Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007737.1 Hibiscus syriacus cultivar Beakdansim tig00109996_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: 120719
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.32
Found at i:3577 original size:36 final size:36
Alignment explanation
Indices: 3531--3762 Score: 306
Period size: 36 Copynumber: 6.4 Consensus size: 36
3521 AGCAAAGTCA
* *
3531 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAAACC
*
3567 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
3603 ATCCT-AAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 AT-CTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
3639 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
*
3675 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
** * * **
3711 ATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
3747 ATCTTAAGTCTTCACC
1 ATCTGAAGCCTTCACC
3763 AAAAAGTAGT
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
35 3 0.02
36 170 0.97
37 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (36 bp):
ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
Found at i:3725 original size:108 final size:108
Alignment explanation
Indices: 3531--3778 Score: 356
Period size: 108 Copynumber: 2.3 Consensus size: 108
3521 AGCAAAGTCA
*
3531 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGAA
*
3596 GCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
66 GCAAACCATCCTAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * *
3639 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAATCTGAAGCCTTCACTGGAGAATAGTGA
1 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGA
* **
3703 AGCAAACCATCAC-AAGTCTTCACCAGAGGGTAGTGAAGCAAACC
65 AGCAAACCATC-CTAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
3747 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCA
3779 GATCCATTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 121 0.98
109 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGAA
GCAAACCATCCTAAGCCTTCACCAGAGAATAGTGAAGCAAACC
Found at i:3772 original size:36 final size:35
Alignment explanation
Indices: 3531--3796 Score: 273
Period size: 36 Copynumber: 7.4 Consensus size: 35
3521 AGCAAAGTCA
3531 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACCG-AGA-ATAGTGAAGCAAACC
* *
3567 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCAC-CGAGAATAGTGAAGCAAACC
*
3603 ATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* * *
3639 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* *
3675 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCAC-CGAGAATAGTGAAGCAAACC
** * **
3711 ATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* * * *
3747 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCAGATCC
1 ATCTTAAGCCTTCACCGAGAA-TAGTGAAGCA-AACC
* *
3784 ATTTTAAGTCTTC
1 ATCTTAAGCCTTC
3797 TCATAAGAGT
Statistics
Matches: 197, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.01
36 179 0.91
37 16 0.08
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (35 bp):
ATCTTAAGCCTTCACCGAGAATAGTGAAGCAAACC
Found at i:4343 original size:36 final size:36
Alignment explanation
Indices: 4297--4528 Score: 306
Period size: 36 Copynumber: 6.4 Consensus size: 36
4287 AGCAAAGTCA
* *
4297 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAAACC
*
4333 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
4369 ATCCT-AAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 AT-CTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
4405 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
*
4441 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
** * * **
4477 ATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
4513 ATCTTAAGTCTTCACC
1 ATCTGAAGCCTTCACC
4529 AAAAAGTAGT
Statistics
Matches: 175, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
35 3 0.02
36 170 0.97
37 2 0.01
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (36 bp):
ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
Found at i:4491 original size:108 final size:108
Alignment explanation
Indices: 4297--4544 Score: 356
Period size: 108 Copynumber: 2.3 Consensus size: 108
4287 AGCAAAGTCA
*
4297 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGAA
*
4362 GCAAACCATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
66 GCAAACCATCCTAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * *
4405 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAATCTGAAGCCTTCACTGGAGAATAGTGA
1 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGA
* **
4469 AGCAAACCATCAC-AAGTCTTCACCAGAGGGTAGTGAAGCAAACC
65 AGCAAACCATC-CTAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * *
4513 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCA
4545 GATCCATTTT
Statistics
Matches: 123, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 121 0.98
109 1 0.01
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.19
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGAA
GCAAACCATCCTAAGCCTTCACCAGAGAATAGTGAAGCAAACC
Found at i:4538 original size:36 final size:35
Alignment explanation
Indices: 4297--4562 Score: 273
Period size: 36 Copynumber: 7.4 Consensus size: 35
4287 AGCAAAGTCA
4297 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACCG-AGA-ATAGTGAAGCAAACC
* *
4333 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCAC-CGAGAATAGTGAAGCAAACC
*
4369 ATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* * *
4405 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* *
4441 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCAC-CGAGAATAGTGAAGCAAACC
** * **
4477 ATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* * * *
4513 ATCTTAAGTCTTCACCAAAAAGTAGTGAAGCAGATCC
1 ATCTTAAGCCTTCACCGAGAA-TAGTGAAGCA-AACC
* *
4550 ATTTTAAGTCTTC
1 ATCTTAAGCCTTC
4563 TCATAAGAGT
Statistics
Matches: 197, Mismatches: 26, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.01
36 179 0.91
37 16 0.08
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (35 bp):
ATCTTAAGCCTTCACCGAGAATAGTGAAGCAAACC
Found at i:5049 original size:50 final size:51
Alignment explanation
Indices: 4944--5497 Score: 711
Period size: 51 Copynumber: 10.8 Consensus size: 51
4934 AAGATTATTT
* * * * *
4944 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * * * * *
4995 GAGTTCCATACTCCCTAGAG-AAGAAGGATCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
5045 GAGTTCTATACTCCTTAAAGAAAGAA-GAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
5095 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * * * *
5147 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
5199 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * *
5250 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
5301 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
5352 GAGTTCTATACTCCTT-AAGAAAGAATGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * *
5402 GAGTTCTATACTCCTTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAATATGTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATGT-TC
* * * * * *
5455 AGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
1 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTG
5498 TTGAAGATTG
Statistics
Matches: 446, Mismatches: 47, Indels: 17
0.87 0.09 0.03
Matches are distributed among these distances:
50 136 0.30
51 223 0.50
52 6 0.01
53 45 0.10
54 36 0.08
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:5129 original size:101 final size:102
Alignment explanation
Indices: 4944--5497 Score: 745
Period size: 101 Copynumber: 5.4 Consensus size: 102
4934 AAGATTATTT
* * *
4944 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCCGAGTTCCATACTCC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
* * * *
5009 CTAGAG-AAGAAGGATCGAACCCGTGTGAAGATATGC
66 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
* * * * *
5045 GAGTTCTATACTCCTTAAAGAAAGA-AGAGCGAACCCGTTTAAAGATGTTCGAGTTCCATACTCC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
*
5109 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGAGATGTC
66 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATG-C
* * * *
5147 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGCGAGTTCTATACTC
1 -GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTC
* * *
5212 CTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
65 CTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
* *
5250 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATGTTCGAGTTCTATACTCC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
* *
5315 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
66 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
* * **
5352 GAGTTCTATACT-CCTTAAGAAAGAATGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
1 GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
* *
5416 TTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAATATGTC
66 TTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATATG-C
* * *
5455 AGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
1 -GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTG
5498 TTGAAGATTG
Statistics
Matches: 399, Mismatches: 46, Indels: 12
0.87 0.10 0.03
Matches are distributed among these distances:
100 40 0.10
101 125 0.31
102 111 0.28
103 24 0.06
104 76 0.19
105 23 0.06
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (102 bp):
GAGTTCCATACTCCCTAAAGAAAGAGGGAGCGAACCCGTTTGAAGATGTTCGAGTTCTATACTCC
TTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATATGC
Found at i:5662 original size:55 final size:53
Alignment explanation
Indices: 5474--5807 Score: 340
Period size: 53 Copynumber: 6.2 Consensus size: 53
5464 TACTCCCTAG
* *
5474 AGAAATAGGGAGC-GA-ACCCATTTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACA-CGA-TTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* *
5527 AGAAATAGGGAGCAGACACGATCGTTGAAGATTGTGGGTCTTATA--CTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * * *
5578 AGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * *
5633 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGG
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
5686 AGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * * *
5741 AGGAATAAGGAGCAGACACG-TT-TTCAAAAGATTTTCGAGT-TCTATACTCCCTGA
1 AGAAATAGGGAGCAGACACGATTGTT--GAAGATTGT-GAGTCT-TATACTCTCTGA
*
5795 AGAAAGAGGGAGC
1 AGAAATAGGGAGC
5808 GAACCCGTAG
Statistics
Matches: 240, Mismatches: 30, Indels: 21
0.82 0.10 0.07
Matches are distributed among these distances:
51 36 0.15
52 1 0.00
53 95 0.40
54 34 0.14
55 74 0.31
ACGTcount: A:0.31, C:0.15, G:0.28, T:0.27
Consensus pattern (53 bp):
AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
Found at i:5772 original size:108 final size:106
Alignment explanation
Indices: 5463--5806 Score: 346
Period size: 108 Copynumber: 3.2 Consensus size: 106
5453 TCAGAGTTCC
* *
5463 ATACTCCCT-AGAGAAATAGGGAGCGAACCC-ATTTGTTGAAGATTG-T-GGGTCTTATACTCTC
1 ATACTCCCTGA-AGAAATAGGGAGAG-ACCCGA-TTGTTGAAGATTGTTCGAGTCTTATACTCTC
* *
5524 TGAAGAAATAGGGAGCAGACACG-ATCGTTGAAGATTGTGGGTCTT
63 TGAAGAAATAGGGAGCAGACACGTAT--TAGAAGATTGTGAGTCTT
* * * *
5569 ATACT--CTGAAGATATAGGGGGGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTG
1 ATACTCCCTGAAGAAATA-GGGAGAGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* *
5632 AAGAAATAGGGGGCAGACGCG-ATTGATGAAGATTGTGAGTCTT
65 AAGAAATAGGGAGCAGACACGTATT-A-GAAGATTGTGAGTCTT
* * *
5675 ATACTCTCTGGAGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTG
1 ATACTCCCTGAAGAAATAGGGAG-AGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTG
* * * * *
5740 AAGGAATAAGGAGCAGACACGTTTTCAAAAGATTTTCGAGT-TCT
65 AAGAAATAGGGAGCAGACACGTATT-AGAAGATTGT-GAGTCT-T
*
5784 ATACTCCCTGAAGAAAGAGGGAG
1 ATACTCCCTGAAGAAATAGGGAG
5807 CGAACCCGTA
Statistics
Matches: 198, Mismatches: 27, Indels: 23
0.80 0.11 0.09
Matches are distributed among these distances:
104 24 0.12
105 8 0.04
106 62 0.31
107 4 0.02
108 72 0.36
109 28 0.14
ACGTcount: A:0.31, C:0.15, G:0.27, T:0.27
Consensus pattern (106 bp):
ATACTCCCTGAAGAAATAGGGAGAGACCCGATTGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
AGAAATAGGGAGCAGACACGTATTAGAAGATTGTGAGTCTT
Found at i:15322 original size:108 final size:108
Alignment explanation
Indices: 15187--15434 Score: 347
Period size: 108 Copynumber: 2.3 Consensus size: 108
15177 AGCAAAGTCA
*
15187 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACCATCTGAAGCCTTCACTGGAGAATAGTGAA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGAA
*
15252 GCAAACCATC-CTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
66 GCAAACCATCAC-AAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * *
15295 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAATCAATCTGAAGCCTTCACTGGAGAATAGTGA
1 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGA
* **
15359 AGCAAACCATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
65 AGCAAACCATCACAAGCCTTCACCAGAGAATAGTGAAGCAAACC
* * * * *
15403 ATATTAAGTCTTCACCAAAAAGTAGTGAAGCA
1 ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCA
15435 GATCCATTTT
Statistics
Matches: 122, Mismatches: 15, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
107 1 0.01
108 120 0.98
109 1 0.01
ACGTcount: A:0.38, C:0.23, G:0.21, T:0.19
Consensus pattern (108 bp):
ATCTTAAGCCTTCACCGAAGAGAAGTGAAGCAAACAATCTGAAGCCTTCACTGGAGAATAGTGAA
GCAAACCATCACAAGCCTTCACCAGAGAATAGTGAAGCAAACC
Found at i:15419 original size:36 final size:36
Alignment explanation
Indices: 15187--15418 Score: 297
Period size: 36 Copynumber: 6.4 Consensus size: 36
15177 AGCAAAGTCA
* *
15187 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGA-ATAGTGAAGCAAACC
*
15223 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
15259 ATCCT-AAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 AT-CTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* *
15295 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
*
15331 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
** * * **
15367 ATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
1 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
* * *
15403 ATATTAAGTCTTCACC
1 ATCTGAAGCCTTCACC
15419 AAAAAGTAGT
Statistics
Matches: 174, Mismatches: 19, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
35 3 0.02
36 169 0.97
37 2 0.01
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.19
Consensus pattern (36 bp):
ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAAACC
Found at i:15428 original size:36 final size:35
Alignment explanation
Indices: 15187--15452 Score: 264
Period size: 36 Copynumber: 7.4 Consensus size: 35
15177 AGCAAAGTCA
15187 ATCTTAAGCCTTCACCGAAGAGA-AGTGAAGCAAACC
1 ATCTTAAGCCTTCACCG-AGA-ATAGTGAAGCAAACC
* *
15223 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCAC-CGAGAATAGTGAAGCAAACC
*
15259 ATCCTAAGCCTTCACCGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* * *
15295 ATCTGAAGCCTTCACCGGAGAATAGTGAAGCAATCA
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* *
15331 ATCTGAAGCCTTCACTGGAGAATAGTGAAGCAAACC
1 ATCTTAAGCCTTCAC-CGAGAATAGTGAAGCAAACC
** * **
15367 ATCACAAGTCTTCACCAGAGGGTAGTGAAGCAAACC
1 ATCTTAAGCCTTCACC-GAGAATAGTGAAGCAAACC
* * * * *
15403 ATATTAAGTCTTCACCAAAAAGTAGTGAAGCAGATCC
1 ATCTTAAGCCTTCACCGAGAA-TAGTGAAGCA-AACC
* *
15440 ATTTTAAGTCTTC
1 ATCTTAAGCCTTC
15453 TCATAAGAGT
Statistics
Matches: 196, Mismatches: 27, Indels: 13
0.83 0.11 0.06
Matches are distributed among these distances:
35 2 0.01
36 178 0.91
37 16 0.08
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (35 bp):
ATCTTAAGCCTTCACCGAGAATAGTGAAGCAAACC
Found at i:15890 original size:51 final size:51
Alignment explanation
Indices: 15834--16390 Score: 738
Period size: 51 Copynumber: 10.8 Consensus size: 51
15824 AAGATTATTT
* * * * *
15834 GAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTTTGAAGATGTCC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * * * * * *
15885 GAGTTCCATACTCCCTAGAGAAAGAAGGATCGAACCCGTGTGAAGATATGC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
15936 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
15987 GAGTTCCATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGA-GATGTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATG-T-TC
* * * * * * *
16039 TGAGTTCCATACTCCCTAGAGAAAGAGGGAGCGAACCCGTGTGAAGATATGC
1 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
16091 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTAAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * *
16142 GAGTTCTATACTCCCTAAAGAAAGAGGGAGCGAACCCATTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
16193 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
*
16244 GAGTTCTATACTCCTTAAAGAAAGAATGAGCGAACCCGTTTGAAGATGTTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
* * *
16295 GAGTTCTATACTCCTTAAAGAAGGAGGGAGCGAACCCGTTTGAAGAATATGTC
1 GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAG-ATGT-TC
* * * * * *
16348 AGAGTTCCATACTCCCTAGAGAAATAGGGAGCGAACCCATTTG
1 -GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTG
16391 TTGAAGATTG
Statistics
Matches: 452, Mismatches: 47, Indels: 11
0.89 0.09 0.02
Matches are distributed among these distances:
50 1 0.00
51 364 0.81
52 6 0.01
53 45 0.10
54 36 0.08
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (51 bp):
GAGTTCTATACTCCTTAAAGAAAGAAGGAGCGAACCCGTTTGAAGATGTTC
Found at i:16426 original size:53 final size:53
Alignment explanation
Indices: 16367--16701 Score: 358
Period size: 53 Copynumber: 6.2 Consensus size: 53
16357 TACTCCCTAG
* *
16367 AGAAATAGGGAGC-GA-ACCCATTTGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACA-CGA-TTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* *
16420 AGAAATAGGGAGCAGACACGATCGTTGAAGATTGTGGGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
16473 AGATATAGGG-GGAGACACGATAGTTGAAGATTGTTCGAGTCTTATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * *
16527 AGAAATAGGGGGCAGACGCGATTGATGAAGATTGTGAGTCTTATACTCTCTGG
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
* * *
16580 AGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGA
1 AGAAATAGGGAGCAGACACGATTGTTGAAGATTG-T-GAGTCTTATACTCTCTGA
* * * * *
16635 AGGAATAAGGAGCAGACACG-TT-TTCAAAAGATTTTCGAGT-TCTATACTCCCTGA
1 AGAAATAGGGAGCAGACACGATTGTT--GAAGATTGT-GAGTCT-TATACTCTCTGA
*
16689 AGAAAGAGGGAGC
1 AGAAATAGGGAGC
16702 GAACCCGTAG
Statistics
Matches: 243, Mismatches: 29, Indels: 19
0.84 0.10 0.07
Matches are distributed among these distances:
52 21 0.09
53 104 0.43
54 60 0.25
55 58 0.24
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.27
Consensus pattern (53 bp):
AGAAATAGGGAGCAGACACGATTGTTGAAGATTGTGAGTCTTATACTCTCTGA
Found at i:16515 original size:107 final size:108
Alignment explanation
Indices: 16390--16654 Score: 383
Period size: 107 Copynumber: 2.5 Consensus size: 108
16380 GAACCCATTT
* *
16390 GTTGAAGATTG-T-GGGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
* *
16453 GTGGGTCTTATACTCTCTGAAGATATAGGG-GGAGACACGATA
66 GTGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
* * *
16495 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATTGATGAAGATT
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
* * * *
16560 GTGAGTCTTATACTCTCTGGAGAAATAGGGAGTAGACCCGATT
66 GTGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
* * *
16603 GTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAATAAGGAGCAGACACG
1 GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACG
16655 TTTTCAAAAG
Statistics
Matches: 141, Mismatches: 16, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
105 11 0.08
106 1 0.01
107 73 0.52
108 56 0.40
ACGTcount: A:0.29, C:0.14, G:0.29, T:0.28
Consensus pattern (108 bp):
GTTGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAATAGGGAGCAGACACGATCGATGAAGATT
GTGAGTCTTATACTCTCTGAAGAAATAGGGAGGAGACACGATA
Found at i:16533 original size:160 final size:160
Alignment explanation
Indices: 16349--16707 Score: 419
Period size: 160 Copynumber: 2.2 Consensus size: 160
16339 GAATATGTCA
* * *
16349 GAGTTCCATACTCCCT-AGAGAAATAGGGAGCGAACCCATTTGTTGAAGATTGTGGGTCTTATAC
1 GAGTTCTATACTCCCTGA-AGAAATAGGGAGCGAACCCA-TTGATGAAGATTGTGAGTCTTATAC
* *
16413 TCTCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATTG-T-GGGTCTTATACTCTCTGAA-G
64 TCTCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGG
* * *
16475 -ATATAGGGGGAGACACGATAGTT-GAAGATTGTTC
129 AATA-AGGAGCAGACACG-T-GTTAAAAGATT-TTC
* * *
16509 GAG-TCTTATACTCTCTGAAGAAATAGGGGGC-AGACGCGATTGATGAAGATTGTGAGTCTTATA
1 GAGTTC-TATACTCCCTGAAGAAATAGGGAGCGA-AC-CCATTGATGAAGATTGTGAGTCTTATA
* * * *
16572 CTCTCTGGAGAAATAGGGAGTAGACCCGATTGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG
63 CTCTCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAG
*
16637 GAATAAGGAGCAGACACGTTTTCAAAAGATTTTC
128 GAATAAGGAGCAGACACGTGTT-AAAAGATTTTC
*
16671 GAGTTCTATACTCCCTGAAGAAAGAGGGAGCGAACCC
1 GAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCC
16708 GTAGGCAAAA
Statistics
Matches: 167, Mismatches: 20, Indels: 23
0.80 0.10 0.11
Matches are distributed among these distances:
159 3 0.02
160 85 0.51
161 7 0.04
162 48 0.29
163 21 0.13
164 3 0.02
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (160 bp):
GAGTTCTATACTCCCTGAAGAAATAGGGAGCGAACCCATTGATGAAGATTGTGAGTCTTATACTC
TCTGAAGAAATAGGGAGCAGACACGATCGTTGAAGATTGTTCGAGTCTCATACTCTCTGAAGGAA
TAAGGAGCAGACACGTGTTAAAAGATTTTC
Found at i:28539 original size:24 final size:22
Alignment explanation
Indices: 28468--28539 Score: 60
Period size: 24 Copynumber: 3.2 Consensus size: 22
28458 TCCTTAAATT
28468 ATTTTTTTAATATTT--TTATAG
1 ATTTTTTT-ATATTTAATTATAG
* *
28489 -TATTTTTATATTTAATATATTAA
1 ATTTTTTTATATTTAAT-TA-TAG
28512 ATTTTTTTATATTTTAGATTATAG
1 ATTTTTTTATA-TTTA-ATTATAG
28536 ATTT
1 ATTT
28540 AAACAATTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
19 6 0.15
20 6 0.15
21 1 0.03
22 2 0.05
23 2 0.05
24 15 0.38
25 6 0.15
26 2 0.05
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (22 bp):
ATTTTTTTATATTTAATTATAG
Found at i:28570 original size:28 final size:29
Alignment explanation
Indices: 28538--28624 Score: 81
Period size: 29 Copynumber: 3.0 Consensus size: 29
28528 GATTATAGAT
* *
28538 TTAAACAATTTCTTAAA-TTTGCT-AAAAA
1 TTAAACAATTCCTCAAACTTT-CTAAAAAA
28566 TTAAACAATTCCTCAAACTTTCTAAAAAA
1 TTAAACAATTCCTCAAACTTTCTAAAAAA
** **
28595 TTAATTAGGTCCTCAAACTTAT-TAAAAAA
1 TTAAACAATTCCTCAAACTT-TCTAAAAAA
28624 T
1 T
28625 CAATTAAGTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 17 0.34
29 32 0.64
30 1 0.02
ACGTcount: A:0.46, C:0.15, G:0.03, T:0.36
Consensus pattern (29 bp):
TTAAACAATTCCTCAAACTTTCTAAAAAA
Found at i:28607 original size:29 final size:29
Alignment explanation
Indices: 28575--28630 Score: 87
Period size: 29 Copynumber: 1.9 Consensus size: 29
28565 ATTAAACAAT
*
28575 TCCTCAAACTT-TCTAAAAAATTAATTAGG
1 TCCTCAAACTTAT-TAAAAAATCAATTAGG
28604 TCCTCAAACTTATTAAAAAATCAATTA
1 TCCTCAAACTTATTAAAAAATCAATTA
28631 AGTTCATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.34
Consensus pattern (29 bp):
TCCTCAAACTTATTAAAAAATCAATTAGG
Found at i:28730 original size:21 final size:21
Alignment explanation
Indices: 28704--28743 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
28694 AACATTCTAG
*
28704 ATTGTCATGCAAGCTTTGTGA
1 ATTGTCATGCAAGCATTGTGA
*
28725 ATTGTCATGTAAGCATTGT
1 ATTGTCATGCAAGCATTGT
28744 TACGATCAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.23, T:0.40
Consensus pattern (21 bp):
ATTGTCATGCAAGCATTGTGA
Found at i:29247 original size:27 final size:26
Alignment explanation
Indices: 29217--29285 Score: 79
Period size: 26 Copynumber: 2.6 Consensus size: 26
29207 ATGTTTTCTA
29217 ATTTTCAAAAAATTAAAAAT-GAAAACT
1 ATTTTC-AAAAATTAAAAATAGAAAA-T
*
29244 ATTTTCTGAAAA-TAAAAATAGAAAAT
1 ATTTTC-AAAAATTAAAAATAGAAAAT
*
29270 ATTTTCTAAAATTAAA
1 ATTTTCAAAAATTAAA
29286 TGGACCCTAA
Statistics
Matches: 37, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
25 4 0.11
26 18 0.49
27 15 0.41
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (26 bp):
ATTTTCAAAAATTAAAAATAGAAAAT
Found at i:29285 original size:26 final size:27
Alignment explanation
Indices: 29225--29285 Score: 92
Period size: 26 Copynumber: 2.3 Consensus size: 27
29215 TAATTTTCAA
29225 AAAATTAAAAATGAAAACTATTTTCTG
1 AAAATTAAAAATGAAAACTATTTTCTG
29252 AAAA-TAAAAATAGAAAA-TATTTTCT-
1 AAAATTAAAAAT-GAAAACTATTTTCTG
29277 AAAATTAAA
1 AAAATTAAA
29286 TGGACCCTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
25 4 0.12
26 19 0.59
27 9 0.28
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAATTAAAAATGAAAACTATTTTCTG
Found at i:29776 original size:3 final size:3
Alignment explanation
Indices: 29768--29802 Score: 52
Period size: 3 Copynumber: 11.7 Consensus size: 3
29758 AGATGATAAC
* *
29768 GAA GAA GAA GAA GAC GAA GAA GAG GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
29803 TGGTGAGAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.60, C:0.03, G:0.37, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:34587 original size:23 final size:23
Alignment explanation
Indices: 34559--34610 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
34549 ATAAGAGAGC
*
34559 AAGGGAAAAGAGGAAGAAGAAGA
1 AAGGGAAAAGAGGAAGAAAAAGA
34582 AAGGGAAAAGAGGAAGAAAAAGA
1 AAGGGAAAAGAGGAAGAAAAAGA
34605 AAGGGA
1 AAGGGA
34611 TAGCACAACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (23 bp):
AAGGGAAAAGAGGAAGAAAAAGA
Found at i:34706 original size:39 final size:39
Alignment explanation
Indices: 34663--34760 Score: 137
Period size: 39 Copynumber: 2.5 Consensus size: 39
34653 TTATTATTTT
** *
34663 AAATTATTAGTTTGTTAGTTTA-TGGTTTAAGGTAAAACA
1 AAATT-TTAGTTAATTAGTTTAGTAGTTTAAGGTAAAACA
34702 AAATTTTAGTTAATTAG-TTAGTTAGTTTAAGGTAAAACA
1 AAATTTTAGTTAATTAGTTTAG-TAGTTTAAGGTAAAACA
34741 AAATTTTAGTTAATTAGTTT
1 AAATTTTAGTTAATTAGTTT
34761 GTCAGCTTAA
Statistics
Matches: 53, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
37 3 0.06
38 10 0.19
39 38 0.72
40 2 0.04
ACGTcount: A:0.38, C:0.02, G:0.15, T:0.45
Consensus pattern (39 bp):
AAATTTTAGTTAATTAGTTTAGTAGTTTAAGGTAAAACA
Found at i:34771 original size:39 final size:39
Alignment explanation
Indices: 34689--34771 Score: 139
Period size: 39 Copynumber: 2.1 Consensus size: 39
34679 AGTTTATGGT
* *
34689 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTTAGT
1 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTCAGC
*
34728 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTTGTCAGC
1 TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTCAGC
34767 TTAAG
1 TTAAG
34772 TTTTATTATT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.40, C:0.05, G:0.16, T:0.40
Consensus pattern (39 bp):
TTAAGGTAAAACAAAATTTTAGTTAATTAGTTAGTCAGC
Found at i:35154 original size:21 final size:21
Alignment explanation
Indices: 35128--35167 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
35118 GATAATGAGT
35128 TTGTTAGTTTAAATTATATTA
1 TTGTTAGTTTAAATTATATTA
*
35149 TTGTTAGTTTAAGTTATAT
1 TTGTTAGTTTAAATTATAT
35168 CATATAGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.12, T:0.57
Consensus pattern (21 bp):
TTGTTAGTTTAAATTATATTA
Found at i:35410 original size:22 final size:22
Alignment explanation
Indices: 35385--35465 Score: 72
Period size: 22 Copynumber: 3.3 Consensus size: 22
35375 AATCATTTAT
35385 TAGTTTAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
35407 TAGTTTATTAGTTAAAGTTATATTAAAGAA
1 TAG-----T--TTA-AGTTATATTAAAGAA
*
35437 TAGTTAAAGTTATATTAAAGAA
1 TAGTTTAAGTTATATTAAAGAA
*
35459 TAATTTA
1 TAGTTTA
35466 TTAGTTGTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
22 23 0.48
23 2 0.04
25 1 0.02
27 1 0.02
29 3 0.06
30 18 0.38
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (22 bp):
TAGTTTAAGTTATATTAAAGAA
Found at i:35414 original size:30 final size:30
Alignment explanation
Indices: 35346--35441 Score: 115
Period size: 30 Copynumber: 3.2 Consensus size: 30
35336 TTTAGTTAAT
* * *
35346 TAGTTTTTTAGTAGTAAATTATAATTAAA-AA
1 TAGTTTATTAGT-TTAAGTTAT-ATTAAAGAA
35377 TCA-TTTATTAGTTTAAGTTATATTAAAGAA
1 T-AGTTTATTAGTTTAAGTTATATTAAAGAA
*
35407 TAGTTTATTAGTTAAAGTTATATTAAAGAA
1 TAGTTTATTAGTTTAAGTTATATTAAAGAA
35437 TAGTT
1 TAGTT
35442 AAAGTTATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
29 7 0.12
30 41 0.71
31 9 0.16
32 1 0.02
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.46
Consensus pattern (30 bp):
TAGTTTATTAGTTTAAGTTATATTAAAGAA
Found at i:35415 original size:15 final size:16
Alignment explanation
Indices: 35392--35442 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 16
35382 TATTAGTTTA
35392 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
***
35408 AGTT-TATTAGTTAA-
1 AGTTATATTAAAGAAT
35422 AGTTATATTAAAGAAT
1 AGTTATATTAAAGAAT
35438 AGTTA
1 AGTTA
35443 AAGTTATATT
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
14 4 0.15
15 14 0.52
16 9 0.33
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.41
Consensus pattern (16 bp):
AGTTATATTAAAGAAT
Found at i:35434 original size:11 final size:11
Alignment explanation
Indices: 35418--35456 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
35408 AGTTTATTAG
35418 TTAAAGTTATA
1 TTAAAGTTATA
*
35429 TTAAAG-AATA
1 TTAAAGTTATA
35439 GTTAAAGTTATA
1 -TTAAAGTTATA
35451 TTAAAG
1 TTAAAG
35457 AATAATTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
10 3 0.12
11 18 0.75
12 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (11 bp):
TTAAAGTTATA
Found at i:37899 original size:59 final size:57
Alignment explanation
Indices: 37776--37883 Score: 159
Period size: 59 Copynumber: 1.9 Consensus size: 57
37766 ATTTCATTAC
*
37776 TAGT-AATCATTAGTATAAATAATTAAATATTAATAATAAATCATTATTAATAATAAT
1 TAGTAAATCATTAGTATAAATAATTAAATATT-ATAATAAATCATTATAAATAATAAT
37833 TAGTAAATCATTAGTATCAAATAATTAAATATT-T-ATAAATCATTTATAAAT
1 TAGTAAATCATTAGTAT-AAATAATTAAATATTATAATAAATCA-TTATAAAT
37884 TCGACTATGT
Statistics
Matches: 47, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
56 8 0.17
57 12 0.26
58 12 0.26
59 15 0.32
ACGTcount: A:0.51, C:0.05, G:0.04, T:0.41
Consensus pattern (57 bp):
TAGTAAATCATTAGTATAAATAATTAAATATTATAATAAATCATTATAAATAATAAT
Found at i:37981 original size:14 final size:14
Alignment explanation
Indices: 37962--38355 Score: 195
Period size: 14 Copynumber: 28.1 Consensus size: 14
37952 ATTAGTAATA
*
37962 ATTATTAAATCTTT
1 ATTATTAAATCATT
37976 ATTATTAAATCATT
1 ATTATTAAATCATT
*
37990 ATTATAAAATCATT
1 ATTATTAAATCATT
*
38004 ACTATTAAATCATT
1 ATTATTAAATCATT
*
38018 ATTA-T-AATGATT
1 ATTATTAAATCATT
38030 ATTATTAAATC---
1 ATTATTAAATCATT
38041 ATTATT--ATCATT
1 ATTATTAAATCATT
38053 ATTATTAAATCATT
1 ATTATTAAATCATT
*
38067 ATTA-T-AATAATT
1 ATTATTAAATCATT
**
38079 ATTGCTAAATCATT
1 ATTATTAAATCATT
*
38093 ATTA-T-AATAATT
1 ATTATTAAATCATT
*
38105 ATTATAAAATCATT
1 ATTATTAAATCATT
*
38119 ACTAAATCATCAAATCATT
1 A-T---T-ATTAAATCATT
*
38138 AAATATTAAAGTCATT
1 -ATTATTAAA-TCATT
*
38154 ATTA-T-AATGATT
1 ATTATTAAATCATT
*
38166 ATTACTAAATC---
1 ATTATTAAATCATT
38177 ATTATTAAATCA-T
1 ATTATTAAATCATT
*
38190 AATATTAAAATCATT
1 ATTATT-AAATCATT
38205 ATTAAATCATCAAATCATT
1 ATT--AT--T-AAATCATT
*
38224 AAATATTAAAATCATT
1 -ATTATT-AAATCATT
*
38240 ATTA-TAATTTCATT
1 ATTATTAA-ATCATT
38254 ATTATT-AAT-A--
1 ATTATTAAATCATT
*
38264 ATTACTAAATCATT
1 ATTATTAAATCATT
* *
38278 ACTATCAAATCATT
1 ATTATTAAATCATT
* *
38292 AAATATTAACAATAATTT
1 -ATTATT-A-AATCA-TT
38310 AATTATTACTAATCATT
1 -ATTATTA--AATCATT
*
38327 ACTATCT-AATCATT
1 ATTAT-TAAATCATT
* *
38341 ACTATCAAATCATT
1 ATTATTAAATCATT
38355 A
1 A
38356 AATATTAATA
Statistics
Matches: 297, Mismatches: 41, Indels: 84
0.70 0.10 0.20
Matches are distributed among these distances:
9 3 0.01
10 5 0.02
11 19 0.06
12 45 0.15
13 16 0.05
14 122 0.41
15 20 0.07
16 20 0.07
17 10 0.03
18 15 0.05
19 19 0.06
20 3 0.01
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.44
Consensus pattern (14 bp):
ATTATTAAATCATT
Found at i:38037 original size:26 final size:26
Alignment explanation
Indices: 37949--38208 Score: 206
Period size: 26 Copynumber: 10.3 Consensus size: 26
37939 TTATTCCATA
* *
37949 ATTATTAGT-AATAATTATTA-AATC
1 ATTATTATTAAATCATTATTATAATC
*
37973 TTTATTATTAAATCATTATTATAAAATC
1 ATTATTATTAAATCATTATTAT--AATC
* *
38001 ATTACTATTAAATCATTATTATAATG
1 ATTATTATTAAATCATTATTATAATC
38027 ATTATTATTAAATCATTA-T-T-ATC
1 ATTATTATTAAATCATTATTATAATC
*
38050 ATTATTATTAAATCATTATTATAATA
1 ATTATTATTAAATCATTATTATAATC
** *
38076 ATTATTGCTAAATCATTATTATAATA
1 ATTATTATTAAATCATTATTATAATC
* *
38102 ATTATTATAAAATCATTACTA-AATC
1 ATTATTATTAAATCATTATTATAATC
* * *
38127 ATCAAATCATTAAAT-ATTA--A-AGTC
1 AT--TATTATTAAATCATTATTATAATC
*
38151 ATTATTA-T-AATGATTATTACTAA--
1 ATTATTATTAAATCATTATTA-TAATC
* *
38174 ATCATTATTAAATCATAATATTAAAATC
1 ATTATTATTAAATCAT--TATTATAATC
38202 ATTATTA
1 ATTATTA
38209 AATCATCAAA
Statistics
Matches: 189, Mismatches: 27, Indels: 36
0.75 0.11 0.14
Matches are distributed among these distances:
20 3 0.02
21 5 0.03
22 3 0.02
23 27 0.14
24 16 0.08
25 23 0.12
26 69 0.37
27 13 0.07
28 30 0.16
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTATTATTAAATCATTATTATAATC
Found at i:38068 original size:49 final size:49
Alignment explanation
Indices: 37949--38108 Score: 171
Period size: 49 Copynumber: 3.2 Consensus size: 49
37939 TTATTCCATA
* * **
37949 ATTATTAGT-AATAATTATTA-AATCTTTATTATTAAATCATTATTATAAAATC
1 ATTATTATTAAATCATTATTATAATAATTATTATTAAATCATTA-T-T---ATC
* *
38001 ATTACTATTAAATCATTATTATAATGATTATTATTAAATCATTATTATC
1 ATTATTATTAAATCATTATTATAATAATTATTATTAAATCATTATTATC
** *
38050 ATTATTATTAAATCATTATTATAATAATTATTGCTAAATCATTATTATA
1 ATTATTATTAAATCATTATTATAATAATTATTATTAAATCATTATTATC
*
38099 ATAATTATTA
1 ATTATTATTA
38109 TAAAATCATT
Statistics
Matches: 95, Mismatches: 11, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
49 56 0.59
52 8 0.08
53 11 0.12
54 20 0.21
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.49
Consensus pattern (49 bp):
ATTATTATTAAATCATTATTATAATAATTATTATTAAATCATTATTATC
Found at i:38128 original size:86 final size:82
Alignment explanation
Indices: 38030--38292 Score: 276
Period size: 86 Copynumber: 3.0 Consensus size: 82
38020 TATAATGATT
* * * *
38030 ATTATTAAATCATTATTATCATT-ATTATTAAATCATTATTATAATAATTATTGCTAAATCATTA
1 ATTATTAAATCATCA-AATCATTAAATATTAAATCATTATTATAATAATTATT-ATAAATCATTA
*
38094 TTATAATAATTATTATAAAATC
64 TTA-AATCATTATTAT--AATC
* *
38116 ATTACTAAATCATCAAATCATTAAATATTAAAGTCATTATTATAATGATTATTACTAAATCATTA
1 ATTATTAAATCATCAAATCATTAAATATTAAA-TCATTATTATAATAATTATTA-TAAATCATTA
*
38181 TTAAATCATAATATTAAAATC
64 TTAAATCAT--TATTATAATC
* * *
38202 ATTATTAAATCATCAAATCATTAAATATTAAAATCATTATTATAATTTCATTATTATTAATAATT
1 ATTATTAAATCATCAAATCATTAAATATT-AAATCATTATTATAA--TAATTATTATAAATCATT
* *
38267 ACTAAATCATTACTATCAAATC
63 ATTAAATCATTATTAT--AATC
38289 ATTA
1 ATTA
38293 AATATTAACA
Statistics
Matches: 152, Mismatches: 15, Indels: 19
0.82 0.08 0.10
Matches are distributed among these distances:
85 10 0.07
86 70 0.46
87 59 0.39
88 13 0.09
ACGTcount: A:0.46, C:0.10, G:0.01, T:0.43
Consensus pattern (82 bp):
ATTATTAAATCATCAAATCATTAAATATTAAATCATTATTATAATAATTATTATAAATCATTATT
AAATCATTATTATAATC
Found at i:38197 original size:58 final size:59
Alignment explanation
Indices: 38084--38198 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 59
38074 TAATTATTGC
38084 TAAATCATTATTATAATAATTATTATAAAATCATTACTAAATCATCAAATCATTAAATAT
1 TAAATCATTATTATAATAATTATTATAAAATCATTACTAAATCAT-AAATCATTAAATAT
* *
38144 TAAAGTCATTATTATAATGATTATTACT-AAATCATTATTAAATCAT-AAT-ATTAAA
1 TAAA-TCATTATTATAATAATTATTA-TAAAATCATTACTAAATCATAAATCATTAAA
38199 ATCATTATTA
Statistics
Matches: 51, Mismatches: 2, Indels: 6
0.86 0.03 0.10
Matches are distributed among these distances:
58 6 0.12
59 3 0.06
60 4 0.08
61 37 0.73
62 1 0.02
ACGTcount: A:0.49, C:0.09, G:0.02, T:0.41
Consensus pattern (59 bp):
TAAATCATTATTATAATAATTATTATAAAATCATTACTAAATCATAAATCATTAAATAT
Found at i:38378 original size:63 final size:61
Alignment explanation
Indices: 38243--38453 Score: 257
Period size: 63 Copynumber: 3.6 Consensus size: 61
38233 AATCATTATT
* * *
38243 ATAATTTCATTATTATTAATAATTACTA-AATCATTACTATCAAATCATTAAATATTAACA
1 ATAATTTCATTATTACTAATCATTACTACAATCATTACTATCAAATCATTAAATATTAATA
*
38303 ATAATTTAATTATTACTAATCATTACTATCTAATCATTACTATCAAATCATTAAATATTAATA
1 ATAATTTCATTATTACTAATCATTACTA-C-AATCATTACTATCAAATCATTAAATATTAATA
*
38366 ATAATTTCATTATTACTAATCATTACTACCAA--A-T-C-ATTAAAT-ATT--A-A-TAATA
1 ATAATTTCATTATTACTAATCATTACTA-CAATCATTACTATCAAATCATTAAATATTAATA
*
38418 ATAATTTCATTATTACTAATCATTACTA-AATAATTA
1 ATAATTTCATTATTACTAATCATTACTACAATCATTA
38454 TTATAATTTT
Statistics
Matches: 137, Mismatches: 7, Indels: 20
0.84 0.04 0.12
Matches are distributed among these distances:
50 2 0.01
52 34 0.25
53 2 0.01
54 1 0.01
56 3 0.02
57 6 0.04
58 1 0.01
59 1 0.01
60 26 0.19
62 2 0.01
63 59 0.43
ACGTcount: A:0.45, C:0.12, G:0.00, T:0.42
Consensus pattern (61 bp):
ATAATTTCATTATTACTAATCATTACTACAATCATTACTATCAAATCATTAAATATTAATA
Found at i:38439 original size:52 final size:49
Alignment explanation
Indices: 38322--38504 Score: 194
Period size: 52 Copynumber: 3.7 Consensus size: 49
38312 TTATTACTAA
* *
38322 TCATTACTATCTAATCATTACTATCAAATCATTAAATATTAATAATAATT
1 TCATTATTA-CTAATCATTACTACCAAATCATTAAATATTAATAATAATT
38372 TCATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATAATT
1 TCATTATTACTAATCATTACTACCAAATCATTAAATA-T--TAATAATAATT
* * * *
38424 TCATTATTACTAATCATTACTA-AATAATTATTATAATTTTAA-ATATAAAT
1 TCATTATTACTAATCATTACTACCA-AATCATTA-AATATTAATA-ATAATT
* * *
38474 TCATTATTA--AATCATGATTAGCAAATCATTA
1 TCATTATTACTAATCATTACTACCAAATCATTA
38505 CTAAATCAAA
Statistics
Matches: 116, Mismatches: 10, Indels: 16
0.82 0.07 0.11
Matches are distributed among these distances:
48 16 0.14
49 29 0.25
50 26 0.22
51 1 0.01
52 41 0.35
53 3 0.03
ACGTcount: A:0.45, C:0.12, G:0.01, T:0.42
Consensus pattern (49 bp):
TCATTATTACTAATCATTACTACCAAATCATTAAATATTAATAATAATT
Found at i:40982 original size:23 final size:23
Alignment explanation
Indices: 40956--40999 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
40946 GCTTGGCTGC
40956 AATCTCCCAGCTATGGATGCAGG
1 AATCTCCCAGCTATGGATGCAGG
40979 AATCTCCCAGCTATGGATGCA
1 AATCTCCCAGCTATGGATGCA
41000 ACGCATGCAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.23
Consensus pattern (23 bp):
AATCTCCCAGCTATGGATGCAGG
Found at i:44468 original size:22 final size:22
Alignment explanation
Indices: 44437--44487 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
44427 TTAAAATTTT
*
44437 ATTAGTTTAATTTAATATATAAA
1 ATTA-TTTAATTAAATATATAAA
*
44460 ATTATTTAATTAAATATATAAT
1 ATTATTTAATTAAATATATAAA
44482 ATTATT
1 ATTATT
44488 ATATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 22 0.85
23 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (22 bp):
ATTATTTAATTAAATATATAAA
Found at i:47085 original size:2 final size:2
Alignment explanation
Indices: 47078--47125 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
47068 GGATAAAGTA
47078 AT AT AT AT 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 AT AT AT AT
47120 AT AT AT
1 AT AT AT
47126 GAAAGAAACG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47581 original size:18 final size:19
Alignment explanation
Indices: 47555--47591 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
47545 TAAAATTCAA
47555 TTTACCATTAAATTATTTT
1 TTTACCATTAAATTATTTT
*
47574 TTTA-CATTATATTATTTT
1 TTTACCATTAAATTATTTT
47592 ATATATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.30, C:0.08, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTACCATTAAATTATTTT
Found at i:47836 original size:2 final size:2
Alignment explanation
Indices: 47829--47854 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
47819 CCTTAAACCA
47829 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
47855 GGACCTAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:48800 original size:15 final size:14
Alignment explanation
Indices: 48774--48810 Score: 60
Period size: 12 Copynumber: 2.8 Consensus size: 14
48764 CGATCCGAAA
48774 TAATATAAAATTAT
1 TAATATAAAATTAT
48788 TAATATAAAA--AT
1 TAATATAAAATTAT
48800 TAATATAAAAT
1 TAATATAAAAT
48811 GGGTGTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 12 0.55
14 10 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (14 bp):
TAATATAAAATTAT
Found at i:49255 original size:22 final size:23
Alignment explanation
Indices: 49213--49255 Score: 54
Period size: 22 Copynumber: 1.9 Consensus size: 23
49203 ACGTAAAATT
*
49213 TTATGATTAGAATCTTTAAGAAG
1 TTATGATTAGAATCTTAAAGAAG
49236 TTAT-ATTAGAAAT-TTAAAGA
1 TTATGATTAG-AATCTTAAAGA
49256 TGTAAAACTA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.44, C:0.02, G:0.14, T:0.40
Consensus pattern (23 bp):
TTATGATTAGAATCTTAAAGAAG
Found at i:53848 original size:47 final size:45
Alignment explanation
Indices: 53760--53849 Score: 117
Period size: 45 Copynumber: 2.0 Consensus size: 45
53750 GATGCATAAG
* **
53760 TAGTGCATCGATGCATCCCATTAATAAGGAAACATCAAATGCAAT
1 TAGTGCATCGATGCATCCCAGTAATAAACAAACATCAAATGCAAT
* *
53805 TAGTGCATCGATGCATCCCAGTGATAATACAACACATCGAATGCA
1 TAGTGCATCGATGCATCCCAGTAATAA-ACAA-ACATCAAATGCA
53850 TTTTATGCAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
45 25 0.66
46 2 0.05
47 11 0.29
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (45 bp):
TAGTGCATCGATGCATCCCAGTAATAAACAAACATCAAATGCAAT
Found at i:55033 original size:30 final size:31
Alignment explanation
Indices: 54936--55054 Score: 107
Period size: 30 Copynumber: 3.8 Consensus size: 31
54926 GTCGAGGGTA
* *
54936 TACCTATGTTCTACGGAACATATGGACAGAAT
1 TACCTATGTTCTAAGGAACATATGGACA-ATT
*** *
54968 TACCTATG-TCTTTCGAGACATATGGACAATA
1 TACCTATGTTCTAAGGA-ACATATGGACAATT
*
54999 TACCTATGTTCTAAGGAACATAT-AACAATT
1 TACCTATGTTCTAAGGAACATATGGACAATT
* ** *
55029 TACCTAGGTTCTTCGGAACCTATGGA
1 TACCTATGTTCTAAGGAACATATGGA
55055 AAGTTGCCAA
Statistics
Matches: 69, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
30 24 0.35
31 21 0.30
32 24 0.35
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (31 bp):
TACCTATGTTCTAAGGAACATATGGACAATT
Found at i:57221 original size:24 final size:25
Alignment explanation
Indices: 57180--57226 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
57170 TTTTGATAAT
57180 AAAAGGATAAATGGATAAAGAAATG
1 AAAAGGATAAATGGATAAAGAAATG
* * *
57205 AAAA-GATGAATGTATAACGAAA
1 AAAAGGATAAATGGATAAAGAAA
57227 AAAATAGTTG
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 15 0.79
25 4 0.21
ACGTcount: A:0.60, C:0.02, G:0.21, T:0.17
Consensus pattern (25 bp):
AAAAGGATAAATGGATAAAGAAATG
Found at i:58245 original size:64 final size:64
Alignment explanation
Indices: 58165--58385 Score: 189
Period size: 64 Copynumber: 3.5 Consensus size: 64
58155 TTGAAGGTGT
** ** * * *
58165 ATCGATGCATTGGTAGTGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATTCGTG
1 ATCGATGCATAAGTAGTGCATCGATGCATC-CCATTAATAAGAAA-ACATCAAATGCAATTAGTG
58228 C
64 C
* *
58229 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGGAAACATCAAATTCAATTAGTGC
1 ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCAAATGCAATTAGTGC
* * * * * * * *
58293 ATCGATGCATAAGGCA-TGCATCGATGCATCCCAATGATAATACAATATCGAATGCATTTTA-TG
1 ATCGATGCATAA-GTAGTGCATCGATGCATCCCATTAATAAGAAAACATCAAATGCA-ATTAGTG
58356 C
64 C
* * **
58357 ACCGATTCATCGGTAGTGCATCGATGCAT
1 ATCGATGCATAAGTAGTGCATCGATGCAT
58386 ACTTTTATTG
Statistics
Matches: 128, Mismatches: 24, Indels: 10
0.79 0.15 0.06
Matches are distributed among these distances:
63 2 0.02
64 116 0.91
65 10 0.08
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (64 bp):
ATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAGAAAACATCAAATGCAATTAGTGC
Found at i:65737 original size:23 final size:22
Alignment explanation
Indices: 65692--65737 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
65682 CTTGAAATAA
* * *
65692 TTTATTTATTAAAAATATTATT
1 TTTATTCAATAAAAATATGATT
65714 TTTATTCAATAAAAATAATGATT
1 TTTATTCAATAAAAAT-ATGATT
65737 T
1 T
65738 AATTGAAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
TTTATTCAATAAAAATATGATT
Found at i:67097 original size:2 final size:2
Alignment explanation
Indices: 67092--67121 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
67082 CCTAATAGTG
67092 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
67122 ATTATTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:73521 original size:36 final size:36
Alignment explanation
Indices: 73440--73522 Score: 105
Period size: 36 Copynumber: 2.3 Consensus size: 36
73430 AACCATACCT
* *
73440 AAAGTTTAGTTTTTGTTCCATTTTAGTACCATGTTA
1 AAAGTTTAATTTTTGTTCCATTTTAGTACCACGTTA
* * *
73476 AAAGCTTAATTTTTGTTTCATTTTAGTATCACGTTCA
1 AAAGTTTAATTTTTGTTCCATTTTAGTACCACGTT-A
73513 AAA-TTTAATT
1 AAAGTTTAATT
73523 AAGTTTTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
36 36 0.90
37 4 0.10
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (36 bp):
AAAGTTTAATTTTTGTTCCATTTTAGTACCACGTTA
Found at i:76169 original size:13 final size:14
Alignment explanation
Indices: 76143--76180 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
76133 AGTCATTTTG
*
76143 TTTTTAAATCTTGA
1 TTTTTAAATATTGA
76157 TTTTT-AATATTGA
1 TTTTTAAATATTGA
*
76170 TTTATAAATAT
1 TTTTTAAATAT
76181 AATAATCTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.34, C:0.03, G:0.05, T:0.58
Consensus pattern (14 bp):
TTTTTAAATATTGA
Found at i:76969 original size:21 final size:21
Alignment explanation
Indices: 76945--76986 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
76935 TGATTTTGAA
*
76945 AAAATTAAAAGTTTAAGTACT
1 AAAACTAAAAGTTTAAGTACT
* *
76966 AAAACTAATATTTTAAGTACT
1 AAAACTAAAAGTTTAAGTACT
76987 TTGATGTAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.36
Consensus pattern (21 bp):
AAAACTAAAAGTTTAAGTACT
Found at i:77687 original size:2 final size:2
Alignment explanation
Indices: 77680--77726 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
77670 AGACCAATTT
*
77680 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77722 TA TA T
1 TA TA T
77727 GGCTATGGGT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:81358 original size:60 final size:60
Alignment explanation
Indices: 81259--81424 Score: 210
Period size: 60 Copynumber: 2.8 Consensus size: 60
81249 ATTATGTCCC
* * * * *
81259 TCATTTTAAATTAGTCCTT-AACTTTTAAATATTTCAATTTTATCTCAAAACTATGACTG
1 TCATTCTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTTATCCCAAAACTATGAATA
*
81318 TCATTCTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTTATCCCCAAACTATGAATA
1 TCATTCTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTTATCCCAAAACTATGAATA
** * * *
81378 TCATTCTAAATCGGTTCC-TAAACTTTTGCATCTTCCAATTTTATCCC
1 TCATTCTAAATTAG-TCCTTAAACTTTTGAATATTTCAATTTTATCCC
81425 CAAATTCATC
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
59 18 0.19
60 73 0.78
61 3 0.03
ACGTcount: A:0.31, C:0.20, G:0.05, T:0.43
Consensus pattern (60 bp):
TCATTCTAAATTAGTCCTTAAACTTTTGAATATTTCAATTTTATCCCAAAACTATGAATA
Found at i:83864 original size:17 final size:17
Alignment explanation
Indices: 83838--83872 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
83828 CCAAACTCGA
83838 ATTTTAAACT-GAAATG
1 ATTTTAAACTCGAAATG
83854 ATTTATAAACTCGAAATG
1 ATTT-TAAACTCGAAATG
83872 A
1 A
83873 AACGAAGTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 6 0.35
18 7 0.41
ACGTcount: A:0.46, C:0.09, G:0.11, T:0.34
Consensus pattern (17 bp):
ATTTTAAACTCGAAATG
Found at i:84586 original size:182 final size:174
Alignment explanation
Indices: 84296--84779 Score: 571
Period size: 182 Copynumber: 2.7 Consensus size: 174
84286 AAAAAGCATA
* * ** * *
84296 AACAGCAAGCATATCAGTGATGAAGATGGTAATTGCATGATGCATGCAAAGCATACAACAAGAAG
1 AACAGCAACCAAATCAACGATGAAGACGGTAATTGCATGATGCATGCAAAGCATACAACAAGAAA
* * *
84361 TCAACAACAATGATAATGATGGTAGCATGATACATATACAAAACATACATACATGATGATGATGA
66 ACAACAACAATGATAATGATGATAGCATGAAACATATACAAAACATACATACATGATGATGATGA
* * *
84426 CATGAAACATGGAAAAATACTTACATATACATGCTCTCACATTCT
131 CATGAAACATGCAAAAA-ACATACATAAACATGCTCTCACATTCT
* *
84471 AACAGCAACCAAATCAACTATGAAGACGGTAATTGCATGATGCATGCAATTGCAGAACATACAAT
1 AACAGCAACCAAATCAACGATGAAGACGGTAATTGCATGATGCATGCAA----AG--CATACAAC
* * *
84536 AATAACAACAACAACAATGATGATGATGATATCATGAAACATATACAAAACATACATACATGATG
60 AAGAA-AACAACAACAATGATAATGATGATAGCATGAAACATATACAAAACATACATACATGATG
*
84601 ATGATGACATGAAACATGCAAAAAACATACATAAATATGCTCTCACATTCT
124 ATGATGACATGAAACATGCAAAAAACATACATAAACATGCTCTCACATTCT
* * * *
84652 AACAGCAAGCACATCAACGACTGAAGACGGTAATTGCATGATGCATGCAAACCATATAACAACG-
1 AACAGCAACCAAATCAACGA-TGAAGACGGTAATTGCATGATGCATGCAAAGCATACAACAA-GA
** ** * * * * *
84716 --ACAACAAGGATGATAATGATGATAGCA-GGGACACATACACAGCATACATAAATGACGATGAT
64 AAACAACAACAATGATAATGATGATAGCATGAAACATATACAAAACATACATACATGATGATGAT
84778 GA
129 GA
84780 TGACATGGAA
Statistics
Matches: 264, Mismatches: 36, Indels: 21
0.82 0.11 0.07
Matches are distributed among these distances:
172 30 0.11
173 23 0.09
175 43 0.16
176 8 0.03
178 1 0.00
179 2 0.01
181 52 0.20
182 105 0.40
ACGTcount: A:0.45, C:0.18, G:0.16, T:0.21
Consensus pattern (174 bp):
AACAGCAACCAAATCAACGATGAAGACGGTAATTGCATGATGCATGCAAAGCATACAACAAGAAA
ACAACAACAATGATAATGATGATAGCATGAAACATATACAAAACATACATACATGATGATGATGA
CATGAAACATGCAAAAAACATACATAAACATGCTCTCACATTCT
Found at i:84612 original size:40 final size:40
Alignment explanation
Indices: 84555--84633 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
84545 AACAACAATG
* *
84555 ATGATGATGATATCATGAAACATATACAAAACATACATAC
1 ATGATGATGATATCATGAAACATACAAAAAACATACATAC
*
84595 ATGATGATGATGA-CATGAAACATGCAAAAAACATACATA
1 ATGATGATGAT-ATCATGAAACATACAAAAAACATACATA
84634 AATATGCTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.51, C:0.14, G:0.13, T:0.23
Consensus pattern (40 bp):
ATGATGATGATATCATGAAACATACAAAAAACATACATAC
Found at i:87108 original size:20 final size:19
Alignment explanation
Indices: 87084--87129 Score: 83
Period size: 20 Copynumber: 2.4 Consensus size: 19
87074 CAAAGTCAAT
87084 GGTCAACGGTCAAGTAAAC
1 GGTCAACGGTCAAGTAAAC
87103 GAGTCAACGGTCAAGTAAAC
1 G-GTCAACGGTCAAGTAAAC
87123 GGTCAAC
1 GGTCAAC
87130 AGGTTAATCG
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 7 0.27
20 19 0.73
ACGTcount: A:0.37, C:0.22, G:0.26, T:0.15
Consensus pattern (19 bp):
GGTCAACGGTCAAGTAAAC
Found at i:94624 original size:256 final size:256
Alignment explanation
Indices: 94287--94804 Score: 782
Period size: 257 Copynumber: 2.0 Consensus size: 256
94277 TAATTATCTT
* *
94287 ATTT-TCATTTTGGTCATGATGGTGATGCTTGCATAATTTTTTTTTTATTTTTATGTTATTTTCT
1 ATTTATCATTTTGGTCATAATGGAGATGCTTGCATAATTTTTTTTTTATTTTTATGTTATTTTCT
94351 CTCTTCATATTAACAGTTCATATGTAAACTTTTTATAATAGAAAAA-T-AAAAA-ATCATGTCAA
66 CTCTTCATATTAACAGTTCATATGT-AACTTTTTATAAT-GAAAAAGTAAAAAATATCATGTCAA
* *
94413 TATTGTCATTAAAATTTTAACAACCAACTACTAAAATA-GAAAAAAAAATATTAGTGATATTGTT
129 TATTGTCATTAAAATTTTAACAACCAACGACTAAAATAGGAAAAAAAAATATTACTGATATTGTT
* * *
94477 GGTAAAAAAAACAGTTTAATGATCAAAGTAGAAAATGAACAATAGTTTGATGGCTA-TTTTGTA
194 -GAAAAAAAAACAGTTTAATGATCAAAGTAGAAAATGAACAATAGTTTGATGACTATTTTTGCA
*
94540 ATTTATCA-TTTGGTCATAATGGAGATGGTTGCATGATATTTTTTATTTTTATTTTT-TGTTATT
1 ATTTATCATTTTGGTCATAATGGAGATGCTTGCAT-A-A-TTTTT-TTTTTATTTTTATGTTATT
* *
94603 TTCTCTCTTCATATTAACAGTTCATATGTAATTTTTTATAATGAAAAAGTAAAAAATATCATGTT
62 TTCTCTCTTCATATTAACAGTTCATATGTAACTTTTTATAATGAAAAAGTAAAAAATATCATGTC
* * **
94668 AGTATTGTCATTAAAATTTTAACAACCATCGACTAAAATAGGAAAAATTAATATTACTGATATTG
127 AATATTGTCATTAAAATTTTAACAACCAACGACTAAAATAGGAAAAAAAAATATTACTGATATTG
*
94733 TTGAAAAAAAAACAGTTTAATGATTAAAGTAGAAAATGAACAATAGTTTGATGACTATTTTTGCA
192 TTGAAAAAAAAACAGTTTAATGATCAAAGTAGAAAATGAACAATAGTTTGATGACTATTTTTGCA
94798 ATTTATC
1 ATTTATC
94805 CAAAAGTAAT
Statistics
Matches: 240, Mismatches: 15, Indels: 15
0.89 0.06 0.06
Matches are distributed among these distances:
253 27 0.11
254 10 0.04
255 14 0.06
256 46 0.19
257 107 0.45
258 36 0.15
ACGTcount: A:0.38, C:0.09, G:0.12, T:0.41
Consensus pattern (256 bp):
ATTTATCATTTTGGTCATAATGGAGATGCTTGCATAATTTTTTTTTTATTTTTATGTTATTTTCT
CTCTTCATATTAACAGTTCATATGTAACTTTTTATAATGAAAAAGTAAAAAATATCATGTCAATA
TTGTCATTAAAATTTTAACAACCAACGACTAAAATAGGAAAAAAAAATATTACTGATATTGTTGA
AAAAAAAACAGTTTAATGATCAAAGTAGAAAATGAACAATAGTTTGATGACTATTTTTGCA
Found at i:95600 original size:65 final size:65
Alignment explanation
Indices: 95530--95719 Score: 319
Period size: 65 Copynumber: 2.9 Consensus size: 65
95520 GATATGTGCA
*
95530 ATATTCAATTATCACTTCACCTCATGCACTACAAA-GATACATGAGTCATATGAGTGATCTGTAT
1 ATATTCAATTATCACTCCACCTCATGCACTACAAACG-TACATGAGTCATATGAGTGATCTGTAT
95594 T
65 T
*
95595 GTATTCAATTATCACTCCACCTCATGCACTACAAACGTACATGAGTCATATGAGTGATCTGTATT
1 ATATTCAATTATCACTCCACCTCATGCACTACAAACGTACATGAGTCATATGAGTGATCTGTATT
* * *
95660 ATATTCAATTATCACTCCACCTCAGGCGCCACAAACGTACATGAGTCATATGAGTGATCT
1 ATATTCAATTATCACTCCACCTCATGCACTACAAACGTACATGAGTCATATGAGTGATCT
95720 ATACTGGTAC
Statistics
Matches: 118, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
65 117 0.99
66 1 0.01
ACGTcount: A:0.32, C:0.23, G:0.14, T:0.31
Consensus pattern (65 bp):
ATATTCAATTATCACTCCACCTCATGCACTACAAACGTACATGAGTCATATGAGTGATCTGTATT
Found at i:100479 original size:4 final size:4
Alignment explanation
Indices: 100463--100496 Score: 59
Period size: 4 Copynumber: 8.5 Consensus size: 4
100453 TATCCCAATA
*
100463 ATAC ATGC ATAC ATAC ATAC ATAC ATAC ATAC AT
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC AT
100497 CTATTAAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.47, C:0.24, G:0.03, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:102195 original size:32 final size:32
Alignment explanation
Indices: 102157--102221 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
102147 GTGGCCTAAT
**
102157 TAGTTTCTCTGTAGTCTAATTAGTTTGCATAG
1 TAGTTTCTCCATAGTCTAATTAGTTTGCATAG
102189 TAGTTTCTCCATAGTCTAATTAGTTTGCATAG
1 TAGTTTCTCCATAGTCTAATTAGTTTGCATAG
102221 T
1 T
102222 CTATTAGTGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.23, C:0.14, G:0.17, T:0.46
Consensus pattern (32 bp):
TAGTTTCTCCATAGTCTAATTAGTTTGCATAG
Found at i:102221 original size:18 final size:18
Alignment explanation
Indices: 102168--102229 Score: 62
Period size: 18 Copynumber: 3.7 Consensus size: 18
102158 AGTTTCTCTG
102168 TAGTCTAATTAGTTTGCA
1 TAGTCTAATTAGTTTGCA
* * *
102186 TAG--TAGTT--TCTCCA
1 TAGTCTAATTAGTTTGCA
102200 TAGTCTAATTAGTTTGCA
1 TAGTCTAATTAGTTTGCA
102218 TAGTCT-ATTAGT
1 TAGTCTAATTAGT
102230 GCAATCTTAT
Statistics
Matches: 34, Mismatches: 6, Indels: 9
0.69 0.12 0.18
Matches are distributed among these distances:
14 7 0.21
16 8 0.24
17 6 0.18
18 13 0.38
ACGTcount: A:0.26, C:0.13, G:0.16, T:0.45
Consensus pattern (18 bp):
TAGTCTAATTAGTTTGCA
Found at i:102948 original size:29 final size:29
Alignment explanation
Indices: 102913--102994 Score: 137
Period size: 29 Copynumber: 2.8 Consensus size: 29
102903 AAGCTAAATT
*
102913 GATGTCATTACTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
102942 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
102971 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
102995 GTTAGGTGAG
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
29 45 0.90
30 5 0.10
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:104312 original size:15 final size:15
Alignment explanation
Indices: 104289--104318 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
104279 ACGAGGCTGG
104289 AATTACAACAATAAC
1 AATTACAACAATAAC
*
104304 AATTCCAACAATAAC
1 AATTACAACAATAAC
104319 TATGAGAAAG
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:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (15 bp):
AATTACAACAATAAC
Found at i:107718 original size:29 final size:29
Alignment explanation
Indices: 107683--107764 Score: 146
Period size: 29 Copynumber: 2.8 Consensus size: 29
107673 AAGCTAAATT
107683 GATGTCATTGCTTACATCATTTAATTAAA
1 GATGTCATTGCTTACATCATTTAATTAAA
*
107712 GATGTCATTGCTTACATCATTTAATTAAT
1 GATGTCATTGCTTACATCATTTAATTAAA
107741 GATGTCATTGCTTACATCAATTTA
1 GATGTCATTGCTTACATC-ATTTA
107765 GTTAGGTGAG
Statistics
Matches: 51, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
29 46 0.90
30 5 0.10
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.43
Consensus pattern (29 bp):
GATGTCATTGCTTACATCATTTAATTAAA
Found at i:115812 original size:13 final size:14
Alignment explanation
Indices: 115789--115818 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
115779 TTTAAATGAG
115789 TTGATTTTAAAAAA
1 TTGATTTTAAAAAA
*
115803 TTGATTTAAAAAAA
1 TTGATTTTAAAAAA
115817 TT
1 TT
115819 AAAATAGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.00, G:0.07, T:0.43
Consensus pattern (14 bp):
TTGATTTTAAAAAA
Found at i:119585 original size:28 final size:30
Alignment explanation
Indices: 119544--119617 Score: 111
Period size: 28 Copynumber: 2.6 Consensus size: 30
119534 TTTTCTGTCC
119544 CATTTTGACCCTTAAAATATACTCA-TTT-T
1 CATTTTGACCCTTAAAA-ATACTCATTTTCT
119573 CA-TTTGACCCTT-AAAATACTCATTTTCT
1 CATTTTGACCCTTAAAAATACTCATTTTCT
119601 CATTTTGACCCTTAAAA
1 CATTTTGACCCTTAAAA
119618 CAATATGGAT
Statistics
Matches: 41, Mismatches: 0, Indels: 7
0.85 0.00 0.15
Matches are distributed among these distances:
26 7 0.17
27 6 0.15
28 13 0.32
29 12 0.29
30 3 0.07
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (30 bp):
CATTTTGACCCTTAAAAATACTCATTTTCT
Found at i:119617 original size:29 final size:27
Alignment explanation
Indices: 119544--119617 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 27
119534 TTTTCTGTCC
119544 CATTTTGACCCTTAAAATATACTCATTTT
1 CATTTTGACCCTT-AAA-ATACTCATTTT
119573 CA-TTTGACCCTTAAAATACTCATTTTCT
1 CATTTTGACCCTTAAAATACTCA-TTT-T
119601 CATTTTGACCCTTAAAA
1 CATTTTGACCCTTAAAA
119618 CAATATGGAT
Statistics
Matches: 42, Mismatches: 0, Indels: 6
0.88 0.00 0.12
Matches are distributed among these distances:
26 7 0.17
27 6 0.14
28 13 0.31
29 16 0.38
ACGTcount: A:0.31, C:0.23, G:0.04, T:0.42
Consensus pattern (27 bp):
CATTTTGACCCTTAAAATACTCATTTT
Done.