Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004507.1 Hibiscus syriacus cultivar Beakdansim tig00009942_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: 1776135
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 8
Found at i:2170 original size:18 final size:18
Alignment explanation
Indices: 2144--2183 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
2134 CACCACCTGT
*
2144 AATTTATTTAACTAACAC
1 AATTGATTTAACTAACAC
*
2162 AATTGATTTAACTAACAG
1 AATTGATTTAACTAACAC
2180 AATT
1 AATT
2184 AGAATAATCA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.12, G:0.05, T:0.38
Consensus pattern (18 bp):
AATTGATTTAACTAACAC
Found at i:2399 original size:49 final size:49
Alignment explanation
Indices: 2342--2440 Score: 198
Period size: 49 Copynumber: 2.0 Consensus size: 49
2332 TTACACGTTT
2342 AGTACCTTAATTATCAGTTTCATTTTGATATCTCAACTATTCTTTTTAA
1 AGTACCTTAATTATCAGTTTCATTTTGATATCTCAACTATTCTTTTTAA
2391 AGTACCTTAATTATCAGTTTCATTTTGATATCTCAACTATTCTTTTTAA
1 AGTACCTTAATTATCAGTTTCATTTTGATATCTCAACTATTCTTTTTAA
2440 A
1 A
2441 ATAATACCTA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
49 50 1.00
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.48
Consensus pattern (49 bp):
AGTACCTTAATTATCAGTTTCATTTTGATATCTCAACTATTCTTTTTAA
Found at i:2845 original size:37 final size:37
Alignment explanation
Indices: 2795--2912 Score: 200
Period size: 37 Copynumber: 3.2 Consensus size: 37
2785 CACCCGACGC
*
2795 AAGCTCTAATCCCCACGGGAGCCACTGCTACTTGCAG
1 AAGCTTTAATCCCCACGGGAGCCACTGCTACTTGCAG
*
2832 AAGCTTTAATCCCCACTGGAGCCACTGCTACTTGCAG
1 AAGCTTTAATCCCCACGGGAGCCACTGCTACTTGCAG
* *
2869 AAGCTTTAATCCCCACGGAAACCACTGCTACTTGCAG
1 AAGCTTTAATCCCCACGGGAGCCACTGCTACTTGCAG
2906 AAGCTTT
1 AAGCTTT
2913 CTTACCACTG
Statistics
Matches: 76, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 76 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
AAGCTTTAATCCCCACGGGAGCCACTGCTACTTGCAG
Found at i:5273 original size:12 final size:12
Alignment explanation
Indices: 5256--5280 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
5246 TATTTCACTT
5256 ACCATATTTTTA
1 ACCATATTTTTA
5268 ACCATATTTTTA
1 ACCATATTTTTA
5280 A
1 A
5281 TTTTTTCAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.00, T:0.48
Consensus pattern (12 bp):
ACCATATTTTTA
Found at i:8898 original size:20 final size:20
Alignment explanation
Indices: 8873--8912 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
8863 AAGAGGAGAA
8873 GTGTTAGAGTAAGGGGGAGT
1 GTGTTAGAGTAAGGGGGAGT
8893 GTGTTAGAGTAAGGGGGAGT
1 GTGTTAGAGTAAGGGGGAGT
8913 TATTTCAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.50, T:0.25
Consensus pattern (20 bp):
GTGTTAGAGTAAGGGGGAGT
Found at i:9110 original size:13 final size:13
Alignment explanation
Indices: 9094--9118 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9084 AATGAATTTT
9094 AAGATTTTCTAAA
1 AAGATTTTCTAAA
9107 AAGATTTTCTAA
1 AAGATTTTCTAA
9119 GTATATTCGA
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:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (13 bp):
AAGATTTTCTAAA
Found at i:11313 original size:21 final size:21
Alignment explanation
Indices: 11289--11330 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
11279 TATGAGAAAT
*
11289 TGTTTTAAAATAT-AAAAATGA
1 TGTTTCAAAAT-TGAAAAATGA
11310 TGTTTCAAAATTGAAAAATGA
1 TGTTTCAAAATTGAAAAATGA
11331 AAATAAACTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 1 0.05
21 18 0.95
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (21 bp):
TGTTTCAAAATTGAAAAATGA
Found at i:15181 original size:21 final size:22
Alignment explanation
Indices: 15130--15188 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 22
15120 GGTGCAGAGA
*
15130 GAATCGATTCCCCCTTTGAAGGG
1 GAATCGATTCCCCCTAT-AAGGG
* *
15153 GAACCGATTCCCCCTAT-ATGG
1 GAATCGATTCCCCCTATAAGGG
*
15174 GAATCGATACCCCCT
1 GAATCGATTCCCCCT
15189 GGGGTTCTGG
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
21 16 0.52
23 15 0.48
ACGTcount: A:0.24, C:0.32, G:0.20, T:0.24
Consensus pattern (22 bp):
GAATCGATTCCCCCTATAAGGG
Found at i:19059 original size:22 final size:21
Alignment explanation
Indices: 19034--19079 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
19024 TATATATTGG
19034 TCGGAATTACTATAGCAGGGTA
1 TCGGAA-TACTATAGCAGGGTA
* *
19056 TCGGTATACTGTAGCAGGGTA
1 TCGGAATACTATAGCAGGGTA
19077 TCG
1 TCG
19080 ATACACCTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 17 0.77
22 5 0.23
ACGTcount: A:0.26, C:0.15, G:0.30, T:0.28
Consensus pattern (21 bp):
TCGGAATACTATAGCAGGGTA
Found at i:27478 original size:20 final size:21
Alignment explanation
Indices: 27455--27535 Score: 67
Period size: 20 Copynumber: 3.8 Consensus size: 21
27445 TTGGTGCAGA
*
27455 GGGAATCGATCCCCCCTTGA-
1 GGGAACCGATCCCCCCTTGAG
* *
27475 GGGAACCGATTCCCCTTTGAAG
1 GGGAACCGATCCCCCCTTG-AG
**
27497 GGGAACCGATTCCCCCC-ACAG
1 GGGAACCGA-TCCCCCCTTGAG
*
27518 GGGAATCGATACCCCCCT
1 GGGAACCGAT-CCCCCCT
27536 GGGGTTCTGG
Statistics
Matches: 48, Mismatches: 8, Indels: 8
0.75 0.12 0.12
Matches are distributed among these distances:
20 17 0.35
21 17 0.35
22 9 0.19
23 5 0.10
ACGTcount: A:0.22, C:0.36, G:0.25, T:0.17
Consensus pattern (21 bp):
GGGAACCGATCCCCCCTTGAG
Found at i:27521 original size:21 final size:21
Alignment explanation
Indices: 27495--27534 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
27485 TCCCCTTTGA
*
27495 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
27516 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
27535 TGGGGTTCTG
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:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:30119 original size:22 final size:23
Alignment explanation
Indices: 30094--30137 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
30084 AATTAAGTTT
30094 TAATCTTA-AAA-TAATTTCAAAA
1 TAATCTTACAAAGT-ATTTCAAAA
*
30116 TAATTTTACAAAGTATTTCAAA
1 TAATCTTACAAAGTATTTCAAA
30138 CCATTTCAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 7 0.37
23 11 0.58
24 1 0.05
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.39
Consensus pattern (23 bp):
TAATCTTACAAAGTATTTCAAAA
Found at i:34335 original size:2 final size:2
Alignment explanation
Indices: 34330--34422 Score: 168
Period size: 2 Copynumber: 46.5 Consensus size: 2
34320 GTTGTTTTCC
34330 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
34372 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
34414 TA TA TA TA T
1 TA TA TA TA T
34423 TGTCTTATTT
Statistics
Matches: 89, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
2 89 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:38896 original size:2 final size:2
Alignment explanation
Indices: 38889--38926 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
38879 TCAAACTAAG
38889 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
38927 CCACAATGTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:39050 original size:3 final size:3
Alignment explanation
Indices: 39042--39145 Score: 122
Period size: 3 Copynumber: 34.7 Consensus size: 3
39032 CAAAATTGGG
* *
39042 GAA GAA GAA G-A GGA GGA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* * *
39089 GAA GAA GAA GAA GAA GAA GAAA GAA GAA G-A CAA GAAA GAA GAC GAC
1 GAA GAA GAA GAA GAA GAA G-AA GAA GAA GAA GAA G-AA GAA GAA GAA
*
39135 GAC GAA GAA GA
1 GAA GAA GAA GA
39146 GACACATGGA
Statistics
Matches: 92, Mismatches: 5, Indels: 8
0.88 0.05 0.08
Matches are distributed among these distances:
2 3 0.03
3 83 0.90
4 6 0.07
ACGTcount: A:0.62, C:0.04, G:0.35, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:44310 original size:9 final size:9
Alignment explanation
Indices: 44295--44386 Score: 89
Period size: 9 Copynumber: 9.4 Consensus size: 9
44285 TTTTACTTTA
44295 ATTATTACTT
1 ATTATTA-TT
44305 -TTATTATT
1 ATTATTATT
44313 ATTATTATT
1 ATTATTATT
44322 ATTATTATT
1 ATTATTATT
44331 ATTATTATT
1 ATTATTATT
44340 ATTATTTATAT
1 ATTA-TTAT-T
44351 ATATATATATAT
1 AT-TAT-TAT-T
44363 ATATATATATT
1 AT-TAT-TATT
44374 A-TATGTATT
1 ATTAT-TATT
44383 ATTA
1 ATTA
44387 CTAAAAAATA
Statistics
Matches: 75, Mismatches: 1, Indels: 12
0.85 0.01 0.14
Matches are distributed among these distances:
8 2 0.03
9 44 0.59
10 6 0.08
11 6 0.08
12 17 0.23
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (9 bp):
ATTATTATT
Found at i:44316 original size:6 final size:6
Alignment explanation
Indices: 44295--44386 Score: 89
Period size: 6 Copynumber: 14.2 Consensus size: 6
44285 TTTTACTTTA
44295 ATTATT ACTT-TT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
1 ATTATT A-TTATT ATTATT ATTATT ATTATT ATTATT ATTATT ATTATT
44343 ATTTATAT ATATATAT ATATATAT ATATATT A-TATGT ATTATT A
1 A-TTAT-T AT-TAT-T AT-TAT-T AT-TATT ATTAT-T ATTATT A
44387 CTAAAAAATA
Statistics
Matches: 79, Mismatches: 0, Indels: 14
0.85 0.00 0.15
Matches are distributed among these distances:
5 5 0.06
6 41 0.52
7 12 0.15
8 21 0.27
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.61
Consensus pattern (6 bp):
ATTATT
Found at i:44353 original size:2 final size:2
Alignment explanation
Indices: 44346--44377 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
44336 TATTATTATT
44346 TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
44378 GTATTATTAC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:45778 original size:29 final size:30
Alignment explanation
Indices: 45745--45803 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
45735 AGGGCTGCAA
45745 ATTTTAATATTT-TATATTTTAATC-CTATT
1 ATTTTAAT-TTTATATATTTTAATCACTATT
* *
45774 ATTTTAATTTTATATGTTTTAGTCACTATT
1 ATTTTAATTTTATATATTTTAATCACTATT
45804 TAATTGCAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 3 0.12
29 18 0.69
30 5 0.19
ACGTcount: A:0.29, C:0.07, G:0.03, T:0.61
Consensus pattern (30 bp):
ATTTTAATTTTATATATTTTAATCACTATT
Found at i:46222 original size:24 final size:25
Alignment explanation
Indices: 46167--46224 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
46157 TTATCAATTA
*
46167 TATATATTAATCTATTTTTATTATT
1 TATATATTAATATATTTTTATTATT
*
46192 T-TTTATTAATAT-TTATTTATT-TT
1 TATATATTAATATATT-TTTATTATT
46215 TATATATTAA
1 TATATATTAA
46225 GAAAATAGCT
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 5 0.18
24 22 0.79
25 1 0.04
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (25 bp):
TATATATTAATATATTTTTATTATT
Found at i:46811 original size:28 final size:27
Alignment explanation
Indices: 46780--46833 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
46770 TAATTCTTTC
*
46780 TTTTCAAAATTTTTATATATACTTATTA
1 TTTTCAAAATATTTATATATA-TTATTA
*
46808 TTTTCATAATATTTATATATATTATT
1 TTTTCAAAATATTTATATATATTATT
46834 TTATTAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTCAAAATATTTATATATATTATTA
Found at i:51076 original size:15 final size:15
Alignment explanation
Indices: 51056--51094 Score: 69
Period size: 15 Copynumber: 2.6 Consensus size: 15
51046 AAAGAAGAAG
51056 GGAAAAAATTGATTT
1 GGAAAAAATTGATTT
51071 GGAAAAAATTGATTT
1 GGAAAAAATTGATTT
*
51086 AGAAAAAAT
1 GGAAAAAAT
51095 ATACCATGCA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.54, C:0.00, G:0.18, T:0.28
Consensus pattern (15 bp):
GGAAAAAATTGATTT
Found at i:57005 original size:46 final size:46
Alignment explanation
Indices: 56937--57305 Score: 338
Period size: 45 Copynumber: 7.8 Consensus size: 46
56927 TTCCCACATT
56937 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
* *
56983 TGTAAGCCCTTCAGTGCTTGATGTTTTCAAAAACCTTTGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
** **** *
57029 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAATGATGTTTTCAAAACCTTC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAA--A--CCTTC-GGGTCATC
* * * * * * *
57080 GGGTCA--TCTGTAAGCCCTTCAGTGATAATGTTTTC-AAAACCTTCTGGCCATC
1 -TGTAAGCCCT-TCAG---TGCA-TG---ATGTTTTCAAAAACCTTCGGGTCATC
57132 TGTAAGCCCTTCAGTGCATGATGTTTTC-AAAACCTTCGGGTCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
* * *
57177 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAGA-CTTCAGGTTATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
* *
57222 TGTAAGCCCTTCAGTGCATGATGTTTT-TAAAACCTTCGGATCATC
1 TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
* *
57267 CGTAAGCCCTACAGTGCA-GTATGTTTTCAAAAAGCCTTC
1 TGTAAGCCCTTCAGTGCATG-ATGTTTTCAAAAA-CCTTC
57306 ATGAGCTTTT
Statistics
Matches: 262, Mismatches: 40, Indels: 41
0.76 0.12 0.12
Matches are distributed among these distances:
44 4 0.02
45 120 0.46
46 82 0.31
47 5 0.02
48 3 0.01
49 3 0.01
50 4 0.02
51 9 0.03
52 10 0.04
53 5 0.02
54 3 0.01
55 3 0.01
57 3 0.01
58 8 0.03
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.34
Consensus pattern (46 bp):
TGTAAGCCCTTCAGTGCATGATGTTTTCAAAAACCTTCGGGTCATC
Found at i:57065 original size:14 final size:14
Alignment explanation
Indices: 57046--57074 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
57036 CCTTCAGTGC
57046 ATGATGTTTTCAAA
1 ATGATGTTTTCAAA
57060 ATGATGTTTTCAAA
1 ATGATGTTTTCAAA
57074 A
1 A
57075 CCTTCGGGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.41
Consensus pattern (14 bp):
ATGATGTTTTCAAA
Found at i:57094 original size:59 final size:59
Alignment explanation
Indices: 57001--57118 Score: 202
Period size: 59 Copynumber: 2.0 Consensus size: 59
56991 CTTCAGTGCT
* *
57001 TGATGTTTTCAAAAACCTTTGGGTCATCTGTAAGCCCTTCAGTGCATGATGTTTTCAAAA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG-ATAATGTTTTCAAAA
57061 TGATGTTTTC-AAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGATAATGTTTTCAAAA
1 TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGATAATGTTTTCAAAA
57119 CCTTCTGGCC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
58 14 0.25
59 32 0.57
60 10 0.18
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (59 bp):
TGATGTTTTCAAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGATAATGTTTTCAAAA
Found at i:57177 original size:45 final size:45
Alignment explanation
Indices: 57060--57298 Score: 358
Period size: 45 Copynumber: 5.3 Consensus size: 45
57050 TGTTTTCAAA
57060 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTG-
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* * *
57104 ATAATGTTTTCAAAACCTTCTGGCCATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
57149 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* *
57194 ATGATGTTTTCAAAGA-CTTCAGGTTATCTGTAAGCCCTTCAGTGC
1 ATGATGTTTTCAAA-ACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
* * * *
57239 ATGATGTTTTTAAAACCTTCGGATCATCCGTAAGCCCTACAGTGC
1 ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
57284 A-GTATGTTTTCAAAA
1 ATG-ATGTTTTCAAAA
57299 AGCCTTCATG
Statistics
Matches: 176, Mismatches: 15, Indels: 7
0.89 0.08 0.04
Matches are distributed among these distances:
44 43 0.24
45 132 0.75
46 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (45 bp):
ATGATGTTTTCAAAACCTTCGGGTCATCTGTAAGCCCTTCAGTGC
Found at i:57368 original size:77 final size:77
Alignment explanation
Indices: 57240--57443 Score: 295
Period size: 77 Copynumber: 2.7 Consensus size: 77
57230 CTTCAGTGCA
* * * *
57240 TGATG-TTTTTAAAACCTTCG-GATCATCCGTAAGCCCTACAGTGCAGTATGTTTTCAAAAAGCC
1 TGATGTTTTTTAAAGCCTCCGAG-TCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAACC
*
57303 TTCATGAGCTTTT
65 TTCAGGAGCTTTT
*
57316 TGATGTTTTTTAAAGCCTCTGAGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAACCT
1 TGATGTTTTTTAAAGCCTCCGAGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAACCT
57381 TCAGGAGCTTTT
66 TCAGGAGCTTTT
* * * *
57393 TGATGTTTTTTAAAGCCTCCGGGTCATCTGTAAGACCTACAGTGCAAGATG
1 TGATGTTTTTTAAAGCCTCCGAGTCATCCGTAAGCCCTACAGTGCAGGATG
57444 ATAATACTTC
Statistics
Matches: 115, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
76 5 0.04
77 109 0.95
78 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.20, T:0.34
Consensus pattern (77 bp):
TGATGTTTTTTAAAGCCTCCGAGTCATCCGTAAGCCCTACAGTGCAGGATGTTTTCAAAAAACCT
TCAGGAGCTTTT
Found at i:59486 original size:11 final size:10
Alignment explanation
Indices: 59444--59486 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
59434 TATTAATCTA
59444 TTTTTATTAT
1 TTTTTATTAT
*
59454 TTTTTATTAA
1 TTTTTATTAT
*
59464 TATTTATTTAT
1 TTTTTA-TTAT
59475 TTTTTATATAT
1 TTTTTAT-TAT
59486 T
1 T
59487 AAGAAAAGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
10 15 0.56
11 12 0.44
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTATTAT
Found at i:59830 original size:64 final size:66
Alignment explanation
Indices: 59745--59875 Score: 221
Period size: 64 Copynumber: 2.0 Consensus size: 66
59735 AGAACGAATT
* *
59745 TTTTTGTTAAAACGCATACCAGTTTATTTTTTAACTGAAGTTTTCTTAAAAACTCTTTTAAAAGA
1 TTTTTGTTAAAACGCAGACCAGTTTATCTTTTAACTGAAGTTTTCTTAAAAACTCTTTTAAAAGA
59810 A
66 A
*
59811 TTTTT-TT-AAACGCAGACCAGTTTATCTTTTAACTGAAGTTTTCTTAAAAATTCTTTTAAAAGA
1 TTTTTGTTAAAACGCAGACCAGTTTATCTTTTAACTGAAGTTTTCTTAAAAACTCTTTTAAAAGA
59874 A
66 A
59875 T
1 T
59876 AATTTTAGGT
Statistics
Matches: 62, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
64 55 0.89
65 2 0.03
66 5 0.08
ACGTcount: A:0.34, C:0.12, G:0.09, T:0.44
Consensus pattern (66 bp):
TTTTTGTTAAAACGCAGACCAGTTTATCTTTTAACTGAAGTTTTCTTAAAAACTCTTTTAAAAGA
A
Found at i:60762 original size:10 final size:9
Alignment explanation
Indices: 60747--60912 Score: 65
Period size: 10 Copynumber: 17.6 Consensus size: 9
60737 CTTTTTAATT
60747 TTTTTTTCA
1 TTTTTTTCA
60756 TTGTTTTTCA
1 TT-TTTTTCA
*
60766 TTTTCGTTCA
1 TTTT-TTTCA
60776 --TTTTTC-
1 TTTTTTTCA
* *
60782 TCTTGTTCA
1 TTTTTTTCA
*
60791 TTTTTTTTA
1 TTTTTTTCA
*
60800 TTCTTTTTTA
1 TT-TTTTTCA
60810 GTTTTTTTTCA
1 --TTTTTTTCA
60821 TTGTTTTTCA
1 TT-TTTTTCA
60831 TTTTTGTTCA
1 TTTTT-TTCA
* *
60841 TTCTTCTC-
1 TTTTTTTCA
*
60849 TTATTCTTCA
1 TT-TTTTTCA
*
60859 -TTTCTTC-
1 TTTTTTTCA
*
60866 TGTTCGTTTTTA
1 T-TT--TTTTCA
60878 TTTTTTTCA
1 TTTTTTTCA
*
60887 TTGGTTTTCA
1 TT-TTTTTCA
60897 TTTTTCTTTCA
1 -TTTT-TTTCA
60908 TTTTT
1 TTTTT
60913 CTTAGGTTTG
Statistics
Matches: 120, Mismatches: 17, Indels: 40
0.68 0.10 0.23
Matches are distributed among these distances:
7 3 0.03
8 15 0.12
9 33 0.28
10 48 0.40
11 18 0.15
12 3 0.03
ACGTcount: A:0.09, C:0.14, G:0.06, T:0.71
Consensus pattern (9 bp):
TTTTTTTCA
Found at i:60769 original size:20 final size:20
Alignment explanation
Indices: 60746--60845 Score: 85
Period size: 20 Copynumber: 4.8 Consensus size: 20
60736 CCTTTTTAAT
*
60746 TTTTTTTTCATTGTTTTTCA
1 TTTTTTTTCATTCTTTTTCA
**
60766 TTTTCGTTCATTTTTCTCTTGTTCA
1 TTTTTTTTCA---TTCT-TT-TTCA
*
60791 TTTTTTTT-ATTCTTTTTTA
1 TTTTTTTTCATTCTTTTTCA
*
60810 GTTTTTTTTCATTGTTTTTCA
1 -TTTTTTTTCATTCTTTTTCA
*
60831 TTTTTGTTCATTCTT
1 TTTTTTTTCATTCTT
60846 CTCTTATTCT
Statistics
Matches: 63, Mismatches: 10, Indels: 14
0.72 0.11 0.16
Matches are distributed among these distances:
19 3 0.05
20 31 0.49
21 13 0.21
23 3 0.05
24 3 0.05
25 10 0.16
ACGTcount: A:0.09, C:0.12, G:0.06, T:0.73
Consensus pattern (20 bp):
TTTTTTTTCATTCTTTTTCA
Found at i:60899 original size:66 final size:67
Alignment explanation
Indices: 60719--60901 Score: 225
Period size: 65 Copynumber: 2.8 Consensus size: 67
60709 CTTCTGCCGC
* *
60719 TTCTTCATTTC-TCTGTTCCTTTTTAATTTTTTTTTCATTGTTTTTCATTTTCGTTCATTTTTCT
1 TTCTTCATTTCTTCTGTTCCTTTTT-A-TTTTTTTTCATTGTTTTTCATTTTTGTTCATTCTTCT
*
60783 CTTG
64 CTTA
* *
60787 TTCATT--TTT-TT-TATTCTTTTTTAGTTTTTTTTCATTGTTTTTCATTTTTGTTCATTCTTCT
1 TTC-TTCATTTCTTCTGTTCCTTTTTA-TTTTTTTTCATTGTTTTTCATTTTTGTTCATTCTTCT
60848 CTTA
64 CTTA
* *
60852 TTCTTCATTTCTTCTGTTCGTTTTTA-TTTTTTTCATTGGTTTTCATTTTT
1 TTCTTCATTTCTTCTGTTCCTTTTTATTTTTTTTCATTGTTTTTCATTTTT
60902 CTTTCATTTT
Statistics
Matches: 100, Mismatches: 9, Indels: 14
0.81 0.07 0.11
Matches are distributed among these distances:
64 2 0.02
65 42 0.42
66 35 0.35
67 6 0.06
68 13 0.13
69 2 0.02
ACGTcount: A:0.09, C:0.15, G:0.06, T:0.70
Consensus pattern (67 bp):
TTCTTCATTTCTTCTGTTCCTTTTTATTTTTTTTCATTGTTTTTCATTTTTGTTCATTCTTCTCT
TA
Found at i:62091 original size:20 final size:20
Alignment explanation
Indices: 62068--62165 Score: 72
Period size: 21 Copynumber: 4.8 Consensus size: 20
62058 ATCAGTTTCC
62068 AAAATCGCAACGCGATTATT
1 AAAATCGCAACGCGATTATT
* * *
62088 AAAAATCACAATGCGA-TAGT
1 -AAAATCGCAACGCGATTATT
** *
62108 ACAAATTCGCATTGCGATTTTCT
1 A-AAA-TCGCAACGCGATTAT-T
* * *
62131 AGAATCGCAACGCGAATATG
1 AAAATCGCAACGCGATTATT
62151 AAAATCGCAACGCGA
1 AAAATCGCAACGCGA
62166 ACACATAAAT
Statistics
Matches: 59, Mismatches: 14, Indels: 9
0.72 0.17 0.11
Matches are distributed among these distances:
19 1 0.02
20 20 0.34
21 33 0.56
22 3 0.05
23 2 0.03
ACGTcount: A:0.40, C:0.20, G:0.17, T:0.22
Consensus pattern (20 bp):
AAAATCGCAACGCGATTATT
Found at i:62194 original size:20 final size:20
Alignment explanation
Indices: 62133--62361 Score: 248
Period size: 20 Copynumber: 11.4 Consensus size: 20
62123 GATTTTCTAG
* ** *
62133 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
62153 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
62173 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
62193 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
62213 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
62233 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
62253 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
62273 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
62293 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
62313 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
62333 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
62353 AATCACAAC
1 AATCGCAAC
62362 ACTGAAATTT
Statistics
Matches: 179, Mismatches: 24, Indels: 12
0.83 0.11 0.06
Matches are distributed among these distances:
19 2 0.01
20 175 0.98
21 2 0.01
ACGTcount: A:0.37, C:0.26, G:0.18, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:63065 original size:24 final size:24
Alignment explanation
Indices: 63033--63087 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 24
63023 GTGAGTACTA
* * *
63033 GTCAGTATTCGAAATTTGGTCTTG
1 GTCAATATTCGAAATTTGATATTG
* *
63057 GTCAATATTCGGACTTTGATATTG
1 GTCAATATTCGAAATTTGATATTG
63081 GTCAATA
1 GTCAATA
63088 CACGGATTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (24 bp):
GTCAATATTCGAAATTTGATATTG
Found at i:63093 original size:24 final size:24
Alignment explanation
Indices: 63054--63100 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
63044 AAATTTGGTC
**
63054 TTGGTCAATATTCGGACTTTGATA
1 TTGGTCAATACACGGACTTTGATA
*
63078 TTGGTCAATACACGGATTTTGAT
1 TTGGTCAATACACGGACTTTGAT
63101 GATGTTTCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (24 bp):
TTGGTCAATACACGGACTTTGATA
Found at i:63288 original size:12 final size:12
Alignment explanation
Indices: 63271--63295 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
63261 ATATAATCAT
63271 GAAGAAGAAAAA
1 GAAGAAGAAAAA
63283 GAAGAAGAAAAA
1 GAAGAAGAAAAA
63295 G
1 G
63296 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:65662 original size:19 final size:19
Alignment explanation
Indices: 65593--65749 Score: 199
Period size: 19 Copynumber: 8.7 Consensus size: 19
65583 GCAATGAGAG
65593 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
65612 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
65626 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
65646 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
65665 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
65684 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
65698 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
65718 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
65737 AATCGCATTGCGA
1 AATCGCAATGCGA
65750 TTCTCTCGTT
Statistics
Matches: 121, Mismatches: 5, Indels: 24
0.81 0.03 0.16
Matches are distributed among these distances:
14 22 0.18
15 1 0.01
16 2 0.02
17 4 0.03
19 63 0.52
20 29 0.24
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:65702 original size:72 final size:72
Alignment explanation
Indices: 65593--65749 Score: 271
Period size: 72 Copynumber: 2.2 Consensus size: 72
65583 GCAATGAGAG
65593 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
1 AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
65658 AAATGAA
66 AAATGAA
* *
65665 AATCGCAATGCGAAATGAAAATCGCAACGA-GAGAATCGCAATGCGGAAATGAAAATCGCAATGC
1 AATCGCAATGCGAAATGAAAATCCCAAC-ATGAAAATCGCAATGCGGAAATGAAAATCGCAATGC
65729 GAAATGAA
65 GAAATGAA
*
65737 AATCGCATTGCGA
1 AATCGCAATGCGA
65750 TTCTCTCGTT
Statistics
Matches: 81, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
72 80 0.99
73 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.22, T:0.15
Consensus pattern (72 bp):
AATCGCAATGCGAAATGAAAATCCCAACATGAAAATCGCAATGCGGAAATGAAAATCGCAATGCG
AAATGAA
Found at i:65714 original size:53 final size:52
Alignment explanation
Indices: 65579--65743 Score: 205
Period size: 53 Copynumber: 3.1 Consensus size: 52
65569 CGGAAATTAC
* *
65579 AATCGCAATGAGAGAATCGCAATGCGAAATGAAAATCCCAA--C---ATGAA
1 AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
*
65626 AATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAA--C-G--A-GAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
65684 AATCGCAACGAGAGAATCGCAATGCGGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAACGAGAGAATCGCAATGC-GAAATGAAAATCGCAATGCGAAATGAA
65737 AATCGCA
1 AATCGCA
65744 TTGCGATTCT
Statistics
Matches: 102, Mismatches: 4, Indels: 18
0.82 0.03 0.15
Matches are distributed among these distances:
47 8 0.08
50 1 0.01
52 14 0.14
53 63 0.62
55 2 0.02
56 1 0.01
58 13 0.13
ACGTcount: A:0.46, C:0.18, G:0.22, T:0.15
Consensus pattern (52 bp):
AATCGCAACGAGAGAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
Found at i:65783 original size:53 final size:52
Alignment explanation
Indices: 65720--65835 Score: 160
Period size: 53 Copynumber: 2.2 Consensus size: 52
65710 GAAATGAAAA
*
65720 TCGCAATGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
** ** **
65772 TCCGCATTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATT
1 T-CGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
65825 TCGCATTGCGA
1 TCGCATTGCGA
65836 TTTTCATTTC
Statistics
Matches: 56, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
52 11 0.20
53 45 0.80
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.39
Consensus pattern (52 bp):
TCGCATTGCGAAATGAAAATCGCATTGCGATTCTCTCGTTGCGATTTTCATT
Found at i:65850 original size:53 final size:53
Alignment explanation
Indices: 65739--65856 Score: 220
Period size: 53 Copynumber: 2.2 Consensus size: 53
65729 GAAATGAAAA
65739 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
65792 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCATT
1 TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
65844 TCCGCATTGCGAT
1 T-CGCATTGCGAT
65857 AGTCATTTTT
Statistics
Matches: 64, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
52 19 0.30
53 45 0.70
ACGTcount: A:0.14, C:0.25, G:0.18, T:0.44
Consensus pattern (53 bp):
TCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCATT
Found at i:65864 original size:20 final size:19
Alignment explanation
Indices: 65758--65856 Score: 136
Period size: 20 Copynumber: 5.4 Consensus size: 19
65748 GATTCTCTCG
65758 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
65778 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
65797 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
65811 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
65830 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
65850 TTGCGAT
1 TTGCGAT
65857 AGTCATTTTT
Statistics
Matches: 71, Mismatches: 2, Indels: 12
0.84 0.02 0.14
Matches are distributed among these distances:
14 6 0.08
16 7 0.10
17 7 0.10
19 25 0.35
20 26 0.37
ACGTcount: A:0.14, C:0.23, G:0.17, T:0.45
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:65982 original size:14 final size:14
Alignment explanation
Indices: 65963--65999 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
65953 CATCAATTAA
65963 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
65977 ACAAATCATCTTTT
1 ACAAATCAACTTTT
65991 ACAAATCAA
1 ACAAATCAA
66000 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:67490 original size:43 final size:42
Alignment explanation
Indices: 67434--67522 Score: 106
Period size: 43 Copynumber: 2.1 Consensus size: 42
67424 CTCTTCAATG
* * * *
67434 ATGATAGTGGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGA
1 ATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGGA
* * *
67476 ATGATAGGGGGCCTCTTCAACGATAGGAGTGGACTCTTGAGGG
1 ATGATA-GGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGGA
67519 ATGA
1 ATGA
67523 CAGGCGAGTC
Statistics
Matches: 39, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
42 6 0.15
43 33 0.85
ACGTcount: A:0.24, C:0.16, G:0.38, T:0.22
Consensus pattern (42 bp):
ATGATAGGGGCCTCTTCAACGATAGGAGGGGACTCTCGAGGA
Found at i:67962 original size:19 final size:19
Alignment explanation
Indices: 67920--68091 Score: 132
Period size: 19 Copynumber: 9.6 Consensus size: 19
67910 TAGTTTACTT
* *
67920 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TCAAAA
*
67940 TCGCAACGCGAAATCAGAA
1 TCGCAACGCGAAATCAAAA
* *
67959 TCGCAACGAGAAACCAAAA
1 TCGCAACGCGAAATCAAAA
*
67978 TCGCAACGCGAAA-CCAAA
1 TCGCAACGCGAAATCAAAA
*
67996 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
68015 TCGCAA--CG--A-CAGAA
1 TCGCAACGCGAAATCAAAA
* *
68029 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
* *
68048 TCGCAA--CG--A-GAGAA
1 TCGCAACGCGAAATCAAAA
*
68062 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATCAAAA
*
68081 TCGCAATGCGA
1 TCGCAACGCGA
68092 TTTTGGTTTC
Statistics
Matches: 124, Mismatches: 17, Indels: 23
0.76 0.10 0.14
Matches are distributed among these distances:
14 19 0.15
15 2 0.02
16 4 0.03
17 4 0.03
18 19 0.15
19 64 0.52
20 12 0.10
ACGTcount: A:0.45, C:0.24, G:0.20, T:0.10
Consensus pattern (19 bp):
TCGCAACGCGAAATCAAAA
Found at i:68032 original size:14 final size:14
Alignment explanation
Indices: 68013--68069 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
68003 GCGAAATGAA
*
68013 AATCGCAACGACAG
1 AATCGCAACGAAAG
68027 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
*
68044 AAAATCGCAACGAGAG
1 --AATCGCAACGAAAG
68060 AATCGCAACG
1 AATCGCAACG
68070 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 18 0.50
16 5 0.14
17 5 0.14
19 8 0.22
ACGTcount: A:0.44, C:0.23, G:0.23, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:68040 original size:33 final size:33
Alignment explanation
Indices: 67954--68086 Score: 169
Period size: 33 Copynumber: 3.9 Consensus size: 33
67944 AACGCGAAAT
* **
67954 CAGAATCGCAACGAGAAACCAAAATCGCAACGCGAAA
1 CAGAATCGCAACGCGAAATGAAAATCGCAA--CG--A
67991 CCA-AATCGCAACGCGAAATGAAAATCGCAACGA
1 -CAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
68024 CAGAATCGCAATGCGAAATGAAAATCGCAACGA
1 CAGAATCGCAACGCGAAATGAAAATCGCAACGA
*
68057 GAGAATCGCAACGCGAAATGAAAATCGCAA
1 CAGAATCGCAACGCGAAATGAAAATCGCAA
68087 TGCGATTTTG
Statistics
Matches: 88, Mismatches: 6, Indels: 7
0.87 0.06 0.07
Matches are distributed among these distances:
32 2 0.02
33 58 0.66
35 2 0.02
37 24 0.27
38 2 0.02
ACGTcount: A:0.47, C:0.24, G:0.20, T:0.09
Consensus pattern (33 bp):
CAGAATCGCAACGCGAAATGAAAATCGCAACGA
Found at i:68122 original size:14 final size:14
Alignment explanation
Indices: 68103--68161 Score: 64
Period size: 14 Copynumber: 3.9 Consensus size: 14
68093 TTTGGTTTCG
68103 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
68117 CGTTGCGATTTTGGTTT
1 CGTTGCGATTTT-G--T
*
68134 CGCGTTGCGATTCTGT
1 --CGTTGCGATTTTGT
68150 CGTTGCGATTTT
1 CGTTGCGATTTT
68162 CATTTCGCGT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
14 23 0.61
15 1 0.03
16 1 0.03
17 1 0.03
18 1 0.03
19 11 0.29
ACGTcount: A:0.07, C:0.17, G:0.29, T:0.47
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:68129 original size:33 final size:33
Alignment explanation
Indices: 68087--68181 Score: 163
Period size: 33 Copynumber: 2.9 Consensus size: 33
68077 AAAATCGCAA
68087 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
*
68120 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
**
68153 TGCGATTTTCATTTCGCGTTGCGATTTTG
1 TGCGATTTTGGTTTCGCGTTGCGATTTTG
68182 GTTTCGCGTT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 58 1.00
ACGTcount: A:0.07, C:0.17, G:0.28, T:0.47
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTTTGTCGT
Found at i:68141 original size:19 final size:19
Alignment explanation
Indices: 68087--68215 Score: 134
Period size: 19 Copynumber: 7.3 Consensus size: 19
68077 AAAATCGCAA
68087 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
68106 TGCGATTTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
68120 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
68139 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
68153 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
68172 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
68191 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
68211 TGCGA
1 TGCGA
68216 AAGTAAACTA
Statistics
Matches: 92, Mismatches: 7, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 23 0.25
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 49 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.16, G:0.29, T:0.47
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:70170 original size:20 final size:20
Alignment explanation
Indices: 70140--70203 Score: 101
Period size: 20 Copynumber: 3.1 Consensus size: 20
70130 TTTTGGTTGA
70140 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
**
70160 AATGACTATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
70180 AAATGAAAATCGCAACGAGAG
1 -AATGAAAATCGCAACGAGAG
70201 AAT
1 AAT
70204 CGCAACGCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 21 0.54
21 18 0.46
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.12
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:70191 original size:21 final size:21
Alignment explanation
Indices: 70138--70202 Score: 105
Period size: 21 Copynumber: 3.1 Consensus size: 21
70128 TCTTTTGGTT
70138 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
**
70159 G-AATGACTATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
70179 GAAATGAAAATCGCAACGAGA
1 GAAATGAAAATCGCAACGAGA
70200 GAA
1 GAA
70203 TCGCAACGCG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
20 18 0.46
21 21 0.54
ACGTcount: A:0.49, C:0.15, G:0.25, T:0.11
Consensus pattern (21 bp):
GAAATGAAAATCGCAACGAGA
Found at i:70261 original size:19 final size:19
Alignment explanation
Indices: 70228--70336 Score: 93
Period size: 19 Copynumber: 5.8 Consensus size: 19
70218 AAAATCGCAA
**
70228 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTCATTTCGCGT
70247 TGCGATTTTCATTTCGCGT
1 TGCGATTTTCATTTCGCGT
*
70266 TGCGA--TTC---TCTCGT
1 TGCGATTTTCATTTCGCGT
*
70280 TGCGATTTTCATTTCTCTCGT
1 TGCGATTTTCA-TT-TCGCGT
**
70301 TGCAGATAGTCATTTTCGCGT
1 TGC-GATTTTCA-TTTCGCGT
70322 TGCGATTTTCATTTC
1 TGCGATTTTCATTTC
70337 TCTCGTTGCG
Statistics
Matches: 74, Mismatches: 8, Indels: 16
0.76 0.08 0.16
Matches are distributed among these distances:
14 10 0.14
16 3 0.04
17 3 0.04
19 26 0.35
20 6 0.08
21 17 0.23
22 9 0.12
ACGTcount: A:0.11, C:0.21, G:0.21, T:0.47
Consensus pattern (19 bp):
TGCGATTTTCATTTCGCGT
Found at i:70297 original size:21 final size:21
Alignment explanation
Indices: 70271--70347 Score: 111
Period size: 21 Copynumber: 3.7 Consensus size: 21
70261 CGCGTTGCGA
70271 TTCTCTCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
**
70292 TTCTCTCGTTGCAGATAGTCAT
1 TTCTCTCGTTGC-GATTTTCAT
*
70314 TT-TCGCGTTGCGATTTTCAT
1 TTCTCTCGTTGCGATTTTCAT
70334 TTCTCTCGTTGCGA
1 TTCTCTCGTTGCGA
70348 CTCTTCTGCA
Statistics
Matches: 48, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.19
21 30 0.62
22 9 0.19
ACGTcount: A:0.12, C:0.23, G:0.18, T:0.47
Consensus pattern (21 bp):
TTCTCTCGTTGCGATTTTCAT
Found at i:70469 original size:33 final size:33
Alignment explanation
Indices: 70427--70497 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
70417 AATACTAACT
70427 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
*
70460 TGAAAATCGCAACGAGAGAATCGCAACGCGAAA
1 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
70493 TGAAA
1 TGAAA
70498 TCTAAGTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.48, C:0.18, G:0.24, T:0.10
Consensus pattern (33 bp):
TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
Found at i:70473 original size:19 final size:19
Alignment explanation
Indices: 70449--70497 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 19
70439 CGAGAGAATA
70449 GCAACGCGAAATGAAAATC
1 GCAACGCGAAATGAAAATC
*
70468 GCAA--CG--A-GAGAATC
1 GCAACGCGAAATGAAAATC
70482 GCAACGCGAAATGAAA
1 GCAACGCGAAATGAAA
70498 TCTAAGTGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 10
0.66 0.06 0.29
Matches are distributed among these distances:
14 10 0.43
15 1 0.04
16 2 0.09
17 2 0.09
18 1 0.04
19 7 0.30
ACGTcount: A:0.47, C:0.20, G:0.24, T:0.08
Consensus pattern (19 bp):
GCAACGCGAAATGAAAATC
Found at i:70483 original size:14 final size:14
Alignment explanation
Indices: 70431--70487 Score: 51
Period size: 14 Copynumber: 3.7 Consensus size: 14
70421 CTAACTTGAA
70431 AATCGCAACGAGAG
1 AATCGCAACGAGAG
* *
70445 AATAGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
70464 AATCGCAACGAGAG
1 AATCGCAACGAGAG
70478 AATCGCAACG
1 AATCGCAACG
70488 CGAAATGAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
14 19 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 9 0.26
ACGTcount: A:0.46, C:0.21, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:70891 original size:20 final size:20
Alignment explanation
Indices: 70866--71058 Score: 237
Period size: 20 Copynumber: 9.6 Consensus size: 20
70856 CTTTAAAAAT
70866 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
70886 CGCGTTGCGATTTTACGTAT-
1 CGCGTTGCGA-TTTACGGATA
*
70906 TGTCGTTGCGATTTACGGATA
1 CG-CGTTGCGATTTACGGATA
70927 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
70947 CGCATTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
70967 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* * *
70987 CACATTGCGGTTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
71007 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
71027 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
71047 CGCGTTGCGATT
1 CGCGTTGCGATT
71059 CTGGAAAATC
Statistics
Matches: 150, Mismatches: 18, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
20 132 0.88
21 18 0.12
ACGTcount: A:0.18, C:0.19, G:0.27, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:71593 original size:20 final size:20
Alignment explanation
Indices: 71570--71617 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
71560 AATTCGATTA
71570 ATTCGGTTATAATTAATTCG
1 ATTCGGTTATAATTAATTCG
* *
71590 ATTCGATTATGATTAATTCG
1 ATTCGGTTATAATTAATTCG
71610 ATTCGGTT
1 ATTCGGTT
71618 CGATTTTAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.27, C:0.10, G:0.17, T:0.46
Consensus pattern (20 bp):
ATTCGGTTATAATTAATTCG
Found at i:86654 original size:22 final size:22
Alignment explanation
Indices: 86626--86689 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
86616 ACCACTAAGG
*
86626 CATATACAAAAAATTACCAAGC
1 CATATACAAAAAAATACCAAGC
*
86648 CATATACAAAAAAATACCAAGT
1 CATATACAAAAAAATACCAAGC
86670 CATATACAAAAAAATGACCA
1 CATATACAAAAAAAT-ACCA
86690 CTAAGCCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
22 35 0.90
23 4 0.10
ACGTcount: A:0.58, C:0.20, G:0.05, T:0.17
Consensus pattern (22 bp):
CATATACAAAAAAATACCAAGC
Found at i:87081 original size:33 final size:33
Alignment explanation
Indices: 87039--87121 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
87029 ACTTTGTTAG
*
87039 TTGAAGATGATTGAAACCCTAGAGGTGCACTAA
1 TTGAAGATGATTGAAACCCTAGAGGTGCACCAA
*
87072 TTGAAGATGATTGAAACCCTGGAGGTGCACCAA
1 TTGAAGATGATTGAAACCCTAGAGGTGCACCAA
* *
87105 TCGAAGATGATCGAAAC
1 TTGAAGATGATTGAAAC
87122 ATTAAAAGTG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.36, C:0.17, G:0.25, T:0.22
Consensus pattern (33 bp):
TTGAAGATGATTGAAACCCTAGAGGTGCACCAA
Found at i:87493 original size:28 final size:28
Alignment explanation
Indices: 87450--87507 Score: 98
Period size: 28 Copynumber: 2.1 Consensus size: 28
87440 TTAAAACTTT
87450 ATGAATCAAAACATTCAAACATTTTCAA
1 ATGAATCAAAACATTCAAACATTTTCAA
* *
87478 ATGAATCAAAATATTCAAAGATTTTCAA
1 ATGAATCAAAACATTCAAACATTTTCAA
87506 AT
1 AT
87508 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.50, C:0.14, G:0.05, T:0.31
Consensus pattern (28 bp):
ATGAATCAAAACATTCAAACATTTTCAA
Found at i:87516 original size:28 final size:28
Alignment explanation
Indices: 87457--87517 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 28
87447 TTTATGAATC
* **
87457 AAAACATTCAAACATTTTCAAATGAATC
1 AAAACATTCAAACATTTTCAAATAAAAA
* *
87485 AAAATATTCAAAGATTTTCAAATAAAAA
1 AAAACATTCAAACATTTTCAAATAAAAA
87513 AAAAC
1 AAAAC
87518 TTACCGTTCG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.57, C:0.13, G:0.03, T:0.26
Consensus pattern (28 bp):
AAAACATTCAAACATTTTCAAATAAAAA
Found at i:90996 original size:24 final size:24
Alignment explanation
Indices: 90963--91008 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
90953 GTTAAATGTG
90963 TGTTTGTTTTAGTTTAGTGTATAA
1 TGTTTGTTTTAGTTTAGTGTATAA
* *
90987 TGTTTTTTTTAGTTTGGTGTAT
1 TGTTTGTTTTAGTTTAGTGTAT
91009 TAGGTTTTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.15, C:0.00, G:0.22, T:0.63
Consensus pattern (24 bp):
TGTTTGTTTTAGTTTAGTGTATAA
Found at i:91015 original size:24 final size:24
Alignment explanation
Indices: 90964--91016 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
90954 TTAAATGTGT
* *
90964 GTTTGTTTTAGTTTAGTGTATAAT
1 GTTTTTTTTAGTTTAGTGTATAAG
* *
90988 GTTTTTTTTAGTTTGGTGTATTAG
1 GTTTTTTTTAGTTTAGTGTATAAG
91012 GTTTT
1 GTTTT
91017 ATTTCGTTAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.15, C:0.00, G:0.23, T:0.62
Consensus pattern (24 bp):
GTTTTTTTTAGTTTAGTGTATAAG
Found at i:91845 original size:14 final size:15
Alignment explanation
Indices: 91762--91849 Score: 97
Period size: 15 Copynumber: 5.9 Consensus size: 15
91752 TTGGTTTTCC
91762 GGAAAATGAATTACT
1 GGAAAATGAATTACT
* **
91777 GCAATTTGAATTACT
1 GGAAAATGAATTACT
* **
91792 GCAATTTGAATTACT
1 GGAAAATGAATTACT
91807 GGAAAATGAATTACT
1 GGAAAATGAATTACT
**
91822 GGAATTTGAATT-CT
1 GGAAAATGAATTACT
91836 GGAAAATGAATTAC
1 GGAAAATGAATTAC
91850 ACATTTCTGG
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
14 12 0.19
15 50 0.81
ACGTcount: A:0.40, C:0.09, G:0.18, T:0.33
Consensus pattern (15 bp):
GGAAAATGAATTACT
Found at i:91847 original size:29 final size:30
Alignment explanation
Indices: 91768--91849 Score: 121
Period size: 30 Copynumber: 2.8 Consensus size: 30
91758 TTCCGGAAAA
* **
91768 TGAATTACTGCAATTTGAATTACTGCAATT
1 TGAATTACTGGAAAATGAATTACTGCAATT
*
91798 TGAATTACTGGAAAATGAATTACTGGAATT
1 TGAATTACTGGAAAATGAATTACTGCAATT
91828 TGAATT-CTGGAAAATGAATTAC
1 TGAATTACTGGAAAATGAATTAC
91850 ACATTTCTGG
Statistics
Matches: 48, Mismatches: 4, Indels: 1
0.91 0.08 0.02
Matches are distributed among these distances:
29 16 0.33
30 32 0.67
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (30 bp):
TGAATTACTGGAAAATGAATTACTGCAATT
Found at i:92010 original size:25 final size:25
Alignment explanation
Indices: 91982--92029 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
91972 TCATAAAACT
91982 TAATATATTATT-TTAAAATATTAAA
1 TAATATATTATTATT-AAATATTAAA
*
92007 TAATTTATTATTATTAAATATTA
1 TAATATATTATTATTAAATATTA
92030 GTTTTATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 19 0.90
26 2 0.10
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TAATATATTATTATTAAATATTAAA
Found at i:92218 original size:28 final size:29
Alignment explanation
Indices: 92178--92252 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 29
92168 CTTTACTAAA
*
92178 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTA-TTAAATATATAAAAAAGTATTAT
*
92207 -TCATTATTAAATATATAAAAAAGTATTCT
1 AT-ATTATTAAATATATAAAAAAGTATTAT
92236 ATATTATTAAA-ATATAA
1 ATATTATTAAATATATAA
92253 TATCTTATAT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
28 22 0.54
29 18 0.44
30 1 0.02
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.44
Consensus pattern (29 bp):
ATATTATTAAATATATAAAAAAGTATTAT
Found at i:92311 original size:18 final size:19
Alignment explanation
Indices: 92264--92325 Score: 63
Period size: 18 Copynumber: 3.2 Consensus size: 19
92254 ATCTTATATT
* *
92264 ATATTATATAATATAATTGA
1 ATATTATATAATATTA-TAA
*
92284 TTATTTATATAATATTA-AA
1 ATA-TTATATAATATTATAA
*
92303 ATATTATATATTATTATAA
1 ATATTATATAATATTATAA
92322 ATAT
1 ATAT
92326 CAATAAATAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 12 0.34
19 9 0.26
20 2 0.06
21 12 0.34
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (19 bp):
ATATTATATAATATTATAA
Found at i:92598 original size:42 final size:42
Alignment explanation
Indices: 92552--92649 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
92542 GAACTACGTG
* **
92552 AAACAAAGACGGGAAAACATTTTCCGGAAAACGAATTATGTA
1 AAACAAACACGGGAAAACATTTTCCGGAAAACGAATTACATA
*
92594 AAACAAACACGGGAAAACATTTTCCGGAAAACGAATTACATG
1 AAACAAACACGGGAAAACATTTTCCGGAAAACGAATTACATA
92636 AAACAAACACGGGA
1 AAACAAACACGGGA
92650 TTTCGGGGAA
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.49, C:0.17, G:0.18, T:0.15
Consensus pattern (42 bp):
AAACAAACACGGGAAAACATTTTCCGGAAAACGAATTACATA
Found at i:93726 original size:29 final size:30
Alignment explanation
Indices: 93681--93737 Score: 89
Period size: 29 Copynumber: 1.9 Consensus size: 30
93671 CATTTTGAGT
93681 AACGAAAATAAACGTTAAGCACCAAACTCA
1 AACGAAAATAAACGTTAAGCACCAAACTCA
* *
93711 AACGAAAA-AAACGTTAGGCACTAAACT
1 AACGAAAATAAACGTTAAGCACCAAACT
93738 GAAAAAATGA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.53, C:0.21, G:0.12, T:0.14
Consensus pattern (30 bp):
AACGAAAATAAACGTTAAGCACCAAACTCA
Found at i:94189 original size:28 final size:28
Alignment explanation
Indices: 94155--94212 Score: 80
Period size: 28 Copynumber: 2.1 Consensus size: 28
94145 ACCACTATTG
94155 ATTTTAAGCACTGACTCGACAACATAAT
1 ATTTTAAGCACTGACTCGACAACATAAT
* * * *
94183 ATTTTAAGTATTGTCTCGACGACATAAT
1 ATTTTAAGCACTGACTCGACAACATAAT
94211 AT
1 AT
94213 AAATGGAGAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.34
Consensus pattern (28 bp):
ATTTTAAGCACTGACTCGACAACATAAT
Found at i:94423 original size:56 final size:59
Alignment explanation
Indices: 94357--94495 Score: 158
Period size: 60 Copynumber: 2.4 Consensus size: 59
94347 TGATTAGTTG
* * * *
94357 AGTGACCATTTTTTAACTTTTAAT-G-G-AGGACTTAACAAATCAATGTCTTATAATTA
1 AGTGACCATTTTGTAACTTTTAATAGCGAAAGACTTAACAAAACAATGTCTTATAACTA
* * * *
94413 AGTGATCATTTTGTAACTTCTAATAGTCGAAAGATTTAGCAAAACAATGTCTTATAACTA
1 AGTGACCATTTTGTAACTTTTAATAG-CGAAAGACTTAACAAAACAATGTCTTATAACTA
* *
94473 AGGGACCATTTTGTAACATTTAA
1 AGTGACCATTTTGTAACTTTTAA
94496 AAATTAAGAA
Statistics
Matches: 67, Mismatches: 12, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
56 21 0.31
57 1 0.01
59 1 0.01
60 44 0.66
ACGTcount: A:0.37, C:0.13, G:0.14, T:0.37
Consensus pattern (59 bp):
AGTGACCATTTTGTAACTTTTAATAGCGAAAGACTTAACAAAACAATGTCTTATAACTA
Found at i:96523 original size:29 final size:29
Alignment explanation
Indices: 96481--96548 Score: 127
Period size: 29 Copynumber: 2.3 Consensus size: 29
96471 CTGCTACGTG
*
96481 CATATTCACTTAATCATGATCTTCAGTGA
1 CATAATCACTTAATCATGATCTTCAGTGA
96510 CATAATCACTTAATCATGATCTTCAGTGA
1 CATAATCACTTAATCATGATCTTCAGTGA
96539 CATAATCACT
1 CATAATCACT
96549 CTTCTTGTAT
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 38 1.00
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.35
Consensus pattern (29 bp):
CATAATCACTTAATCATGATCTTCAGTGA
Found at i:96964 original size:19 final size:19
Alignment explanation
Indices: 96937--96974 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
96927 TAACATAATC
96937 TTGTAAAACAAATAACAGA
1 TTGTAAAACAAATAACAGA
*
96956 TTGTGAAACAAATAACAGA
1 TTGTAAAACAAATAACAGA
96975 AAATTAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.11, G:0.13, T:0.21
Consensus pattern (19 bp):
TTGTAAAACAAATAACAGA
Found at i:107349 original size:33 final size:33
Alignment explanation
Indices: 107312--107380 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
107302 TGCACGCGCT
107312 TCGCTCTTACATTCCCTTGATGCTTTCTCTTCA
1 TCGCTCTTACATTCCCTTGATGCTTTCTCTTCA
107345 TCGCTCTTACATTCCCTTGATGCTTTCTCTTCA
1 TCGCTCTTACATTCCCTTGATGCTTTCTCTTCA
107378 TCG
1 TCG
107381 AGTCTCATAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.12, C:0.33, G:0.10, T:0.45
Consensus pattern (33 bp):
TCGCTCTTACATTCCCTTGATGCTTTCTCTTCA
Found at i:120588 original size:27 final size:27
Alignment explanation
Indices: 120550--120616 Score: 116
Period size: 27 Copynumber: 2.5 Consensus size: 27
120540 TGATTCAGTG
*
120550 CTGACTGATTCAGCACAGAAGTACATT
1 CTGAATGATTCAGCACAGAAGTACATT
120577 CTGAATGATTCAGCACAGAAGTACATT
1 CTGAATGATTCAGCACAGAAGTACATT
*
120604 CTGAATCATTCAG
1 CTGAATGATTCAG
120617 AGCCATTATC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
27 38 1.00
ACGTcount: A:0.34, C:0.21, G:0.18, T:0.27
Consensus pattern (27 bp):
CTGAATGATTCAGCACAGAAGTACATT
Found at i:123305 original size:24 final size:24
Alignment explanation
Indices: 123274--123325 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
123264 ACATGAAGAT
123274 AAAAAATGAAGAAAATAATAAATA
1 AAAAAATGAAGAAAATAATAAATA
123298 AAAAAATGAAGAAAATAATAAATA
1 AAAAAATGAAGAAAATAATAAATA
123322 AAAA
1 AAAA
123326 TATAGATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (24 bp):
AAAAAATGAAGAAAATAATAAATA
Found at i:123324 original size:12 final size:12
Alignment explanation
Indices: 123272--123324 Score: 54
Period size: 12 Copynumber: 4.5 Consensus size: 12
123262 CAACATGAAG
*
123272 ATAAAA-AATGA
1 ATAAAATAATAA
*
123283 AGAAAATAATAA
1 ATAAAATAATAA
* *
123295 ATAAAAAAATGA
1 ATAAAATAATAA
*
123307 AGAAAATAATAA
1 ATAAAATAATAA
123319 ATAAAA
1 ATAAAA
123325 ATATAGATAG
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
11 5 0.16
12 27 0.84
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (12 bp):
ATAAAATAATAA
Found at i:123570 original size:18 final size:18
Alignment explanation
Indices: 123517--123578 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
123507 TATCAAAAGT
123517 ATATATACATAGTGATAAAA
1 ATATATA-ATAGTGAT-AAA
123537 ATATAGTAATA-T-ATAAA
1 ATATA-TAATAGTGATAAA
* *
123554 ATATATAACAGTGATAAT
1 ATATATAATAGTGATAAA
123572 ATATATA
1 ATATATA
123579 TATATAGATT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
16 4 0.11
17 9 0.24
18 13 0.35
19 1 0.03
20 8 0.22
21 2 0.05
ACGTcount: A:0.55, C:0.03, G:0.08, T:0.34
Consensus pattern (18 bp):
ATATATAATAGTGATAAA
Found at i:123614 original size:3 final size:3
Alignment explanation
Indices: 123606--123680 Score: 57
Period size: 3 Copynumber: 24.7 Consensus size: 3
123596 CGAAAGAATA
* * *
123606 AAT AAT AAT AA- AAA AAGT AAA AAT AAT AAT AAT AAT AGAT AAT AAA
1 AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT A-AT AAT AAT
*
123652 AAT ATAT AAT TA- AAT -AT ATAT AAT AAT AA
1 AAT A-AT AAT AAT AAT AAT A-AT AAT AAT AA
123681 ATATATTGTT
Statistics
Matches: 58, Mismatches: 7, Indels: 14
0.73 0.09 0.18
Matches are distributed among these distances:
2 5 0.09
3 42 0.72
4 11 0.19
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:123649 original size:13 final size:13
Alignment explanation
Indices: 123627--123685 Score: 61
Period size: 13 Copynumber: 4.6 Consensus size: 13
123617 AAAAAGTAAA
123627 AATA-ATAATAAT
1 AATATATAATAAT
* *
123639 AATAGATAATAAA
1 AATATATAATAAT
123652 AATATATAATTAA-
1 AATATATAA-TAAT
123665 ATATATATAATAAT
1 A-ATATATAATAAT
123679 AA-ATATA
1 AATATATA
123686 TTGTTGGAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
12 9 0.22
13 20 0.49
14 12 0.29
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (13 bp):
AATATATAATAAT
Found at i:123672 original size:16 final size:16
Alignment explanation
Indices: 123628--123686 Score: 65
Period size: 14 Copynumber: 4.0 Consensus size: 16
123618 AAAAGTAAAA
123628 ATAATAAT-AATA-AT
1 ATAATAATAAATATAT
* *
123642 A-GATAATAAAAATAT
1 ATAATAATAAATATAT
123657 ATAAT--TAAATATAT
1 ATAATAATAAATATAT
123671 ATAATAATAAATATAT
1 ATAATAATAAATATAT
123687 TGTTGGAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 8
0.75 0.08 0.17
Matches are distributed among these distances:
13 5 0.14
14 17 0.47
15 3 0.08
16 11 0.31
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAATAATAAATATAT
Found at i:124181 original size:37 final size:37
Alignment explanation
Indices: 124131--124242 Score: 152
Period size: 37 Copynumber: 3.0 Consensus size: 37
124121 ATGCTTCTGG
* * *
124131 ATCCTATTTTTAGGAGTTTGAATCGTAATATAACTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAATAAAACTCT
*
124168 ATCCTATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAATAAAACTCT
** * *
124205 ATTATATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAATAAAACTCT
124242 A
1 A
124243 ACGCTGTGTT
Statistics
Matches: 68, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.32, C:0.12, G:0.13, T:0.43
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAATAAAACTCT
Found at i:124968 original size:83 final size:83
Alignment explanation
Indices: 124780--124968 Score: 272
Period size: 83 Copynumber: 2.3 Consensus size: 83
124770 GAGTTGAATG
* * *
124780 TAATCGAACTCGAAGGTCTTTGATGACTGATAACCCTTATTGCCTTGAGTTATACTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTTGAGTTATACTGCAAATGAT
* *
124845 GTGCCTTGGAGCTGAGCA
66 GTGCCTCGAAGCTGAGCA
* * *
124863 TAGTCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGCTGCAAATGAT
1 TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTTGAGTTATACTGCAAATGAT
124928 GTGCCCTCGAAGCTGAGCA
66 GTG-CCTCGAAGCTGAGCA
* *
124947 TAATTGAACTCCAAGG-CTTTGT
1 TAATCGAACTCGAAGGTCTTTGT
124969 GTTTCAAGAG
Statistics
Matches: 94, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
83 68 0.72
84 26 0.28
ACGTcount: A:0.26, C:0.21, G:0.23, T:0.31
Consensus pattern (83 bp):
TAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTATAGCCTTGAGTTATACTGCAAATGAT
GTGCCTCGAAGCTGAGCA
Found at i:125006 original size:30 final size:31
Alignment explanation
Indices: 124970--125033 Score: 94
Period size: 30 Copynumber: 2.1 Consensus size: 31
124960 AGGCTTTGTG
*
124970 TTTCAAGAGAAACATTTTC-AAAGTTTTTTT
1 TTTCAAGAGAAACAATTTCGAAAGTTTTTTT
**
125000 TTTCAAGAGAAACAATTTCGAGGGTTTTTTT
1 TTTCAAGAGAAACAATTTCGAAAGTTTTTTT
125031 TTT
1 TTT
125034 GTGTTTCAAG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 18 0.60
31 12 0.40
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.47
Consensus pattern (31 bp):
TTTCAAGAGAAACAATTTCGAAAGTTTTTTT
Found at i:125084 original size:36 final size:36
Alignment explanation
Indices: 125035--125151 Score: 146
Period size: 36 Copynumber: 3.2 Consensus size: 36
125025 TTTTTTTTTG
* * *
125035 TGTTTCAAGAGAAACTGTCTTAATAGAGACAAAATT
1 TGTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATT
* *
125071 TGTTTCAAAAGAAATTGTCTCAAGAGAGACAAAACTT
1 TGTTTCAAAAGAAACTGTCTCAAAAGAGACAAAA-TT
* *
125108 AG-TTCTAAAAGAAACTGTCTCAAAAGAGACGAAATT
1 TGTTTC-AAAAGAAACTGTCTCAAAAGAGACAAAATT
125144 TGTTTCAA
1 TGTTTCAA
125152 GGAAAAGATA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
36 38 0.55
37 31 0.45
ACGTcount: A:0.43, C:0.13, G:0.16, T:0.28
Consensus pattern (36 bp):
TGTTTCAAAAGAAACTGTCTCAAAAGAGACAAAATT
Found at i:126207 original size:32 final size:32
Alignment explanation
Indices: 126171--126265 Score: 136
Period size: 32 Copynumber: 2.9 Consensus size: 32
126161 ATTCCCAAAG
126171 ATGCCCCAATATTTGATGTTGAATCTCAAAAA
1 ATGCCCCAATATTTGATGTTGAATCTCAAAAA
* *
126203 ATGCCCCAACATTTGATGTTAAATCTCAAAAA
1 ATGCCCCAATATTTGATGTTGAATCTCAAAAA
* * *
126235 CTGTCCCAGTATTTGATGTTGAATCTTCAAA
1 ATGCCCCAATATTTGATGTTGAATC-TCAAA
126266 GATGCCCTCA
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 50 0.91
33 5 0.09
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.33
Consensus pattern (32 bp):
ATGCCCCAATATTTGATGTTGAATCTCAAAAA
Found at i:127341 original size:18 final size:18
Alignment explanation
Indices: 127318--127389 Score: 67
Period size: 18 Copynumber: 3.9 Consensus size: 18
127308 ATGCGTCTTG
*
127318 TTTGCTTTTTTCTTTGTT-
1 TTTGCTTTTTGCTTT-TTA
*
127336 TTTGCTTTTTGCTTTTTTG
1 TTTGCTTTTTGC-TTTTTA
*
127355 TTTTCTTTTTGCTTTTTA
1 TTTGCTTTTTGCTTTTTA
*
127373 CTTT-CTTTTTTCTTTTT
1 -TTTGCTTTTTGCTTTTT
127390 TTTTTGTTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
18 30 0.64
19 17 0.36
ACGTcount: A:0.01, C:0.12, G:0.08, T:0.78
Consensus pattern (18 bp):
TTTGCTTTTTGCTTTTTA
Found at i:127346 original size:25 final size:24
Alignment explanation
Indices: 127318--127389 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 24
127308 ATGCGTCTTG
*
127318 TTTGCTTTTTTCTTTGTTTTTGCTT
1 TTTGCTTTTTT-TTTCTTTTTGCTT
127343 TTTGCTTTTTTGTTTTCTTTTTGCTT
1 TTTGC-TTTTT-TTTTCTTTTTGCTT
*
127369 TTTACTTTCTTTTTTCTTTTT
1 TTTGCTTT-TTTTTTCTTTTT
127390 TTTTTGTTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
25 18 0.43
26 23 0.55
27 1 0.02
ACGTcount: A:0.01, C:0.12, G:0.08, T:0.78
Consensus pattern (24 bp):
TTTGCTTTTTTTTTCTTTTTGCTT
Found at i:127356 original size:37 final size:36
Alignment explanation
Indices: 127315--127395 Score: 92
Period size: 37 Copynumber: 2.2 Consensus size: 36
127305 CATATGCGTC
*
127315 TTGTTTGCTTTTTTCTTTGTT-TTTGCTTTTTGCTTTT
1 TTGTTTGCTTTTTGCTTT-TTATTT-CTTTTTGCTTTT
* *
127352 TTGTTTTCTTTTTGCTTTTTACTTTCTTTTTTCTTTT
1 TTGTTTGCTTTTTGCTTTTTA-TTTCTTTTTGCTTTT
*
127389 TTTTTTG
1 TTGTTTG
127396 TTCTGATTGG
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
36 2 0.05
37 32 0.86
38 3 0.08
ACGTcount: A:0.01, C:0.11, G:0.10, T:0.78
Consensus pattern (36 bp):
TTGTTTGCTTTTTGCTTTTTATTTCTTTTTGCTTTT
Found at i:130503 original size:9 final size:9
Alignment explanation
Indices: 130469--130515 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
130459 CAACATGAAG
130469 ATAAA-AAA
1 ATAAATAAA
* *
130477 ATTAAGAAA
1 ATAAATAAA
130486 AT-AAT-AA
1 ATAAATAAA
130493 ATAAATAAA
1 ATAAATAAA
130502 ATAAATAAA
1 ATAAATAAA
130511 ATAAA
1 ATAAA
130516 AAATAGATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
7 4 0.12
8 9 0.26
9 21 0.62
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (9 bp):
ATAAATAAA
Found at i:130511 original size:25 final size:25
Alignment explanation
Indices: 130469--130529 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 25
130459 CAACATGAAG
* *
130469 ATAAA-AAAATTAAGAAAATAATAA
1 ATAAATAAAATAAAGAAAATAAAAA
*
130493 ATAAATAAAATAAATAAAATAAAAA
1 ATAAATAAAATAAAGAAAATAAAAA
* *
130518 ATAGATAGAATA
1 ATAAATAAAATA
130530 GTAAAAATCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 5 0.16
25 26 0.84
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (25 bp):
ATAAATAAAATAAAGAAAATAAAAA
Found at i:130764 original size:2 final size:2
Alignment explanation
Indices: 130759--130789 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
130749 ATAATAGTGA
130759 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
130790 AAATGAGGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:130872 original size:14 final size:13
Alignment explanation
Indices: 130837--130886 Score: 57
Period size: 14 Copynumber: 3.8 Consensus size: 13
130827 AAAAATAATA
* *
130837 ATAATAGATAATAG
1 ATAATAAAT-ATAT
130851 ATAATAAATATAT
1 ATAATAAATATAT
130864 ATAATTAAATATAT
1 ATAA-TAAATATAT
130878 ATAA-AAATA
1 ATAATAAATA
130887 AACATACTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
12 5 0.15
13 7 0.21
14 21 0.64
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (13 bp):
ATAATAAATATAT
Found at i:131387 original size:37 final size:37
Alignment explanation
Indices: 131337--131448 Score: 188
Period size: 37 Copynumber: 3.0 Consensus size: 37
131327 ATACTTCTGG
* *
131337 ATCCTATTTTTAGGAGTTTGAATCATAGTAGAACTTT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
131374 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
* *
131411 ATCATATTTTTAGGAGTTTGAATCCTAGTAAAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
131448 A
1 A
131449 ACGCTATGTT
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCATAGTAAAACTCT
Found at i:132037 original size:21 final size:21
Alignment explanation
Indices: 132011--132057 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
132001 GTTTCCAGAT
132011 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
*
132032 TCGCAACTCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
132053 TCGCA
1 TCGCA
132058 TTGCGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.28, C:0.34, G:0.17, T:0.21
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:132103 original size:21 final size:19
Alignment explanation
Indices: 132077--132434 Score: 302
Period size: 21 Copynumber: 17.2 Consensus size: 19
132067 ACATATTCGA
*
132077 GTTGCGATAGTCCAAGTCCGC
1 GTTGCGATAGTCCAAGT--TC
**
132098 GTTGCGATTTTCCAAGTTC
1 GTTGCGATAGTCCAAGTTC
132117 GTTGCGATAGTCTCCAAGTTC
1 GTTGCGATAG--TCCAAGTTC
*
132138 GTTGCGATAGTCTCCAAATTC
1 GTTGCGATAG--TCCAAGTTC
* *
132159 ATTGCGATAGTCTCCAAGTGC
1 GTTGCGATAG--TCCAAGTTC
132180 GTTGCGATAGTCTCCAAGTTC
1 GTTGCGATAG--TCCAAGTTC
132201 GTTGCGATAGTCTCTAAGTTC
1 GTTGCGATAGTC-C-AAGTTC
132222 GTTGCGATAGTCTCCAAGTTC
1 GTTGCGATAG--TCCAAGTTC
*
132243 GTTGCGATAGTCTCCAAATTC
1 GTTGCGATAG--TCCAAGTTC
132264 GTTGCGATAGTCTCCAAGTTC
1 GTTGCGATAG--TCCAAGTTC
*
132285 GTTGCGATAGTCTCCAACTTC
1 GTTGCGATAG--TCCAAGTTC
132306 GTTGCGATAGTCTCCAAGTTC
1 GTTGCGATAG--TCCAAGTTC
132327 GTTGCGATAGTCTCCAAGTTC
1 GTTGCGATAG--TCCAAGTTC
* *
132348 ATTGCGATAGTCTCCAAATTC
1 GTTGCGATAG--TCCAAGTTC
* * *
132369 TTTGCGATAGTCTCCAACTTT
1 GTTGCGATAG--TCCAAGTTC
*
132390 GTTGCGATAGTCTCCAACTTC
1 GTTGCGATAG--TCCAAGTTC
132411 GTTGCGATAGTCTCTAAGTTC
1 GTTGCGATAGTC-C-AAGTTC
132432 GTT
1 GTT
132435 ATTGCATTTG
Statistics
Matches: 306, Mismatches: 23, Indels: 16
0.89 0.07 0.05
Matches are distributed among these distances:
19 13 0.04
20 2 0.01
21 288 0.94
22 1 0.00
23 2 0.01
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (19 bp):
GTTGCGATAGTCCAAGTTC
Found at i:132154 original size:42 final size:42
Alignment explanation
Indices: 132108--132434 Score: 537
Period size: 42 Copynumber: 7.8 Consensus size: 42
132098 GTTGCGATTT
132108 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
* * *
132150 TCCAAATTCATTGCGATAGTCTCCAAGTGCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
*
132192 TCCAAGTTCGTTGCGATAGTCTCTAAGTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
*
132234 TCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
*
132276 TCCAAGTTCGTTGCGATAGTCTCCAACTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
*
132318 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCATTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
* * * *
132360 TCCAAATTCTTTGCGATAGTCTCCAACTTTGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
* *
132402 TCCAACTTCGTTGCGATAGTCTCTAAGTTCGTT
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTT
132435 ATTGCATTTG
Statistics
Matches: 263, Mismatches: 22, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 263 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (42 bp):
TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
Found at i:132185 original size:63 final size:63
Alignment explanation
Indices: 132108--132434 Score: 537
Period size: 63 Copynumber: 5.2 Consensus size: 63
132098 GTTGCGATTT
* *
132108 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCATTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
* *
132171 TCCAAGTGCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCTAAGTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
*
132234 TCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
* *
132297 TCCAACTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCATTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
* * * * *
132360 TCCAAATTCTTTGCGATAGTCTCCAACTTTGTTGCGATAGTCTCCAACTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
*
132423 TCTAAGTTCGTT
1 TCCAAGTTCGTT
132435 ATTGCATTTG
Statistics
Matches: 245, Mismatches: 19, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 245 1.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (63 bp):
TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
Found at i:133014 original size:6 final size:6
Alignment explanation
Indices: 133003--133035 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
132993 CCGTCTCGTC
133003 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCG
133036 GGGTAATACG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.00, C:0.18, G:0.48, T:0.33
Consensus pattern (6 bp):
TCGTGG
Found at i:133419 original size:21 final size:21
Alignment explanation
Indices: 133132--133413 Score: 437
Period size: 21 Copynumber: 13.5 Consensus size: 21
133122 TGCGATTTTG
* *
133132 GACTATCGCAACAAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
133153 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
133174 GACTATCGCAATGAACTTGGA
1 GACTATCGCAACGAACTTGGA
133195 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
133216 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
133237 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
*
133258 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
133279 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
133300 AACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
133321 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
133342 GACTATCGCAACGCACTTGGA
1 GACTATCGCAACGAACTTGGA
133363 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
133384 -A-AATCGCAACACGAACTT-G-
1 GACTATCGC-A-ACGAACTTGGA
133403 GACTATCGCAA
1 GACTATCGCAA
133414 TGCGAATATG
Statistics
Matches: 245, Mismatches: 12, Indels: 10
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.02
20 5 0.02
21 234 0.96
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:134505 original size:30 final size:30
Alignment explanation
Indices: 134469--134533 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 30
134459 TGTATGGTTT
134469 GTGTTTATTTAAA-TTTTAAGTATCATATTC
1 GTGTTTATTTAAATTTTTAA-TATCATATTC
134499 GTGTTTATTTAAATTTTTAATATCATATTC
1 GTGTTTATTTAAATTTTTAATATCATATTC
134529 GTGTT
1 GTGTT
134534 CGTTTATTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
30 28 0.82
31 6 0.18
ACGTcount: A:0.28, C:0.06, G:0.11, T:0.55
Consensus pattern (30 bp):
GTGTTTATTTAAATTTTTAATATCATATTC
Found at i:137968 original size:21 final size:21
Alignment explanation
Indices: 137944--137998 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
137934 TTGATTTGAA
137944 TTATATTATTATTGTTGTTGT
1 TTATATTATTATTGTTGTTGT
* *
137965 TTATA-TAGATCTTGTTGTTGT
1 TTATATTA-TTATTGTTGTTGT
*
137986 TTTTATTATTATT
1 TTATATTATTATT
137999 TAAATTATGA
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
20 2 0.07
21 23 0.85
22 2 0.07
ACGTcount: A:0.20, C:0.02, G:0.13, T:0.65
Consensus pattern (21 bp):
TTATATTATTATTGTTGTTGT
Found at i:139289 original size:25 final size:25
Alignment explanation
Indices: 139256--139312 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
139246 TATTTTGCTT
139256 CTTACATGTTAACTATAGCCATTGA
1 CTTACATGTTAACTATAGCCATTGA
139281 CTTACATGTTAACTATAGCCATTGA
1 CTTACATGTTAACTATAGCCATTGA
139306 CTTACAT
1 CTTACAT
139313 TTTCCACACT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (25 bp):
CTTACATGTTAACTATAGCCATTGA
Found at i:142826 original size:10 final size:10
Alignment explanation
Indices: 142813--142856 Score: 54
Period size: 10 Copynumber: 4.2 Consensus size: 10
142803 TTCATTTCAT
142813 TTTATTATTA
1 TTTATTATTA
142823 TTTATTA-TA
1 TTTATTATTA
142832 TTATTATTTATTA
1 -T-TTA-TTATTA
142845 TTTATTATTA
1 TTTATTATTA
142855 TT
1 TT
142857 CTTAATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
9 2 0.07
10 16 0.53
11 6 0.20
12 4 0.13
13 2 0.07
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (10 bp):
TTTATTATTA
Found at i:142829 original size:7 final size:7
Alignment explanation
Indices: 142817--142853 Score: 65
Period size: 7 Copynumber: 5.1 Consensus size: 7
142807 TTTCATTTTA
142817 TTATTAT
1 TTATTAT
142824 TTATTAT
1 TTATTAT
142831 ATTATTAT
1 -TTATTAT
142839 TTATTAT
1 TTATTAT
142846 TTATTAT
1 TTATTAT
142853 T
1 T
142854 ATTCTTAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
7 22 0.76
8 7 0.24
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (7 bp):
TTATTAT
Found at i:142876 original size:3 final size:3
Alignment explanation
Indices: 142814--142856 Score: 52
Period size: 3 Copynumber: 13.7 Consensus size: 3
142804 TCATTTCATT
142814 TTA TTA TTA TTTA TTA -TA TTA TTA TTTA TTA TTTA TTA TTA TT
1 TTA TTA TTA -TTA TTA TTA TTA TTA -TTA TTA -TTA TTA TTA TT
142857 CTTAATAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
2 2 0.06
3 25 0.69
4 9 0.25
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:143595 original size:21 final size:21
Alignment explanation
Indices: 143571--143613 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
143561 TTGGCGACGG
143571 CAGACGACTACCGGGCGGCGA
1 CAGACGACTACCGGGCGGCGA
*
143592 CAGACGACTACCGGTCGGCGA
1 CAGACGACTACCGGGCGGCGA
143613 C
1 C
143614 CGGCCTTCCT
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:0.23, C:0.35, G:0.35, T:0.07
Consensus pattern (21 bp):
CAGACGACTACCGGGCGGCGA
Found at i:144266 original size:13 final size:14
Alignment explanation
Indices: 144248--144294 Score: 60
Period size: 15 Copynumber: 3.3 Consensus size: 14
144238 CACTGTTTAG
144248 TTATAT-TTTAATT
1 TTATATATTTAATT
*
144261 TTATATATTTATTT
1 TTATATATTTAATT
144275 TTAATATATTTAATT
1 TT-ATATATTTAATT
144290 ATTAT
1 -TTAT
144295 TGTTATTATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 6 0.21
14 8 0.28
15 13 0.45
16 2 0.07
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATATATTTAATT
Found at i:144398 original size:15 final size:15
Alignment explanation
Indices: 144380--144409 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
144370 TAATCTTATT
144380 TATAAATTAATTTTA
1 TATAAATTAATTTTA
*
144395 TATAAATTATTTTTA
1 TATAAATTAATTTTA
144410 AGAAAAATAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
TATAAATTAATTTTA
Found at i:155930 original size:15 final size:15
Alignment explanation
Indices: 155908--155981 Score: 114
Period size: 15 Copynumber: 4.9 Consensus size: 15
155898 ATTATGCTTG
155908 AATAAGAAAAAATAT
1 AATAAGAAAAAATAT
*
155923 ATTAAGAAAAAATAT
1 AATAAGAAAAAATAT
155938 AATAAGAAAAAATAT
1 AATAAGAAAAAATAT
*
155953 AATAAGAAAAAATAAA
1 AATAAGAAAAAAT-AT
155969 AATAA-AAAAAATA
1 AATAAGAAAAAATA
155982 AAAACAAAGA
Statistics
Matches: 55, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
14 1 0.02
15 48 0.87
16 6 0.11
ACGTcount: A:0.76, C:0.00, G:0.05, T:0.19
Consensus pattern (15 bp):
AATAAGAAAAAATAT
Found at i:156356 original size:18 final size:18
Alignment explanation
Indices: 156333--156369 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
156323 TCCAAGTTTA
156333 TCTTTTTGCAAA-TCAATT
1 TCTTTTTG-AAATTCAATT
156351 TCTTTTTGAAATTCAATT
1 TCTTTTTGAAATTCAATT
156369 T
1 T
156370 ATTCTTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.54
Consensus pattern (18 bp):
TCTTTTTGAAATTCAATT
Found at i:157016 original size:22 final size:22
Alignment explanation
Indices: 156984--157047 Score: 85
Period size: 22 Copynumber: 2.9 Consensus size: 22
156974 TACATCTACA
156984 TTCTTCAAAGATGATAGATTCT
1 TTCTTCAAAGATGATAGATTCT
*
157006 TTCTTCGAAGATGATAGATTCT
1 TTCTTCAAAGATGATAGATTCT
* *
157028 CTT-TTCAAAGAAGAAAGATT
1 -TTCTTCAAAGATGATAGATT
157048 TAATGGATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
22 35 0.95
23 2 0.05
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.38
Consensus pattern (22 bp):
TTCTTCAAAGATGATAGATTCT
Found at i:157509 original size:112 final size:112
Alignment explanation
Indices: 157321--157663 Score: 456
Period size: 123 Copynumber: 3.0 Consensus size: 112
157311 CCATCATTCA
* * *
157321 ATGGATTAACATTTCCGGAAG-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGT
1 ATGGATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAG-AGGAAGAAGAAAT
* *
157385 TCATAATGAGAAGAACTTGCTCAACCTTTTGCTCGAATTC-ATCACTCG
65 TCATAATGAGAAGAATTTGTTCAACCTTTTGCTCG-ATTCTATCACTCG
*
157433 ATGGATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAAATCATCTGAAGAGGAAGAAGAAATT
1 ATGGATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATT
**
157498 CATAATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCACAGAAAGAG
66 CATAATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCAC-----TCG
* *
157550 ATAGATCAACTTTAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAAGAA
1 ATGGAT---C---AACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAA
*
157615 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTTCTCGATTCTATCA
60 GAAATTCATAATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCA
157664 TAGAATGAGA
Statistics
Matches: 206, Mismatches: 12, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
111 4 0.02
112 69 0.33
113 28 0.14
117 6 0.03
120 1 0.00
123 98 0.48
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.27
Consensus pattern (112 bp):
ATGGATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGGAAGAAGAAATT
CATAATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCACTCG
Found at i:157578 original size:123 final size:123
Alignment explanation
Indices: 157437--157729 Score: 489
Period size: 123 Copynumber: 2.4 Consensus size: 123
157427 CACTCGATGG
* *
157437 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAAATCATCTGAAGAGGAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAATTCATA
157502 ATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCACAGAAAGAGATAGATCAAC
66 ATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCACAGAAAGAGATAGATCAAC
* *
157560 TTTAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAATTCATA
1 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAATTCATA
* * * *
157625 ATGAGAAGAATTTGTTCAACCTTTTTCTCGATTCTATCATAGAATGAGATAGATCATC
66 ATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCACAGAAAGAGATAGATCAAC
* *
157683 ATCAACATTTCCAGAAG-TGTTCATAATTAGAAGAACTCATCTGAAGA
1 ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGA
157730 ATGAGAAGGA
Statistics
Matches: 158, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
122 28 0.18
123 130 0.82
ACGTcount: A:0.41, C:0.15, G:0.17, T:0.28
Consensus pattern (123 bp):
ATCAACATTTCCAGAAGAAGTTCATAATGAGAAGAACTCATCTGAAGAGAAAGAAGAAATTCATA
ATGAGAAGAATTTGTTCAACCTTTTGCTCGATTCTATCACAGAAAGAGATAGATCAAC
Found at i:157754 original size:39 final size:39
Alignment explanation
Indices: 157701--157795 Score: 138
Period size: 39 Copynumber: 2.4 Consensus size: 39
157691 TTCCAGAAGT
* * *
157701 GTTCATAATTAGAAGAACTCA-TCTGAAGAATGAGAAGGA
1 GTTCATAATAAGAAGAACTCACT-TGAAGAAGGAGAAGAA
*
157740 GTTCATAGTAAGAAGAACTCACTTGAAGAAGGAGAAGAA
1 GTTCATAATAAGAAGAACTCACTTGAAGAAGGAGAAGAA
157779 GTTCATAATAAGAAGAA
1 GTTCATAATAAGAAGAA
157796 TTTGTTCAAC
Statistics
Matches: 50, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
39 49 0.98
40 1 0.02
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.21
Consensus pattern (39 bp):
GTTCATAATAAGAAGAACTCACTTGAAGAAGGAGAAGAA
Found at i:158059 original size:12 final size:13
Alignment explanation
Indices: 158038--158073 Score: 65
Period size: 12 Copynumber: 2.8 Consensus size: 13
158028 TCATTTTATT
158038 TTATTATTATTTA
1 TTATTATTATTTA
158051 TTA-TATTATTTA
1 TTATTATTATTTA
158063 TTATTATTATT
1 TTATTATTATT
158074 AAAAAATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 12 0.55
13 10 0.45
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (13 bp):
TTATTATTATTTA
Done.