Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007004.1 Hibiscus syriacus cultivar Beakdansim tig00018081_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: 155045
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.33
Found at i:1126 original size:124 final size:121
Alignment explanation
Indices: 808--1109 Score: 403
Period size: 120 Copynumber: 2.5 Consensus size: 121
798 TTCAAGTTGT
* * * *
808 GATATGTTGGGGCGCGACTGAACCCACATCATGTTGAGAAGACAAGATTCAGACCAAGGAGGTAT
1 GATATGTTGGGGCGAGACTGAA-CCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGTAT
* ** *
873 TAAGAATGAGCCTTACAATTTGAGGTGTTGGGGCATTTTGATGCCCGTCCAGTATAA
65 TAAGAATGAGCCTCACAATTTGAGGTAATGGGGCATTTTGAGGCCCGTCCAGTATAA
*
930 GATATGTTGGGGC-ATGACTGAACC-CGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGCAT
1 GATATGTTGGGGCGA-GACTGAACCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGTAT
* * *
993 AAAGAATGAGCCTCA-AATTTGAGGTAATGGGGCATTTTGAAGGCCCTTACCAGTGTAA
65 TAAGAATGAGCCTCACAATTTGAGGTAATGGGGCATTTTG-AGGCCCGT-CCAGTATAA
**
1051 GATAATGTTGGGGCGAGACCAAACCTACGTCATGTTGAGATGAAAAGATTCAGACCAAG
1 GAT-ATGTTGGGGCGAGACTGAACC-ACGTCATGTTGAGATGAAAAGATTCAGACCAAG
1110 AAATTATTGA
Statistics
Matches: 159, Mismatches: 14, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
119 22 0.14
120 54 0.34
121 13 0.08
122 37 0.23
123 1 0.01
124 32 0.20
ACGTcount: A:0.32, C:0.17, G:0.28, T:0.24
Consensus pattern (121 bp):
GATATGTTGGGGCGAGACTGAACCACGTCATGTTGAGATGAAAAGATTCAGACCAAGGAGGTATT
AAGAATGAGCCTCACAATTTGAGGTAATGGGGCATTTTGAGGCCCGTCCAGTATAA
Found at i:1881 original size:36 final size:36
Alignment explanation
Indices: 1834--2020 Score: 218
Period size: 36 Copynumber: 5.2 Consensus size: 36
1824 AGTCAATCCT
*
1834 AAGCCTTCACCGGAGAATAGTGAAGCAAACCATCTG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* * *
1870 AAGCCTTCACCGGAGAATAGTGAAGCAATCAATCTG
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
*
1906 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATAT-
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* * * *
1941 AAGTCTTCACCAGAGAGTAGTGAAGCAAAGCATCTT
1 AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
* * * *
1977 AAGTCTTCACCA-A-AAGTAGTGAAGCAGATCCATTTT
1 AAGCCTTCACCAGAGAA-TAGTGAAGCA-AACCATCTG
2013 AAGCCTTC
1 AAGCCTTC
2021 TCAGAAGAGT
Statistics
Matches: 133, Mismatches: 15, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
34 1 0.01
35 42 0.32
36 90 0.68
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.21
Consensus pattern (36 bp):
AAGCCTTCACCAGAGAATAGTGAAGCAAACCATCTG
Found at i:2530 original size:55 final size:54
Alignment explanation
Indices: 2400--2974 Score: 453
Period size: 55 Copynumber: 10.5 Consensus size: 54
2390 TGAAGATATA
* * * * *
2400 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCC-GTTT-GAAGAATATT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAGATTGTT
*
2452 CGAGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAGATTGTT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTT-AGAAGATTGTT
* * * * *** *
2507 CGAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGA-TCTT
1 CGAGTTCTATACTCCCTGAAGAAAGAG-GGAGCGAACCCAT-TTTAGAAGATTGTT
* * **
2562 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCAGAAGATCATT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTT-AGAAGATTGTT
* * * * *
2617 CGAGTTCTATACTCCCT-AGAGAAAAAGGGAGAGAACTC-GTTT-GAAGAATATGTC
1 CGAGTTCTATACTCCCTGA-AGAAAGAGGGAGCGAACCCATTTTAGAAG-AT-TGTT
** * *
2671 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTT-TAGAAGATTGTT
2726 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATT-GAAGATTGTT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC-ATT-TTAGAAGATTGTT
* * * * * * *
2781 TGAG-TCTCATACTCTCTGCAGAAATAGGGGGC-AGACACGA-TTGATGAAGATTGTT
1 CGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-AC-CCATTTTA-GAAGATTGTT
* * * *
2836 CGAG-TCTTATACTCTCTGAAGGAATG-GGGAGC-AGACACGATTGTT-GAAGATTATT
1 CGAGTTC-TATACTCCCTGAA-GAAAGAGGGAGCGA-AC-CCATT-TTAGAAGATTGTT
*
2891 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGGACCCGATTATT-GAAGATTGTT
1 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC-ATT-TTAGAAGATTGTT
* * * *
2946 TGAG-TCTTATACTCTCTGCAGAAATAGGG
1 CGAGTTC-TATACTCCCTGAAGAAAGAGGG
2975 GCAGACACGA
Statistics
Matches: 425, Mismatches: 68, Indels: 57
0.77 0.12 0.10
Matches are distributed among these distances:
52 39 0.09
53 6 0.01
54 66 0.16
55 279 0.66
56 29 0.07
57 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.25
Consensus pattern (54 bp):
CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAGATTGTT
Found at i:2718 original size:109 final size:107
Alignment explanation
Indices: 2391--2929 Score: 511
Period size: 110 Copynumber: 4.9 Consensus size: 107
2381 TGAAGCAAAT
* *
2391 GAAGA-TATACGAGTTCTATACTCCCTAAAGAAAGAA-GGAGCGAACCCGTTTGAAGAATATTCG
1 GAAGATTATTCGAGTTCTATACTCCCTAGAGAAA-AAGGGAGCGAACCCGTTTGAAGAATATTCG
* *
2454 AGTTCCATACTCCCTGAAGAAAGAGGGAGCGAACCCATTTTCA
65 AGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
* * * * * ** *
2497 GAAGATTGTTCGAGTTCTATACTTCCTGGAGAAAGAGCGAAGCGAACCCGTAAGAAGAAGATCTT
1 GAAGATTATTCGAGTTCTATACTCCCTAGAGAAAAAG-GGAGCGAACCCGTTTGAAG-A-ATATT
*
2562 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCGTTTTCA
63 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
* * *
2607 GAAGATCATTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGAGAACTCGTTTGAAGAATATGTCC
1 GAAGATTATTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGAATAT-T-C
* *
2672 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGCA
64 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
* * *
2716 GAAGATTATTCGAGTTCTATACTCCCT-GAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTGT
1 GAAGATTATTCGAGTTCTATACTCCCTAG-AGAAAAAGGGAGCGAACCCG--T-TTGAAGAATAT
* * * * * * * *
2780 TTGAG-TCTCATACTCTCTGCAGAAATAGGGGGC-AGACACG-ATTGA
62 TCGAGTTCT-ATACTCCCTGAAGAAAGAGGGAGCGA-ACCCGTTTTCA
* * * ** * *
2825 TGAAGATTGTTCGAG-TCTTATACTCTCT-GAAGGAATGGGGAGC-AGACACGATTGTTGAAGAT
1 -GAAGATTATTCGAGTTC-TATACTCCCTAG-AGAAAAAGGGAGCGA-ACCCG--T-TTGAAGAA
*
2887 TATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGGACCCG
59 TATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCG
2930 ATTATTGAAG
Statistics
Matches: 357, Mismatches: 58, Indels: 32
0.80 0.13 0.07
Matches are distributed among these distances:
106 6 0.02
107 26 0.07
108 19 0.05
109 109 0.31
110 183 0.51
111 5 0.01
112 9 0.03
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (107 bp):
GAAGATTATTCGAGTTCTATACTCCCTAGAGAAAAAGGGAGCGAACCCGTTTGAAGAATATTCGA
GTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGTTTTCA
Found at i:2840 original size:274 final size:270
Alignment explanation
Indices: 2400--2921 Score: 636
Period size: 274 Copynumber: 1.9 Consensus size: 270
2390 TGAAGATATA
2400 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAATATTCGAGTTCCATACT
1 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAATATTCGAGTTCCATACT
*
2465 CCCTGAAGAAAGAGGGAGCGAACCCATTTTCAGAAGATTGTTCGAGTTCTATACTTCCTGGAGAA
66 CCCTGAAGAAAGAGGGAGCGAACCCATTTT-AGAAGATTGTTCGAGTTCTATACTTCCTGCAGAA
*
2530 AGAGCGAAGCGAACCCGTAAGAAGAAGATCTTCGAGT-TCTATACTCCCTGAA-GAAAGAGGGAG
130 AGAGCGAAGCGAACACGTAAGAAGAAGATCTTCGAGTCT-TATACTCCCTGAAGGAAAG-GGGAG
*
2593 C-GAGCCCG-TT-TTCAGAAGATCATTCGAGTTCTATACTCCCT-AGAGAAAAAGGGAGAGAACT
193 CAGA-CACGATTGTT--GAAGATCATTCGAGTTCTATACTCCCTGA-AGAAAAAGGGAGAGAACT
2654 CGTTTGAAGAATATGTC
254 CGTTTGAAGAATATGTC
* * * * *
2671 CGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCTGTTTGCAGAAGATTATTCGAGTTCTAT
1 CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTT---GAAGAATATTCGAGTTCCAT
*
2736 ACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATT-GAAGATTGTTTGAG-TCTCATAC-TCTCT
63 ACTCCCTGAAGAAAGAGGGAGCGAACCC-ATT-TTAGAAGATTGTTCGAGTTCT-ATACTTC-CT
* ** * * * *
2798 GCAGAAATAG-GGGGC-AGACACG-ATTGATGAAGATTGTTCGAGTCTTATACTCTCTGAAGGAA
124 GCAGAAAGAGCGAAGCGA-ACACGTA-AGAAGAAGA-TCTTCGAGTCTTATACTCCCTGAAGGAA
* * *
2860 TGGGGAGCAGACACGATTGTTGAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAG
186 AGGGGAGCAGACACGATTGTTGAAGATCATTCGAGTTCTATACTCCCTGAAGAAAAAGGGAG
2922 CGGACCCGAT
Statistics
Matches: 216, Mismatches: 19, Indels: 29
0.82 0.07 0.11
Matches are distributed among these distances:
271 39 0.18
272 2 0.01
273 19 0.09
274 139 0.64
275 13 0.06
276 4 0.02
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.24
Consensus pattern (270 bp):
CGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAATATTCGAGTTCCATACT
CCCTGAAGAAAGAGGGAGCGAACCCATTTTAGAAGATTGTTCGAGTTCTATACTTCCTGCAGAAA
GAGCGAAGCGAACACGTAAGAAGAAGATCTTCGAGTCTTATACTCCCTGAAGGAAAGGGGAGCAG
ACACGATTGTTGAAGATCATTCGAGTTCTATACTCCCTGAAGAAAAAGGGAGAGAACTCGTTTGA
AGAATATGTC
Found at i:2909 original size:165 final size:163
Alignment explanation
Indices: 2391--3034 Score: 547
Period size: 165 Copynumber: 3.9 Consensus size: 163
2381 TGAAGCAAAT
* * * * *
2391 GAAGA-TATACGAGTTCTATACTCCCTAAAGAAAGAAGGAGCGAACCCG--T-TTGAAGAATATT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTGTT
* * * * * * * *
2452 CGAGT-TCCATACTCCCTGAAGAAAGAGGGAGC-GA-ACCCATT-TTCAGAAGATTGTTCGAGTT
66 TGAGTCT-CATACTCTCTGCAGAAATAGGGGGCAGACA-CGATTGAT--GAAGATTGTACGAGTT
* * * * * *
2513 CTATACTTCCTGGA-GAAAGAGCGAAGCGAACCCG-TAAGAA
127 -TATAC-TCCTGAAGGAATG-G-GGAGCGAACCTGAT-TGCA
* * **
2553 GAAGA-TCTTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAGCCCG-TT-TTCAGAAGATCA
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATT--GAAGATTG
* * * * * * * * *
2615 TTCGAGT-TCTATACTCCCTAG-AGAAAAAGGGAG-AGAACTCGTTTGAAGAATA-TGTCCGAGT
64 TTTGAGTCTC-ATACTCTCT-GCAGAAATAGGGGGCAG-ACACGATTGATGAAGATTGTACGAGT
* *
2676 TCTATACTCCCTGAA-GAAAGAGGGAGCGAACCTGTTTGCA
126 T-TATACT-CCTGAAGGAATG-GGGAGCGAACCTGATTGCA
2716 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTGTT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTGTT
*
2781 TGAGTCTCATACTCTCTGCAGAAATAGGGGGCAGACACGATTGATGAAGATTGTTCGAGTCTTAT
66 TGAGTCTCATACTCTCTGCAGAAATAGGGGGCAGACACGATTGATGAAGATTGTACGAGT-TTAT
**
2846 ACTCTCTGAAGGAATGGGGAGC-AGACAC-GATTGTT
130 ACTC-CTGAAGGAATGGGGAGCGA-AC-CTGATTGCA
*
2881 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGGACCCGATTATTGAAGATTGTT
1 GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTGTT
* * **
2946 TGAGTCTTATACTCTCTGCAGAAATA-GGGGCAGACACGATTGTTGAAGATTGTACGAGTTTCCA
66 TGAGTCTCATACTCTCTGCAGAAATAGGGGGCAGACACGATTGATGAAGATTGTACGAGTTTATA
* *
3010 CTCCATGAAGGAATAGGGAGTGAAC
131 CTCC-TGAAGGAATGGGGAGCGAAC
3035 GTGTTTTCCA
Statistics
Matches: 412, Mismatches: 45, Indels: 49
0.81 0.09 0.10
Matches are distributed among these distances:
162 44 0.11
163 44 0.11
164 146 0.35
165 165 0.40
166 13 0.03
ACGTcount: A:0.32, C:0.18, G:0.25, T:0.25
Consensus pattern (163 bp):
GAAGATTATTCGAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCCGATTATTGAAGATTGTT
TGAGTCTCATACTCTCTGCAGAAATAGGGGGCAGACACGATTGATGAAGATTGTACGAGTTTATA
CTCCTGAAGGAATGGGGAGCGAACCTGATTGCA
Found at i:11684 original size:24 final size:22
Alignment explanation
Indices: 11656--11720 Score: 64
Period size: 24 Copynumber: 3.0 Consensus size: 22
11646 CATCAATGCA
11656 TAAGGAGTGCATCGATGCACATG
1 TAAGGAGTGCATCGATGCAC-TG
*
11679 TTAAGG-GATGCATCGATACACTG
1 -TAAGGAG-TGCATCGATGCACTG
*
11702 T-A-GAATGCATCGATGCACT
1 TAAGGAGTGCATCGATGCACT
11721 TCAAGGGAAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
20 14 0.39
21 1 0.03
22 1 0.03
23 3 0.08
24 17 0.47
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.25
Consensus pattern (22 bp):
TAAGGAGTGCATCGATGCACTG
Found at i:13316 original size:23 final size:23
Alignment explanation
Indices: 13284--13373 Score: 135
Period size: 23 Copynumber: 3.9 Consensus size: 23
13274 ATCTTATATA
*
13284 GCACTTCGGTGCATTTCTACGCG
1 GCACTACGGTGCATTTCTACGCG
13307 GCACTACGGTGCATTTCTACGCG
1 GCACTACGGTGCATTTCTACGCG
* *
13330 GCACTACGGTGCAATTCTACGTG
1 GCACTACGGTGCATTTCTACGCG
* *
13353 GCACTTCGGTGCATTTATACG
1 GCACTACGGTGCATTTCTACG
13374 AGCTGTGGTG
Statistics
Matches: 61, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 61 1.00
ACGTcount: A:0.18, C:0.28, G:0.26, T:0.29
Consensus pattern (23 bp):
GCACTACGGTGCATTTCTACGCG
Found at i:15555 original size:20 final size:20
Alignment explanation
Indices: 15530--15567 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
15520 TTTGGTTCAC
15530 GGAATGTAAGATTACCAGTG
1 GGAATGTAAGATTACCAGTG
15550 GGAATGTAAGATTACCAG
1 GGAATGTAAGATTACCAG
15568 GGAATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.11, G:0.29, T:0.24
Consensus pattern (20 bp):
GGAATGTAAGATTACCAGTG
Found at i:15782 original size:22 final size:22
Alignment explanation
Indices: 15756--15805 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
15746 TTAAATTCAT
15756 AAAATTTATATAATTTTTTTAC
1 AAAATTTATATAATTTTTTTAC
*
15778 AAAATTTATATATTTTTTTTAC
1 AAAATTTATATAATTTTTTTAC
15800 AAAATT
1 AAAATT
15806 GAAAATATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.42, C:0.04, G:0.00, T:0.54
Consensus pattern (22 bp):
AAAATTTATATAATTTTTTTAC
Found at i:27080 original size:36 final size:36
Alignment explanation
Indices: 26993--27222 Score: 182
Period size: 36 Copynumber: 6.3 Consensus size: 36
26983 AAAACGGTTT
* * * *
26993 TTTTGAAATA-TATATAGTATATAATTTTTTAAAAAATA
1 TTTTGAAAAATTATATAATATAT-AGTTTTT--AAAACA
*
27031 TTTTG-AAAA-TATATAATATATGGTTTTTAAAACA
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACA
* * *
27065 TTTTGAAAACTTATATAATATATAGTTTTGAAATCA
1 TTTTGAAAAATTATATAATATATAGTTTTTAAAACA
* *
27101 TTTTGAAAAAATATATAATATATAGTTTCTTTAAAACC
1 TTTTGAAAAATTATATAATATATAG-TT-TTTAAAACA
* * * **
27139 TTTTGAGAAACTTGTATAAAATATAGTTTAAAAAAACA
1 TTTTGA-AAAATTATATAATATATAGTTT-TTAAAACA
* *
27177 TTTTTAAAAAATTATATAATATATA--ATTTAAAATCA
1 -TTTTGAAAAATTATATAATATATAGTTTTTAAAA-CA
*
27213 TTTTAAAAAA
1 TTTTGAAAAA
27223 ACCGATATAA
Statistics
Matches: 156, Mismatches: 28, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
34 10 0.06
35 17 0.11
36 53 0.34
37 17 0.11
38 39 0.25
39 20 0.13
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (36 bp):
TTTTGAAAAATTATATAATATATAGTTTTTAAAACA
Found at i:27207 original size:38 final size:38
Alignment explanation
Indices: 27023--27209 Score: 154
Period size: 38 Copynumber: 5.1 Consensus size: 38
27013 ATAATTTTTT
* *
27023 AAAAAATATTTTG--AAAA-TATATAATATATGGTTT-
1 AAAAAACATTTTGAAAAAATTATATAATATATAGTTTA
** *
27057 TTAAAACATTTTG-AAAACTTATATAATATATAGTTT-
1 AAAAAACATTTTGAAAAAATTATATAATATATAGTTTA
** * *
27093 TGAAATCATTTTGAAAAAA-TATATAATATATAGTTTCT
1 AAAAAACATTTTGAAAAAATTATATAATATATAGTTT-A
** * * * * *
27131 TTAAAACCTTTTGAGAAACTTGTATAAAATATAGTTTA
1 AAAAAACATTTTGAAAAAATTATATAATATATAGTTTA
* *
27169 AAAAAACATTTTTAAAAAATTATATAATATATAATTTA
1 AAAAAACATTTTGAAAAAATTATATAATATATAGTTTA
27207 AAA
1 AAA
27210 TCATTTTAAA
Statistics
Matches: 122, Mismatches: 25, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
34 10 0.08
35 3 0.02
36 44 0.36
37 4 0.03
38 46 0.38
39 15 0.12
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (38 bp):
AAAAAACATTTTGAAAAAATTATATAATATATAGTTTA
Found at i:28453 original size:2 final size:2
Alignment explanation
Indices: 28446--28577 Score: 140
Period size: 2 Copynumber: 70.5 Consensus size: 2
28436 GTCACTAGTT
28446 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
* * * *
28488 TA TA TA TA TA TA T- TA TA T- TA T- TT TA TT TT TC T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
28525 T- TA T- TA T- TA TCA T- TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
28564 TA TA TT TA T- TA TA T
1 TA TA TA TA TA TA TA T
28578 TTTATTGTTT
Statistics
Matches: 114, Mismatches: 5, Indels: 22
0.81 0.04 0.16
Matches are distributed among these distances:
1 10 0.09
2 102 0.89
3 2 0.02
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (2 bp):
TA
Found at i:28610 original size:15 final size:15
Alignment explanation
Indices: 28578--28638 Score: 63
Period size: 16 Copynumber: 4.0 Consensus size: 15
28568 TTTATTATAT
28578 TTTATTGTTTTTTATC
1 TTTATTGTTTTTT-TC
28594 TTTATTGTTTTTTTC
1 TTTATTGTTTTTTTC
*
28609 TTCTA--GTTTTTTTA
1 TT-TATTGTTTTTTTC
*
28623 TTTATTATATTTTTTC
1 TTTATTGT-TTTTTTC
28639 CTCCTTGCTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
13 2 0.05
14 10 0.26
15 5 0.13
16 21 0.55
ACGTcount: A:0.13, C:0.07, G:0.05, T:0.75
Consensus pattern (15 bp):
TTTATTGTTTTTTTC
Found at i:28735 original size:36 final size:39
Alignment explanation
Indices: 28685--28779 Score: 108
Period size: 41 Copynumber: 2.5 Consensus size: 39
28675 CTTTATCAAA
*
28685 TTTATCCTATTTATTTTCAT-TTTA-TTTTT-ATT-TTC
1 TTTATCTTATTTATTTTCATATTTATTTTTTAATTGTTC
* * *
28720 TTTATTTTATCTTATTTATCTTATTTATTTTTTAATTGTTT
1 TTTATCTTAT-TTATTT-TCATATTTATTTTTTAATTGTTC
28761 TTTATCTTATTTATTTTCA
1 TTTATCTTATTTATTTTCA
28780 CTGTTTTTTC
Statistics
Matches: 48, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
35 8 0.17
36 6 0.12
37 3 0.06
38 4 0.08
39 7 0.15
40 9 0.19
41 11 0.23
ACGTcount: A:0.19, C:0.08, G:0.01, T:0.72
Consensus pattern (39 bp):
TTTATCTTATTTATTTTCATATTTATTTTTTAATTGTTC
Found at i:28746 original size:9 final size:9
Alignment explanation
Indices: 28684--28774 Score: 53
Period size: 9 Copynumber: 9.7 Consensus size: 9
28674 TCTTTATCAA
*
28684 ATTTATCCT
1 ATTTATCTT
*
28693 ATTTATTTT
1 ATTTATCTT
*
28702 CATTTTATTTTT
1 -A-TTTA-TCTT
28714 ATTT-TCTTT
1 ATTTATC-TT
28723 ATTTTATCTT
1 A-TTTATCTT
28733 ATTTATCTT
1 ATTTATCTT
28742 ATTTAT-TT
1 ATTTATCTT
*
28750 -TTTAATTGTT
1 ATTT-A-TCTT
*
28760 TTTTATCTT
1 ATTTATCTT
28769 ATTTAT
1 ATTTAT
28775 TTTCACTGTT
Statistics
Matches: 67, Mismatches: 5, Indels: 20
0.73 0.05 0.22
Matches are distributed among these distances:
7 3 0.04
8 4 0.06
9 33 0.49
10 13 0.19
11 10 0.15
12 4 0.06
ACGTcount: A:0.20, C:0.08, G:0.01, T:0.71
Consensus pattern (9 bp):
ATTTATCTT
Found at i:28762 original size:49 final size:47
Alignment explanation
Indices: 28647--28777 Score: 115
Period size: 49 Copynumber: 2.7 Consensus size: 47
28637 TCCTCCTTGC
*
28647 TTATTTTTTATATTTTTATTATTTTTTT-CTTTATCAAATTTATCCTAT
1 TTATTTTTTA-ATTTTT-TTATTTTTTTATTTTATCAAATTTATCCTAT
** *
28695 TTATTTTCATT--TTATTTTTATTTTCTTTATTTTATCTTATTTATCTTAT
1 TTATTTT--TTAATT-TTTTTATTTT-TTTATTTTATCAAATTTATCCTAT
*
28744 TTATTTTTTAATTGTTTTTTATCTTATTTATTTT
1 TTATTTTTTAA-T-TTTTTTAT-TTTTTTATTTT
28778 CACTGTTTTT
Statistics
Matches: 68, Mismatches: 5, Indels: 18
0.75 0.05 0.20
Matches are distributed among these distances:
47 11 0.16
48 13 0.19
49 23 0.34
50 18 0.26
51 3 0.04
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.73
Consensus pattern (47 bp):
TTATTTTTTAATTTTTTTATTTTTTTATTTTATCAAATTTATCCTAT
Found at i:28763 original size:50 final size:48
Alignment explanation
Indices: 28647--28777 Score: 131
Period size: 50 Copynumber: 2.7 Consensus size: 48
28637 TCCTCCTTGC
* *
28647 TTATTTTTTATATTTTTATTATTTTTTT-CTTTATCAAATTTATCCTAT
1 TTATTTTTTA-ATTTTTTTTATTTTTTTATTTTATCAAATTTATCCTAT
* * ** *
28695 TTA-TTTTCATTTTATTTTTATTTTCTTTATTTTATCTTATTTATCTTAT
1 TTATTTTTTAATTT-TTTTTATTTT-TTTATTTTATCAAATTTATCCTAT
*
28744 TTATTTTTTAATTGTTTTTTATCTTATTTATTTT
1 TTATTTTTTAATT-TTTTTTAT-TTTTTTATTTT
28778 CACTGTTTTT
Statistics
Matches: 67, Mismatches: 10, Indels: 10
0.77 0.11 0.11
Matches are distributed among these distances:
46 3 0.04
47 14 0.21
48 6 0.09
49 19 0.28
50 22 0.33
51 3 0.04
ACGTcount: A:0.20, C:0.07, G:0.01, T:0.73
Consensus pattern (48 bp):
TTATTTTTTAATTTTTTTTATTTTTTTATTTTATCAAATTTATCCTAT
Found at i:35010 original size:21 final size:20
Alignment explanation
Indices: 34986--35027 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
34976 GTCATACAAC
*
34986 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
35007 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
35027 T
1 T
35028 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:36549 original size:21 final size:20
Alignment explanation
Indices: 36525--36566 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
36515 GTCATACAAC
*
36525 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
36546 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
36566 T
1 T
36567 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:38088 original size:21 final size:20
Alignment explanation
Indices: 38064--38105 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
38054 GTCATACAAC
*
38064 TAATAATAGTTGTATAATGCA
1 TAATAATAGTT-CATAATGCA
*
38085 TAATAATGGTTCATAATGCA
1 TAATAATAGTTCATAATGCA
38105 T
1 T
38106 TGTAAGTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (20 bp):
TAATAATAGTTCATAATGCA
Found at i:40502 original size:4 final size:4
Alignment explanation
Indices: 40493--40524 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
40483 CACACTTCTC
40493 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
40525 CTTGCTTGGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.25, C:0.00, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:52838 original size:13 final size:13
Alignment explanation
Indices: 52822--52855 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
52812 GGTCGAATCG
*
52822 ACCGGTCGGAAGA
1 ACCGGACGGAAGA
52835 ACCGGACGGAAGA
1 ACCGGACGGAAGA
52848 ACCGGACG
1 ACCGGACG
52856 ACGTCATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.32, C:0.26, G:0.38, T:0.03
Consensus pattern (13 bp):
ACCGGACGGAAGA
Found at i:53605 original size:10 final size:10
Alignment explanation
Indices: 53582--53615 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
53572 ATTGGCGGTT
*
53582 TTTTTTTCGA
1 TTTTTTTCGG
*
53592 TTTTTCTCGG
1 TTTTTTTCGG
53602 TTTTTTTCGG
1 TTTTTTTCGG
53612 TTTT
1 TTTT
53616 CAATCGGTCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.03, C:0.12, G:0.15, T:0.71
Consensus pattern (10 bp):
TTTTTTTCGG
Found at i:55803 original size:26 final size:26
Alignment explanation
Indices: 55767--55818 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
55757 TCTAAAATGA
55767 GCTTTGAATTTTAAGAAATAAGATAT
1 GCTTTGAATTTTAAGAAATAAGATAT
*
55793 GCTTTGGATTTTAAGAAATAAGATAT
1 GCTTTGAATTTTAAGAAATAAGATAT
55819 TTAAATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.17, T:0.38
Consensus pattern (26 bp):
GCTTTGAATTTTAAGAAATAAGATAT
Found at i:56999 original size:31 final size:32
Alignment explanation
Indices: 56922--56999 Score: 88
Period size: 31 Copynumber: 2.5 Consensus size: 32
56912 GAATGTTATA
56922 ATAA-AATGTATAAATTATGAATTCAATTTACG
1 ATAATAAT-TATAAATTATGAATTCAATTTACG
* * * *
56954 ATAATAGTTGTAAATTATG-ATTTAGTTTACG
1 ATAATAATTATAAATTATGAATTCAATTTACG
*
56985 ATGATAATTATAAAT
1 ATAATAATTATAAAT
57000 CTTTTTTATA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
31 22 0.58
32 14 0.37
33 2 0.05
ACGTcount: A:0.44, C:0.04, G:0.12, T:0.41
Consensus pattern (32 bp):
ATAATAATTATAAATTATGAATTCAATTTACG
Found at i:66298 original size:48 final size:48
Alignment explanation
Indices: 66206--66426 Score: 307
Period size: 48 Copynumber: 4.6 Consensus size: 48
66196 TATTTATGAA
* * *
66206 TACTATTGATGATGATTAGCATGTCTGACATCTGTGTGACGGTGGTTC
1 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGGTGGTGC
* * * *
66254 TACTATTGATGATGATTAGCACGTATGACGTCTATATGATGGTGGTGC
1 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGGTGGTGC
* * * * *
66302 TTCTACTGATGATGATTAACACGTCTGGCGTATGTGTGACGGTGGTGC
1 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGGTGGTGC
* *
66350 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGATGGTAC
1 TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGGTGGTGC
*
66398 TACTATTGATGATAATTAGCACGTCTGAC
1 TACTATTGATGATGATTAGCACGTCTGAC
66427 ATTTCTTATG
Statistics
Matches: 149, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 149 1.00
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (48 bp):
TACTATTGATGATGATTAGCACGTCTGACGTCTGTGTGACGGTGGTGC
Found at i:70581 original size:23 final size:22
Alignment explanation
Indices: 70546--70588 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
70536 ATAATTATTT
70546 AAAAAATTAAATAAAAAATACC
1 AAAAAATTAAATAAAAAATACC
*
70568 AAAAATATTTAATAAAAAATA
1 AAAAA-ATTAAATAAAAAATA
70589 ATTTTTTATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAAATTAAATAAAAAATACC
Found at i:74615 original size:19 final size:19
Alignment explanation
Indices: 74591--74640 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
74581 GACCCGACTG
74591 AAGCATATTGTTGGGGCTA
1 AAGCATATTGTTGGGGCTA
*
74610 AAGCATATTGTTGGGGCTG
1 AAGCATATTGTTGGGGCTA
*
74629 AAGCATACTGTT
1 AAGCATATTGTT
74641 TGGGATGATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.26, C:0.12, G:0.30, T:0.32
Consensus pattern (19 bp):
AAGCATATTGTTGGGGCTA
Found at i:84175 original size:2 final size:2
Alignment explanation
Indices: 84168--84195 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
84158 ACCCCTTTTC
84168 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
84196 TGAAAGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:85090 original size:83 final size:83
Alignment explanation
Indices: 84876--85121 Score: 316
Period size: 83 Copynumber: 3.0 Consensus size: 83
84866 TACCATGCGG
* * * * *
84876 TTGATATGCCTATGAGCTGAATGAAATCGAACTCGAATGTCTTTGATGACAGATAGCCCTTATCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTC-TTGTTGACAGATAACCCTTATCG
* *
84941 CCTTGAGCTATGCTGTAAA
65 CCTTGAGTTATGCTGCAAA
* * *
84960 TTTGATATGCCATTGAGCTGAATGTAATCGAACTCGAGGGT-TTGTTGACAGATAACCCTTCTCG
1 -TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGTTGACAGATAACCCTTATCG
*
85024 CCTCGAGTTATGCTGCAAA
65 CCTTGAGTTATGCTGCAAA
* * * *
85043 -TGATGTGCCTTTGAGATGAATGTAATCGAACTCGAAGGTCTTGGTTGACATACAACCCTTATCG
1 TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTT-GTTGACAGATAACCCTTATCG
85107 CCTTGAGTTATGCTG
65 CCTTGAGTTATGCTG
85122 TAACTGGGCT
Statistics
Matches: 140, Mismatches: 19, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
81 35 0.25
82 2 0.01
83 68 0.49
85 35 0.25
ACGTcount: A:0.26, C:0.20, G:0.23, T:0.32
Consensus pattern (83 bp):
TTGATATGCCTTTGAGCTGAATGTAATCGAACTCGAAGGTCTTGTTGACAGATAACCCTTATCGC
CTTGAGTTATGCTGCAAA
Found at i:85563 original size:170 final size:170
Alignment explanation
Indices: 85358--85700 Score: 526
Period size: 170 Copynumber: 2.0 Consensus size: 170
85348 TCAAAAGATG
*
85358 AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCGTGGATGTTTCGAGTCAAAT
1 AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
85423 ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAAT-AAATCTGGGAAGCCCCTTCACTGTGAAGTT
66 ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAAA-CTGGGAAGCCCCTTCACTGTGAAGTT
* * *
85487 GAGCTTTGAATTGGATATCCTTCCCTGTGAAGTTGAAATCC
130 GAGCTTTGAATTGAATATCCTTCCCTATAAAGTTGAAATCC
* * * * * *
85528 AATGTTGTTTGTGGGCACGATATCCTTCGTCGTGAAGTTGAAATCATGGATGTTTCGAGTCCAAT
1 AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
* * * *
85593 ATCCTTCGTCGTGAAGTTGAAATTGGCTTTGAATGAAACTGGGAAGCCCCTTCGCTGTGGAGTTG
66 ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAAACTGGGAAGCCCCTTCACTGTGAAGTTG
**
85658 AGCTTTGAATTGAATATCCTTCGTTATAAAGTTGAAATCC
131 AGCTTTGAATTGAATATCCTTCCCTATAAAGTTGAAATCC
85698 AAT
1 AAT
85701 CTTCAGTAAA
Statistics
Matches: 156, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
170 153 0.98
171 3 0.02
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (170 bp):
AATGTTGCTGGTGGACACGATATCCTTCATCGTGAAGTTAAAATCATGGATGTTTCGAGTCAAAT
ATCCTTCGTCGTGAAGTTGAAATTGACTCTGAATGAAACTGGGAAGCCCCTTCACTGTGAAGTTG
AGCTTTGAATTGAATATCCTTCCCTATAAAGTTGAAATCC
Found at i:85808 original size:14 final size:14
Alignment explanation
Indices: 85789--85819 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
85779 TTATGCATAT
85789 ATGCGATGCTATGG
1 ATGCGATGCTATGG
85803 ATGCGATGCTATGG
1 ATGCGATGCTATGG
85817 ATG
1 ATG
85820 AAATGCTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.35, T:0.29
Consensus pattern (14 bp):
ATGCGATGCTATGG
Found at i:93341 original size:39 final size:39
Alignment explanation
Indices: 93276--93355 Score: 108
Period size: 39 Copynumber: 2.1 Consensus size: 39
93266 TTAACAGTAG
* * *
93276 ATGCAGCTTTCTCTTTGGTAGAGGATGAGTCAC-CGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTC-CTCGGGTA
*
93315 ATGCAACTTTCCCTTTAGTAGCGGATGAGTCCTCGGGTA
1 ATGCAACTTTCCCTTTAGTAGAGGATGAGTCCTCGGGTA
93354 AT
1 AT
93356 ACTCCGGGTA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
38 1 0.03
39 35 0.97
ACGTcount: A:0.21, C:0.20, G:0.28, T:0.31
Consensus pattern (39 bp):
ATGCAACTTTCCCTTTAGTAGAGGATGAGTCCTCGGGTA
Found at i:97832 original size:2 final size:2
Alignment explanation
Indices: 97825--97858 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
97815 ACCCCTTTTC
97825 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
97859 TTTGAAAGCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:105385 original size:20 final size:21
Alignment explanation
Indices: 105355--105393 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
105345 ATTATAGGTA
105355 CAAATATGACAAAACCGGTCC
1 CAAATATGACAAAACCGGTCC
105376 CAAA-ATGACAAAACCGGT
1 CAAATATGACAAAACCGGT
105394 AAAACGCTAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.46, C:0.26, G:0.15, T:0.13
Consensus pattern (21 bp):
CAAATATGACAAAACCGGTCC
Found at i:105616 original size:182 final size:182
Alignment explanation
Indices: 105322--106527 Score: 1657
Period size: 182 Copynumber: 6.6 Consensus size: 182
105312 ATACAAATGA
* * * * * * * * *
105322 AAAATGGATCGCTCCATAGCAATATTATAGGTACAAATATGACAAAACCGGTC-CCAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * * * *
105386 AAACCGGTAAAACGCTACCTGATATATTGAAAGTGTTGATAATTTAATATAAGTATCGAAACTTT
66 AAACCGG-AAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * *
105451 CTGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTA-A
130 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
** * * *
105503 AAAAAATATCGATCCACAACAATATAACATGTAAAAATATGATAAAACAGGTCTCAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * *
105568 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTT
66 AAACCGG-AAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* *
105633 CTGAATTTAAAAGAGAAGATGTTATAGCGCCTAAAAAGTGTCGACACTTTATT
130 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * *
105686 AAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAAAATAGGTCTCAAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
105751 AAACC-GAAAAAAATTATCGGATATGTTAAAACTGTCGATAATTTAATATAAGTATCGACACTTT
66 AAACCGGAAAAAGA-TACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * *
105815 CTGAATTTAAAAGAGAAAAAGTTATTGCGCTTATAAAGTGTCGACACTTTATG
130 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* ** * * *
105868 AAAATGTATCGATCTATAACAATATAACAGGTGCAAATATGATAAAACATGTCACAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * * *
105933 AAACCAGAAAAATGATACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
66 AAACCGGAAAAA-GATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
* * * **
105998 ATGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAA
130 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* *
106051 AAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAATC-GGTCTCAAAAATGAC
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAA-CAGGTCTCAAAAATGAC
* *
106115 AAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTT
65 AAAACCGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTT
106180 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
130 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * *
106233 AAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAAAACAAGTCTCAAAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * *
106298 AAACCGGAAAAAGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTT
66 AAACCGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
* * *
106363 TTAATTTAAAAGAGAAGAAGTTATAGCGCTTAAAAAGCGTCGACACTTTATG
131 TGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
* * *
106415 AAAATGTATCGATCCAAAACAATATAACATGTAAAAATATGATAAAACTGGTCTC-AAAATGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
* * *
106479 AAACCGGTAAATAGATACCGGATATGTTGAAAATGTCGATACTTTAATA
66 AAACCGG-AAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATA
106528 AGTACACGTA
Statistics
Matches: 908, Mismatches: 109, Indels: 15
0.88 0.11 0.01
Matches are distributed among these distances:
181 63 0.07
182 619 0.68
183 224 0.25
184 2 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (182 bp):
AAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACA
AAACCGGAAAAAGATACCGGATATGTTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTC
TGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATG
Found at i:106025 original size:365 final size:362
Alignment explanation
Indices: 105321--106527 Score: 1614
Period size: 365 Copynumber: 3.3 Consensus size: 362
105311 GATACAAATG
* * * * * * * * * *
105321 AAAAATGGATCGCTCCATAGCAATATTATAGGTACAAATATGACAAAACCGGTC-CCAAAATGAC
1 AAAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAA-TGGTCTCAAAAATGAC
* *** * * * * *
105385 AAAACCGGTAAAACGCTACCTGATATATTGAAAGTGTTGATAATTTAATATAAGTATCGAAACTT
65 AAAACC-GAAAAAAATTACCGGATATGTT-AAAATGTCGATAATTTAATATAAGTATCGACACTT
* * * **
105450 TCTGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTA-AAAAAAATATCG
128 TCTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTATGAAAATGTATCG
* * * *
105514 ATCCACAACAATATAACATGTAAAAATATGATAAAACAGGTCTCAAAATTGACAAAACCGGTAAA
193 ATCTATAACAATATAACAGGTAAAAATATGATAAAACAAGTCTCAAAATTGACAAAACCGG-AAA
* * *
105579 ACGATACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAA
257 AAGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAATTTAAA
*
105644 AGAGAAGATGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
322 AGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* ** *
105685 TAAAATGTATCGATCCTTACCAATATAACAGGTAAAAATATGATAAAATAGGTCTCAAAAATGAC
1 AAAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAAT-GGTCTCAAAAATGAC
*
105750 AAAACCGAAAAAAATTATCGGATATGTTAAAACTGTCGATAATTTAATATAAGTATCGACACTTT
65 AAAACCGAAAAAAATTACCGGATATGTTAAAA-TGTCGATAATTTAATATAAGTATCGACACTTT
* * *
105815 CTGAATTTAAAAGAGAAAAAGTTATTGCGCTTATAAAGTGTCGACACTTTATGAAAATGTATCGA
129 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTATGAAAATGTATCGA
** * * *
105880 TCTATAACAATATAACAGGTGCAAATATGATAAAACATGTCACAAAATTGACAAAACCAGAAAAA
194 TCTATAACAATATAACAGGTAAAAATATGATAAAACAAGTCTCAAAATTGACAAAACCGGAAAAA
* *
105945 TGATACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTATGAATTTAAAA
259 -GATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAATTTAAAA
* * *
106010 GAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAA
323 GAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* *
106050 AAAAATATATCGATCCACAACAATATAACAGGTAAAAATATGATAAAATCGGTCTCAAAAATGAC
1 AAAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAAT-GGTCTCAAAAATGAC
* * * *
106115 AAAACCGGAAAAAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTT
65 AAAACCGAAAAAAATTACCGGATATGTT-AAAATGTCGATAATTTAATATAAGTATCGACACTTT
*
106180 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGA
129 CTGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTATGAAAATGTATCGA
* *
106245 TCCT-TACCAATATAACAGGTAAAAATATGATAAAACAAGTCTCAAAAATGACAAAACCGGAAAA
194 T-CTATAACAATATAACAGGTAAAAATATGATAAAACAAGTCTCAAAATTGACAAAACCGGAAAA
* * * * *
106309 AGTTACCGGATATGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTTTAATTTAAAA
258 AGATACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAATTTAAAA
* *
106374 GAGAAGAAGTTATAGCGCTTAAAAAGCGTCGACACTTTAT
323 GAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
* *
106414 GAAAATGTATCGATCCAAAACAATATAACATGTAAAAATATGATAAAACTGGTCTC-AAAATGAC
1 AAAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAA-TGGTCTCAAAAATGAC
* * *
106478 AAAACCGGTAAATAGA-TACCGGATATGTTGAAAATGTCGATACTTTAATA
65 AAAACC-G-AAAAAAATTACCGGATATGTT-AAAATGTCGATAATTTAATA
106528 AGTACACGTA
Statistics
Matches: 743, Mismatches: 90, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
363 17 0.02
364 313 0.42
365 408 0.55
366 5 0.01
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (362 bp):
AAAAATGTATCGATCCAAAACAATATAACAGGTAAAAATATGATAAAATGGTCTCAAAAATGACA
AAACCGAAAAAAATTACCGGATATGTTAAAATGTCGATAATTTAATATAAGTATCGACACTTTCT
GAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGACACTTTATGAAAATGTATCGATC
TATAACAATATAACAGGTAAAAATATGATAAAACAAGTCTCAAAATTGACAAAACCGGAAAAAGA
TACCGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGACACTTTATGAATTTAAAAGAG
AAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTAT
Found at i:106352 original size:547 final size:544
Alignment explanation
Indices: 105322--106527 Score: 1896
Period size: 547 Copynumber: 2.2 Consensus size: 544
105312 ATACAAATGA
* * * * * * * *
105322 AAAATGGATCGCTCCATAGCAATATTATAGGTACAAATATGACAAAACCGGTCCCAAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGGTACAAATATGATAAAA-CTGTCACAAAATGACAA
* * * *
105387 AACCGGTAAAACGCTACCT-GATATATTGAAAGTGTTGATAATTTAATATAAGTATCGAAACTTT
65 AACC-GAAAAATGATA-CTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
*
105451 CTGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAAATATCGAT
128 ATGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAAATATCGAT
* * *
105516 CCACAACAATATAACATGTAAAAATATGATAAAACAGGTCTCAAAATTGACAAAACCGGTAAAAC
193 CCACAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGTAAAAA
105581 GATACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAG
258 GATACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAG
* *
105646 AGAAGATGTTATAGCGCCTAAAAAGTGTCGACACTTTATTAAAATGTATCGATCCTTACCAATAT
323 AGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAATAT
* * *
105711 AACAGGTAAAAATATGATAAAATAGGTCTCAAAAATGACAAAACCGAAAAAAATTATCGGATATG
388 AACAGGTAAAAATATGATAAAACAAGTCTCAAAAATGACAAAACCGAAAAAAATTACCGGATATG
*
105776 TTAAAACTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATT
453 TTAAAACTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATA
* *
105841 GCGCTTATAAAGTGTCGACACTTTATG
518 GCGCTTAAAAAGCGTCGACACTTTATG
* *
105868 AAAATGTATCGATCTATAACAATATAACAGGTGCAAATATGATAAAACATGTCACAAAATTGACA
1 AAAATGTATCGATCCATAACAATATAACAGGTACAAATATGATAAAAC-TGTCACAAAA-TGACA
105933 AAACCAGAAAAATGATACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
64 AAACC-GAAAAATGATACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTT
*
105998 ATGAATTTAAAAGAGAAGAAGTTATAGCGCCTATAAAGTGTCGATACTTTAAAAAAATATATCGA
128 ATGAATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAA-ATATCGA
106063 TCCACAACAATATAACAGGTAAAAATATGATAAAATC-GGTCTCAAAAATGACAAAACCGG-AAA
192 TCCACAACAATATAACAGGTAAAAATATGATAAAA-CAGGTCTCAAAAATGACAAAACCGGTAAA
* *
106126 AAGTTACCGGATATGTTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAA
256 AAGATACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAA
106191 AGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAAT
321 AGAGAAGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAAT
* *
106256 ATAACAGGTAAAAATATGATAAAACAAGTCTCAAAAATGACAAAACCGGAAAAAGTTACCGGATA
386 ATAACAGGTAAAAATATGATAAAACAAGTCTCAAAAATGACAAAACCGAAAAAAATTACCGGATA
* * * *
106321 TGTTAAAAGTGTCGATAATTTAATATAAGTATCGACACTTTTTTAATTTAAAAGAGAAGAAGTTA
451 TGTTAAAACTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTA
106386 TAGCGCTTAAAAAGCGTCGACACTTTATG
516 TAGCGCTTAAAAAGCGTCGACACTTTATG
* * * *
106415 AAAATGTATCGATCCAAAACAATATAACATGTAAAAATATGATAAAACTGGTCTCAAAATGACAA
1 AAAATGTATCGATCCATAACAATATAACAGGTACAAATATGATAAAACT-GTCACAAAATGACAA
** * * * *
106480 AACCGGTAAATAGATACCGGATATGTTGAAAATGTCGATACTTTAATA
65 AACCGAAAAAT-GATACTGGATATATTGAAAGTGTCGATAATTTAATA
106528 AGTACACGTA
Statistics
Matches: 605, Mismatches: 48, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
545 6 0.01
546 92 0.15
547 443 0.73
548 63 0.10
549 1 0.00
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.27
Consensus pattern (544 bp):
AAAATGTATCGATCCATAACAATATAACAGGTACAAATATGATAAAACTGTCACAAAATGACAAA
ACCGAAAAATGATACTGGATATATTGAAAGTGTCGATAATTTAATATAAGTATCGAAACTTTATG
AATTTAAAAGAGAAGAAGTTATAGCACCTATAAAGTGTCGATACTTTAAAAAAAATATCGATCCA
CAACAATATAACAGGTAAAAATATGATAAAACAGGTCTCAAAAATGACAAAACCGGTAAAAAGAT
ACCGGATATATTGAAAGTGTCGATAATTTAATATTAGTATCGACACTTTCTGAATTTAAAAGAGA
AGAAGTTATAGCGCCTAAAAAGTGTCGACACTTTATGAAAATGTATCGATCCTTACCAATATAAC
AGGTAAAAATATGATAAAACAAGTCTCAAAAATGACAAAACCGAAAAAAATTACCGGATATGTTA
AAACTGTCGATAATTTAATATAAGTATCGACACTTTCTGAATTTAAAAGAGAAAAAGTTATAGCG
CTTAAAAAGCGTCGACACTTTATG
Found at i:106938 original size:18 final size:19
Alignment explanation
Indices: 106915--106953 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
106905 TAGTTAATAT
106915 TTATAGGTA-AAAATGATA
1 TTATAGGTAGAAAATGATA
106933 TTATAGGTAGAAAATGATA
1 TTATAGGTAGAAAATGATA
106952 TT
1 TT
106954 TTATGTTGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.18, T:0.36
Consensus pattern (19 bp):
TTATAGGTAGAAAATGATA
Found at i:107241 original size:17 final size:19
Alignment explanation
Indices: 107210--107248 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
107200 TTGAAATGAT
107210 AATTGGATTAAAAA-TTTA
1 AATTGGATTAAAAATTTTA
*
107228 AATT-GATTACAAATTTTA
1 AATTGGATTAAAAATTTTA
107246 AAT
1 AAT
107249 GTTGACAGTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.49, C:0.03, G:0.08, T:0.41
Consensus pattern (19 bp):
AATTGGATTAAAAATTTTA
Found at i:108264 original size:22 final size:22
Alignment explanation
Indices: 108213--108268 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 22
108203 GTTTTTGTTT
*
108213 TTTTTTTATATAAAATGATAGTA
1 TTTTATTATATAAAATGATAG-A
*
108236 TAGTTATTATATAAAATGATA-A
1 T-TTTATTATATAAAATGATAGA
108258 CTTTTATTATA
1 -TTTTATTATA
108269 AATGCATGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 9 0.32
23 2 0.07
24 17 0.61
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.50
Consensus pattern (22 bp):
TTTTATTATATAAAATGATAGA
Found at i:108953 original size:18 final size:18
Alignment explanation
Indices: 108930--108968 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
108920 GAAAAAATTT
108930 GAAGAA-AAGAAGATGGAG
1 GAAGAATAA-AAGATGGAG
108948 GAAGAATAAAAGATGGAG
1 GAAGAATAAAAGATGGAG
108966 GAA
1 GAA
108969 ATGAGGAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 18 0.90
19 2 0.10
ACGTcount: A:0.56, C:0.00, G:0.36, T:0.08
Consensus pattern (18 bp):
GAAGAATAAAAGATGGAG
Found at i:110461 original size:19 final size:19
Alignment explanation
Indices: 110433--110481 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
110423 AAATGCATGG
110433 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
110451 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
110470 ATAATTTTGTAT
1 TTAATTTTGTAT
110482 GTGAATTTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:111165 original size:199 final size:199
Alignment explanation
Indices: 110825--112322 Score: 2599
Period size: 199 Copynumber: 7.5 Consensus size: 199
110815 AGGTAAACTT
* * *
110825 AAGTGTCGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTCA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
110890 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* *
110955 TGTCGACACAAATAGAACAAGTGTCGATACTTTTTTTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
111020 TAAA
196 TAAA
111024 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
111089 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
111154 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
111219 TAAA
196 TAAA
* * *
111223 AAGTGTCGATACATTTGTAACAAGTATCGATCCCAAAAATATCGAAAACTATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * ** *
111288 TAGGTAAATTATTC-ATGTAAATGGTATAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* *
111352 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTTTTCAGAATGTATTTCAAAAACAAGTGCC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
111417 CTAAA
195 CTAAA
111422 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
111487 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
111552 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
111617 TAAA
196 TAAA
* * *
111621 AAGTGTCGATACATTTGTAACAAGTATCGATCCCAAAAATATCGAAAACTATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * ** *
111686 TAGGTAAATTATTC-ATGTAAATGGTATAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
*
111750 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCTAGAATGTATTTCAAAAACAAGTGCC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
111815 CTAAA
195 CTAAA
111820 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
**
111885 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* *
111950 TATCGACACAAATAGAACAAGTGTCGATACTTTTTATCCAGAATGTATTTCAAAAACAAGTACCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
112015 TAAA
196 TAAA
* *
112019 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATTGAAAACCATAATTATAATATAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
112084 TAGGTAAATTAGCAATATAACCGATCTAAATATACTGGTTTTTTAGAAAACAGGTGTA-AAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* * *
112148 TATCGACACAAATAGAACAAGTGTCGAAACATTTTGTCCAGAATGTATTTCAAAACCAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
112213 TAAA
196 TAAA
*
112217 ATA-TGTCGATATATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
1 A-AGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTA
*
112281 ATAGGTAAATTAGTAATATAACCGGTCTAAATATACCGGTTT
65 ATAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTT
112323 AAATTGAAAA
Statistics
Matches: 1229, Mismatches: 65, Indels: 11
0.94 0.05 0.01
Matches are distributed among these distances:
198 170 0.14
199 1057 0.86
200 2 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAA
Found at i:112683 original size:15 final size:15
Alignment explanation
Indices: 112663--112720 Score: 71
Period size: 15 Copynumber: 3.7 Consensus size: 15
112653 TTTCTCAAAT
112663 CTCTTCTCAACCCAC
1 CTCTTCTCAACCCAC
* *
112678 CTCTTCCCAACCCAG
1 CTCTTCTCAACCCAC
112693 CTCTTCTCAACCACAAC
1 CTCTTCTCAACC-C-AC
112710 CTCCTTCTCAA
1 CT-CTTCTCAA
112721 ACAATCGTCC
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
15 24 0.67
16 1 0.03
17 3 0.08
18 8 0.22
ACGTcount: A:0.22, C:0.50, G:0.02, T:0.26
Consensus pattern (15 bp):
CTCTTCTCAACCCAC
Found at i:115440 original size:20 final size:18
Alignment explanation
Indices: 115407--115443 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
115397 TAATAAACAA
115407 ATATTATTTATTATATAT
1 ATATTATTTATTATATAT
115425 ATATATATTTATT-TATAT
1 ATAT-TATTTATTATATAT
115443 A
1 A
115444 AATAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (18 bp):
ATATTATTTATTATATAT
Found at i:115459 original size:3 final size:3
Alignment explanation
Indices: 115444--115542 Score: 66
Period size: 3 Copynumber: 34.0 Consensus size: 3
115434 TATTTATATA
* *
115444 AAT AAT AAG AAT AAT AAT AAA AAGT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
* * * *
115489 ATT GCA- AAT AAT AATT AA- AAA AAT AAT ATT AA- AAT -AT AA- AAT
1 AAT -AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
115531 AAA AAT AAT AAT
1 AAT AAT AAT AAT
115543 CAAAAATAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 18
0.70 0.12 0.17
Matches are distributed among these distances:
2 11 0.15
3 58 0.78
4 5 0.07
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (3 bp):
AAT
Found at i:115486 original size:39 final size:39
Alignment explanation
Indices: 115443--115548 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 39
115433 TTATTTATAT
*
115443 AAATAATAAGAATAATAAT-AAAAAGTAATAATAATAATA
1 AAATAATAAGAATAATAATAAAAAAATAATAATAA-AATA
* *
115482 AAATAATATTGCAAATAATAATTAAAAAAATAATATTAAAATA
1 AAATAATA-AG--AATAATAA-TAAAAAAATAATAATAAAATA
* * *
115525 TAA-AATAAAAATAATAATCAAAAA
1 AAATAATAAGAATAATAATAAAAAA
115549 TAAAATTTGA
Statistics
Matches: 55, Mismatches: 7, Indels: 11
0.75 0.10 0.15
Matches are distributed among these distances:
38 6 0.11
39 16 0.29
40 1 0.02
42 12 0.22
43 7 0.13
44 13 0.24
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.26
Consensus pattern (39 bp):
AAATAATAAGAATAATAATAAAAAAATAATAATAAAATA
Found at i:115502 original size:26 final size:25
Alignment explanation
Indices: 115469--115540 Score: 85
Period size: 27 Copynumber: 2.8 Consensus size: 25
115459 AATAAAAAGT
*
115469 AATAATAATAATAAAATAATATTGCA
1 AATAATAATAATAAAATAATATT-AA
*
115495 AATAATAATTAAAAAAATAATATTAA
1 AATAATAA-TAATAAAATAATATTAA
115521 AAT-ATAA-AATAAAAATAATA
1 AATAATAATAAT-AAAATAATA
115541 ATCAAAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.05
24 9 0.22
25 4 0.10
26 12 0.29
27 14 0.34
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (25 bp):
AATAATAATAATAAAATAATATTAA
Found at i:115534 original size:24 final size:25
Alignment explanation
Indices: 115439--115540 Score: 82
Period size: 30 Copynumber: 3.8 Consensus size: 25
115429 ATATTTATTT
* *
115439 ATATAAATAATAAGAATAATAATAAAA
1 ATAT-AATAATAAAAATAAT-ATTAAA
*
115466 AGTAATAATAATAATAAAATAATATTGCAA
1 A-T-ATAATAAT-A-AAAATAATATT-AAA
115496 ATAATAATTAA-AAAAATAATATTAAA
1 AT-ATAA-TAATAAAAATAATATTAAA
115522 ATATAA-AATAAAAATAATA
1 ATATAATAATAAAAATAATA
115541 ATCAAAAATA
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
23 2 0.03
24 10 0.16
25 4 0.06
26 4 0.06
27 12 0.19
28 8 0.12
29 11 0.17
30 13 0.20
ACGTcount: A:0.68, C:0.01, G:0.03, T:0.28
Consensus pattern (25 bp):
ATATAATAATAAAAATAATATTAAA
Found at i:115548 original size:19 final size:18
Alignment explanation
Indices: 115441--115553 Score: 74
Period size: 19 Copynumber: 6.3 Consensus size: 18
115431 ATTTATTTAT
* *
115441 ATAAATAATAAGAATAATA
1 ATAAA-AATAATAATAAAA
*
115460 ATAAAAAGTAATAATAATA
1 ATAAAAA-TAATAATAAAA
* **
115479 AT-AAAATAATATTGCAA
1 ATAAAAATAATAATAAAA
*
115496 ATAATAAT--TAA-AAAA
1 ATAAAAATAATAATAAAA
* *
115511 ATAATATTAA-AATATAAA
1 ATAAAAATAATAATA-AAA
115529 ATAAAAATAATAATCAAAA
1 ATAAAAATAATAAT-AAAA
115548 ATAAAA
1 ATAAAA
115554 TTTGAATGAT
Statistics
Matches: 74, Mismatches: 12, Indels: 16
0.73 0.12 0.16
Matches are distributed among these distances:
15 9 0.12
16 4 0.05
17 10 0.14
18 21 0.28
19 29 0.39
20 1 0.01
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (18 bp):
ATAAAAATAATAATAAAA
Found at i:115554 original size:24 final size:25
Alignment explanation
Indices: 115444--115551 Score: 78
Period size: 30 Copynumber: 4.1 Consensus size: 25
115434 TATTTATATA
* *
115444 AATAATAAGAATAATAATAAAAAGTAAT
1 AATAATAAAAATAATAAT-CAAA--AAT
*
115472 AATAATAATAAAATAATATTGCAAATAAT
1 AATAAT-A-AAAATAATAAT-CAAA-AAT
*
115501 AATTAA-AAAAATAAT-ATTAAAATAT
1 AA-TAATAAAAATAATAATCAAAA-AT
115526 AA-AATAAAAATAATAATCAAAAAT
1 AATAATAAAAATAATAATCAAAAAT
115550 AA
1 AA
115552 AATTTGAATG
Statistics
Matches: 67, Mismatches: 7, Indels: 16
0.74 0.08 0.18
Matches are distributed among these distances:
23 2 0.03
24 14 0.21
25 13 0.19
26 1 0.01
27 8 0.12
28 7 0.10
29 7 0.10
30 15 0.22
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (25 bp):
AATAATAAAAATAATAATCAAAAAT
Found at i:116409 original size:3 final size:3
Alignment explanation
Indices: 116403--116465 Score: 85
Period size: 3 Copynumber: 21.0 Consensus size: 3
116393 ATTATTTTTT
*
116403 TAA TAA TAA TAA TAA TAA T-A TATA TAA TAA T-A TATA TAA TAA TTA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA
116448 TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA
116466 ATAAATAAAT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
2 4 0.07
3 44 0.81
4 6 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (3 bp):
TAA
Found at i:116477 original size:21 final size:21
Alignment explanation
Indices: 116405--116473 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
116395 TATTTTTTTA
*
116405 ATAATAATAATAATAATATAT
1 ATAATAATAATAATAATAAAT
*
116426 ATAATAAT-ATATATAATAATT
1 ATAATAATAATA-ATAATAAAT
116447 ATAATAATAATAATAATAAAT
1 ATAATAATAATAATAATAAAT
116468 A-AATAA
1 ATAATAA
116474 ATAAAATGGG
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.19
21 32 0.74
22 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
ATAATAATAATAATAATAAAT
Found at i:116480 original size:9 final size:10
Alignment explanation
Indices: 116404--116477 Score: 68
Period size: 9 Copynumber: 7.5 Consensus size: 10
116394 TTATTTTTTT
116404 AATAATAAT-
1 AATAATAATA
116413 AATAATAATA
1 AATAATAATA
116423 TATATAATAATA
1 -A-ATAATAATA
116435 TATATAATAAT-
1 -A-ATAATAATA
*
116446 TATAATAAT-
1 AATAATAATA
116455 AATAATAATA
1 AATAATAATA
116465 AAT-A-AATA
1 AATAATAATA
116473 AATAA
1 AATAA
116478 AATGGGTAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.12
9 27 0.47
10 3 0.05
11 1 0.02
12 20 0.34
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AATAATAATA
Found at i:116738 original size:17 final size:17
Alignment explanation
Indices: 116716--116774 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
116706 TTGAACAAGC
116716 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
*
116733 TCTTCTTC-TTCAGAT-AAGT
1 TCTTC-TCATT--G-TGAACT
116752 TCTTCTCATTGTGAACT
1 TCTTCTCATTGTGAACT
116769 TCTTCT
1 TCTTCT
116775 TCTTTCTTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
16 1 0.03
17 17 0.50
18 4 0.12
19 11 0.32
20 1 0.03
ACGTcount: A:0.17, C:0.24, G:0.10, T:0.49
Consensus pattern (17 bp):
TCTTCTCATTGTGAACT
Found at i:116793 original size:40 final size:38
Alignment explanation
Indices: 116716--116810 Score: 140
Period size: 40 Copynumber: 2.5 Consensus size: 38
116706 TTGAACAAGC
116716 TCTTCTCATTGTGAA--CTTCTTCTTCTTCAGATAAGT
1 TCTTCTCATTGTGAACTCTTCTTCTTCTTCAGATAAGT
*
116752 TCTTCTCATTGTGAACTTCTTCTTCTTTCTTCAGATGAGT
1 TCTTCTCATTGTGAAC-TCTTCTTC-TTCTTCAGATAAGT
*
116792 TCTTCTCATTATGAACTCT
1 TCTTCTCATTGTGAACTCT
116811 ACCTGGAAAT
Statistics
Matches: 53, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
36 15 0.28
39 10 0.19
40 28 0.53
ACGTcount: A:0.18, C:0.23, G:0.11, T:0.48
Consensus pattern (38 bp):
TCTTCTCATTGTGAACTCTTCTTCTTCTTCAGATAAGT
Found at i:116952 original size:113 final size:114
Alignment explanation
Indices: 116751--117706 Score: 1213
Period size: 113 Copynumber: 8.4 Consensus size: 114
116741 TTCAGATAAG
* * *
116751 TTCTTCTCATTGTGAACTTCTTCTTCT-TTCTTCAGATGAGTTCTTCTCATTATGAAC-TCTACC
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TC
* * * * *
116814 TGGAAATGCTGATCCATCAAATGATGAATTCAAACAAAAGGTTGAACAAG
65 TGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
* * * * *
116864 CTCTTCTCATTATGAACTTCTTCTTCTTCTTTTTCAGATAAGTTCTTCTCATTATGAAC-TCTAC
1 TTCTTCTCATTATGAATTTCTTCTTC-TCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTC
* * * *
116928 TGG-AATG-TGATCCATCAATGTGAT-GATTCAAACAAAAGGTTGAACAAA
65 TGGAAAAGCTGATCCATCAA-ATGATGGATTTAAGCAAAAGGTTGAACAAA
*
116976 TTCTTCTCATTATGAACTTCTTCTTC-CTTCTTCAGATGAGTTCTTCTCATTATGAACTT-TCTC
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCT-TC
* * *
117039 TGGAAAAGCTGATTCATCAAGTGATGGATTTGAGCAAAAGGTTGAACAAA
65 TGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
*
117089 TTCTTCTTATTATGAATTTCTTCTT-TCTTCTTCAGATGACGAGTTCTTCTCATTATGAAC-TCT
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGAT---GAGTTCTTCTCATTATGAACTTCT
* * * * * * * * *
117152 ACCTGGCAATGTTGATCTATCAAGTGATGAATTTAAACAAAAGGTTGAACAAG
63 -TCTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
* *
117205 CTCTTCTCATTATGAACTTCTTCTTCTTCTTCTTCTTTTTCAGATAAGTTCTTCTCATTATGAAC
1 TTCTTCTCATTATGAA--T-TTCTTCTTC-TCTTC---TTCAGATGAGTTCTTCTCATTATGAAC
* * * * *
117270 TTTCTT-TTGAAATGATGATCCATCGAATGATGGATTTGAGCAAAAGGTTGAACAAA
59 -TTCTTCTGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
*
117326 TTCTTCTCATTATGAATTTCTTCTTC-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTCT
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCT
** *
117390 GGAAAAGCCAATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
66 GGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
*
117439 TTCTTCTCATTATGAATTTCTTCTTC-CTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTTC
* *
117503 TGGAAAAGTTGATCCATCAAATAATGGATTTAAGCAAAAGGTTGAACAAA
65 TGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
* *
117553 TTCTTCTCATTATGAATTTCTTCTTC-CTTCTTCAGATGAGTTCTCCTCATTATGAACTTTTTTC
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTCTTC
*
117617 TGGAAAAGCTGATCCATCAAATGATGGATTTGAGCAAAAGGTTGAACAAA
65 TGGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
117667 TTCTTCTCATTATGAATTTCTTCTTC-CTTCTTCAGATGAG
1 TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAG
117707 ATTATTCTAA
Statistics
Matches: 756, Mismatches: 62, Indels: 49
0.87 0.07 0.06
Matches are distributed among these distances:
110 30 0.04
111 5 0.01
112 70 0.09
113 224 0.30
114 206 0.27
115 32 0.04
116 81 0.11
118 10 0.01
119 9 0.01
121 79 0.10
123 3 0.00
124 7 0.01
ACGTcount: A:0.28, C:0.19, G:0.14, T:0.39
Consensus pattern (114 bp):
TTCTTCTCATTATGAATTTCTTCTTCTCTTCTTCAGATGAGTTCTTCTCATTATGAACTTCTTCT
GGAAAAGCTGATCCATCAAATGATGGATTTAAGCAAAAGGTTGAACAAA
Found at i:117583 original size:114 final size:114
Alignment explanation
Indices: 117231--117706 Score: 816
Period size: 114 Copynumber: 4.2 Consensus size: 114
117221 CTTCTTCTTC
* * * *
117231 TTCTTCTT-CTTTTTCAGATAAGTTCTTCTCATTATGAACTTTCTTT-T-GAAATGATGATCCAT
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTT-TTTCTGGAAAAGCTGATCCAT
*
117293 CGAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
65 CAAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
**
117343 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAAC-TTTTTCTGGAAAAGCCAATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
117407 AAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
*
117456 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGTTGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
* *
117521 AAATAATGGATTTAAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
*
117570 TTCTTCTTCCTTCTTCAGATGAGTTCTCCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
1 TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
117635 AAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
66 AAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
117684 TTCTTCTTCCTTCTTCAGATGAG
1 TTCTTCTTCCTTCTTCAGATGAG
117707 ATTATTCTAA
Statistics
Matches: 344, Mismatches: 16, Indels: 6
0.94 0.04 0.02
Matches are distributed among these distances:
111 3 0.01
112 11 0.03
113 129 0.38
114 201 0.58
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (114 bp):
TTCTTCTTCCTTCTTCAGATGAGTTCTTCTCATTATGAACTTTTTTCTGGAAAAGCTGATCCATC
AAATGATGGATTTGAGCAAAAGGTTGAACAAATTCTTCTCATTATGAAT
Found at i:118161 original size:22 final size:22
Alignment explanation
Indices: 118133--118187 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
118123 GATAAAGCTT
* *
118133 TCATCTTTGGAAAGAGAATCTG
1 TCATCTTTGAAAAGAGAATCTA
* *
118155 TCATCTTTAAAAAGGGAATCTA
1 TCATCTTTGAAAAGAGAATCTA
118177 TCATCTTTGAA
1 TCATCTTTGAA
118188 GAGTGTAGAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (22 bp):
TCATCTTTGAAAAGAGAATCTA
Found at i:119669 original size:76 final size:76
Alignment explanation
Indices: 119581--119775 Score: 338
Period size: 76 Copynumber: 2.6 Consensus size: 76
119571 GCATCAACAG
*
119581 TCCTGATTCTGATTGAAAGGGGCTTTCAGCATGCCCTAACATTTTGCTGATATAAATATTCAGAA
1 TCCTGATTCTGATTGAAAGGGGTTTTCAGCATGCCCTAACATTTTGCTGATATAAATATTCAGAA
119646 TACTTTAATAT
66 TACTTTAATAT
* *
119657 TCCTGATTCTGATTGAAAGGGGTTTTCAGTATGCCCTAACATTTTGCTGGTATAAATATTCAGAA
1 TCCTGATTCTGATTGAAAGGGGTTTTCAGCATGCCCTAACATTTTGCTGATATAAATATTCAGAA
119722 TACTTTAATAT
66 TACTTTAATAT
*
119733 TCATGATTCTGATTGAAAGGGGTTTTCAGCATGCCAC-AACATT
1 TCCTGATTCTGATTGAAAGGGGTTTTCAGCATGCC-CTAACATT
119776 CACTTCTTGT
Statistics
Matches: 113, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
76 112 0.99
77 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.17, T:0.37
Consensus pattern (76 bp):
TCCTGATTCTGATTGAAAGGGGTTTTCAGCATGCCCTAACATTTTGCTGATATAAATATTCAGAA
TACTTTAATAT
Found at i:119932 original size:36 final size:35
Alignment explanation
Indices: 119892--119960 Score: 93
Period size: 36 Copynumber: 1.9 Consensus size: 35
119882 CATTATTTCT
119892 TATTGATATGAGCCTCCAAGAATGCCCAAATATTCA
1 TATTGATATGAGCCTCCAA-AATGCCCAAATATTCA
* * * *
119928 TATTGTTGTGAGCCTTCAAAATGCCCCAATATT
1 TATTGATATGAGCCTCCAAAATGCCCAAATATT
119961 TTATTTCTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
35 13 0.45
36 16 0.55
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.32
Consensus pattern (35 bp):
TATTGATATGAGCCTCCAAAATGCCCAAATATTCA
Found at i:123163 original size:13 final size:13
Alignment explanation
Indices: 123147--123203 Score: 64
Period size: 13 Copynumber: 4.5 Consensus size: 13
123137 CCCCTTTTTC
123147 TTTTTCCTTCTTT
1 TTTTTCCTTCTTT
*
123160 TTTTTCTTTC-TT
1 TTTTTCCTTCTTT
*
123172 TTTTTCTTTCTTT
1 TTTTTCCTTCTTT
*
123185 TTTTTTCTT-TTT
1 TTTTTCCTTCTTT
123197 TTCTTTC
1 TT-TTTC
123204 TTTGCTGGAT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
12 17 0.45
13 21 0.55
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTTCCTTCTTT
Found at i:123168 original size:25 final size:25
Alignment explanation
Indices: 123140--123230 Score: 85
Period size: 26 Copynumber: 3.5 Consensus size: 25
123130 AATTTCTCCC
123140 CTTTTTCTTTTTCCTTC-TTTTTTTT
1 CTTTTT-TTTTTCCTTCTTTTTTTTT
*
123165 CTTTCTTTTTTTCTTTCTTTTTTTTT
1 CTTT-TTTTTTTCCTTCTTTTTTTTT
* ***
123191 CTTTTTTTCTTTCTTTGCTGGATTTTT
1 CTTTTTTT-TTTCCTT-CTTTTTTTTT
123218 CTTTTTTTATTTC
1 CTTTTTTT-TTTC
123231 TTTGCTGTAT
Statistics
Matches: 57, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
25 17 0.30
26 21 0.37
27 19 0.33
ACGTcount: A:0.02, C:0.16, G:0.03, T:0.78
Consensus pattern (25 bp):
CTTTTTTTTTTCCTTCTTTTTTTTT
Found at i:123169 original size:4 final size:4
Alignment explanation
Indices: 123162--123206 Score: 58
Period size: 4 Copynumber: 11.8 Consensus size: 4
123152 CCTTCTTTTT
* *
123162 TTTC TTTC TTTT TTTC TTTC TTT- TTT- TTTC TTTT TTTC TTTC TTT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTT
123207 GCTGGATTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
3 6 0.17
4 30 0.83
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (4 bp):
TTTC
Found at i:123173 original size:12 final size:12
Alignment explanation
Indices: 123147--123206 Score: 88
Period size: 12 Copynumber: 5.1 Consensus size: 12
123137 CCCCTTTTTC
*
123147 TTTTTCCTTCTTT
1 TTTTTCTTTC-TT
123160 TTTTTCTTTCTT
1 TTTTTCTTTCTT
123172 TTTTTCTTTC-T
1 TTTTTCTTTCTT
123183 TTTTT-TTTCTT
1 TTTTTCTTTCTT
123194 TTTTTCTTTCTT
1 TTTTTCTTTCTT
123206 T
1 T
123207 GCTGGATTTT
Statistics
Matches: 44, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
10 4 0.09
11 12 0.27
12 19 0.43
13 9 0.20
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTTCTTTCTT
Found at i:123185 original size:22 final size:22
Alignment explanation
Indices: 123143--123206 Score: 94
Period size: 22 Copynumber: 2.9 Consensus size: 22
123133 TTCTCCCCTT
123143 TTTCTTTTTCCTTCTTT-TTTTTC
1 TTTCTTTTT--TTCTTTCTTTTTC
*
123166 TTTCTTTTTTTCTTTCTTTTTT
1 TTTCTTTTTTTCTTTCTTTTTC
123188 TTTCTTTTTTTCTTTCTTT
1 TTTCTTTTTTTCTTTCTTT
123207 GCTGGATTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
21 6 0.15
22 24 0.62
23 9 0.23
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (22 bp):
TTTCTTTTTTTCTTTCTTTTTC
Found at i:123216 original size:27 final size:25
Alignment explanation
Indices: 123166--123238 Score: 98
Period size: 27 Copynumber: 3.0 Consensus size: 25
123156 CTTTTTTTTC
123166 TTTCTTTTTTTCTTTCTTT--T-TT
1 TTTCTTTTTTTCTTTCTTTGCTGTT
123188 TTTCTTTTTTTCTTTCTTTGCTGGATT
1 TTTCTTTTTTTCTTTCTTTGCT-G-TT
*
123215 TTTCTTTTTTTATTTCTTTGCTGT
1 TTTCTTTTTTTCTTTCTTTGCTGT
123239 ATGAGTATAT
Statistics
Matches: 45, Mismatches: 1, Indels: 7
0.85 0.02 0.13
Matches are distributed among these distances:
22 19 0.42
24 1 0.02
25 1 0.02
26 1 0.02
27 23 0.51
ACGTcount: A:0.03, C:0.14, G:0.07, T:0.77
Consensus pattern (25 bp):
TTTCTTTTTTTCTTTCTTTGCTGTT
Found at i:123223 original size:35 final size:35
Alignment explanation
Indices: 123141--123225 Score: 86
Period size: 34 Copynumber: 2.4 Consensus size: 35
123131 ATTTCTCCCC
*
123141 TTTTTCTTTTTCCTTCTTTTTTTTCTTTCTTT-T--T
1 TTTTTCTTTTT--TTCTTTTTTTTCTTTCTTTCTGGA
*
123175 TTCTTTCTTTTTTTTTCTTTTTTTCTTTCTTTGCTGGA
1 TT-TTTCTTTTTTTCT-TTTTTTTCTTTCTTT-CTGGA
123213 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
123226 ATTTCTTTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 9
0.80 0.04 0.17
Matches are distributed among these distances:
33 3 0.07
34 17 0.40
35 9 0.21
36 1 0.02
37 11 0.26
38 2 0.05
ACGTcount: A:0.01, C:0.15, G:0.04, T:0.80
Consensus pattern (35 bp):
TTTTTCTTTTTTTCTTTTTTTTCTTTCTTTCTGGA
Found at i:126761 original size:14 final size:14
Alignment explanation
Indices: 126727--126780 Score: 63
Period size: 14 Copynumber: 3.8 Consensus size: 14
126717 CATAAAAATA
* *
126727 CAAATGCAAAGATG
1 CAAATGTAAATATG
126741 CCAAATGTAAATATG
1 -CAAATGTAAATATG
*
126756 CAAATGTAAAAATG
1 CAAATGTAAATATG
*
126770 TAAATGTAAAT
1 CAAATGTAAAT
126781 TATTTAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
14 22 0.65
15 12 0.35
ACGTcount: A:0.52, C:0.09, G:0.15, T:0.24
Consensus pattern (14 bp):
CAAATGTAAATATG
Found at i:129013 original size:20 final size:19
Alignment explanation
Indices: 128974--129025 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
128964 TTTCTTTGAT
128974 ATTAAAAAATAAATAAATA
1 ATTAAAAAATAAATAAATA
* *
128993 ATTAAAACAATTAATATATA
1 ATTAAAA-AATAAATAAATA
*
129013 ATTTATAAAATAA
1 A-TTAAAAAATAA
129026 GATATTTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 15 0.56
21 5 0.19
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (19 bp):
ATTAAAAAATAAATAAATA
Found at i:129088 original size:120 final size:119
Alignment explanation
Indices: 128882--129111 Score: 277
Period size: 120 Copynumber: 1.9 Consensus size: 119
128872 AAATATATAT
* * * *
128882 ATTAATTTATATATTTATAAATAAAATATTTATTTATTTAGAAATATAAGAAAATGACTTCTAGG
1 ATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATAAGAAAATGACATCCAGG
* * *
128947 TGCCTTAAGACAGCTCTTTTCTTTGATATTAAAAAATAAATAAATAATTAAAACA
66 TACCTTAAGACAGCTCCTTTC-TTAATATTAAAAAATAAATAAATAATTAAAACA
* *
129002 ATTAATATATA-ATTTATAAAATAAGATATTTATTTATTTAAAAATATCAGAAAATGGACATCCA
1 ATTAATATATATATTTAT-AAATAAAATATTTATTTATTTAAAAATATAAGAAAAT-GACATCCA
* ** * *
129066 GTTATTTTAAGATTA-C-CCTTTCTTAATATTGAAAAATAAATAAATA
64 GGTACCTTAAGA-CAGCTCCTTTCTTAATATTAAAAAATAAATAAATA
129112 TATATTAAAA
Statistics
Matches: 93, Mismatches: 14, Indels: 7
0.82 0.12 0.06
Matches are distributed among these distances:
119 28 0.30
120 49 0.53
121 15 0.16
122 1 0.01
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.39
Consensus pattern (119 bp):
ATTAATATATATATTTATAAATAAAATATTTATTTATTTAAAAATATAAGAAAATGACATCCAGG
TACCTTAAGACAGCTCCTTTCTTAATATTAAAAAATAAATAAATAATTAAAACA
Found at i:129206 original size:18 final size:16
Alignment explanation
Indices: 129175--129209 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
129165 TAATAAACAA
129175 ATATTATTTATTATAT
1 ATATTATTTATTATAT
129191 ATATATATTTATT-TAT
1 ATAT-TATTTATTATAT
129207 ATA
1 ATA
129210 AATAATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 10 0.56
17 8 0.44
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
ATATTATTTATTATAT
Found at i:129225 original size:3 final size:3
Alignment explanation
Indices: 129210--129308 Score: 75
Period size: 3 Copynumber: 34.0 Consensus size: 3
129200 TATTTATATA
* *
129210 AAT AAT AAG AAT AAT AAT AAA AATT AAT AAT AAT AAT AA- AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT
* * *
129255 ATT ACA- AAT AAT AATT AAA AAT -AT AAT ATT AA- AAT AA- AA- AAT
1 AAT A-AT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
129297 AAA AAT AAT AAT
1 AAT AAT AAT AAT
129309 CAAAAATAAA
Statistics
Matches: 76, Mismatches: 12, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
2 11 0.14
3 60 0.79
4 5 0.07
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:129289 original size:26 final size:26
Alignment explanation
Indices: 129235--129308 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
129225 AATAAAAATT
129235 AATAATAATAATAAA-ATAATATTACA
1 AATAATAATAA-AAATATAATATTACA
129261 AATAATAATTAAAAATATAATATTA-A
1 AATAATAA-TAAAAATATAATATTACA
*
129287 AATAAAAAATAAAAATAATAAT
1 AAT-AATAATAAAAAT-ATAAT
129309 CAAAAATAAA
Statistics
Matches: 43, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
26 22 0.51
27 21 0.49
ACGTcount: A:0.69, C:0.01, G:0.00, T:0.30
Consensus pattern (26 bp):
AATAATAATAAAAATATAATATTACA
Found at i:129303 original size:39 final size:40
Alignment explanation
Indices: 129207--129316 Score: 127
Period size: 39 Copynumber: 2.7 Consensus size: 40
129197 ATTTATTTAT
* *
129207 ATAAATAATAAGAATAATAA-TAAAAAT-TAATAATAATA
1 ATAAAAAATAAAAATAATAATTAAAAATATAATAATAATA
*
129245 ATAAAATAATATTACAAATAATAATTAAAAATATAATATTAA-A
1 ATAAAA-AATA--A-AAATAATAATTAAAAATATAATAATAATA
*
129288 ATAAAAAATAAAAATAATAATCAAAAATA
1 ATAAAAAATAAAAATAATAATTAAAAATA
129317 AAATTTGAAT
Statistics
Matches: 62, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
38 5 0.08
39 21 0.34
40 1 0.02
41 1 0.02
42 12 0.19
43 14 0.23
44 8 0.13
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (40 bp):
ATAAAAAATAAAAATAATAATTAAAAATATAATAATAATA
Found at i:129316 original size:13 final size:12
Alignment explanation
Indices: 129210--129317 Score: 86
Period size: 12 Copynumber: 9.2 Consensus size: 12
129200 TATTTATATA
*
129210 AATAATAAGAAT
1 AATAATAAAAAT
129222 AATAATAAAAAT
1 AATAATAAAAAT
129234 --TAAT---AAT
1 AATAATAAAAAT
129241 AATAAT-AAAAT
1 AATAATAAAAAT
* *
129252 AATATTACAAAT
1 AATAATAAAAAT
129264 AATAATTAAAAAT
1 AATAA-TAAAAAT
129277 -ATAATATTAAAAT
1 AATAATA--AAAAT
*
129290 AAAAAATAAAAAT
1 -AATAATAAAAAT
129303 AATAATCAAAAAT
1 AATAAT-AAAAAT
129316 AA
1 AA
129318 AATTTGAATG
Statistics
Matches: 78, Mismatches: 7, Indels: 21
0.74 0.07 0.20
Matches are distributed among these distances:
7 3 0.04
9 4 0.05
10 4 0.05
11 10 0.13
12 28 0.36
13 24 0.31
15 5 0.06
ACGTcount: A:0.69, C:0.02, G:0.01, T:0.28
Consensus pattern (12 bp):
AATAATAAAAAT
Found at i:129482 original size:2 final size:2
Alignment explanation
Indices: 129475--129499 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
129465 ATTTACCTAA
129475 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
129500 CCTATAAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:130521 original size:3 final size:3
Alignment explanation
Indices: 130515--130586 Score: 94
Period size: 3 Copynumber: 24.0 Consensus size: 3
130505 ATTATTTTTT
*
130515 TAA TAA TAA TAA TAA T-A TATA TAA TAA T-A TATA TAA TAA TTA TAA
1 TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TA-A TAA TAA TAA TAA
*
130560 TAA TAA TTA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
130587 ATAAATAAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 8
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.07
3 51 0.84
4 6 0.10
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:131720 original size:19 final size:19
Alignment explanation
Indices: 131692--131740 Score: 73
Period size: 19 Copynumber: 2.6 Consensus size: 19
131682 AAATGCATGG
131692 TTAA-TTTGTATAAGATTT
1 TTAATTTTGTATAAGATTT
*
131710 TTAATTTTGTATACGATTT
1 TTAATTTTGTATAAGATTT
*
131729 ATAATTTTGTAT
1 TTAATTTTGTAT
131741 GTGAATGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
18 4 0.14
19 24 0.86
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TTAATTTTGTATAAGATTT
Found at i:132504 original size:199 final size:199
Alignment explanation
Indices: 132084--133176 Score: 1817
Period size: 199 Copynumber: 5.5 Consensus size: 199
132074 AGGTAAACTT
* * * *
132084 AAGTGTTGATACATTTATAACAAGTGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTCA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* *
132149 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGCTTTTAAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
*
132214 --T------AAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTTAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
132271 TAAA
196 TAAA
132275 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
132340 TAGGTAAATTAGCAATATAACTGGTCTAAATACACCAGTTTTTGAGAAAACAGGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
132405 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
132470 TAAA
196 TAAA
* *
132474 AAATGTCGATACATTTGTAACAAGTGTCGATCCCAAAAATATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * * * *
132539 TAGGTAAATTATTC-ATGTAAACGGTATAAATATACCAGTTTTTGAGAAAACAGGTGTACAAAAA
66 TAGGTAAATTA-GCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAA
* *
132603 GTATCGACACAAATAGAAAAAGTGTCGATACTTTTTGTCCAGAATGTATTTAAAAAACAAGTGCC
130 GTATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCC
132668 CTAAA
195 CTAAA
* * *
132673 AAGTGTCGATATATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACTATAATTATAATGTCA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
132738 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACATGTGTACAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
132803 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
132868 TAAA
196 TAAA
*
132872 AAGTGTCGATACATTTGTAACAAGTGTTGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
* * *
132937 TAGGTAAATTAGCAATATAACCGATCTAAATATACTGGTTTTTGAGAAAACAGGTGTAAAAAAAG
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
* *
133002 TATCGACACAAATAGAACAAGTGTCGAAACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCCC
131 TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
133067 TAAA
196 TAAA
* * *
133071 ATGTGTCGATATATTTGTAACAAGTGTCGATCCCAAAAACATTGAAAACCATAATTATAATGTAA
1 AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
*
133136 TAGGTAAATTAGTAATATAACCGGTCTAAATATACCGGTTT
66 TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTT
133177 AAATTGAAAA
Statistics
Matches: 842, Mismatches: 50, Indels: 12
0.93 0.06 0.01
Matches are distributed among these distances:
191 121 0.14
193 1 0.00
198 1 0.00
199 718 0.85
200 1 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
AAGTGTCGATACATTTGTAACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAA
TAGGTAAATTAGCAATATAACCGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAG
TATCGACACAAATAGAACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCC
TAAA
Found at i:133544 original size:15 final size:15
Alignment explanation
Indices: 133524--133567 Score: 70
Period size: 15 Copynumber: 2.9 Consensus size: 15
133514 TCTTTCTCAA
133524 ATCTCTTCTCAACCC
1 ATCTCTTCTCAACCC
*
133539 ATCTCTTCCCAACCC
1 ATCTCTTCTCAACCC
*
133554 AGCTCTTCTCAACC
1 ATCTCTTCTCAACC
133568 ACAACCTCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.20, C:0.48, G:0.02, T:0.30
Consensus pattern (15 bp):
ATCTCTTCTCAACCC
Found at i:133910 original size:2 final size:2
Alignment explanation
Indices: 133903--133936 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
133893 ATGGGGAATG
133903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
133937 CTGGAAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:136554 original size:199 final size:199
Alignment explanation
Indices: 136180--137609 Score: 2206
Period size: 199 Copynumber: 7.2 Consensus size: 199
136170 ACACAAATAA
* *
136180 AACAAGTGTCGATCCCGAAAACATCGAAAAACATAATTATAATGTAATAGGTAAATTATTCATGT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
* *
136245 AAAAGGTCTAAATATACCGGTTTTTTGAGAAAACATGTGTACAAAAAGTATTGACACAAATAGAA
66 AAAAGGTCTAAATATACCGG-TTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAA
136310 CAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACA
130 CAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACA
136375 TTTAT
195 TTTAT
* *
136380 AACAAGTGTCGATCACAAAATCATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
*
136445 AAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTAAAAAAAGTATCGACACAAATAGAAC
66 AAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAAC
136510 AAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
131 AAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
136575 TTAT
196 TTAT
* * *
136579 AACAAGTGTCGATCACAAAAATATCGAAAACCATAATTATAATGTAATGGGTAAATTATTCATGT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
* * *
136644 AAAAGGTTTAAATATACCGGTTTTTGAGAAGACAGGTGTA-AAAAAGTATCGACACAAATGGAAC
66 AAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAAC
* * *
136708 AAGTGTCGATACTTTTTTTCCAGAATGTATTTAAAAAACAAGTACCCTAAAAAGTGTCGATACAT
131 AAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
136773 TTAT
196 TTAT
*
136777 AACAAGTGTCGATCACAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
* * *
136842 AAACGGTCTAAATATACCGGTTTTTGAGAAAATACGTGTACAAAAAGTATCGACACAAATAGAAC
66 AAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAAC
* * *
136907 AAGTGTCGATACTTTTTGTCCATAATGTATTTAAAAAACAAGTACCCTAAAAAGTGTCGATACAT
131 AAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
136972 TTAT
196 TTAT
*
136976 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTTATGT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
* * * *
137041 AAACGGTCTAAATATATCGATTTTTGAGAAAACATGTGTACAAAAAGTATCGACACAAATAGAAC
66 AAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAAC
* *
137106 AAATGTCGATACTTTTTGTCTAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
131 AAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
*
137171 TTGT
196 TTAT
* * *
137175 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATATAATAGGTAAATTA-ACA-AT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
* * * * * *
137238 ACAAACGGTCTAAATGTATCGGTTTTTGAGAAAACATGTGTACAAACAGTTTCGACACAAATGGA
66 A-AAA-GGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGA
* * *
137303 ACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCAC-AACAAAGTTTCGATA
129 ACAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAA-AAAGTGTCGATA
137367 CATTTAT
193 CATTTAT
* * *
137374 AACAATTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTA-ACAATA
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTC-ATG
** ** * * * *
137438 TAACCGGTCTAAATATACCAATTTTTGAGAAAACAGGTGTACAAACAGTATCAATACAAATGGAA
65 TAAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAA
* * * *
137503 CAAGTGTCAATACTTTTTGTCCAGAATGTATTTCAAAACCAAGTGCAC-AACAAAGTTTCGATAC
130 CAAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAA-AAAGTGTCGATAC
*
137567 ATTTTT
194 ATTTAT
* * *
137573 AATAATTGTCGATCCCAAAAACATCGAAAAACATAAT
1 AACAAGTGTCGATCCCAAAAACATCGAAAACCATAAT
137610 AATTATAACC
Statistics
Matches: 1154, Mismatches: 70, Indels: 13
0.93 0.06 0.01
Matches are distributed among these distances:
197 2 0.00
198 192 0.17
199 874 0.76
200 83 0.07
201 3 0.00
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.28
Consensus pattern (199 bp):
AACAAGTGTCGATCCCAAAAACATCGAAAACCATAATTATAATGTAATAGGTAAATTATTCATGT
AAAAGGTCTAAATATACCGGTTTTTGAGAAAACAGGTGTACAAAAAGTATCGACACAAATAGAAC
AAGTGTCGATACTTTTTGTCCAGAATGTATTTCAAAAACAAGTGCCCTAAAAAGTGTCGATACAT
TTAT
Found at i:138399 original size:218 final size:218
Alignment explanation
Indices: 138021--138460 Score: 862
Period size: 218 Copynumber: 2.0 Consensus size: 218
138011 TTGCCATTTG
*
138021 TATTATTTCTTGAGGTACATTCAAATCAACAAAATTGGGTGTAGAAGCCTTCGCATCCTTAGTCC
1 TATTATTTCTTGAGGTACATTCAAATCAACAAAATTGGGTATAGAAGCCTTCGCATCCTTAGTCC
138086 ACCTACTTTGAATCAAAGACCCGGGCAAATATATGTAATCCAAGTGCTTCAAAACGTGAAGTTGA
66 ACCTACTTTGAATCAAAGACCCGGGCAAATATATGTAATCCAAGTGCTTCAAAACGTGAAGTTGA
138151 TGGCGAGATGGATGTCCAACGGTCTCGAATTTTTTGCATGAGTAATTTAGAGTTTCCGTACGAGA
131 TGGCGAGATGGATGTCCAACGGTCTCGAATTTTTTGCATGAGTAATTTAGAGTTTCCGTACGAGA
138216 ATCAAAACTAATTTCAAATGTCC
196 ATCAAAACTAATTTCAAATGTCC
138239 TATTATTTCTTGAGGTACATTCAAATCAACAAAATTGGGTATAGAAGCCTTCGCATCCTTAGTCC
1 TATTATTTCTTGAGGTACATTCAAATCAACAAAATTGGGTATAGAAGCCTTCGCATCCTTAGTCC
*
138304 ACCTACTTTGAATCAAAGACCCGGGCAAATATATGTAATCCAAGTGCTTCAAAATGTGAAGTTGA
66 ACCTACTTTGAATCAAAGACCCGGGCAAATATATGTAATCCAAGTGCTTCAAAACGTGAAGTTGA
138369 TGGCGAGATGGATGTCCAACGGTCTCGAATTTTTTGCATGAGTAATTTAGAGTTTCCGTACGAGA
131 TGGCGAGATGGATGTCCAACGGTCTCGAATTTTTTGCATGAGTAATTTAGAGTTTCCGTACGAGA
138434 ATCAAAACTAATTTCAAATGTCC
196 ATCAAAACTAATTTCAAATGTCC
138457 TATT
1 TATT
138461 TTTTTCTTTG
Statistics
Matches: 220, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
218 220 1.00
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.31
Consensus pattern (218 bp):
TATTATTTCTTGAGGTACATTCAAATCAACAAAATTGGGTATAGAAGCCTTCGCATCCTTAGTCC
ACCTACTTTGAATCAAAGACCCGGGCAAATATATGTAATCCAAGTGCTTCAAAACGTGAAGTTGA
TGGCGAGATGGATGTCCAACGGTCTCGAATTTTTTGCATGAGTAATTTAGAGTTTCCGTACGAGA
ATCAAAACTAATTTCAAATGTCC
Found at i:140888 original size:182 final size:182
Alignment explanation
Indices: 140645--141092 Score: 670
Period size: 182 Copynumber: 2.5 Consensus size: 182
140635 ATATGTTGAT
* * *
140645 AGTTTCGATACTTTATAAAAATGTATTGATCCATAACAATAAAATATGTCAAAAA-ATGACAAAA
1 AGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT-AAAAATATGACAAAA
* * *
140709 -CTGGTCTATAAATGACAAAA-CAGGTAAAGCGCTACCGGATATGTTGATAGTGTCGATAATTTA
65 TC-GGTCTAGAAATGACAAAACCA-GTAAAGAGCTACCGGATATGTTGATAGTATCGATAATTTA
* * * * *
140772 TTAT-AGATATCGACACTTTTGGAATTTAAAAGAGAATAAGTTATAGCGCTAATAA
128 CTATAAG-TATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
*
140827 AGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAATATGACAAAAT
1 AGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
* *
140892 CGGTCTCGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTATCGATACTTTACTA
66 CGGTCTAGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTATCGATAATTTACTA
140957 TAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
131 TAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
* *
141009 AGTGTCGATACTTTATAAAAATATATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
1 AGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
* *
141074 CGATCTCGAAATGACAAAA
66 CGGTCTAGAAATGACAAAA
141093 TCGGTAGTAA
Statistics
Matches: 244, Mismatches: 18, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
181 5 0.02
182 234 0.96
183 5 0.02
ACGTcount: A:0.44, C:0.13, G:0.15, T:0.28
Consensus pattern (182 bp):
AGTTTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAAATATGACAAAAT
CGGTCTAGAAATGACAAAACCAGTAAAGAGCTACCGGATATGTTGATAGTATCGATAATTTACTA
TAAGTATCGACACTTTTAGAATTTAAAAGAAAAGAAGTTATAGCGCCAATAA
Found at i:141545 original size:23 final size:23
Alignment explanation
Indices: 141519--141566 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
141509 AAATATGTCA
*
141519 ATATAAGCGCTACCTATTATATT
1 ATATAAGCGCTACCTAATATATT
141542 ATATAAGCGCTACCTAATATATT
1 ATATAAGCGCTACCTAATATATT
141565 AT
1 AT
141567 TGTACTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (23 bp):
ATATAAGCGCTACCTAATATATT
Found at i:142191 original size:219 final size:219
Alignment explanation
Indices: 141812--142253 Score: 884
Period size: 219 Copynumber: 2.0 Consensus size: 219
141802 ATTAATATCA
141812 TAGTAAAACATCAACCAATATATACTCTTAAGTTTTGAGTGTACTGGCACAAATACATTGGTATT
1 TAGTAAAACATCAACCAATATATACTCTTAAGTTTTGAGTGTACTGGCACAAATACATTGGTATT
141877 CCTATTTGGAACAGAAGTTGTGACAAAGGCTTGCTTGAAGAAACATTAAGACTGTAATGGTTGCT
66 CCTATTTGGAACAGAAGTTGTGACAAAGGCTTGCTTGAAGAAACATTAAGACTGTAATGGTTGCT
141942 CGCTGCTTCATTGTTTGTATACTTAGAGTTGGATATATTAATTTTAATCTCAATTATAGGATCTG
131 CGCTGCTTCATTGTTTGTATACTTAGAGTTGGATATATTAATTTTAATCTCAATTATAGGATCTG
142007 GTTAATTACTTTTTAAAATAATTT
196 GTTAATTACTTTTTAAAATAATTT
142031 TAGTAAAACATCAACCAATATATACTCTTAAGTTTTGAGTGTACTGGCACAAATACATTGGTATT
1 TAGTAAAACATCAACCAATATATACTCTTAAGTTTTGAGTGTACTGGCACAAATACATTGGTATT
142096 CCTATTTGGAACAGAAGTTGTGACAAAGGCTTGCTTGAAGAAACATTAAGACTGTAATGGTTGCT
66 CCTATTTGGAACAGAAGTTGTGACAAAGGCTTGCTTGAAGAAACATTAAGACTGTAATGGTTGCT
142161 CGCTGCTTCATTGTTTGTATACTTAGAGTTGGATATATTAATTTTAATCTCAATTATAGGATCTG
131 CGCTGCTTCATTGTTTGTATACTTAGAGTTGGATATATTAATTTTAATCTCAATTATAGGATCTG
142226 GTTAATTACTTTTTAAAATAATTT
196 GTTAATTACTTTTTAAAATAATTT
142250 TAGT
1 TAGT
142254 CTGAAATGAT
Statistics
Matches: 223, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
219 223 1.00
ACGTcount: A:0.32, C:0.13, G:0.17, T:0.38
Consensus pattern (219 bp):
TAGTAAAACATCAACCAATATATACTCTTAAGTTTTGAGTGTACTGGCACAAATACATTGGTATT
CCTATTTGGAACAGAAGTTGTGACAAAGGCTTGCTTGAAGAAACATTAAGACTGTAATGGTTGCT
CGCTGCTTCATTGTTTGTATACTTAGAGTTGGATATATTAATTTTAATCTCAATTATAGGATCTG
GTTAATTACTTTTTAAAATAATTT
Found at i:144561 original size:60 final size:59
Alignment explanation
Indices: 144429--144567 Score: 154
Period size: 60 Copynumber: 2.3 Consensus size: 59
144419 TAAATATTTT
*** * **
144429 AATTTCATCCCTAAACTATGAATATCATTCTAAATTAGTCTTTACACTTTTGAACATTTG
1 AATTTCATCCC-AAACTATGAATATCATTCTAAATTAGTCCCCAAACTTTTGAACATTCC
* *
144489 AATTTCATTCCCAAACTATGACCT-TCATTCTAAATTAGTCCCCAAACATTTTTAACATTCC
1 AATTTCA-TCCCAAACTATGA-ATATCATTCTAAATTAGTCCCCAAAC-TTTTGAACATTCC
*
144550 AATTTTATCCCAAACTAT
1 AATTTCATCCCAAACTAT
144568 ACGTATATAC
Statistics
Matches: 67, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
60 46 0.69
61 21 0.31
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.39
Consensus pattern (59 bp):
AATTTCATCCCAAACTATGAATATCATTCTAAATTAGTCCCCAAACTTTTGAACATTCC
Found at i:148241 original size:19 final size:19
Alignment explanation
Indices: 148217--148262 Score: 92
Period size: 19 Copynumber: 2.4 Consensus size: 19
148207 TTTTGTGTAC
148217 CGATGCACATACCATGCAT
1 CGATGCACATACCATGCAT
148236 CGATGCACATACCATGCAT
1 CGATGCACATACCATGCAT
148255 CGATGCAC
1 CGATGCAC
148263 TCCTGGCTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.30, C:0.33, G:0.17, T:0.20
Consensus pattern (19 bp):
CGATGCACATACCATGCAT
Found at i:154077 original size:44 final size:44
Alignment explanation
Indices: 154006--154107 Score: 163
Period size: 44 Copynumber: 2.4 Consensus size: 44
153996 TTGTGCAAAG
154006 TGCA-CGATACACTA-GAAAGTGTACCGATGCATCCCTTGAATA
1 TGCATCGATACACTATGAAAGTGTACCGATGCATCCCTTGAATA
* * *
154048 TGCATCGATACACTATGAAGGTGTACCGATGCATTCCTTGAATG
1 TGCATCGATACACTATGAAAGTGTACCGATGCATCCCTTGAATA
154092 TGCATCGATACACTAT
1 TGCATCGATACACTAT
154108 ACATGCATCA
Statistics
Matches: 55, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
42 4 0.07
43 10 0.18
44 41 0.75
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGTACCGATGCATCCCTTGAATA
Found at i:154100 original size:23 final size:22
Alignment explanation
Indices: 154030--154100 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 22
154020 GAAAGTGTAC
*
154030 CGATGCATCCCTTGAATATGCAT
1 CGATGCAT-CCTTGAATGTGCAT
* * * *
154053 CGATACA--CTATGAAGGTGTAC
1 CGATGCATCCT-TGAATGTGCAT
154074 CGATGCATTCCTTGAATGTGCAT
1 CGATGCA-TCCTTGAATGTGCAT
154097 CGAT
1 CGAT
154101 ACACTATACA
Statistics
Matches: 35, Mismatches: 9, Indels: 8
0.67 0.17 0.15
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
23 18 0.51
24 2 0.06
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.30
Consensus pattern (22 bp):
CGATGCATCCTTGAATGTGCAT
Done.