Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 48 of 352
Found at i:15396439 original size:20 final size:19
Alignment explanation
Indices: 15396416--15396508 Score: 77
Period size: 20 Copynumber: 4.9 Consensus size: 19
15396406 ATAAAAACGC
*
15396416 ATAAAAATTCTTAAAAATTT
1 ATAAAAATTCATAAAAA-TT
*
15396436 ATAAAAAATCATAAAAATT
1 ATAAAAATTCATAAAAATT
*
15396455 ATTAAAAA-T-AT-TAAATT
1 A-TAAAAATTCATAAAAATT
*
15396472 GATATAAACTT-ATAAAAATT
1 -ATA-AAAATTCATAAAAATT
*
15396492 ATAAAAAATCATAAAAA
1 ATAAAAATTCATAAAAA
15396509 ACTTGAATTG
Statistics
Matches: 60, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
17 7 0.12
18 10 0.17
19 17 0.28
20 26 0.43
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAAAAATTCATAAAAATT
Found at i:15396441 original size:9 final size:9
Alignment explanation
Indices: 15396416--15396508 Score: 64
Period size: 10 Copynumber: 9.8 Consensus size: 9
15396406 ATAAAAACGC
15396416 ATAAAAATT
1 ATAAAAATT
*
15396425 CTTAAAAATTT
1 -ATAAAAA-TT
*
15396436 ATAAAAAATC
1 AT-AAAAATT
15396446 ATAAAAATT
1 ATAAAAATT
15396455 ATTAAAAA-T
1 A-TAAAAATT
*
15396464 AT-TAAATT
1 ATAAAAATT
*
15396472 GATATAAACTT
1 -ATA-AAAATT
15396483 ATAAAAATT
1 ATAAAAATT
*
15396492 ATAAAAAATC
1 AT-AAAAATT
15396502 ATAAAAA
1 ATAAAAA
15396509 ACTTGAATTG
Statistics
Matches: 66, Mismatches: 9, Indels: 17
0.72 0.10 0.18
Matches are distributed among these distances:
7 3 0.05
8 2 0.03
9 23 0.35
10 27 0.41
11 11 0.17
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (9 bp):
ATAAAAATT
Found at i:15396451 original size:19 final size:19
Alignment explanation
Indices: 15396416--15396508 Score: 91
Period size: 19 Copynumber: 4.9 Consensus size: 19
15396406 ATAAAAACGC
* *
15396416 ATAAAAATTCTTAAAAATTT
1 ATAAAAAATCATAAAAA-TT
15396436 ATAAAAAATCATAAAAATT
1 ATAAAAAATCATAAAAATT
* *
15396455 ATTAAAAAT-AT-TAAATT
1 ATAAAAAATCATAAAAATT
* * *
15396472 GATATAAACTTATAAAAATT
1 -ATAAAAAATCATAAAAATT
15396492 ATAAAAAATCATAAAAA
1 ATAAAAAATCATAAAAA
15396509 ACTTGAATTG
Statistics
Matches: 59, Mismatches: 11, Indels: 7
0.77 0.14 0.09
Matches are distributed among these distances:
17 5 0.08
18 8 0.14
19 26 0.44
20 20 0.34
ACGTcount: A:0.62, C:0.04, G:0.01, T:0.32
Consensus pattern (19 bp):
ATAAAAAATCATAAAAATT
Found at i:15397219 original size:10 final size:10
Alignment explanation
Indices: 15397143--15397223 Score: 58
Period size: 10 Copynumber: 8.2 Consensus size: 10
15397133 TTTTATTAAC
15397143 TTTATAATTT
1 TTTATAATTT
* *
15397153 ATTAAAATTT
1 TTTATAATTT
* * *
15397163 GTTAGATTTT
1 TTTATAATTT
15397173 TTTAT-ATTT
1 TTTATAATTT
* *
15397182 TTAATAA-TA
1 TTTATAATTT
*
15397191 TTTATAAGTT
1 TTTATAATTT
*
15397201 TTCATTAATTT
1 TTTA-TAATTT
15397212 TTTATAATTT
1 TTTATAATTT
15397222 TT
1 TT
15397224 ACAAGTTTAT
Statistics
Matches: 53, Mismatches: 15, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
9 14 0.26
10 31 0.58
11 8 0.15
ACGTcount: A:0.32, C:0.01, G:0.04, T:0.63
Consensus pattern (10 bp):
TTTATAATTT
Found at i:15397241 original size:30 final size:30
Alignment explanation
Indices: 15397178--15397242 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
15397168 ATTTTTTTAT
* *
15397178 ATTTTTAATAATATTTATAAGTTTTCATTA
1 ATTTTTAATAATATTTACAAGTTTTCATCA
* *
15397208 ATTTTTTATAATTTTTACAAGTTTAT-ATCA
1 ATTTTTAATAATATTTACAAGTTT-TCATCA
15397238 ATTTT
1 ATTTT
15397243 AATTATTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
30 29 0.97
31 1 0.03
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (30 bp):
ATTTTTAATAATATTTACAAGTTTTCATCA
Found at i:15415635 original size:13 final size:13
Alignment explanation
Indices: 15415617--15415655 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
15415607 GACCTGGCCC
15415617 ATATTAATTTTTT
1 ATATTAATTTTTT
15415630 ATATT-ATTTTTT
1 ATATTAATTTTTT
*
15415642 ATATATACTTTTTT
1 ATAT-TAATTTTTT
15415656 TAAAAAAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 11 0.48
13 6 0.26
14 6 0.26
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:15420222 original size:29 final size:30
Alignment explanation
Indices: 15420163--15420220 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
15420153 TCCGAGCCTT
*
15420163 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
15420193 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
15420221 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:15420450 original size:13 final size:13
Alignment explanation
Indices: 15420432--15420463 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
15420422 TTTCCAGCAA
15420432 TTATGAATTTATT
1 TTATGAATTTATT
15420445 TTATGAATTTATT
1 TTATGAATTTATT
*
15420458 TGATGA
1 TTATGA
15420464 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:15420671 original size:50 final size:50
Alignment explanation
Indices: 15420558--15420799 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
15420548 ATTTGGGTAA
* * *
15420558 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
15420614 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15420664 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
15420714 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
15420764 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
15420800 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:15420747 original size:100 final size:103
Alignment explanation
Indices: 15420558--15420807 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
15420548 ATTTGGGTAA
15420558 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
15420623 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
15420664 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
15420726 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
15420764 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
15420808 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:15689119 original size:27 final size:27
Alignment explanation
Indices: 15689080--15689257 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
15689070 GTATTGAGTC
* * * *
15689080 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
15689107 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15689134 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
15689162 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
15689189 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
15689216 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
15689243 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
15689258 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:15689219 original size:82 final size:81
Alignment explanation
Indices: 15689101--15689256 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
15689091 TGCTATATAA
* *
15689101 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
15689166 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
15689183 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
15689247 CACTTAGTGC
65 CACTTAGTGC
15689257 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:15696453 original size:42 final size:42
Alignment explanation
Indices: 15696374--15696453 Score: 94
Period size: 42 Copynumber: 1.9 Consensus size: 42
15696364 TGCCTAGGCT
*
15696374 GTGTGGCGAAGTCAGTATTGCCCACAGGCTAGTCCCACAGTC
1 GTGTGGCGAAGTCAGTATTGCCCACAGGCTAGCCCCACAGTC
*
15696416 GTGTGAGC-AAGTCAG-ATTTGCCCACGGGCT-GACCCCAC
1 GTGTG-GCGAAGTCAGTA-TTGCCCACAGGCTAG-CCCCAC
15696454 GGCCATGGGG
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
41 2 0.06
42 29 0.88
43 2 0.06
ACGTcount: A:0.21, C:0.30, G:0.29, T:0.20
Consensus pattern (42 bp):
GTGTGGCGAAGTCAGTATTGCCCACAGGCTAGCCCCACAGTC
Found at i:15699531 original size:16 final size:15
Alignment explanation
Indices: 15699510--15699556 Score: 51
Period size: 16 Copynumber: 3.1 Consensus size: 15
15699500 TGTTATTAAA
*
15699510 TTATTAATGATTATTT
1 TTATTAAT-ATTATAT
15699526 TTATTAA-ATTATAT
1 TTATTAATATTATAT
*
15699540 TTAATAATCATTATAT
1 TTATTAAT-ATTATAT
15699556 T
1 T
15699557 ATAATATGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 12 0.44
16 15 0.56
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TTATTAATATTATAT
Found at i:15702940 original size:48 final size:52
Alignment explanation
Indices: 15702870--15702968 Score: 118
Period size: 52 Copynumber: 2.0 Consensus size: 52
15702860 AATAATTATT
15702870 ATTTTAAATTATACAAATTCATA-AACT-A-T-AATCATATTAGTTATAATA
1 ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
* * **
15702918 ATTTTAAATTTTATTAAA-TCATATATTTAATTAAATCATATTAGTTATAAT
1 ATTTTAAATTATA-CAAATTCATATAACTAATTAAATCATATTAGTTATAAT
15702969 CATATATTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
48 17 0.40
49 5 0.12
50 1 0.02
51 1 0.02
52 18 0.43
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.46
Consensus pattern (52 bp):
ATTTTAAATTATACAAATTCATATAACTAATTAAATCATATTAGTTATAATA
Found at i:15702950 original size:17 final size:17
Alignment explanation
Indices: 15702925--15702958 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
15702915 ATAATTTTAA
*
15702925 ATTTTATTAAATCATAT
1 ATTTAATTAAATCATAT
15702942 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
15702959 TAGTTATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.00, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:15702975 original size:17 final size:16
Alignment explanation
Indices: 15702930--15702977 Score: 55
Period size: 17 Copynumber: 3.0 Consensus size: 16
15702920 TTTAAATTTT
15702930 ATTAAATCATATATTTA
1 ATTAAATCATATA-TTA
15702947 ATTAAATC--ATATTA
1 ATTAAATCATATATTA
*
15702961 GTTATAATCATATATTA
1 ATTA-AATCATATATTA
15702978 TGATTTGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
14 6 0.22
15 7 0.26
17 14 0.52
ACGTcount: A:0.46, C:0.06, G:0.02, T:0.46
Consensus pattern (16 bp):
ATTAAATCATATATTA
Found at i:15703032 original size:54 final size:54
Alignment explanation
Indices: 15702974--15703152 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
15702964 ATAATCATAT
15702974 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
15703028 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
15703091 TA
54 -A
*
15703093 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
15703148 ATTAT
1 ATTAT
15703153 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:15703035 original size:61 final size:61
Alignment explanation
Indices: 15702970--15703157 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
15702960 AGTTATAATC
15702970 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
15703031 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
15703090 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
15703151 ATATATT
1 ATATATT
15703158 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:15703049 original size:18 final size:17
Alignment explanation
Indices: 15703018--15703052 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15703008 ATTATTAAGA
15703018 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
15703035 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
15703053 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:15703091 original size:120 final size:120
Alignment explanation
Indices: 15702967--15703189 Score: 419
Period size: 120 Copynumber: 1.9 Consensus size: 120
15702957 ATTAGTTATA
15702967 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
15703032 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
15703087 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
15703152 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
15703190 TAAATATGAT
Statistics
Matches: 100, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
120 100 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.49
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:15703166 original size:18 final size:17
Alignment explanation
Indices: 15703138--15703172 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15703128 ATTATTAAGA
*
15703138 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15703155 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15703173 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15703184 original size:54 final size:54
Alignment explanation
Indices: 15703001--15703186 Score: 142
Period size: 54 Copynumber: 3.2 Consensus size: 54
15702991 TTCATATAAG
* *
15703001 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTATATTATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
* * * *
15703055 AATAATAATTATGT--TATTTTATATTTTACAGTATCATATATTATGGTTTGAGTAAATTCATAT
1 AATAATAATTAT-TAAGAATTT-TA--TTA-A--AT--TATA-TAT--TTTAATTAAATT-ATAT
**
15703118 AAG
53 -TT
* *
15703121 AATATTAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTT
1 AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
15703175 AATAATAATTAT
1 AATAATAATTAT
15703187 GTTTAAATAT
Statistics
Matches: 99, Mismatches: 17, Indels: 32
0.67 0.11 0.22
Matches are distributed among these distances:
53 4 0.04
54 24 0.24
55 5 0.05
56 12 0.12
57 1 0.01
58 3 0.03
59 6 0.06
61 6 0.06
62 3 0.03
63 1 0.01
64 12 0.12
65 5 0.05
66 13 0.13
67 4 0.04
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.51
Consensus pattern (54 bp):
AATAATAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAATTATATTT
Found at i:15703286 original size:143 final size:147
Alignment explanation
Indices: 15703126--15703396 Score: 478
Period size: 143 Copynumber: 1.9 Consensus size: 147
15703116 ATAAGAATAT
*
15703126 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
15703191 AAATATGATTAAATT-TTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
15703252 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
15703269 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
15703334 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
15703397 CAATAATCAT
Statistics
Matches: 120, Mismatches: 2, Indels: 6
0.94 0.02 0.05
Matches are distributed among these distances:
143 79 0.66
144 11 0.09
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:15703309 original size:18 final size:17
Alignment explanation
Indices: 15703281--15703315 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15703271 ATTATTAAGA
*
15703281 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15703298 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15703316 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15703526 original size:44 final size:45
Alignment explanation
Indices: 15703477--15703571 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
15703467 TTACACCTCT
* *
15703477 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
15703521 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
15703566 ATTACA
1 ATTACA
15703572 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:15703571 original size:16 final size:16
Alignment explanation
Indices: 15703550--15703582 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15703540 TTGATTTGCT
*
15703550 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
15703566 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
15703582 A
1 A
15703583 ATCCAATACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:15703592 original size:21 final size:21
Alignment explanation
Indices: 15703563--15703605 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
15703553 ACACCTCTAT
*
15703563 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
15703584 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
15703605 T
1 T
15703606 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:15709068 original size:50 final size:51
Alignment explanation
Indices: 15708991--15709115 Score: 182
Period size: 50 Copynumber: 2.5 Consensus size: 51
15708981 GACCATGGCA
*
15708991 ACAAGTGATAAGTGATAGCTTCGGCTACACTTATCTAATCAAGGA-AAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAA-TG
* *
15709042 A-AAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAATG
* *
15709092 ACAAGTGAAAAGTGGTAGCTTCAG
1 ACAAGTGATAAGTGATAGCTTCAG
15709116 TTACCTGATC
Statistics
Matches: 67, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
50 43 0.64
51 24 0.36
ACGTcount: A:0.38, C:0.15, G:0.22, T:0.26
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTAATCAAGGACAAATG
Found at i:15709133 original size:31 final size:31
Alignment explanation
Indices: 15709095--15709335 Score: 362
Period size: 31 Copynumber: 7.8 Consensus size: 31
15709085 ACAAATGACA
* *
15709095 AGTGAAAAGTGGTAGCTTCAGTTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15709126 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
15709157 AGTGAAAAGTGGTAG-TTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
**
15709188 AGTGAAAAGTGGTAGCTTAAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15709219 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
15709250 AGTGAAAAGTGGTAG-TTCTGGCTACCTGAT-
1 AGTGAAAAGTGGTAGCTTC-GGCTACCTGATC
* *
15709280 AGTGAAAAGTGGTAGCTCCGGGTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
15709311 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
15709336 TAGTGACAAG
Statistics
Matches: 192, Mismatches: 13, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
30 30 0.16
31 160 0.83
32 2 0.01
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:15709201 original size:93 final size:92
Alignment explanation
Indices: 15709095--15709335 Score: 401
Period size: 93 Copynumber: 2.6 Consensus size: 92
15709085 ACAAATGACA
*
15709095 AGTGAAAAGTGGTAGCTTCAGTTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGT
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGT
15709160 GAAAAGTGGTAGTTCCGGCTACCTGAT
66 GAAAAGTGGTAGTTCCGGCTACCTGAT
*
15709187 CAGTGAAAAGTGGTAGCTTAAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAG
1 -AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAG
*
15709252 TGAAAAGTGGTAGTTCTGGCTACCTGAT
65 TGAAAAGTGGTAGTTCCGGCTACCTGAT
* * * * *
15709280 AGTGAAAAGTGGTAGCTCCGGGTACCTGATCAGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTAC
15709336 TAGTGACAAG
Statistics
Matches: 139, Mismatches: 9, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
92 50 0.36
93 89 0.64
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (92 bp):
AGTGAAAAGTGGTAGCTTCAGCTACCTGATCAGTGAAAAGTGGTAGCTTCTGCTACCTGATCAGT
GAAAAGTGGTAGTTCCGGCTACCTGAT
Found at i:15709463 original size:42 final size:43
Alignment explanation
Indices: 15709407--15709521 Score: 171
Period size: 42 Copynumber: 2.7 Consensus size: 43
15709397 TATGTGATTC
*
15709407 GTGTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
*
15709449 GTGTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
* **
15709491 GTGTAAGACCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGCTGGGCTATGGCATCGA
15709522 GAAAACGAAG
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 64 0.97
43 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.27, T:0.28
Consensus pattern (43 bp):
GTGTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAGAT
Found at i:15710739 original size:39 final size:39
Alignment explanation
Indices: 15710685--15710785 Score: 157
Period size: 40 Copynumber: 2.6 Consensus size: 39
15710675 CTTTTAGTGG
** *
15710685 CTTTAGCAACGCTTTTCAAAAACGCCACTATAGGTACAC
1 CTTTAGCGGCGCTTTTTAAAAACGCCACTATAGGTACAC
*
15710724 CTTTAGCGGCGCTTTTTTAAAAACGCCGCTATAGGTACAC
1 CTTTAGCGGCGC-TTTTTAAAAACGCCACTATAGGTACAC
15710764 CTTTAGCGGCGCTTTTTAAAAA
1 CTTTAGCGGCGCTTTTTAAAAA
15710786 ACACCGCTAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
39 20 0.35
40 37 0.65
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTTAAAAACGCCACTATAGGTACAC
Found at i:15710756 original size:40 final size:40
Alignment explanation
Indices: 15710697--15710794 Score: 160
Period size: 40 Copynumber: 2.5 Consensus size: 40
15710687 TTAGCAACGC
* *
15710697 TTTTCAAAAACGCCACTATAGGTACACCTTTAGCGGCGCT
1 TTTTAAAAAACGCCGCTATAGGTACACCTTTAGCGGCGCT
*
15710737 TTTTTAAAAACGCCGCTATAGGTACACCTTTAGCGGCGCT
1 TTTTAAAAAACGCCGCTATAGGTACACCTTTAGCGGCGCT
*
15710777 TTTTAAAAAACACCGCTA
1 TTTTAAAAAACGCCGCTA
15710795 ATGCTCGATC
Statistics
Matches: 54, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 54 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.29
Consensus pattern (40 bp):
TTTTAAAAAACGCCGCTATAGGTACACCTTTAGCGGCGCT
Found at i:15710808 original size:40 final size:41
Alignment explanation
Indices: 15710697--15710835 Score: 133
Period size: 40 Copynumber: 3.5 Consensus size: 41
15710687 TTAGCAACGC
* * * *
15710697 TTTTCAAAAACGCCACT-ATAGGTACACCTTTAGCGGCGCT
1 TTTTAAAAAACACCGCTAATAGCTACACCTTTAGCGGCGCT
* * *
15710737 TTTTTAAAAACGCCGCT-ATAGGTACACCTTTAGCGGCGCT
1 TTTTAAAAAACACCGCTAATAGCTACACCTTTAGCGGCGCT
* *
15710777 TTTTAAAAAACACCGCTAAT-GCT-CGATCTTTAGCGGCGTT
1 TTTTAAAAAACACCGCTAATAGCTAC-ACCTTTAGCGGCGCT
* * *
15710817 TTTTGAAAGACACCACTAA
1 TTTTAAAAAACACCGCTAA
15710836 ATAATTTTGC
Statistics
Matches: 87, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 84 0.97
41 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.29
Consensus pattern (41 bp):
TTTTAAAAAACACCGCTAATAGCTACACCTTTAGCGGCGCT
Found at i:15710970 original size:116 final size:116
Alignment explanation
Indices: 15710764--15711021 Score: 437
Period size: 116 Copynumber: 2.2 Consensus size: 116
15710754 ATAGGTACAC
* * * ** *
15710764 CTTTAGCGGCGCTTTTTAAAAAACACCGCTAATGCTCGATCTTTAGCGGCGTTTTTTGAAAGACA
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACA
*
15710829 CCACTAAATAATTTTGCAAACCGACATCATTTTGTATTGAACTTTTAGTGG
66 CCACTAAATAATTTTGCAAAACGACATCATTTTGTATTGAACTTTTAGTGG
*
15710880 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACG
1 CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACA
15710945 CCACTAAATAATTTTGCAAAACGACATCATTTTGTATTGAACTTTTAGTGG
66 CCACTAAATAATTTTGCAAAACGACATCATTTTGTATTGAACTTTTAGTGG
15710996 CTTTAGCAGCGCTTTTT-AAAAACGCC
1 CTTTAGCAGCGCTTTTTAAAAAACGCC
15711022 ACAAAAAATA
Statistics
Matches: 134, Mismatches: 8, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
115 9 0.07
116 125 0.93
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (116 bp):
CTTTAGCAGCGCTTTTTAAAAAACGCCGCTAATGCTCGATCTTTAGCAGCGTTTTTCAAAAAACA
CCACTAAATAATTTTGCAAAACGACATCATTTTGTATTGAACTTTTAGTGG
Found at i:15711498 original size:36 final size:36
Alignment explanation
Indices: 15711427--15711499 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 36
15711417 GGTTTTAGGC
*
15711427 TTATGTGTTAGGTATTAAGGGTTAAGGGTTCAGGAT
1 TTATGTGTTAGGTATTAAGGGTTAAGGGTTAAGGAT
* *
15711463 TTATGTTTTAGG-ATTCAA-GGTTTAGGGTTTAAGGAT
1 TTATGTGTTAGGTATT-AAGGGTTAAGGG-TTAAGGAT
15711499 T
1 T
15711500 ATGAGTTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 11 0.34
36 21 0.66
ACGTcount: A:0.25, C:0.03, G:0.30, T:0.42
Consensus pattern (36 bp):
TTATGTGTTAGGTATTAAGGGTTAAGGGTTAAGGAT
Found at i:15711633 original size:14 final size:15
Alignment explanation
Indices: 15711616--15711655 Score: 64
Period size: 14 Copynumber: 2.7 Consensus size: 15
15711606 ATCATTATAG
15711616 TTTAGGGTTTATGA-
1 TTTAGGGTTTATGAT
*
15711630 TTTAGGGTATATGAT
1 TTTAGGGTTTATGAT
15711645 TTTAGGGTTTA
1 TTTAGGGTTTA
15711656 AAGTGTATGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 13 0.57
15 10 0.43
ACGTcount: A:0.23, C:0.00, G:0.28, T:0.50
Consensus pattern (15 bp):
TTTAGGGTTTATGAT
Found at i:15712331 original size:7 final size:7
Alignment explanation
Indices: 15712321--15712348 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
15712311 AAAAATTAAA
15712321 AATATTT
1 AATATTT
15712328 AATATTT
1 AATATTT
15712335 AATATTT
1 AATATTT
15712342 AATATTT
1 AATATTT
15712349 TTGTCCATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (7 bp):
AATATTT
Found at i:15712596 original size:42 final size:41
Alignment explanation
Indices: 15712498--15712597 Score: 112
Period size: 41 Copynumber: 2.4 Consensus size: 41
15712488 GCGTTTTGGG
**
15712498 AAAAACGCTACAAAAAATTAAACTATACTGGCATTTTTATT
1 AAAAACGCCGCAAAAAATTAAACTATACTGGCATTTTTATT
* * *
15712539 AAAAATGCCGCAAAAAATTAAACTATAGTGGTGC-TTTTTGTT
1 AAAAACGCCGCAAAAAATTAAACTATACT-G-GCATTTTTATT
* *
15712581 GAAAACGCCGGAAAAAA
1 AAAAACGCCGCAAAAAA
15712598 GGCCATTACT
Statistics
Matches: 49, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 25 0.51
42 22 0.45
43 2 0.04
ACGTcount: A:0.45, C:0.14, G:0.14, T:0.27
Consensus pattern (41 bp):
AAAAACGCCGCAAAAAATTAAACTATACTGGCATTTTTATT
Found at i:15715878 original size:168 final size:168
Alignment explanation
Indices: 15715599--15715940 Score: 650
Period size: 168 Copynumber: 2.0 Consensus size: 168
15715589 CGCATTTGAT
15715599 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
1 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
15715664 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAATGATCTAAGTTTGGCTCTCTCTTTC
66 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAATGATCTAAGTTTGGCTCTCTCTTTC
15715729 AATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
131 AATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
*
15715767 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCGTTTAAACTTAAATGAAAATTTGCAAACTGT
1 TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
15715832 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCA-AAGTGATCTAAGTTTGGCTCTCTCTTT
66 CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAA-TGATCTAAGTTTGGCTCTCTCTTT
*
15715896 CAATAAAAAAGTTGAAATCAGGGAACGAGATTGGTGCAA
130 CAATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
15715935 TGTGGT
1 TGTGGT
15715941 TACATGCCAT
Statistics
Matches: 171, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
167 2 0.01
168 169 0.99
ACGTcount: A:0.27, C:0.13, G:0.20, T:0.39
Consensus pattern (168 bp):
TGTGGTATGATCTTCTGCTATATGCTCTTTTATCATTTAAACTTAAATGAAAATTTGCAAACTGT
CTGATTTTGCATGGTGGTATGTTCTTTTGTTATGTCAGAATGATCTAAGTTTGGCTCTCTCTTTC
AATAAAAAAGCTGAAATCAGGGAACGAGATTGGTGCAA
Found at i:15716983 original size:43 final size:43
Alignment explanation
Indices: 15716848--15717049 Score: 158
Period size: 43 Copynumber: 4.7 Consensus size: 43
15716838 TATATATTTT
* * **
15716848 TAAAGGTTAT-ATTCTTTAGCGGCGTTTGTGAGAAAAGTGCCGC
1 TAAAGGTTATGGTT-TTTAGCGGCGTTTGTGAAAAAAGCACCGC
** * * ** **
15716891 TAAAGGTT-T-GTTACGTAGCGGTGTTTGTAAAAAAAAAAAGTTGC
1 TAAAGGTTATGGTT-TTTAGCGGCGTTTGT-GAAAAAAGCA-CCGC
* *
15716935 TAAAGGTTATGGTTTTTAGCGGTGTTTGTGAAAAAAGCACTGC
1 TAAAGGTTATGGTTTTTAGCGGCGTTTGTGAAAAAAGCACCGC
* * * *
15716978 TAAAGGTCATGGTCTTTAGCGGCGTTTGCGAAAAAAGCGCCGC
1 TAAAGGTTATGGTTTTTAGCGGCGTTTGTGAAAAAAGCACCGC
* * *
15717021 TAAAGGTCATGGTCTTTAGCGGCATTTGT
1 TAAAGGTTATGGTTTTTAGCGGCGTTTGT
15717050 TATAGCGGCG
Statistics
Matches: 129, Mismatches: 26, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
42 15 0.12
43 80 0.62
44 17 0.13
45 14 0.11
46 3 0.02
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (43 bp):
TAAAGGTTATGGTTTTTAGCGGCGTTTGTGAAAAAAGCACCGC
Found at i:15721008 original size:30 final size:30
Alignment explanation
Indices: 15720972--15721028 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
15720962 AGGTGGTAAC
15720972 AATGCAGCAGCATGCAAGTGACCAAGCCAT
1 AATGCAGCAGCATGCAAGTGACCAAGCCAT
*
15721002 AATGCAGTAGCATGCAAGTGACCAAGC
1 AATGCAGCAGCATGCAAGTGACCAAGC
15721029 AACACAGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.37, C:0.25, G:0.25, T:0.14
Consensus pattern (30 bp):
AATGCAGCAGCATGCAAGTGACCAAGCCAT
Found at i:15721315 original size:22 final size:22
Alignment explanation
Indices: 15721287--15721331 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
15721277 TTTATTCAAG
15721287 TAATGAGAAGAAAATCTTTCTA
1 TAATGAGAAGAAAATCTTTCTA
15721309 TAATGAGAAGAAAATCTTTCTA
1 TAATGAGAAGAAAATCTTTCTA
15721331 T
1 T
15721332 CTCTCATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (22 bp):
TAATGAGAAGAAAATCTTTCTA
Found at i:15724301 original size:30 final size:31
Alignment explanation
Indices: 15724260--15724319 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
15724250 TTGAACTTAT
15724260 TTGTGTAACCCTA-TTTTGAATTGCACACAA
1 TTGTGTAACCCTATTTTTGAATTGCACACAA
* *
15724290 TTGTGTGACCCTATTTTTGAATTGTACACA
1 TTGTGTAACCCTATTTTTGAATTGCACACA
15724320 GTCTGATCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 12 0.44
31 15 0.56
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (31 bp):
TTGTGTAACCCTATTTTTGAATTGCACACAA
Found at i:15728280 original size:94 final size:92
Alignment explanation
Indices: 15728164--15728380 Score: 262
Period size: 94 Copynumber: 2.3 Consensus size: 92
15728154 TTATTTGTAT
*
15728164 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATGAAAGACAGTGTAAGACCATGT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACA-GATGAAAGACAGTGTAAGA-CATGT
*
15728228 TTGGGACATGGCATCGGCAATGAGACGAGA
64 CTGGGACAT-GCATCGGCAATGAGACGAGA
* ** * *
15728258 GCTAGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATGTAAGCCAGTGTAAGACATGTCT
1 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACAGATGAAAGACAGTGTAAGACATGTCT
* * *
15728323 GGGACATGCATCGGCTATGAGA-TA-T
66 GGGACATGCATCGGCAATGAGACGAGA
15728348 G-TCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GCT-AGTGTAAGA-CATGTCTGGGACAT-GCATC
15728381 CACACGGATA
Statistics
Matches: 108, Mismatches: 11, Indels: 10
0.84 0.09 0.08
Matches are distributed among these distances:
89 1 0.01
90 10 0.09
91 14 0.13
92 19 0.18
93 13 0.12
94 50 0.46
95 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (92 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTACAGATGAAAGACAGTGTAAGACATGTCT
GGGACATGCATCGGCAATGAGACGAGA
Found at i:15728311 original size:46 final size:46
Alignment explanation
Indices: 15728167--15728380 Score: 213
Period size: 46 Copynumber: 4.6 Consensus size: 46
15728157 TTTGTATGCT
** * * *
15728167 AGTGTAAGACATGTCTGGGACATGCATCGGCC-ACATTATGAAAGAC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGA-GATGTAAGCC
* ** * *
15728213 AGTGTAAGACCATGTTTGGGACATGGCATCGGCAATGAGACG-AGAGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTTGAGATGTA-AGCC
*
15728261 AGTGTAAGACATGTTTGGGACATGCATCGGCCTTGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
* *
15728307 AGTGTAAGACATGTCTGGGACATGCATCGG-CTATGAGA--TATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-TGAGATGTAAGCC
15728351 AGTGTAAGACCATGTCTGGGACATGGCATC
1 AGTGTAAGA-CATGTCTGGGACAT-GCATC
15728381 CACACGGATA
Statistics
Matches: 145, Mismatches: 15, Indels: 16
0.82 0.09 0.09
Matches are distributed among these distances:
44 13 0.09
45 16 0.11
46 65 0.45
47 29 0.20
48 21 0.14
49 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCTTGAGATGTAAGCC
Found at i:15728391 original size:44 final size:47
Alignment explanation
Indices: 15728306--15728426 Score: 126
Period size: 50 Copynumber: 2.6 Consensus size: 47
15728296 AGATGTAAGC
** *
15728306 CAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCTATGAGATATGT-
1 CAGTGTAAGACCATGTCTGGGACATGGCATCCACTACGAGATATGTA
15728350 CAGTGTAAGACCATGTCTGGGACATGGCATCCAC-ACG-GATATGTAAGA
1 CAGTGTAAGACCATGTCTGGGACATGGCATCCACTACGAGATATGT---A
*
15728398 GCTAGTGTAAGACCATGTCAGGGACATGG
1 -C-AGTGTAAGACCATGTCTGGGACATGG
15728427 TGTCGGCCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
44 17 0.26
45 16 0.25
46 6 0.09
49 1 0.02
50 25 0.38
ACGTcount: A:0.29, C:0.18, G:0.30, T:0.23
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCCACTACGAGATATGTA
Found at i:15733284 original size:7 final size:6
Alignment explanation
Indices: 15733268--15733354 Score: 81
Period size: 6 Copynumber: 14.7 Consensus size: 6
15733258 AAGAAAATTG
* * * *
15733268 AAAAAT AAAAAT CAAAAG AAAAAG AAAAAT AAGAAT -AAAAT AAATAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT -AA-AAAT
* *
15733317 GAAAAT AAAAAT AAGAAT --AAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAA
15733355 TAGGAGGATT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
4 3 0.05
5 4 0.06
6 53 0.80
7 2 0.03
8 4 0.06
ACGTcount: A:0.78, C:0.01, G:0.06, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:15733338 original size:22 final size:21
Alignment explanation
Indices: 15733270--15733356 Score: 88
Period size: 22 Copynumber: 4.0 Consensus size: 21
15733260 GAAAATTGAA
* *
15733270 AAATAAAAATCAAAAGAAAAAGAA
1 AAATAAAAAT-AAAA-ATAAA-AT
*
15733294 AAATAAGAAT-AAAAT-AAAT
1 AAATAAAAATAAAAATAAAAT
*
15733313 AAATGAAAATAAAAATAAGAAT
1 AAATAAAAATAAAAATAA-AAT
15733335 AAATAAAAATAAAAATAAAAT
1 AAATAAAAATAAAAATAAAAT
15733356 A
1 A
15733357 GGAGGATTCA
Statistics
Matches: 54, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
19 9 0.17
20 7 0.13
21 6 0.11
22 23 0.43
24 9 0.17
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.16
Consensus pattern (21 bp):
AAATAAAAATAAAAATAAAAT
Found at i:15733351 original size:16 final size:16
Alignment explanation
Indices: 15733270--15733353 Score: 73
Period size: 16 Copynumber: 5.2 Consensus size: 16
15733260 GAAAATTGAA
*
15733270 AAATAAAAATCAAAAGAA
1 AAATAAAAAT-AAAA-AT
* *
15733288 AAAGAAAAATAAGAAT
1 AAATAAAAATAAAAAT
* *
15733304 AAA-ATAAATAAATGA-
1 AAATAAAAATAAA-AAT
*
15733319 AAATAAAAATAAGAAT
1 AAATAAAAATAAAAAT
15733335 AAATAAAAATAAAAAT
1 AAATAAAAATAAAAAT
15733351 AAA
1 AAA
15733354 ATAGGAGGAT
Statistics
Matches: 53, Mismatches: 10, Indels: 8
0.75 0.14 0.11
Matches are distributed among these distances:
15 11 0.21
16 30 0.57
17 3 0.06
18 9 0.17
ACGTcount: A:0.77, C:0.01, G:0.06, T:0.15
Consensus pattern (16 bp):
AAATAAAAATAAAAAT
Found at i:15738686 original size:13 final size:13
Alignment explanation
Indices: 15738664--15738696 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
15738654 AAGGGTTTGT
15738664 TTAT-TAAACTAA
1 TTATCTAAACTAA
15738676 TTATCTAAACTAA
1 TTATCTAAACTAA
*
15738689 TTAACTAA
1 TTATCTAA
15738697 TTTAATCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:15743617 original size:57 final size:58
Alignment explanation
Indices: 15743524--15743645 Score: 194
Period size: 57 Copynumber: 2.1 Consensus size: 58
15743514 ATAGAAATTG
*
15743524 TGAAAATGGATAAATGAGAAACATTTGAAAATGAATGT-GATTTTCTCCAAAATAAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAG-TTTTCTCCAAAATAAAAA
* *
15743582 TGAAAATGGAGAAATGA-AATCATTTGAAAATGAATGTAGTTTTCTCCAAAATGAAAA
1 TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATAAAAA
15743639 TGAAAAT
1 TGAAAAT
15743646 AACCTGGAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
57 43 0.72
58 17 0.28
ACGTcount: A:0.49, C:0.07, G:0.16, T:0.28
Consensus pattern (58 bp):
TGAAAATGGAGAAATGAGAAACATTTGAAAATGAATGTAGTTTTCTCCAAAATAAAAA
Found at i:15744446 original size:22 final size:22
Alignment explanation
Indices: 15744418--15744461 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
15744408 TAAATATCAC
15744418 AAATCAACTCAATTTTCAAAAT
1 AAATCAACTCAATTTTCAAAAT
15744440 AAATCAACTCAATTTTCAAAAT
1 AAATCAACTCAATTTTCAAAAT
15744462 TTTTATTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.50, C:0.18, G:0.00, T:0.32
Consensus pattern (22 bp):
AAATCAACTCAATTTTCAAAAT
Found at i:15744554 original size:30 final size:30
Alignment explanation
Indices: 15744518--15744577 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
15744508 TCTAATAAAA
*
15744518 AGTTGATCCCCAAGTCTAACCTCATAGCAC
1 AGTTGATCCCCAAGTCTAACCCCATAGCAC
15744548 AGTTGATCCCCAAGTCTAACCCCATAGCAC
1 AGTTGATCCCCAAGTCTAACCCCATAGCAC
15744578 CGATATTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.35, G:0.13, T:0.22
Consensus pattern (30 bp):
AGTTGATCCCCAAGTCTAACCCCATAGCAC
Found at i:15748327 original size:18 final size:18
Alignment explanation
Indices: 15748301--15748343 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
15748291 AAAAGCTGTT
*
15748301 TTTACATATATTAATAAA
1 TTTATATATATTAATAAA
15748319 TTTATATATATTAATAAA
1 TTTATATATATTAATAAA
15748337 TTTATAT
1 TTTATAT
15748344 TTTAAATTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (18 bp):
TTTATATATATTAATAAA
Found at i:15749648 original size:32 final size:32
Alignment explanation
Indices: 15749602--15749662 Score: 113
Period size: 32 Copynumber: 1.9 Consensus size: 32
15749592 TGTCAATCAT
15749602 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCCAACAAGCTTAAAACATAATAAA
*
15749634 TTCAATATCTAACAAGCTTAAAACATAAT
1 TTCAATATCCAACAAGCTTAAAACATAAT
15749663 TAATATCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 28 1.00
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (32 bp):
TTCAATATCCAACAAGCTTAAAACATAATAAA
Found at i:15749669 original size:27 final size:30
Alignment explanation
Indices: 15749602--15749675 Score: 100
Period size: 32 Copynumber: 2.5 Consensus size: 30
15749592 TGTCAATCAT
*
15749602 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGCTTAAAAC--AATAAA
15749634 TTCAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACAATAAA
15749662 TT-AATATCTAACAA
1 TTCAATATCTAACAA
15749676 ATTCAAGACA
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
27 12 0.29
28 4 0.10
29 2 0.05
32 23 0.56
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACAATAAA
Found at i:15749686 original size:27 final size:28
Alignment explanation
Indices: 15749602--15749689 Score: 81
Period size: 32 Copynumber: 3.0 Consensus size: 28
15749592 TGTCAATCAT
* *
15749602 TTCAATATCCAACAAGCTTAAAACATAATAAA
1 TTCAATATCTAACAAGATTAAAAC---AT-AA
*
15749634 TTCAATATCTAACAAGCTTAAAACATAA
1 TTCAATATCTAACAAGATTAAAACATAA
*
15749662 TT-AATATCTAACAA-ATTCAAGACATAA
1 TTCAATATCTAACAAGATT-AAAACATAA
15749689 T
1 T
15749690 AATTTCAAAA
Statistics
Matches: 52, Mismatches: 3, Indels: 7
0.84 0.05 0.11
Matches are distributed among these distances:
26 2 0.04
27 21 0.40
28 4 0.08
29 2 0.04
32 23 0.44
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.28
Consensus pattern (28 bp):
TTCAATATCTAACAAGATTAAAACATAA
Found at i:15754439 original size:12 final size:12
Alignment explanation
Indices: 15754422--15754447 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15754412 CAATATACTA
15754422 AAATATTTTTTT
1 AAATATTTTTTT
15754434 AAATATTTTTTT
1 AAATATTTTTTT
15754446 AA
1 AA
15754448 CTTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
AAATATTTTTTT
Found at i:15754505 original size:17 final size:16
Alignment explanation
Indices: 15754476--15754518 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
15754466 AATTGAAAAA
15754476 AGAATT-AAA-TTTTT
1 AGAATTAAAATTTTTT
15754490 AGAGATTAAAATTTTTT
1 AGA-ATTAAAATTTTTT
*
15754507 AGAATTAGAATT
1 AGAATTAAAATT
15754519 AAAATGATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 3 0.12
15 3 0.12
16 11 0.44
17 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.12, T:0.44
Consensus pattern (16 bp):
AGAATTAAAATTTTTT
Found at i:15758192 original size:17 final size:17
Alignment explanation
Indices: 15758166--15758199 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15758156 TAAGAAATCT
15758166 TAAATTT-AAAATAATA
1 TAAATTTAAAAATAATA
15758182 TAAATTTTAAAAATAATA
1 TAAA-TTTAAAAATAATA
15758200 ATATGGCCTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.25
17 3 0.19
18 9 0.56
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
TAAATTTAAAAATAATA
Found at i:15765135 original size:13 final size:13
Alignment explanation
Indices: 15765117--15765142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
15765107 CTTGATGCTA
15765117 TTGGTAAAACTAT
1 TTGGTAAAACTAT
15765130 TTGGTAAAACTAT
1 TTGGTAAAACTAT
15765143 CACTTTGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.08, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGGTAAAACTAT
Found at i:15766772 original size:17 final size:17
Alignment explanation
Indices: 15766752--15766800 Score: 55
Period size: 17 Copynumber: 2.9 Consensus size: 17
15766742 CTATTATTTT
15766752 TAAAAATATATAAAATA
1 TAAAAATATATAAAATA
*
15766769 TAAACATAGTA-AAAATA
1 TAAAAATA-TATAAAATA
* *
15766786 TATAAATTTATAAAA
1 TAAAAATATATAAAA
15766801 AGAGTTTATA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 2 0.08
17 22 0.85
18 2 0.08
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (17 bp):
TAAAAATATATAAAATA
Found at i:15768770 original size:22 final size:22
Alignment explanation
Indices: 15768731--15768772 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15768721 TAAAGCTCAT
* *
15768731 TTATATTTGATGATAATTAAAA
1 TTATATTTGATAACAATTAAAA
*
15768753 TTATATTTTATAACAATTAA
1 TTATATTTGATAACAATTAA
15768773 CAAGGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (22 bp):
TTATATTTGATAACAATTAAAA
Found at i:15772749 original size:23 final size:22
Alignment explanation
Indices: 15772723--15772791 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
15772713 TATATAATGC
15772723 AATAACAATGAAGACAAAAATAA
1 AATAACAATGAA-ACAAAAATAA
** *
15772746 AATAAGGATGAAACAATAAT--
1 AATAACAATGAAACAAAAATAA
* *
15772766 AATAA-AATAAAATAAAAATAA
1 AATAACAATGAAACAAAAATAA
15772787 CAATA
1 -AATA
15772792 CATTAATAAG
Statistics
Matches: 36, Mismatches: 7, Indels: 7
0.72 0.14 0.14
Matches are distributed among these distances:
19 10 0.28
20 5 0.14
22 11 0.31
23 10 0.28
ACGTcount: A:0.70, C:0.06, G:0.07, T:0.17
Consensus pattern (22 bp):
AATAACAATGAAACAAAAATAA
Found at i:15772768 original size:3 final size:3
Alignment explanation
Indices: 15772760--15772819 Score: 52
Period size: 3 Copynumber: 20.0 Consensus size: 3
15772750 AGGATGAAAC
* * * *
15772760 AAT AAT AAT AA- AAT AA- AAT AAA AAT AAC AAT ACATT AAT AAG AGT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-A-T AAT AAT AAT
15772805 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
15772820 GATGATGATG
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
2 4 0.09
3 37 0.82
4 2 0.04
5 2 0.04
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:15772799 original size:30 final size:28
Alignment explanation
Indices: 15772739--15772818 Score: 70
Period size: 30 Copynumber: 2.6 Consensus size: 28
15772729 AATGAAGACA
**
15772739 AAAATAAAATAAGGATGAAACAATAATAAT
1 AAAATAAAATAAAAAT--AACAATAATAAT
15772769 AAAATAAAATAAAAATAACAATACATTAAT
1 AAAATAAAATAAAAATAACAATA-A-TAAT
* *
15772799 AAGAGTAATAATAATAATAA
1 AA-AATAA-AATAAAAATAA
15772819 TGATGATGAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
28 7 0.17
29 1 0.02
30 20 0.48
31 4 0.10
32 10 0.24
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.23
Consensus pattern (28 bp):
AAAATAAAATAAAAATAACAATAATAAT
Found at i:15774853 original size:43 final size:43
Alignment explanation
Indices: 15774746--15775049 Score: 211
Period size: 43 Copynumber: 6.8 Consensus size: 43
15774736 TTATTTGTAT
* * * ** *
15774746 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATACGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAG--ACTTTAA
* *
15774791 CTTC-AGCTTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAA
1 CTTCAATC-TGCTCCACTGCAACTTCAGGGAGATAAGACTTTAA
* * *
15774834 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG-GTTT-G
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTAA
* * * * *
15774875 CTAT-GATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTTATTTATA
1 CT-TCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-C------TTTA-A
** * * *
15774926 GCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGTTAT
1 -CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA--CTTTAA
* * *
15774972 CTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTAA
* *
15775015 CTTCAACCTGCTCCACTGCAACTTTAGGGAGATAA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAA
15775050 AGTTTGTTTT
Statistics
Matches: 203, Mismatches: 40, Indels: 34
0.73 0.14 0.12
Matches are distributed among these distances:
41 28 0.14
42 4 0.02
43 69 0.34
44 4 0.02
45 62 0.31
47 3 0.01
49 3 0.01
51 1 0.00
52 27 0.13
53 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (43 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTTAA
Found at i:15774855 original size:88 final size:88
Alignment explanation
Indices: 15774746--15775049 Score: 285
Period size: 88 Copynumber: 3.4 Consensus size: 88
15774736 TTATTTGTAT
* * * * *
15774746 CTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATACGCTATCTTCAGCTTGCTCCGCTGCA
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGCTTGCTCCACTGCA
15774811 ACTTCAGGGAGATAAGACTTTAA
66 ACTTCAGGGAGATAAGACTTTAA
* * * * * * *
15774834 CTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGCTA---TGATC-TGCTCTACTACA
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGCTTGCTCCACTGCA
* *
15774895 ACTTTAGAGAGATAAGATCTGTTTATTTATA
66 ACTTCAGGGAGATAAGA-C------TTTA-A
* ** * *
15774926 GCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGTTATCTTCAG-TCTGTTCCACTG
1 -CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGCT-TGCTCCACTG
*
15774990 CAACTTCAGGGAGATAAGATTTTAA
64 CAACTTCAGGGAGATAAGACTTTAA
* *
15775015 CTTCAACCTGCTCCACTGCAACTTTAGGGAGATAA
1 CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAA
15775050 AGTTTGTTTT
Statistics
Matches: 168, Mismatches: 34, Indels: 28
0.73 0.15 0.12
Matches are distributed among these distances:
84 24 0.14
85 4 0.02
88 67 0.40
89 1 0.01
90 4 0.02
91 4 0.02
92 1 0.01
93 37 0.22
96 2 0.01
97 24 0.14
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (88 bp):
CTTCAACCTGCTCCACTGCAACTTCAGGGAAATAAGATTCGCTATCTTCAGCTTGCTCCACTGCA
ACTTCAGGGAGATAAGACTTTAA
Found at i:15774903 original size:181 final size:181
Alignment explanation
Indices: 15774608--15775055 Score: 684
Period size: 181 Copynumber: 2.5 Consensus size: 181
15774598 GGATTAGTTG
* * * * *
15774608 TCTTCAGTCTGCTCCGCTACAACTTCAGGGAGATAAGACTTGTAATTTCAACCAGCTCAACTACA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTGCA
* * *
15774673 ACTTCAAGGAGAT-AGGATTTGCTATGATCTGCTCTACTGCAACTTTAGAGATATAAGATCTGTT
65 ACTTCAGGGAGATAAGG-TTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTT
* * *
15774737 TATTTGTATCTTCAATCTGTTCCACTGCAACTTCAAGGAAATAAGATACGCTA
129 TATTTATAGCTTCAATCTATTCCACTGCAACTTCAAGGAAATAAGATACGCTA
15774790 TCTTCAG-CTTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCA
1 TCTTCAGTC-TGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCA
15774854 ACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTT
65 ACTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTT
* * *
15774919 ATTTATAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGTTA
130 ATTTATAGCTTCAATCTATTCCACTGCAACTTCAAGGAAATAAGATACGCTA
* * *
15774971 TCTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAACTTCAACCTGCTCCACTGCAA
1 TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAA
* *
15775036 CTTTAGGGAGATAAAGTTTG
66 CTTCAGGGAGATAAGGTTTG
15775056 TTTTGACCTG
Statistics
Matches: 244, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
181 202 0.83
182 42 0.17
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (181 bp):
TCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAAGACTTTAACTTCAACCTGCTCCACTGCAA
CTTCAGGGAGATAAGGTTTGCTATGATCTGCTCTACTACAACTTTAGAGAGATAAGATCTGTTTA
TTTATAGCTTCAATCTATTCCACTGCAACTTCAAGGAAATAAGATACGCTA
Found at i:15774991 original size:45 final size:43
Alignment explanation
Indices: 15774927--15775049 Score: 165
Period size: 45 Copynumber: 2.8 Consensus size: 43
15774917 TTATTTATAG
* * *
15774927 CTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGTTAT
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATT--TTAA
*
15774972 CTTCAGTCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAA
* * *
15775015 CTTCAACCTGCTCCACTGCAACTTTAGGGAGATAA
1 CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAA
15775050 AGTTTGTTTT
Statistics
Matches: 70, Mismatches: 8, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
43 34 0.49
45 36 0.51
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (43 bp):
CTTCAATCTGTTCCACTGCAACTTCAGGGAGATAAGATTTTAA
Found at i:15775142 original size:44 final size:44
Alignment explanation
Indices: 15775063--15775170 Score: 130
Period size: 44 Copynumber: 2.4 Consensus size: 44
15775053 TTGTTTTGAC
* *
15775063 CTGCCCCATTGCTATCTCAAGGAAACAAGATCTACAATCTTCAG
1 CTGCTCCATTGCTACCTCAAGGAAACAAGATCTACAATCTTCAG
* * *
15775107 TCTGCTCCATTGCTACCT-TAGGAAGATAAGA-CTACAATCTTTAG
1 -CTGCTCCATTGCTACCTCAAGGAA-ACAAGATCTACAATCTTCAG
15775151 CTTGCTCCATTGCTACCTCA
1 C-TGCTCCATTGCTACCTCA
15775171 GAGAGATGAG
Statistics
Matches: 54, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
43 1 0.02
44 33 0.61
45 20 0.37
ACGTcount: A:0.28, C:0.29, G:0.14, T:0.30
Consensus pattern (44 bp):
CTGCTCCATTGCTACCTCAAGGAAACAAGATCTACAATCTTCAG
Found at i:15775388 original size:178 final size:177
Alignment explanation
Indices: 15775055--15775469 Score: 569
Period size: 178 Copynumber: 2.3 Consensus size: 177
15775045 GATAAAGTTT
* * * *
15775055 GTTTTGACCTGCCCCATTGCTATCTCAAGGAAACAAGATCTACAATCTTCAGTCTGCTCCATTGC
1 GTTTTGATCTGCCCCATTGCTATCTCAAAGAGACAAGATCTACAATCTTCAGTCTGCTCCATTAC
* *
15775120 TACCTTAGGAAGATAAGACTACAATCTTTAGCTTGCTCCATTGCTACCTCAGAGAGATGAGGCTG
66 TACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCATTGCTACCTCAGAGAGATGAGGCTG
* *
15775185 GTGGTTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATTCGCC
131 GTGGCTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATCCGCC
* *
15775232 GCTTTTGATCTGCCCCACTGCTATCTCAAAGAGACAAGATCTACAATCTTCAGTCTGCTCCCTTA
1 G-TTTTGATCTGCCCCATTGCTATCTCAAAGAGACAAGATCTACAATCTTCAGTCTGCTCCATTA
* * * * *
15775297 CTGCCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTTCTTTGCTACCTTAGAGAGATGAGGTT
65 CTACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCATTGCTACCTCAGAGAGATGAGGCT
* * * * *
15775362 GGTGGCTTGAATCTTCTTCTCTACTACCTCGGGAAGATAAGATCCGCC
130 GGTGGCTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATCCGCC
* ** * * * *
15775410 GTCTTCGATCTGTTCCATTGCTACCTCATAGAGATAAGATCTACAATCTTCAGCCTGCTC
1 GT-TTTGATCTGCCCCATTGCTATCTCAAAGAGACAAGATCTACAATCTTCAGTCTGCTC
15775470 TAATGCTGCT
Statistics
Matches: 208, Mismatches: 28, Indels: 3
0.87 0.12 0.01
Matches are distributed among these distances:
177 2 0.01
178 206 0.99
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.30
Consensus pattern (177 bp):
GTTTTGATCTGCCCCATTGCTATCTCAAAGAGACAAGATCTACAATCTTCAGTCTGCTCCATTAC
TACCTCAGGAAGATAAGACTACAATCTTTAGCCTGCTCCATTGCTACCTCAGAGAGATGAGGCTG
GTGGCTTAAATCTGCTTCCCTACTACCTCGAGAAAATAAGATCCGCC
Found at i:15775651 original size:42 final size:43
Alignment explanation
Indices: 15775475--15775683 Score: 134
Period size: 44 Copynumber: 4.8 Consensus size: 43
15775465 TGCTCTAATG
* * ** *
15775475 CTGCTCAGGGAGACAAGGCTAGTGGCTTAAATCTGCTCC-CTTG
1 CTGCTTAGGGAGATAAGATTAGTGGCTTAAATCTGCTCCAC-TA
* * ** * * *
15775518 CTACCTTAGGGAGATAAGACTCACCGTCTTCAATCTGCTCTACTA
1 CT-GCTTAGGGAGATAAGA-TTAGTGGCTTAAATCTGCTCCACTA
* * **** * ** * *
15775563 CTGCTTAGAGAGACAAGATCTACAATCTTCAGCCTACTCCATTA
1 CTGCTTAGGGAGATAAGAT-TAGTGGCTTAAATCTGCTCCACTA
* * *
15775607 CTGTTTAGGGAGATAATA-TGGTGGCTTAAATCTGCTCCACTA
1 CTGCTTAGGGAGATAAGATTAGTGGCTTAAATCTGCTCCACTA
15775649 CTGCTTAGGGAGATAAGATTAGTGGCTTAAATCTG
1 CTGCTTAGGGAGATAAGATTAGTGGCTTAAATCTG
15775684 TTCCCTTGCT
Statistics
Matches: 121, Mismatches: 40, Indels: 10
0.71 0.23 0.06
Matches are distributed among these distances:
42 30 0.25
43 18 0.15
44 55 0.45
45 17 0.14
46 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.29
Consensus pattern (43 bp):
CTGCTTAGGGAGATAAGATTAGTGGCTTAAATCTGCTCCACTA
Found at i:15775750 original size:45 final size:45
Alignment explanation
Indices: 15775674--15776024 Score: 225
Period size: 45 Copynumber: 7.9 Consensus size: 45
15775664 AGATTAGTGG
* * * * *
15775674 CTTAAATCTGTTCCCTTGCTACCTTAAGGAGATAAGATCTACCAT
1 CTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACCAT
* *
15775719 CTTAGATCTACTCCATTGCTACCTCATGGAGATAAGATCTACAAT
1 CTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACCAT
* * * * * * * * **
15775764 TTTCAG-CCTGTTCCACTGCT-GCTCAGGGAGACAAG-GCTAGTGA-
1 CTT-AGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTA-CCAT
* * * *
15775807 CTTAAATCTGCTCCCTTGCTACCTCA-GAGAGATAAGATCTGCCGT
1 CTTAGATCTGCTCCATTGCTACCTCATG-GAGATAAGATCTACCAT
* * * *
15775852 CCTCGATCTGCTCCATTGCTACCTCATGGAGATAAAATCTACAAT
1 CTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACCAT
* * * * * ****
15775897 CTTTAG-CCTGCTCCACTGCTA-CTCAGGGAGACAAGGT-TAGTGG
1 C-TTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACCAT
* * * *
15775940 CTTAAATCTGCTCCCTTGCTACCTCA-GGAAGATAAGATCCACCGT
1 CTTAGATCTGCTCCATTGCTACCTCATGG-AGATAAGATCTACCAT
* * *
15775985 CTTCGATCTGCTCTATTGGTACCTCATGGAGATAAGATCT
1 CTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATCT
15776025 GTGAATTCAC
Statistics
Matches: 225, Mismatches: 67, Indels: 28
0.70 0.21 0.09
Matches are distributed among these distances:
42 4 0.02
43 33 0.15
44 47 0.21
45 134 0.60
46 7 0.03
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (45 bp):
CTTAGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACCAT
Found at i:15775813 original size:133 final size:132
Alignment explanation
Indices: 15775638--15776024 Score: 560
Period size: 133 Copynumber: 2.9 Consensus size: 132
15775628 TGGCTTAAAT
* * * * * *
15775638 CTGCTCCACTACTGCTTAGGGAGATAAGATTAGTGGCTTAAATCTGTTCCCTTGCTACCTTAAGG
1 CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACC-TCAGG
* * *
15775703 AGATAAGATCTACCATCTTAGATCTACTCCATTGCTACCTCATGGAGATAAGATCTACAAT-TTT
65 AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTT
15775767 CAGC
130 -AGC
* * *
15775771 CTGTTCCACTGCTGCTCAGGGAGACAAGGCTAGTGACTTAAATCTGCTCCCTTGCTACCTCAGAG
1 CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAG-G
* * *
15775836 AGATAAGATCTGCCGTCCTCGATCTGCTCCATTGCTACCTCATGGAGATAAAATCTACAATCTTT
65 AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTT
15775901 AGC
130 AGC
*
15775904 CTGCTCCACTGCTACTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGA
1 CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGG-
* * *
15775969 AGATAAGATCCACCGTCTTCGATCTGCTCTATTGGTACCTCATGGAGATAAGATCT
65 AGATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCT
15776025 GTGAATTCAC
Statistics
Matches: 226, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
132 4 0.02
133 219 0.97
134 3 0.01
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (132 bp):
CTGCTCCACTGCTGCTCAGGGAGACAAGGTTAGTGGCTTAAATCTGCTCCCTTGCTACCTCAGGA
GATAAGATCTACCGTCTTCGATCTGCTCCATTGCTACCTCATGGAGATAAGATCTACAATCTTTA
GC
Found at i:15781992 original size:3 final size:3
Alignment explanation
Indices: 15781986--15782018 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15781976 AAGAGTAATA
15781986 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG
15782019 TAAGTAAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
ATG
Found at i:15782160 original size:17 final size:17
Alignment explanation
Indices: 15782140--15782181 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
15782130 GGTAGAAAAG
*
15782140 ATAATAATAAT-GTATTA
1 ATAATAATAATAATA-TA
*
15782157 ATAAGAATAATAATATA
1 ATAATAATAATAATATA
15782174 ATAATAAT
1 ATAATAAT
15782182 TATGGAAAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.36
Consensus pattern (17 bp):
ATAATAATAATAATATA
Found at i:15782165 original size:20 final size:20
Alignment explanation
Indices: 15782142--15782180 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15782132 TAGAAAAGAT
* *
15782142 AATAATAATGTATTAATAAG
1 AATAATAATATAATAATAAG
15782162 AATAATAATATAATAATAA
1 AATAATAATATAATAATAA
15782181 TTATGGAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.33
Consensus pattern (20 bp):
AATAATAATATAATAATAAG
Found at i:15782808 original size:13 final size:13
Alignment explanation
Indices: 15782790--15782814 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15782780 CTACGGTGGG
15782790 CCACCGCCATCGA
1 CCACCGCCATCGA
15782803 CCACCGCCATCG
1 CCACCGCCATCG
15782815 GTCGCCGTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.56, G:0.16, T:0.08
Consensus pattern (13 bp):
CCACCGCCATCGA
Found at i:15786724 original size:15 final size:15
Alignment explanation
Indices: 15786694--15786734 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
15786684 AAGTTATGTA
*
15786694 TTTTA-ATTTGATAT
1 TTTTAGATTTTATAT
*
15786708 TTTTAGTTTTTATAT
1 TTTTAGATTTTATAT
15786723 TTTTAGATTTTA
1 TTTTAGATTTTA
15786735 AAAATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
14 5 0.22
15 18 0.78
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.68
Consensus pattern (15 bp):
TTTTAGATTTTATAT
Found at i:15788585 original size:22 final size:22
Alignment explanation
Indices: 15788560--15788602 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15788550 AAACATGTCA
*
15788560 AATTAAATTCTTGTTACAGTAT
1 AATTAAATTCATGTTACAGTAT
* *
15788582 AATTAATTTCATGTTAGAGTA
1 AATTAAATTCATGTTACAGTA
15788603 CATAAATTTG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.12, T:0.44
Consensus pattern (22 bp):
AATTAAATTCATGTTACAGTAT
Found at i:15788780 original size:21 final size:20
Alignment explanation
Indices: 15788750--15788791 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
15788740 TTTATATATT
*
15788750 TTTTAGAATTTCTTTTAGAAA
1 TTTTAGAATTT-TTTTAAAAA
*
15788771 TTTTATAATTTTTTTAAAAA
1 TTTTAGAATTTTTTTAAAAA
15788791 T
1 T
15788792 ATAAATCTTT
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:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (20 bp):
TTTTAGAATTTTTTTAAAAA
Found at i:15790691 original size:40 final size:40
Alignment explanation
Indices: 15790646--15790725 Score: 151
Period size: 40 Copynumber: 2.0 Consensus size: 40
15790636 GATTAATGAT
15790646 TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
1 TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
*
15790686 TAATCTGATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
1 TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
15790726 CTACTGCCCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.14, C:0.10, G:0.24, T:0.53
Consensus pattern (40 bp):
TAATCTAATTTCTTTTCTTTTTTTGGTGGGGGTTATAGGC
Found at i:15800758 original size:13 final size:13
Alignment explanation
Indices: 15800723--15800760 Score: 53
Period size: 12 Copynumber: 3.0 Consensus size: 13
15800713 ACCTATTAAG
15800723 ATATAATTAAAAA
1 ATATAATTAAAAA
15800736 AT-T-ATGTAAAAA
1 ATATAAT-TAAAAA
15800748 ATATAATTAAAAA
1 ATATAATTAAAAA
15800761 TTATTTTATA
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
11 2 0.09
12 9 0.41
13 9 0.41
14 2 0.09
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.32
Consensus pattern (13 bp):
ATATAATTAAAAA
Found at i:15806133 original size:16 final size:15
Alignment explanation
Indices: 15806106--15806172 Score: 63
Period size: 16 Copynumber: 4.6 Consensus size: 15
15806096 TATCATTTCA
15806106 ATATATAATTTAAAT
1 ATATATAATTTAAAT
15806121 ATATATAAATTTAAAT
1 ATATAT-AATTTAAAT
15806137 ATAT-TAA--TAATAT
1 ATATATAATTTAA-AT
*
15806150 ATAAATAATATT-AAT
1 ATATATAAT-TTAAAT
15806165 A-ATATAAT
1 ATATATAAT
15806173 AATATAGAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
12 3 0.07
13 5 0.11
14 11 0.25
15 10 0.23
16 14 0.32
17 1 0.02
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATATATAATTTAAAT
Found at i:15806150 original size:11 final size:11
Alignment explanation
Indices: 15806134--15806176 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
15806124 TATAAATTTA
15806134 AATATATTAAT
1 AATATATTAAT
*
15806145 AATATATAAAT
1 AATATATTAAT
15806156 -A-ATATTAAT
1 AATATATTAAT
*
15806165 AATATAATAAT
1 AATATATTAAT
15806176 A
1 A
15806177 TAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:15806162 original size:20 final size:19
Alignment explanation
Indices: 15806116--15806170 Score: 71
Period size: 20 Copynumber: 3.0 Consensus size: 19
15806106 ATATATAATT
*
15806116 TAAATATA-T-ATAA-ATT
1 TAAATATATTAATAATATA
15806132 TAAATATATTAATAATATA
1 TAAATATATTAATAATATA
15806151 TAAATAATATTAATAATATA
1 TAAAT-ATATTAATAATATA
15806171 ATAATATAGA
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
16 8 0.24
17 1 0.03
18 4 0.12
19 7 0.21
20 14 0.41
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAATATATTAATAATATA
Found at i:15810365 original size:271 final size:271
Alignment explanation
Indices: 15809882--15810434 Score: 980
Period size: 271 Copynumber: 2.0 Consensus size: 271
15809872 CTGCAGCAGT
*
15809882 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAGTTAAACCA
1 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAATTAAACCA
*
15809947 AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTTCTTAAAGAATA
66 AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTGCTTAAAGAATA
*
15810012 TAGAAGAAACAATAACATTTTTAGTAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
131 TAGAAGAAACAATAACATTTTTAGCAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
*
15810077 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAGAAGGCTCTA
196 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
15810142 AAAATGTTTCA
261 AAAATGTTTCA
* **
15810153 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAGAAGTGGAGACATTATACAGAAATTATGCCA
1 AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAATTAAACCA
* *
15810218 AAAACTATTTCATACATTCAATAAGAAATTTCACAACATTTTTATTGAAGGCTGCTTAAAGAATA
66 AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTGCTTAAAGAATA
* * * *
15810283 TAGAAGAAACGATACCATTTTTAGCAACGAAATACAGAGACGATAATAACAAGCACAAGGATGCT
131 TAGAAGAAACAATAACATTTTTAGCAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
15810348 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
196 ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
15810413 AAAATGTTTCA
261 AAAATGTTTCA
*
15810424 AGCACTAGAAC
1 AGCACTTGAAC
15810435 CTCCAAAAAT
Statistics
Matches: 268, Mismatches: 14, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
271 268 1.00
ACGTcount: A:0.46, C:0.16, G:0.14, T:0.24
Consensus pattern (271 bp):
AGCACTTGAACTCGTCCTATAAGAAAAATAAACAAAAGTGGAGACATTATACAGAAATTAAACCA
AAAACTATTTCATACATTCAATAAGAAATTTAACAACATTTTTATTGAAGACTGCTTAAAGAATA
TAGAAGAAACAATAACATTTTTAGCAAAGAAATACAAAGACGATAATAACAAGCACAAGGATGCT
ACCCTGTAAACAGTAAAGAGGTACAAAGGAATAGTTCCTATAGTCTAAAACATCAAAAGGCTCTA
AAAATGTTTCA
Found at i:15815767 original size:29 final size:25
Alignment explanation
Indices: 15815695--15815760 Score: 98
Period size: 25 Copynumber: 2.6 Consensus size: 25
15815685 ATTTGGCTTT
*
15815695 CATGAGCTTCCCTATTAA-TGGCTCG
1 CATGAGCTTCCCGA-TAATTGGCTCG
15815720 CATGAGCTTCCCGATAATTGGCTCG
1 CATGAGCTTCCCGATAATTGGCTCG
*
15815745 CATGAGCTTTCCGATA
1 CATGAGCTTCCCGATA
15815761 TATAATTCAC
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
24 3 0.08
25 35 0.92
ACGTcount: A:0.21, C:0.27, G:0.21, T:0.30
Consensus pattern (25 bp):
CATGAGCTTCCCGATAATTGGCTCG
Found at i:15817574 original size:23 final size:22
Alignment explanation
Indices: 15817525--15817588 Score: 76
Period size: 21 Copynumber: 2.9 Consensus size: 22
15817515 CTTGATCAGT
*
15817525 ATACGACACATAAAGTGCCTAA
1 ATACGACACACAAAGTGCCTAA
* *
15817547 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCT-AA
*
15817569 ATACGACACATAAAGTGCCT
1 ATACGACACACAAAGTGCCT
15817589 GATCGATAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
21 15 0.44
22 4 0.12
23 15 0.44
ACGTcount: A:0.41, C:0.25, G:0.19, T:0.16
Consensus pattern (22 bp):
ATACGACACACAAAGTGCCTAA
Found at i:15817589 original size:23 final size:23
Alignment explanation
Indices: 15817525--15817590 Score: 91
Period size: 23 Copynumber: 3.0 Consensus size: 23
15817515 CTTGATCAGT
15817525 ATACGACACATAAAGTGCCT-AA
1 ATACGACACATAAAGTGCCTGAA
** *
15817547 A-ACGACACACGAGGTGCCTGAA
1 ATACGACACATAAAGTGCCTGAA
15817569 ATACGACACATAAAGTGCCTGA
1 ATACGACACATAAAGTGCCTGA
15817591 TCGATAAAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 15 0.42
22 4 0.11
23 17 0.47
ACGTcount: A:0.41, C:0.24, G:0.20, T:0.15
Consensus pattern (23 bp):
ATACGACACATAAAGTGCCTGAA
Found at i:15817987 original size:15 final size:15
Alignment explanation
Indices: 15817962--15818019 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
15817952 TCATATATAT
15817962 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
15817978 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
15817993 AATAATTTCAATCAA
1 TATAAATTCAATCAA
15818008 TATAAATTCAAT
1 TATAAATTCAAT
15818020 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:15819300 original size:5 final size:5
Alignment explanation
Indices: 15819287--15819333 Score: 85
Period size: 5 Copynumber: 9.2 Consensus size: 5
15819277 TTCTTTAGTT
15819287 TATATA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA T
15819334 TAAAACATAA
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 37 0.90
6 4 0.10
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
TATAA
Found at i:15828844 original size:11 final size:13
Alignment explanation
Indices: 15828819--15828848 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
15828809 ATTAAACTTG
15828819 ATATGTACAATAT
1 ATATGTACAATAT
15828832 ATATGTACAATAT
1 ATATGTACAATAT
15828845 ATAT
1 ATAT
15828849 TAATTGAACC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.47, C:0.07, G:0.07, T:0.40
Consensus pattern (13 bp):
ATATGTACAATAT
Found at i:15843016 original size:30 final size:30
Alignment explanation
Indices: 15842980--15843042 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
15842970 CAATCAATAA
15842980 ATATTATTATTGAATATTTTTAGTTTTTTT
1 ATATTATTATTGAATATTTTTAGTTTTTTT
*
15843010 ATATTATTATTGAGTATTTTTAGTTTTTTT
1 ATATTATTATTGAATATTTTTAGTTTTTTT
15843040 ATA
1 ATA
15843043 CTTTTATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (30 bp):
ATATTATTATTGAATATTTTTAGTTTTTTT
Found at i:15843980 original size:20 final size:21
Alignment explanation
Indices: 15843947--15843988 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
15843937 AAAAAATTCT
15843947 AAAAATACAGAAAATTCATAA
1 AAAAATACAGAAAATTCATAA
* *
15843968 AAAAATTCA-AAAATTGATAA
1 AAAAATACAGAAAATTCATAA
15843988 A
1 A
15843989 GTGAGAAGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.67, C:0.07, G:0.05, T:0.21
Consensus pattern (21 bp):
AAAAATACAGAAAATTCATAA
Found at i:15846096 original size:18 final size:18
Alignment explanation
Indices: 15846073--15846110 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15846063 GTTTGATGCC
15846073 TTAAAACTAGCATCAAAA
1 TTAAAACTAGCATCAAAA
15846091 TTAAAACTAGCATCAAAA
1 TTAAAACTAGCATCAAAA
15846109 TT
1 TT
15846111 GACCTTAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.53, C:0.16, G:0.05, T:0.26
Consensus pattern (18 bp):
TTAAAACTAGCATCAAAA
Found at i:15851431 original size:16 final size:16
Alignment explanation
Indices: 15851412--15851444 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
15851402 CTGTCAAAAT
*
15851412 AATCTTTCTTCAATTC
1 AATCTTTCGTCAATTC
15851428 AATCTTTCGTCAATTC
1 AATCTTTCGTCAATTC
15851444 A
1 A
15851445 CGAGCTGCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.24, G:0.03, T:0.45
Consensus pattern (16 bp):
AATCTTTCGTCAATTC
Found at i:15859462 original size:21 final size:21
Alignment explanation
Indices: 15859422--15859473 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
15859412 AACAATTAAA
* *
15859422 AATATAAATAAATTAAAAATT
1 AATATAATTAAATTAAAAATC
15859443 AATATAATTCAAATT-AAAATC
1 AATATAATT-AAATTAAAAATC
15859464 AATA-AATTAA
1 AATATAATTAA
15859474 GCCAATTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 2 0.07
20 4 0.14
21 17 0.61
22 5 0.18
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AATATAATTAAATTAAAAATC
Found at i:15863252 original size:19 final size:20
Alignment explanation
Indices: 15863216--15863257 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
15863206 AATAGATATT
15863216 TATTTATTTATAAATATTTTA
1 TATTTATTTAT-AATATTTTA
*
15863237 TATTTATTTAT-GTATTTTA
1 TATTTATTTATAATATTTTA
15863256 TA
1 TA
15863258 AATATTTTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TATTTATTTATAATATTTTA
Found at i:15869228 original size:19 final size:21
Alignment explanation
Indices: 15869175--15869236 Score: 65
Period size: 24 Copynumber: 2.9 Consensus size: 21
15869165 TCTACGAATC
*
15869175 ATATCTCTAAGATTACATTTATT
1 ATATCTCTAAGATTACA--TAGT
15869198 ATATCTTCTAAGATTACA-AGT
1 ATATC-TCTAAGATTACATAGT
*
15869219 -TATCTCTAAGATTGCATA
1 ATATCTCTAAGATTACATA
15869237 TCTTTGACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 11 0.31
20 5 0.14
21 2 0.06
23 5 0.14
24 12 0.34
ACGTcount: A:0.35, C:0.15, G:0.08, T:0.42
Consensus pattern (21 bp):
ATATCTCTAAGATTACATAGT
Found at i:15870611 original size:19 final size:17
Alignment explanation
Indices: 15870587--15870628 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 17
15870577 CATTTGGCTA
*
15870587 TTTTAAATTTATTTATTT
1 TTTTAAATGTATTT-TTT
15870605 TTCTTAAATGTATTTTTT
1 TT-TTAAATGTATTTTTT
15870623 TTTTAA
1 TTTTAA
15870629 TACATGACAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 4 0.18
18 7 0.32
19 11 0.50
ACGTcount: A:0.26, C:0.02, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTTAAATGTATTTTTT
Found at i:15872863 original size:16 final size:16
Alignment explanation
Indices: 15872842--15872873 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
15872832 ATCAAACAAA
15872842 ATTTTTATATGGATGC
1 ATTTTTATATGGATGC
15872858 ATTTTTATATGGATGC
1 ATTTTTATATGGATGC
15872874 GCTTTCTAAG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.06, G:0.19, T:0.50
Consensus pattern (16 bp):
ATTTTTATATGGATGC
Found at i:15879236 original size:132 final size:132
Alignment explanation
Indices: 15878999--15879263 Score: 451
Period size: 132 Copynumber: 2.0 Consensus size: 132
15878989 ATTGAGTTTT
15878999 ATCCAACCCGTTACAGGAGGAGTCCAACTCGAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
1 ATCCAACCCGTTACAGGAGGAGTCCAACTCGAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
* * * *
15879064 CATATACAAATCTCGATAACTCTTAGCCTACATGTTGTAACACCCTTAACCCGTATCCGTCT-CC
66 CACATACAAATCCCAATAACTCTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGT-TGCC
15879128 GGA
130 GGA
**
15879131 ATCCAACCCGTTGTAGGAGGAGTCCAACTCGAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
1 ATCCAACCCGTTACAGGAGGAGTCCAACTCGAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
*
15879196 CACATACAAATCCCAATAACTTTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTTGCCG
66 CACATACAAATCCCAATAACTCTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTTGCCG
15879261 GA
131 GA
15879263 A
1 A
15879264 CAAGGTTACA
Statistics
Matches: 125, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
131 1 0.01
132 124 0.99
ACGTcount: A:0.29, C:0.30, G:0.16, T:0.25
Consensus pattern (132 bp):
ATCCAACCCGTTACAGGAGGAGTCCAACTCGAAAGACTCATCATGGTCCCCAAGGATTTCATCTG
CACATACAAATCCCAATAACTCTTAGCCCACATGTTGTAACACCCTTAACCCGTATCCGTTGCCG
GA
Found at i:15880253 original size:16 final size:16
Alignment explanation
Indices: 15880227--15880265 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
15880217 AATCAAACAT
*
15880227 TTCATAATCAAATACCA
1 TTCA-AATCAAAAACCA
15880244 TTCAAATCAAAAACCA
1 TTCAAATCAAAAACCA
*
15880260 CTCAAA
1 TTCAAA
15880266 AACATTCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 16 0.80
17 4 0.20
ACGTcount: A:0.51, C:0.26, G:0.00, T:0.23
Consensus pattern (16 bp):
TTCAAATCAAAAACCA
Found at i:15881288 original size:17 final size:17
Alignment explanation
Indices: 15881266--15881310 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
15881256 ATCTCCGATG
15881266 ACTTCCAAATCGAGCGA
1 ACTTCCAAATCGAGCGA
* *
15881283 ACTTCCGAACCGAGCGA
1 ACTTCCAAATCGAGCGA
*
15881300 GCTTCCGAAAT
1 ACTTCC-AAAT
15881311 ACTGTAAATT
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
17 20 0.91
18 2 0.09
ACGTcount: A:0.31, C:0.31, G:0.20, T:0.18
Consensus pattern (17 bp):
ACTTCCAAATCGAGCGA
Found at i:15882293 original size:19 final size:20
Alignment explanation
Indices: 15882271--15882360 Score: 55
Period size: 19 Copynumber: 4.5 Consensus size: 20
15882261 ACAAAATTCC
15882271 TATATTAAATTATATTA-TA
1 TATATTAAATTATATTAGTA
* *
15882290 TATATTTACTTATTATTTAAGTA
1 TATATTAAATTA-TA-TT-AGTA
* *
15882313 -ATTATT--ACTATATTATTA
1 TA-TATTAAATTATATTAGTA
*
15882331 TATTATTATATTATATTAGTA
1 TA-TATTAAATTATATTAGTA
15882352 TA-ATTAAAT
1 TATATTAAAT
15882361 AAATGAATGA
Statistics
Matches: 55, Mismatches: 8, Indels: 16
0.70 0.10 0.20
Matches are distributed among these distances:
18 3 0.05
19 24 0.44
20 4 0.07
21 16 0.29
22 2 0.04
23 6 0.11
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (20 bp):
TATATTAAATTATATTAGTA
Found at i:15882353 original size:8 final size:8
Alignment explanation
Indices: 15882315--15882344 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
15882305 TTTAAGTAAT
*
15882315 TATTACTA
1 TATTATTA
15882323 TATTATTA
1 TATTATTA
15882331 TATTATTA
1 TATTATTA
15882339 TATTAT
1 TATTAT
15882345 ATTAGTATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (8 bp):
TATTATTA
Found at i:15886384 original size:25 final size:25
Alignment explanation
Indices: 15886356--15886439 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
15886346 TTGTATATCG
15886356 GGAAGCTCAAGAGAGCCATAAATCT
1 GGAAGCTCAAGAGAGCCATAAATCT
* *
15886381 GGAAGCTCAAAAGAGCCATTAAT-T
1 GGAAGCTCAAGAGAGCCATAAATCT
**
15886405 AGGAAGCTCGTGAGAGCCA-AATATC-
1 -GGAAGCTCAAGAGAGCCATAA-ATCT
15886430 GGAATGCTCA
1 GGAA-GCTCA
15886440 TAAGAGTTGT
Statistics
Matches: 48, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
24 6 0.12
25 42 0.88
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.18
Consensus pattern (25 bp):
GGAAGCTCAAGAGAGCCATAAATCT
Found at i:15886445 original size:25 final size:26
Alignment explanation
Indices: 15886350--15886445 Score: 78
Period size: 25 Copynumber: 3.8 Consensus size: 26
15886340 ATCGAGTTGT
15886350 ATATCGGGAAGCTCA-AGAGAGCCATA
1 ATATCGGGAAGCTCATA-AGAGCCATA
* *
15886376 A-ATCTGGAAGCTCAAAAGAGCCATTA
1 ATATCGGGAAGCTCATAAGAGCCA-TA
* * *
15886402 AT-T-AGGAAGCTCGTGAGAGCCA-A
1 ATATCGGGAAGCTCATAAGAGCCATA
15886425 ATATC-GGAATGCTCATAAGAG
1 ATATCGGGAA-GCTCATAAGAG
15886446 TTGTGGTGTG
Statistics
Matches: 57, Mismatches: 7, Indels: 13
0.74 0.09 0.17
Matches are distributed among these distances:
23 3 0.05
24 5 0.09
25 43 0.75
26 6 0.11
ACGTcount: A:0.39, C:0.18, G:0.25, T:0.19
Consensus pattern (26 bp):
ATATCGGGAAGCTCATAAGAGCCATA
Found at i:15889117 original size:10 final size:10
Alignment explanation
Indices: 15889102--15889126 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15889092 GGAATTTGTG
15889102 AAAAAAAATA
1 AAAAAAAATA
15889112 AAAAAAAATA
1 AAAAAAAATA
15889122 AAAAA
1 AAAAA
15889127 TAAAGAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:15890411 original size:18 final size:18
Alignment explanation
Indices: 15890388--15890658 Score: 160
Period size: 18 Copynumber: 14.6 Consensus size: 18
15890378 GAATAATTAT
*
15890388 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAGTCAA
* *
15890406 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAGTCAA
* * * *
15890424 TTATTCAATAATAATCAG
1 TTATTCAGTAACAGTCAA
*
15890442 TTATTCAGTATC-GATCAA
1 TTATTCAGTAACAG-TCAA
* *
15890460 TTGATCGGTTATCTAATAACAGTAAA
1 TT-A-----T-TC-AGTAACAGTCAA
*
15890486 TTATTCAGTAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
*
15890504 -TATTCAGTAACTA-TTAA
1 TTATTCAGTAAC-AGTCAA
*
15890521 GTTATTCAGTAGCAGTC-A
1 -TTATTCAGTAACAGTCAA
* *
15890539 TTCATTCAGTGACAATCAA
1 TT-ATTCAGTAACAGTCAA
*
15890558 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* * *
15890576 TTAATCAGTAATATTCAA
1 TTATTCAGTAACAGTCAA
15890594 TTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
*
15890613 -TATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
15890630 TTATCCGGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
15890648 TTATTCAGTAA
1 TTATTCAGTAA
15890659 TAATCAGTTA
Statistics
Matches: 194, Mismatches: 37, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
17 18 0.09
18 141 0.73
19 20 0.10
20 1 0.01
24 1 0.01
25 3 0.02
26 9 0.05
27 1 0.01
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:15890601 original size:72 final size:71
Alignment explanation
Indices: 15890484--15890670 Score: 191
Period size: 72 Copynumber: 2.6 Consensus size: 71
15890474 AATAACAGTA
* * *
15890484 AATTATTCAGTAAAATCAGA-TATTCAGTAACTATT-AAGTTATTCAGTAGCAGTC-ATTCATTC
1 AATTATTCAGTAAAATCA-ATTATTCAGTAA-TATTCAA-TTATTCAGTAACAGTCTAAT-ATCC
*
15890546 AGTGACAATC
62 AGTAACAATC
* *
15890556 AATTATTCAGTAATGATCAATTAATCAGTAATATTCAATTATTCAGTAACAGTCTAATATCCAGT
1 AATTATTCAGTAA-AATCAATTATTCAGTAATATTCAATTATTCAGTAACAGTCTAATATCCAGT
*
15890621 AACAGTC
65 AACAATC
* * * * *
15890628 AATTATCCGGTAACAGTCAATTATTCAGTAATAATCAGTTATT
1 AATTATTCAGTAA-AATCAATTATTCAGTAATATTCAATTATT
15890671 TTATACCTTC
Statistics
Matches: 96, Mismatches: 15, Indels: 8
0.81 0.13 0.07
Matches are distributed among these distances:
72 79 0.82
73 17 0.18
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (71 bp):
AATTATTCAGTAAAATCAATTATTCAGTAATATTCAATTATTCAGTAACAGTCTAATATCCAGTA
ACAATC
Found at i:15891073 original size:45 final size:45
Alignment explanation
Indices: 15890837--15891071 Score: 317
Period size: 45 Copynumber: 5.2 Consensus size: 45
15890827 AATCCAAAAT
* * * * * *
15890837 AGTAACAGTAACAGTATTCAACGCACAAAGTGCTGAATCGGTAAT
1 AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
* * *
15890882 GGTAACAGTAACAATATTCGACACACACAGTGCCGAATCGGTAAC
1 AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
* * *
15890927 GGTAACAGTAACAATATTCGACACACAAAGTGTCGAATCGGTAAC
1 AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
15890972 AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
1 AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
* * * **
15891017 AGTAGTAGTAGCAATATTCGACCCACAAAGTATCGAATCGGTAAC
1 AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
15891062 AGTAGCAGTA
1 AGTAGCAGTA
15891072 GCGTTAACAG
Statistics
Matches: 172, Mismatches: 18, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 172 1.00
ACGTcount: A:0.39, C:0.20, G:0.20, T:0.20
Consensus pattern (45 bp):
AGTAGCAGTAACAATATTCGACACACAAAGTGCCGAATCGGTAAC
Found at i:15891491 original size:5 final size:5
Alignment explanation
Indices: 15891480--15891526 Score: 58
Period size: 5 Copynumber: 9.2 Consensus size: 5
15891470 AATTAATCAT
* * *
15891480 AATTC CATTC CATTC AATTC AATTC AATTC AATTC AGTTC AAATTC A
1 AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC -AATTC A
15891527 CTTTTCCACT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.36, C:0.23, G:0.02, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:15892890 original size:5 final size:5
Alignment explanation
Indices: 15892882--15892921 Score: 52
Period size: 5 Copynumber: 8.8 Consensus size: 5
15892872 TGTTTTTCTT
15892882 TTTCA TTTCA TTT-A TTTCA TTT-A TTTC- TTT-A TTTCA TTTC
1 TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTCA TTTC
15892922 TTTATTTTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
4 14 0.45
5 17 0.55
ACGTcount: A:0.17, C:0.15, G:0.00, T:0.68
Consensus pattern (5 bp):
TTTCA
Found at i:15892900 original size:9 final size:9
Alignment explanation
Indices: 15892886--15892920 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
15892876 TTTCTTTTTC
15892886 ATTTCATTT
1 ATTTCATTT
15892895 ATTTCATTT
1 ATTTCATTT
15892904 ATTTC-TTT
1 ATTTCATTT
15892912 ATTTCATTT
1 ATTTCATTT
15892921 CTTTATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
8 8 0.32
9 17 0.68
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (9 bp):
ATTTCATTT
Found at i:15892914 original size:17 final size:18
Alignment explanation
Indices: 15892886--15892920 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
15892876 TTTCTTTTTC
15892886 ATTTCATTTATTTCATTT
1 ATTTCATTTATTTCATTT
15892904 ATTTC-TTTATTTCATTT
1 ATTTCATTTATTTCATTT
15892921 CTTTATTTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.71
18 5 0.29
ACGTcount: A:0.20, C:0.11, G:0.00, T:0.69
Consensus pattern (18 bp):
ATTTCATTTATTTCATTT
Done.