 AATAACATTTATTTGAACATAA
201968 CTTATATAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
32 40 0.89
33 5 0.11
ACGTcount: A:0.48, C:0.07, G:0.02, T:0.43
Consensus pattern (32 bp):
AATAACATTTATTTGAACATAATACTTTAATA
Found at i:209026 original size:20 final size:20
Alignment explanation
Indices: 208997--209037 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
208987 TATGAAATTA
*
208997 TTTAAATATTT-CAGATTTT
1 TTTAAATATTTAAAGATTTT
209016 TTTAGAATATTTAAAGATTTT
1 TTTA-AATATTTAAAGATTTT
209037 T
1 T
209038 AAATAAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 8 0.42
ACGTcount: A:0.34, C:0.02, G:0.07, T:0.56
Consensus pattern (20 bp):
TTTAAATATTTAAAGATTTT
Found at i:209672 original size:2 final size:2
Alignment explanation
Indices: 209665--209696 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
209655 GATTTTCGTT
209665 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
209697 CTGAAAATAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:210109 original size:19 final size:19
Alignment explanation
Indices: 210081--210117 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
210071 ACATTAGCAG
*
210081 TGCATGTTCTAGAATGCAC
1 TGCATATTCTAGAATGCAC
210100 TGCATATTCTAGAATGCA
1 TGCATATTCTAGAATGCA
210118 TATTCTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.32
Consensus pattern (19 bp):
TGCATATTCTAGAATGCAC
Found at i:210231 original size:36 final size:36
Alignment explanation
Indices: 210184--210254 Score: 124
Period size: 36 Copynumber: 2.0 Consensus size: 36
210174 ACTTGGATCG
210184 GAAGTGACGATGCTTCCTTCCGTTCGAATTGAATCA
1 GAAGTGACGATGCTTCCTTCCGTTCGAATTGAATCA
* *
210220 GAAGTGCCGATGCTTCCTTCCGTTCGATTTGAATC
1 GAAGTGACGATGCTTCCTTCCGTTCGAATTGAATC
210255 GTCGGTGCAC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.21, C:0.24, G:0.23, T:0.32
Consensus pattern (36 bp):
GAAGTGACGATGCTTCCTTCCGTTCGAATTGAATCA
Found at i:215143 original size:3 final size:3
Alignment explanation
Indices: 215135--215208 Score: 123
Period size: 3 Copynumber: 24.7 Consensus size: 3
215125 GGCCCGTTTG
*
215135 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TCA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
215182 TAA TAA TAA TAA TAAA TAA TAA TAA TA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TA
215209 GTAAATGGAG
Statistics
Matches: 67, Mismatches: 2, Indels: 4
0.92 0.03 0.05
Matches are distributed among these distances:
2 2 0.03
3 62 0.93
4 3 0.04
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:215564 original size:17 final size:17
Alignment explanation
Indices: 215542--215597 Score: 51
Period size: 17 Copynumber: 3.2 Consensus size: 17
215532 TTGAACAAGC
215542 TCTTCTTATTATGAACT
1 TCTTCTTATTATGAACT
* *
215559 TCTTCTTCTTCA-GATGAGT
1 TCTTCTTATT-ATGA--ACT
*
215578 TCTTCTCATTATGAACT
1 TCTTCTTATTATGAACT
215595 TCT
1 TCT
215598 CTGGAAAAGC
Statistics
Matches: 30, Mismatches: 5, Indels: 8
0.70 0.12 0.19
Matches are distributed among these distances:
17 16 0.53
18 2 0.07
19 12 0.40
ACGTcount: A:0.20, C:0.21, G:0.09, T:0.50
Consensus pattern (17 bp):
TCTTCTTATTATGAACT
Found at i:215869 original size:113 final size:112
Alignment explanation
Indices: 215525--216086 Score: 692
Period size: 113 Copynumber: 5.0 Consensus size: 112
215515 TAGAATTATG
* ** *
215525 CAAAAAGTTGAACAAGCTCTTCTTATTATGAA--CTTCTT-CTTCTTCAGATGAGTTCTTCTCAT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
* * * * * *
215587 TATGAACTT-CTCTGGAAAAGCTGCTCTATCAAGTGATGGATTTGAG
66 TATGAACTTACTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAA
215633 CAAAAGGTTGAACAAATTCTTCTCATTATGAA-T-TTCTT-CTTCTTCAGATGACGAGTTCTTCT
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGAT---GAGTTCTTCT
* * * * *
215695 CATTATGAACTCTAC-CTGGCAATGTTAATTCATCAAATGATGAATTTAAA
63 CATTATGAACT-TACTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAA
* *
215745 CAAATGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * * *
215810 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAG
65 TTATGAACTTACTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAA
* *
215858 CAAAAGATTGAACAAATTCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTC
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGAT---GAGTTCTTC
* * * *
215923 TCATTATGAACTCTAC-CTGGCAATGTTAATCCATCAAATGATGAATTTAAA
62 TCATTATGAACT-TACTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAA
*
215974 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTCATTATGAA-TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
216039 TTATGAACTTCCTCTGGAAAAGCTGATCCATCAAGTGATGAATTTAAA
65 TTATGAACTTACTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAA
216087 TCTTTGCTAA
Statistics
Matches: 389, Mismatches: 49, Indels: 27
0.84 0.11 0.06
Matches are distributed among these distances:
108 44 0.11
111 21 0.05
112 59 0.15
113 148 0.38
114 1 0.00
115 5 0.01
116 109 0.28
117 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.37
Consensus pattern (112 bp):
CAAAAGGTTGAACAAATTCTTCTCATTATGAATTCTTCTTCCTTCTTCAGATGAGTTCTTCTCAT
TATGAACTTACTCTGGAAAAGCTGATCCATCAAATGATGAATTTAAA
Found at i:215973 original size:229 final size:225
Alignment explanation
Indices: 215525--216083 Score: 930
Period size: 229 Copynumber: 2.5 Consensus size: 225
215515 TAGAATTATG
* **
215525 CAAAAAGTTGAACAAGCTCTTCTTATTATGAA---CTTCTT-CTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* * *
215586 TTATGAAC-TTCTCTGGAAAAGCTGCTCTATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAAT
215650 TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
131 TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
*
215715 AATGTTAATTCATCAAATGATGAATTTAAA
196 AATGTTAATCCATCAAATGATGAATTTAAA
*
215745 CAAATGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
*
215810 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGATTGAACAAAT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAAT
215875 TCTTCTCATTATGAATTTCTTCTTCTTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
131 TCTTCTCATTATGAA--T-TTCTTC-TTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACC
215940 TGGCAATGTTAATCCATCAAATGATGAATTTAAA
192 TGGCAATGTTAATCCATCAAATGATGAATTTAAA
* *
215974 CAAAAGGTTGAACAAATTCTTCTCATTATGAACTTCTTCATCCTTCTTCAGATGAGTTCTTCTCA
1 CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
* *
216039 TTATGAACTTCCTCTGGAAAAGCTGATCCATCAAGTGATGAATTT
66 TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTT
216084 AAATCTTTGC
Statistics
Matches: 315, Mismatches: 15, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
220 28 0.09
223 6 0.02
224 31 0.10
225 67 0.21
227 1 0.00
228 6 0.02
229 176 0.56
ACGTcount: A:0.30, C:0.19, G:0.14, T:0.38
Consensus pattern (225 bp):
CAAAAGGTTGAACAAATTCTTCTTATTATGAACTTCTTCTTCCTTCTTCAGATGAGTTCTTCTCA
TTATGAACTTTCTCTGGAAAAGCTGATCCATCAAGTGATGGATTTGAGCAAAAGATTGAACAAAT
TCTTCTCATTATGAATTTCTTCTTCTTCAGATGACGAGTTCTTCTCATTATGAACTCTACCTGGC
AATGTTAATCCATCAAATGATGAATTTAAA
Found at i:216987 original size:83 final size:84
Alignment explanation
Indices: 216812--217203 Score: 614
Period size: 83 Copynumber: 4.7 Consensus size: 84
216802 AAACCAAATT
* * *
216812 AGATCAGATAATTCAAAGAACACTTCCAGAAGATGCTATTGGGTCTCCTT-ATTTCTTTCAAATT
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGG-CACATTCA--TCTTTCAAATT
*
216876 CAATGATTGGTTTTACCAAACC
63 CAATGATTAGTTTTACCAAACC
*
216898 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCAAATTCAA
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCAAATTCAA
*
216962 TGATTATTTTTACCAAACC
66 TGATTAGTTTTACCAAACC
* *
216981 AGATCAGATAACTCAAAGGACACTTCCAGAAGATGCTA-TGAGCACATTCATCTTTCAAATTCAA
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCAAATTCAA
217045 TGATT-GATTTTACCAAACC
66 TGATTAG-TTTTACCAAACC
*
217064 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTCCAAATTCAA
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCAAATTCAA
* *
217129 TAACT-GTTTTACCAAACC
66 TGATTAGTTTTACCAAACC
217147 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTC
1 AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTC
217204 CAGCTAATGT
Statistics
Matches: 289, Mismatches: 14, Indels: 9
0.93 0.04 0.03
Matches are distributed among these distances:
83 216 0.75
84 32 0.11
85 4 0.01
86 37 0.13
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.29
Consensus pattern (84 bp):
AGATCAGATAACTCAAAGAACACTTCCAGAAGATGCTATTGGGCACATTCATCTTTCAAATTCAA
TGATTAGTTTTACCAAACC
Found at i:218360 original size:9 final size:9
Alignment explanation
Indices: 218342--218422 Score: 95
Period size: 8 Copynumber: 9.7 Consensus size: 9
218332 TGACCCCCCC
218342 TTTTCTTCTT
1 TTTTC-TCTT
218352 TTTTCTCTT
1 TTTTCTCTT
218361 TTTT-TCTT
1 TTTTCTCTT
218369 TTTTCTCTT
1 TTTTCTCTT
*
218378 TTTT-T-TC
1 TTTTCTCTT
218385 TTTT-TCTT
1 TTTTCTCTT
218393 TTTTCT-TT
1 TTTTCTCTT
218401 TTTT-TCTT
1 TTTTCTCTT
218409 TTTTCT-TT
1 TTTTCTCTT
218417 TTTTCT
1 TTTTCT
218423 TCAAGCATAA
Statistics
Matches: 64, Mismatches: 2, Indels: 12
0.82 0.03 0.15
Matches are distributed among these distances:
7 7 0.11
8 34 0.53
9 18 0.28
10 5 0.08
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (9 bp):
TTTTCTCTT
Found at i:218363 original size:1 final size:1
Alignment explanation
Indices: 218359--218420 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
218349 CTTTTTTCTC
* * * * * * * *
218359 TTTTTTTCTTTTTTCTCTTTTTTTTCTTTTTCTTTTTTCTTTTTTTTCTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
218421 CTTCAAGCAT
Statistics
Matches: 45, Mismatches: 16, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
1 45 1.00
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (1 bp):
T
Found at i:218367 original size:17 final size:16
Alignment explanation
Indices: 218341--218423 Score: 100
Period size: 17 Copynumber: 5.2 Consensus size: 16
218331 TTGACCCCCC
*
218341 CTTTTCTTCTTTTTTCT
1 CTTTTTTTCTTTTTT-T
218358 CTTTTTTTCTTTTTTCT
1 CTTTTTTTCTTTTTT-T
*
218375 CTTTTTTT-TCTTTTT
1 CTTTTTTTCTTTTTTT
218390 C-TTTTTTCTTTTTTT
1 CTTTTTTTCTTTTTTT
218405 -TCTTTTTTCTTTTTTT
1 CT-TTTTTTCTTTTTTT
218421 CTT
1 CTT
218424 CAAGCATAAT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.10
15 8 0.14
16 20 0.34
17 25 0.42
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (16 bp):
CTTTTTTTCTTTTTTT
Found at i:218398 original size:31 final size:31
Alignment explanation
Indices: 218341--218423 Score: 114
Period size: 31 Copynumber: 2.6 Consensus size: 31
218331 TTGACCCCCC
218341 CTTTTCTTCTTTTTTCTCTTTTTTTCTTTTTTCT
1 CTTTT-TTCTTTTTT-TC-TTTTTTCTTTTTTCT
*
218375 CTTTTTT-TTCTTTTTCTTTTTTCTTTTTTTT
1 CTTTTTTCTT-TTTTTCTTTTTTCTTTTTTCT
218406 CTTTTTTCTTTTTTTCTT
1 CTTTTTTCTTTTTTTCTT
218424 CAAGCATAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
31 29 0.63
32 6 0.13
33 6 0.13
34 5 0.11
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (31 bp):
CTTTTTTCTTTTTTTCTTTTTTCTTTTTTCT
Found at i:218418 original size:7 final size:7
Alignment explanation
Indices: 218341--218419 Score: 72
Period size: 7 Copynumber: 11.0 Consensus size: 7
218331 TTGACCCCCC
218341 CTTTTCTT
1 CTTTT-TT
218349 CTTTTTT
1 CTTTTTT
*
218356 CTCTTTT
1 CTTTTTT
*
218363 -TTTCTT
1 CTTTTTT
*
218369 -TTTTCT
1 CTTTTTT
218375 CTTTTTT
1 CTTTTTT
*
218382 TTCTTTTT
1 CT-TTTTT
218390 CTTTTTT
1 CTTTTTT
218397 CTTTTTTTT
1 C--TTTTTT
218406 CTTTTTT
1 CTTTTTT
218413 CTTTTTT
1 CTTTTTT
218420 TCTTCAAGCA
Statistics
Matches: 59, Mismatches: 8, Indels: 9
0.78 0.11 0.12
Matches are distributed among these distances:
6 8 0.14
7 33 0.56
8 11 0.19
9 7 0.12
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (7 bp):
CTTTTTT
Found at i:231071 original size:3 final size:3
Alignment explanation
Indices: 231063--231114 Score: 88
Period size: 3 Copynumber: 17.7 Consensus size: 3
231053 GGCCCGTTTG
*
231063 TAA TAA TAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TCA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
231110 TAA TA
1 TAA TA
231115 GTAAATGGAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
2 2 0.04
3 44 0.96
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:233680 original size:18 final size:20
Alignment explanation
Indices: 233657--233693 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
233647 ATTTTGTATA
233657 ATTTTATT-AAT-ATTTTTT
1 ATTTTATTGAATGATTTTTT
233675 ATTTTATTGAATGATTTTT
1 ATTTTATTGAATGATTTTT
233694 ATGGTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 8 0.47
19 3 0.18
20 6 0.35
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (20 bp):
ATTTTATTGAATGATTTTTT
Found at i:234756 original size:15 final size:15
Alignment explanation
Indices: 234736--234767 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
234726 TTTTACATTA
234736 CATAAATTAAACTAG
1 CATAAATTAAACTAG
*
234751 CATAAATTAAATTAG
1 CATAAATTAAACTAG
234766 CA
1 CA
234768 AAGGAAATTG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.28
Consensus pattern (15 bp):
CATAAATTAAACTAG
Found at i:239352 original size:22 final size:22
Alignment explanation
Indices: 239305--239380 Score: 122
Period size: 22 Copynumber: 3.6 Consensus size: 22
239295 TGCAAAAATG
*
239305 GTATCGATACCATAGTA-GG--
1 GTATCGATACCATAATATGGTA
239324 GTATCGATACCATAATATGGTA
1 GTATCGATACCATAATATGGTA
239346 GTATCGATACCATAATATGGTA
1 GTATCGATACCATAATATGGTA
239368 GTATCGATACCAT
1 GTATCGATACCAT
239381 GGTAGGGTTA
Statistics
Matches: 53, Mismatches: 1, Indels: 3
0.93 0.02 0.05
Matches are distributed among these distances:
19 16 0.30
20 2 0.04
22 35 0.66
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (22 bp):
GTATCGATACCATAATATGGTA
Found at i:242965 original size:111 final size:112
Alignment explanation
Indices: 242649--243125 Score: 759
Period size: 111 Copynumber: 4.3 Consensus size: 112
242639 TAAGTATGCA
* * *
242649 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGCGCACTATATATGTAGAACTTAA
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTACAACTTAA
* * **
242714 GAAATTCATACTAAGTGGATGGATTTCCGTATGGTCACTATATGTTT
66 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
*
242761 AAAACTTAAGAAATTCATAC---GTGGATGAATTTCCATATGGGCACTATATGTGTACAACTTAA
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTACAACTTAA
242823 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
66 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
* *
242870 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTA-AATTTAA
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTACAACTTAA
242934 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
66 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
* *
242981 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGTA-AATTTAA
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTACAACTTAA
*
243045 GAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGC
66 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
* * * *
243092 AAAAC-TAGGAAATTTATACTAAGTGTATAAATTT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTT
243126 TTGTATTGGT
Statistics
Matches: 346, Mismatches: 16, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
109 101 0.29
110 25 0.07
111 168 0.49
112 52 0.15
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (112 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTACAACTTAA
GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
Found at i:243131 original size:55 final size:56
Alignment explanation
Indices: 242649--243125 Score: 732
Period size: 56 Copynumber: 8.6 Consensus size: 56
242639 TAAGTATGCA
* *
242649 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGCGCACTATATATGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
242705 AGAACTTAAGAAATTCATACTAAGTGGATGGATTTCCGTATGGTCACTATATGTTT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
*
242761 AAAACTTAAGAAATTCATAC---GTGGATGAATTTCCATATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
242814 ACAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
*
242870 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
242926 -AAATTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
*
242981 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
243037 -AAATTTAAGAAATTCATACTAAGTGGATGAATTTCTGTATGGGCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
243092 AAAAC-TAGGAAATTTATACTAAGTGTATAAATTT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTT
243126 TTGTATTGGT
Statistics
Matches: 384, Mismatches: 32, Indels: 11
0.90 0.07 0.03
Matches are distributed among these distances:
53 48 0.12
55 128 0.33
56 208 0.54
ACGTcount: A:0.35, C:0.13, G:0.19, T:0.33
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:249715 original size:7 final size:7
Alignment explanation
Indices: 249680--249719 Score: 55
Period size: 7 Copynumber: 5.7 Consensus size: 7
249670 TTTTCATACA
249680 TGCATTT
1 TGCATTT
249687 T-CATTT
1 TGCATTT
249693 TGCATCTT
1 TGCAT-TT
249701 TGCATTT
1 TGCATTT
*
249708 TTCATTT
1 TGCATTT
249715 TGCAT
1 TGCAT
249720 GCATACTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
6 6 0.21
7 16 0.55
8 7 0.24
ACGTcount: A:0.15, C:0.17, G:0.10, T:0.57
Consensus pattern (7 bp):
TGCATTT
Found at i:252312 original size:15 final size:15
Alignment explanation
Indices: 252292--252321 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
252282 TCCAGCAAAG
252292 AAAGAAGAAGAAAAA
1 AAAGAAGAAGAAAAA
252307 AAAGAAGAAGAAAAA
1 AAAGAAGAAGAAAAA
252322 GGAAAATTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (15 bp):
AAAGAAGAAGAAAAA
Found at i:254733 original size:92 final size:92
Alignment explanation
Indices: 254575--254986 Score: 646
Period size: 92 Copynumber: 4.6 Consensus size: 92
254565 AACAAATGCC
254575 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
254640 GAACCAGTTATTGAATTTGGAAGAGGA
66 GAACCAGTTATTGAATTTGGAAGAGGA
* * *
254667 ATGTGCTCATAGCATCTTCTGGAAGTGTTCTGTGAGTTATCTGATCTGGTTTGGTATGAACTACA
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
*
254732 GAACCAGTTATTGAATTTAGAAGAGGA
66 GAACCAGTTATTGAATTTGGAAGAGGA
254759 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA--AA--ATC
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCA-C
*
254820 ---A--A-TCATTGAATTTGGAAGAGGA
65 AGAACCAGTTATTGAATTTGGAAGAGGA
* * *
254842 ATGTGCTCATAGCATCTTCGGGAAGTATTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
*
254907 GAACCAATTATTGAATTTGGAAGAGGA
66 GAACCAGTTATTGAATTTGGAAGAGGA
* *
254934 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTTGGTTTG
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
254987 ATATAAAACC
Statistics
Matches: 292, Mismatches: 17, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
83 71 0.24
84 1 0.00
85 2 0.01
86 2 0.01
87 1 0.00
88 1 0.00
89 2 0.01
90 2 0.01
91 1 0.00
92 209 0.72
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (92 bp):
ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
GAACCAGTTATTGAATTTGGAAGAGGA
Found at i:254892 original size:175 final size:179
Alignment explanation
Indices: 254575--254986 Score: 654
Period size: 175 Copynumber: 2.3 Consensus size: 179
254565 AACAAATGCC
254575 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTATGAACCACA
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-GAA-CAC-
* * *
254640 GAACCAGTTATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTGTGAGTT
63 -AA-CAGTCATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCGGGAAGTATTCTGTGAGTT
* *
254705 ATCTGATCTGGTTTGGTATGAACTACAGAACCAGTTATTGAATTTAGAAGAGGA
126 ATCTGATCTGGTTTGGTATGAACCACAGAACCAATTATTGAATTTAGAAGAGGA
254759 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTA-AA-ATC-A
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAACA-CAA
*
254821 -A-TCATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCGGGAAGTATTCTTTGAGTTATCT
65 CAGTCATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCGGGAAGTATTCTGTGAGTTATCT
*
254884 GATCTGGTTTGGTATGAACCACAGAACCAATTATTGAATTTGGAAGAGGA
130 GATCTGGTTTGGTATGAACCACAGAACCAATTATTGAATTTAGAAGAGGA
* *
254934 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCTGATTTGGTTTG
1 ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTG
254987 ATATAAAACC
Statistics
Matches: 218, Mismatches: 9, Indels: 11
0.92 0.04 0.05
Matches are distributed among these distances:
175 156 0.72
176 1 0.00
178 1 0.00
180 1 0.00
181 1 0.00
182 2 0.01
184 56 0.26
ACGTcount: A:0.26, C:0.13, G:0.25, T:0.36
Consensus pattern (179 bp):
ATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGAACACAAC
AGTCATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCGGGAAGTATTCTGTGAGTTATCTG
ATCTGGTTTGGTATGAACCACAGAACCAATTATTGAATTTAGAAGAGGA
Found at i:255002 original size:92 final size:92
Alignment explanation
Indices: 254819--255016 Score: 290
Period size: 92 Copynumber: 2.1 Consensus size: 92
254809 TTGGTAAAAT
*
254819 CAATCATTGAATTTGGAAGAGGAATGTGCTCATAGCATCTTCGGGAAGTATTCTTTGAGTTATCT
1 CAATCATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCGGGAAGTATTCTTTGAGTTATCT
* *
254884 GATCTGGTTTGGTATGAACCACAGAAC
66 GATCTGGTTTGATATAAACCACAGAAC
* * * *
254911 CAATTATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTCTCT
1 CAATCATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCGGGAAGTATTCTTTGAGTTATCT
* *
254976 GATTTGGTTTGATATAAAACC-TAGAAC
66 GATCTGGTTTGATAT-AAACCACAGAAC
255003 CAATCATTGGAATT
1 CAATCATT-GAATT
255017 AAAAGATGAA
Statistics
Matches: 94, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
92 85 0.90
93 9 0.10
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (92 bp):
CAATCATTGAATTTGGAAGAGGAATGTGCTAATAGCATCTTCGGGAAGTATTCTTTGAGTTATCT
GATCTGGTTTGATATAAACCACAGAAC
Found at i:257537 original size:22 final size:22
Alignment explanation
Indices: 257506--257560 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
257496 ATCTACACTC
*
257506 TTCAAAGATGATAGATTCCCTT
1 TTCAAAGATGACAGATTCCCTT
* *
257528 TTTAAAGATGACAGATTCTCTT
1 TTCAAAGATGACAGATTCCCTT
257550 TTCAAAGATGA
1 TTCAAAGATGA
257561 AAGCTTTATC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.36
Consensus pattern (22 bp):
TTCAAAGATGACAGATTCCCTT
Found at i:258297 original size:113 final size:113
Alignment explanation
Indices: 257962--258864 Score: 1161
Period size: 113 Copynumber: 8.0 Consensus size: 113
257952 TAGCAAAAAG
* * * * *
257962 TCAAATTCATGACTTGATAGATCAGCTTTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
* *
258026 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAGCCTTTTGT-
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TC
* * * *
258075 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATC
*
258140 TGAAGAA-GAAG-A-AA-TTCATAATGAGAAGAATTTGTTCAATCTTTTTC
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTC
* * * * *
258187 TCAAATCCATCACTTGATGGATCAGCTTTTCCAGAG-AAAGTTCATAATAAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACATTGCCAG-GTAAAGTTCATAATGAGAAGAACTCATCTG
* *
258251 AAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAGCCTTTTGT-
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TC
* * * *
258300 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCGTCATC
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAA--C-TCATC
*
258365 TGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGT-
63 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT-TC
* * * *
258415 TTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAGAACTCATCAT-
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATC-TG
** * *
258479 CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTC
* * *
258527 TCAAATCCATCACTCGATGGATCAACATTGCCAGGTATAAGGTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGTA-AAGTTCATAATGAGAAGAACTCATCTG
* *
258592 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTC
* *
258641 TCAAATCCATCACTCGATGGATCAACATTGCCAGGTAAAAGTTCATAATGAGAAGAACTCATCTG
1 TCAAATTCATCACTTGATGGATCAACATTGCCAGGT-AAAGTTCATAATGAGAAGAACTCATCTG
* *
258706 AAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
65 AAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTC
* *
258754 TTC-AATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATGAGAAGAACTCATCT
1 -TCAAATTCATCACTTGATGGATCAACATTGCCAGGTA-AAGTTCATAATGAGAAGAACTCATCT
*
258818 GAAG-AGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTT
64 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
258865 GCATGACTCT
Statistics
Matches: 709, Mismatches: 57, Indels: 48
0.87 0.07 0.06
Matches are distributed among these distances:
109 12 0.02
110 5 0.01
111 2 0.00
112 156 0.22
113 295 0.42
114 110 0.16
115 107 0.15
116 22 0.03
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (113 bp):
TCAAATTCATCACTTGATGGATCAACATTGCCAGGTAAAGTTCATAATGAGAAGAACTCATCTGA
AGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTTC
Found at i:258686 original size:227 final size:228
Alignment explanation
Indices: 257998--258866 Score: 1208
Period size: 227 Copynumber: 3.8 Consensus size: 228
257988 TTTTCCAGAG
*
257998 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGT
* * * * * * * *
258063 TCAGCCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAA
66 TCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTGCCAGGTAAAGGTCATAATGAGAA
* * *
258128 GAACTCGTCATCTG-A-A-GAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTTCTCA
131 GAAC-CGTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCA
* * *
258190 AATCCATCACTTGATGGATCAGCTTTTCCA-G-A
195 AATCCATCACTTGATGGATCAACATTGCCAGGTA
* *
258222 GAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTG
1 -AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTG
* * * * * * * *
258287 TTCAGCCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGA
65 TTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTGCCAGGTAAAGGTCATAATGAGA
* * *
258352 AGAACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACCTTTTGTTT
130 AGAAC-CGTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTC
* * *
258417 AAATTCATCATTTGATGGATTAACATTGCCAGGT-
194 AAATCCATCACTTGATGGATCAACATTGCCAGGTA
* ** *
258451 AGAGTTCATAATGAGAAGAACTCATCAT-CTGAA-GAAGAAGAAATTCATAATGAGAAGAATTTG
1 AAAGTTCATAATGAGAAGAACTCATC-TGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTG
*
258514 TTCAACCTTTTGCTCAAATCCATCACTCGATGGATCAACATTGCCAGGTATAAGGTCATAATGAG
65 TTCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTGCCAGGTA-AAGGTCATAATGAG
*
258579 AAGAA-C-TCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGCT
129 AAGAACCGTCATCTGAAG-AGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCT
*
258642 CAAATCCATCACTCGATGGATCAACATTGCCAGGTA
193 CAAATCCATCACTTGATGGATCAACATTGCCAGGTA
*
258678 AAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAATTCATAATGAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGT
258742 TCAACCTTTTGCTTC-AATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATGAG
66 TCAACCTTTTGC-TCAAATTCATCACTCGATGGATCAACATTGCCAGGTA-AAGGTCATAATGAG
*
258806 AAGAA-C-TCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
129 AAGAACCGTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGC
258867 ATGACTCTAT
Statistics
Matches: 589, Mismatches: 43, Indels: 23
0.90 0.07 0.04
Matches are distributed among these distances:
225 153 0.26
226 120 0.20
227 204 0.35
228 110 0.19
229 2 0.00
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (228 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAATTCATAATAAGAAGAATTTGT
TCAACCTTTTGCTCAAATTCATCACTCGATGGATCAACATTGCCAGGTAAAGGTCATAATGAGAA
GAACCGTCATCTGAAGAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
ATCCATCACTTGATGGATCAACATTGCCAGGTA
Found at i:258802 original size:340 final size:337
Alignment explanation
Indices: 257998--258866 Score: 1346
Period size: 340 Copynumber: 2.6 Consensus size: 337
257988 TTTTCCAGAG
257998 AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
1 AAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
*
258063 TCAGCCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAA
65 TCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAA
* * *
258128 GAACTCGTCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAATCTTTTTCTCAAAT
130 GAACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAAT
* * * * *
258193 CCATCACTTGATGGATCAGCTTTTCCAGAGAAAGTTCATAATAAGAAGAACTCATCTGAAGAAGG
195 CCATCACTCGATGGATCAACATTGCCAGAGAAAGGTCATAATAAGAAGAACTCATCTGAAGAAGG
* * * * * * * *
258258 AAGAAGAAGTTCATAATAAGAAGAATTTGTTCAGCCTTTTGTTTAAATTCATCATTTGATGGATT
260 AAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTCGATGGATC
258323 AACATTGCCAGGT
325 AACATTGCCAGGT
*
258336 AGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTT
1 AAAGTTCATAATGAGAAGAA--C-TCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTT
258401 GTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAG
63 GTTCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAG
258466 AAGAACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
128 AAGAACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAA
*
258531 ATCCATCACTCGATGGATCAACATTGCCAG-GTATAAGGTCATAATGAGAAGAACTCATCTGAAG
193 ATCCATCACTCGATGGATCAACATTGCCAGAG-A-AAGGTCATAATAAGAAGAACTCATCTGAAG
*
258595 AAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTCGATG
256 AAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTCGATG
258660 GATCAACATTGCCAGGT
321 GATCAACATTGCCAGGT
* *
258677 AAAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATTCATAATGAGAAGAATTTGT
1 -AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGT
* * * * * *
258742 TCAACCTTTTGCTTCAATTCATCACTCGATGGATCAACATTGCCAGGTAGAAGGTCATAATGAGA
65 TCAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAG-AGTTCATAATGAGA
** * * *
258807 AGAACTCATC-TGAAGAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGC
129 AGAACTCATCAT-CTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGC
258867 ATGACTCTAT
Statistics
Matches: 489, Mismatches: 34, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
338 19 0.04
339 88 0.18
340 252 0.52
341 111 0.23
342 19 0.04
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (337 bp):
AAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAGTTCATAATAAGAAGAATTTGTT
CAACCTTTTGTTTAAATTCATCATTTGATGGATTAACATTGCCAGGTAGAGTTCATAATGAGAAG
AACTCATCATCTGAAGAAGAAGAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCAAATC
CATCACTCGATGGATCAACATTGCCAGAGAAAGGTCATAATAAGAAGAACTCATCTGAAGAAGGA
AGAAGAAGTTCATAATAAGAAGAATTTGTTCAACATTTTGCTCAAATCCATCACTCGATGGATCA
ACATTGCCAGGT
Found at i:262644 original size:56 final size:56
Alignment explanation
Indices: 262560--262677 Score: 227
Period size: 56 Copynumber: 2.1 Consensus size: 56
262550 ATAGTATCCG
262560 ATCGAGACCCAAGGTTTACCTCAAGGTTCTGGAAGTCTTTACATGAGTCATTGGGT
1 ATCGAGACCCAAGGTTTACCTCAAGGTTCTGGAAGTCTTTACATGAGTCATTGGGT
262616 ATCGAGACCCAAGGTTTACCTCAAGGTTCTGGAAGTCTTTACATGAGTCATTGGGT
1 ATCGAGACCCAAGGTTTACCTCAAGGTTCTGGAAGTCTTTACATGAGTCATTGGGT
262672 ACTCGA
1 A-TCGA
262678 TTGAACTTCA
Statistics
Matches: 61, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
56 57 0.93
57 4 0.07
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (56 bp):
ATCGAGACCCAAGGTTTACCTCAAGGTTCTGGAAGTCTTTACATGAGTCATTGGGT
Found at i:264359 original size:20 final size:19
Alignment explanation
Indices: 264316--264367 Score: 68
Period size: 19 Copynumber: 2.7 Consensus size: 19
264306 TGATTCAATC
* * *
264316 AGTATCGATACCGAGGGGG
1 AGTATCGATACCAAAGGGA
264335 AGTATCGATACCAAAGGGA
1 AGTATCGATACCAAAGGGA
264354 AGGTATCGATACCA
1 A-GTATCGATACCA
264368 TTCAAAACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.35, C:0.17, G:0.31, T:0.17
Consensus pattern (19 bp):
AGTATCGATACCAAAGGGA
Found at i:264852 original size:56 final size:56
Alignment explanation
Indices: 264779--265143 Score: 517
Period size: 56 Copynumber: 6.6 Consensus size: 56
264769 TAAGTATGCA
* * *
264779 AAAAATTAAGAAATTCATACTAAGTGGATGAATTTCAGTATGCGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * *
264835 AGAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGTCACTATATGTTT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
264891 AAAACTTAAGAAATTCATAC---GTGGATTAATTTCCATATGGGCACTATATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* *
264944 ACAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
*
265000 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
265056 -AAATTTAAGAAA-TCATACTAAGTGGATGAATTTCTGTATGAGCACTATATGTGC
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
* * * *
265110 AAAAC-TAGGAAATTTATACTAAGTGTATAAATTT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTT
265144 TTGTATTGGT
Statistics
Matches: 276, Mismatches: 28, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
53 48 0.17
54 44 0.16
55 32 0.12
56 152 0.55
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (56 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGT
Found at i:264978 original size:109 final size:108
Alignment explanation
Indices: 264762--265128 Score: 483
Period size: 109 Copynumber: 3.3 Consensus size: 108
264752 TGATTACCAA
* * *
264762 ATGGCACTA-AGTATGCAAAAAATTAAGAAATTCATACTAAGTGGATGAATTT-CAGTATGCGCA
1 ATGGCACTATA-TGTGC-AAAACTTAAGAAATTCATAC--AGTGGATGAATTTCCA-TATGGGCA
264825 CTATATGTGTAGAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
61 CTATATGTGTA-AACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
** *
264874 ATGGTCACTATATGTTTAAAACTTAAGAAATTCATAC-GTGGATTAATTTCCATATGGGCACTAT
1 ATGG-CACTATATGTGCAAAACTTAAGAAATTCATACAGTGGATGAATTTCCATATGGGCACTAT
264938 ATGTGTACAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
65 ATGTGTA-AACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
*
264983 ATGGGCACTATATGTGCAAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACT
1 AT-GGCACTATATGTGCAAAACTTAAGAAATTCATAC--AGTGGATGAATTTCCATATGGGCACT
* * *
265048 TTATGTGTAAATTTAAGAAA-TCATACTAAGTGGATGAATTTCTGT
63 ATATGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
* *
265093 ATGAGCACTATATGTGCAAAAC-TAGGAAATTTATAC
1 ATG-GCACTATATGTGCAAAACTTAAGAAATTCATAC
265129 TAAGTGTATA
Statistics
Matches: 231, Mismatches: 16, Indels: 19
0.87 0.06 0.07
Matches are distributed among these distances:
109 111 0.48
110 48 0.21
111 10 0.04
112 54 0.23
113 7 0.03
114 1 0.00
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (108 bp):
ATGGCACTATATGTGCAAAACTTAAGAAATTCATACAGTGGATGAATTTCCATATGGGCACTATA
TGTGTAAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGT
Found at i:265131 original size:165 final size:165
Alignment explanation
Indices: 264779--265143 Score: 511
Period size: 165 Copynumber: 2.2 Consensus size: 165
264769 TAAGTATGCA
* * *
264779 AAAAATTAAGAAATTCATACTAAGTGGATGAATTTCAGTATGCGCACTATATGTGTAGAACTTAA
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCAGTATGCGCACTATATGTGCAAAACTTAA
* *
264844 GAAATTCATACTAAGTGGATGAATTTCCGTATGGTCACTATATGTTTAAAACTTAAGAAATTCAT
66 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAACTTAAGAAATTCAT
* * *
264909 ACGTGGATTAATTTCCATATGGGCACTATATGTGT
131 ACGTGGATGAATTTCCATATGAGCACTATATGTGC
* * *
264944 ACAACTTAAGAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGCAAAACTTAA
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCAGTATGCGCACTATATGTGCAAAACTTAA
* *
265009 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTTTATGTGT-AAATTTAAGAAA-TCAT
66 GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAACTTAAGAAATTCAT
**
265072 ACTAAGTGGATGAATTTCTGTATGAGCACTATATGTGC
131 AC---GTGGATGAATTTCCATATGAGCACTATATGTGC
* * * *
265110 AAAAC-TAGGAAATTTATACTAAGTGTATAAATTT
1 AAAACTTAAGAAATTCATACTAAGTGGATGAATTT
265144 TTGTATTGGT
Statistics
Matches: 177, Mismatches: 20, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
163 6 0.03
164 11 0.06
165 128 0.72
166 32 0.18
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (165 bp):
AAAACTTAAGAAATTCATACTAAGTGGATGAATTTCAGTATGCGCACTATATGTGCAAAACTTAA
GAAATTCATACTAAGTGGATGAATTTCCGTATGGGCACTATATGTGTAAAACTTAAGAAATTCAT
ACGTGGATGAATTTCCATATGAGCACTATATGTGC
Done.