Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold1973
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: 177569
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:3651 original size:138 final size:137
Alignment explanation
Indices: 3410--3666 Score: 379
Period size: 138 Copynumber: 1.9 Consensus size: 137
3400 TTTATTATTA
* * * **
3410 TTTTTTTATCTTCAAAAATTTTATTTCGTACCTTAATAGAAATTCGAAAAGATACAAAAAGTTTT
1 TTTTTTTATCTTCAAAAATATCATTTCGCACCTTAATAGAAACACGAAAAGATACAAAAAGTTTT
*
3475 TGAAATCTTTAATACCCTTACGGATGCCCATAGAAATATAAAAGATTAGAAAAATGATTAAGTTT
66 TGAAATCTTTAATACCCCTACGGATGCCCATAGAAATATAAAAGATTAGAAAAATGATTAAGTTT
3540 TATCTCG
131 TATCTCG
* * * * *
3547 TTTTATTTATTTTCAAAAATATCATTTTGCACCTTAATGGAAGCACGAAAAGATACGAAAAGTTT
1 TTTT-TTTATCTTCAAAAATATCATTTCGCACCTTAATAGAAACACGAAAAGATACAAAAAGTTT
* * *
3612 TTGAATTCTTTTATACCCCTACGGATGCCCATAGGAATATAAAAGATTAGAAAAA
65 TTGAAATCTTTAATACCCCTACGGATGCCCATAGAAATATAAAAGATTAGAAAAA
3667 ATAATTTAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
137 4 0.04
138 101 0.96
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.35
Consensus pattern (137 bp):
TTTTTTTATCTTCAAAAATATCATTTCGCACCTTAATAGAAACACGAAAAGATACAAAAAGTTTT
TGAAATCTTTAATACCCCTACGGATGCCCATAGAAATATAAAAGATTAGAAAAATGATTAAGTTT
TATCTCG
Found at i:4424 original size:6 final size:6
Alignment explanation
Indices: 4408--4463 Score: 55
Period size: 6 Copynumber: 9.2 Consensus size: 6
4398 TCCTAATTTG
4408 TCTTTT T-TTTT TCTTTT TCTTTT TCTTTT T-TTCCTT TC-TTT TCTTTCT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTT--TT TCTTTT TCTTT-T
4456 CTCTTTT T
1 -TCTTTT T
4464 TCTCTCTTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 14
0.75 0.00 0.25
Matches are distributed among these distances:
5 11 0.26
6 21 0.49
7 6 0.14
8 5 0.12
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (6 bp):
TCTTTT
Found at i:4445 original size:13 final size:11
Alignment explanation
Indices: 4408--4474 Score: 62
Period size: 11 Copynumber: 5.6 Consensus size: 11
4398 TCCTAATTTG
4408 TCTTTTTTTTT
1 TCTTTTTTTTT
4419 TCTTTTTCTTTT
1 TCTTTTT-TTTT
4431 TCTTTTTTTCCTT
1 TCTTTTTTT--TT
*
4444 TCTTTTCTTTCTC
1 TCTTTT-TTT-TT
* *
4457 TCTTTTTTCTC
1 TCTTTTTTTTT
4468 TCTTTTT
1 TCTTTTT
4475 CAACTGAAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 8
0.83 0.03 0.13
Matches are distributed among these distances:
11 18 0.36
12 13 0.26
13 16 0.32
14 3 0.06
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:4449 original size:24 final size:23
Alignment explanation
Indices: 4408--4473 Score: 80
Period size: 24 Copynumber: 2.8 Consensus size: 23
4398 TCCTAATTTG
*
4408 TCTTTTTTT-TTTCTTTTTCTTTT
1 TCTTTTTTTCTTTC-TTTTCTTTC
4431 TCTTTTTTTCCTTTCTTTTCTTTC
1 TCTTTTTTT-CTTTCTTTTCTTTC
*
4455 TCTCTTTTTTCTCTCTTTT
1 TCT-TTTTTTCTTTCTTTT
4474 TCAACTGAAG
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
23 9 0.24
24 19 0.50
25 10 0.26
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (23 bp):
TCTTTTTTTCTTTCTTTTCTTTC
Found at i:5218 original size:164 final size:166
Alignment explanation
Indices: 5039--5431 Score: 376
Period size: 166 Copynumber: 2.4 Consensus size: 166
5029 GACAATATTA
* * * ** *
5039 GATGAATTCTAAAAATTTTAAATCGAA-AAAAATTGCCCCA-AAAAAATTTATGGAGTATAAAAC
1 GATGAATTTTAAAAATTTTAAATCCAAGAAAAAAT-CCCCAGAAAAAA-TTACAGAGTAGAAAAC
* * * * * *
5102 TCGATTTTTCTAGAAAAAAAG-GCATTTCAAAG-AAAAA-TC-CAAACTTATGAAAATGATTTAA
64 TAGATTTTTC--GAAAAAAAGAGAATTT-AAAGAAAAAATTCAAAAACTCATGAAAATGAATGAA
* * * * *
5163 TTTTTTAAAA-TGATTTAATA-GGAATGAAATAATGATATTT
126 TTTTTGAAAACTGATGTAATATGAAAT-AAATAATAATATGT
* **
5203 TATGAATTTTAAAAA-TAAAAATCCAAGAAAAAATCCCCAGGAAAAAATTACAGAGTAGAAAACT
1 GATGAATTTTAAAAATTTTAAATCCAAGAAAAAATCCCCA-GAAAAAATTACAGAGTAGAAAACT
* * *
5267 ATATTTTTCGAAAACAAGAGAATTTTAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTT
65 AGATTTTTCGAAAAAAAGAGAATTTAAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTT
5332 TGAAAACTGATGTAATATGAAATAAATAATAATATGT
130 TGAAAACTGATGTAATATGAAATAAATAATAATATGT
* * * * *
5369 GATGAATTTTAAAAATTTTAAACCCATG--AAAATCCTCCCGAAAAAATTTATAGAGAAGAAAAC
1 GATGAATTTTAAAAATTTTAAATCCAAGAAAAAATCC-CCAGAAAAAA-TTACAGAGTAGAAAAC
5432 CCCGTAATTT
Statistics
Matches: 186, Mismatches: 31, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
162 11 0.06
163 23 0.12
164 42 0.23
165 47 0.25
166 51 0.27
167 12 0.06
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.29
Consensus pattern (166 bp):
GATGAATTTTAAAAATTTTAAATCCAAGAAAAAATCCCCAGAAAAAATTACAGAGTAGAAAACTA
GATTTTTCGAAAAAAAGAGAATTTAAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTT
GAAAACTGATGTAATATGAAATAAATAATAATATGT
Found at i:5235 original size:166 final size:165
Alignment explanation
Indices: 5039--5384 Score: 357
Period size: 164 Copynumber: 2.1 Consensus size: 165
5029 GACAATATTA
* ** * * ** *
5039 GATGAATTCTAAAAATTTTAAATCGAA-AAAAATTGCCCCA-AAAAAATTTATGGAGTATAAAAC
1 GATGAATTTTAAAAA-TAAAAATCCAAGAAAAAAT-CCCCAGAAAAAA-TTACAGAGTAGAAAAC
* * * * * *
5102 TCGATTTTTCTAGAAAAAAAG-GCATTTCAAAG-AAAAA-TC-CAAACTTATGAAAATGATTTAA
63 TAGATTTTTC--GAAAAAAAGAGAATTT-AAAGAAAAAATTCAAAAACTCATGAAAATGAATGAA
* * * * *
5163 TTTTTTAAAA-TGATTTAATA-GGAATGAAATAATGATATTT
125 TTTTTGAAAACTGATGTAATATGAAAT-AAATAATAATATGT
*
5203 TATGAATTTTAAAAATAAAAATCCAAGAAAAAATCCCCAGGAAAAAATTACAGAGTAGAAAACTA
1 GATGAATTTTAAAAATAAAAATCCAAGAAAAAATCCCCA-GAAAAAATTACAGAGTAGAAAACTA
* * *
5268 TATTTTTCGAAAACAAGAGAATTTTAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTT
65 GATTTTTCGAAAAAAAGAGAATTTAAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTT
5333 GAAAACTGATGTAATATGAAATAAATAATAATATGT
130 GAAAACTGATGTAATATGAAATAAATAATAATATGT
5369 GATGAATTTTAAAAAT
1 GATGAATTTTAAAAAT
5385 TTTAAACCCA
Statistics
Matches: 149, Mismatches: 24, Indels: 16
0.79 0.13 0.08
Matches are distributed among these distances:
162 11 0.07
163 23 0.15
164 42 0.28
165 33 0.22
166 36 0.24
167 4 0.03
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (165 bp):
GATGAATTTTAAAAATAAAAATCCAAGAAAAAATCCCCAGAAAAAATTACAGAGTAGAAAACTAG
ATTTTTCGAAAAAAAGAGAATTTAAAGAAAAAATTCAAAAACTCATGAAAATGAATGAATTTTTG
AAAACTGATGTAATATGAAATAAATAATAATATGT
Found at i:6406 original size:17 final size:17
Alignment explanation
Indices: 6368--6405 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
6358 TTTTCCTTAA
6368 TTTTTCTTTTTTCTCTC
1 TTTTTCTTTTTTCTCTC
*
6385 TTTTTCTTTTTT-TTTC
1 TTTTTCTTTTTTCTCTC
6401 TTTTT
1 TTTTT
6406 TTCTCTCTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (17 bp):
TTTTTCTTTTTTCTCTC
Found at i:6407 original size:18 final size:18
Alignment explanation
Indices: 6368--6409 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
6358 TTTTCCTTAA
6368 TTTTTC-TTTTTTCTCTC
1 TTTTTCTTTTTTTCTCTC
* *
6385 TTTTTCTTTTTTTTTCTT
1 TTTTTCTTTTTTTCTCTC
6403 TTTTTCT
1 TTTTTCT
6410 CTCTATTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTCTC
Found at i:7208 original size:166 final size:165
Alignment explanation
Indices: 6981--7377 Score: 467
Period size: 166 Copynumber: 2.4 Consensus size: 165
6971 GAAAATGTTG
* * ** *
6981 GATGAATTTTAAAAATTTTAAACCAAGAAAAATCCCCCCAACAAAATTTATAAAATAGAAAA-CT
1 GATGAATTTT-AAAATTTTAAACCAAGAAAAATCCTCCCAAAAAAATTTATGGAGTAGAAAATCT
* * * * *
7045 CAGTTTTTTGGATAAAAAGGGAAATTTCAAGAAAAAAA-GAGAAACTCATGAATATGAATGAATT
65 C-GTATTTTGG--AAAAAGGAAAATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATT
* * *
7109 TTTGAAAATTGATTGAATATGAAATAAATAATAATATTT
127 TCTAAAAATTGATTGAATAGGAAATAAATAATAATATTT
** * *
7148 GATGAATTTTAAAATTAAAAACCAAGAAAAATCCTCTCAAAAAAATTTATGGAGTAGAAAATTTC
1 GATGAATTTTAAAATTTTAAACCAAGAAAAATCCTCCCAAAAAAATTTATGGAGTAGAAAATCTC
* *
7213 GTATTTTGGAAATAGGAAAATTTCAAGAAAAAAATTCAAAAACTCATGAAAATGAATGCATTTCT
66 GTATTTTGGAAAAAGGAAAATTTCAAGAAAAAAA-TCAAAAACTCATGAAAATGAATGAATTTCT
* *
7278 AAAAATTGATTTAATAGGAATTAAATAATAATATTT
130 AAAAATTGATTGAATAGGAAATAAATAATAATATTT
* * * * * *
7314 TATGAACTTTAAAAATTTTAAACTCATG-AAAATCCTCCCAAAAAATTTTACGGAGAAGAAAATC
1 GATGAA-TTTTAAAATTTTAAAC-CAAGAAAAATCCTCCCAAAAAAATTTATGGAGTAGAAAATC
7378 CTATAATTTG
Statistics
Matches: 194, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
164 23 0.12
166 112 0.58
167 56 0.29
168 3 0.02
ACGTcount: A:0.50, C:0.09, G:0.11, T:0.30
Consensus pattern (165 bp):
GATGAATTTTAAAATTTTAAACCAAGAAAAATCCTCCCAAAAAAATTTATGGAGTAGAAAATCTC
GTATTTTGGAAAAAGGAAAATTTCAAGAAAAAAATCAAAAACTCATGAAAATGAATGAATTTCTA
AAAATTGATTGAATAGGAAATAAATAATAATATTT
Found at i:13305 original size:9 final size:9
Alignment explanation
Indices: 13221--13306 Score: 54
Period size: 9 Copynumber: 9.6 Consensus size: 9
13211 TGATGTTTGT
*
13221 TGCTGTTGT
1 TGCTGTTGC
13230 TGCTGTTGC
1 TGCTGTTGC
* *
13239 TACTATTGC
1 TGCTGTTGC
13248 TGCTG--G-
1 TGCTGTTGC
13254 TGCTGTTG-
1 TGCTGTTGC
*
13262 TCGTTGTTGC
1 T-GCTGTTGC
* *
13272 TGTTGTTGT
1 TGCTGTTGC
13281 TGCTAGTATGGC
1 TGCT-GT-T-GC
13293 TGCTGTTGC
1 TGCTGTTGC
13302 TGCTG
1 TGCTG
13307 CTTTTGTTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 14
0.73 0.11 0.17
Matches are distributed among these distances:
6 5 0.08
7 1 0.02
8 2 0.03
9 41 0.67
10 4 0.07
11 3 0.05
12 5 0.08
ACGTcount: A:0.05, C:0.16, G:0.33, T:0.47
Consensus pattern (9 bp):
TGCTGTTGC
Found at i:14819 original size:79 final size:79
Alignment explanation
Indices: 14723--14891 Score: 214
Period size: 79 Copynumber: 2.1 Consensus size: 79
14713 ACAACGGGGC
* * * *
14723 TGGAGTATCCCTGATTATGGAAAATCGGTGTTCTGGAAATAAAATCGAGATTAGAGTATCCCCTC
1 TGGAGTATCCCTGATTATAGAAAATCGATATTCTGAAAATAAAATCGAGATTAGAGTATCCCCTC
14788 -AGAAATAACAGGGT
66 GA-AAATAACAGGGT
* * * * * *
14802 TGGAGTATCCTTGATTATAGAAAATCGATATTTTGAAAATAAAATTGGGGTTGGAGTATCCCCTC
1 TGGAGTATCCCTGATTATAGAAAATCGATATTCTGAAAATAAAATCGAGATTAGAGTATCCCCTC
*
14867 GAAAATAACGGGGT
66 GAAAATAACAGGGT
*
14881 TAGAGTATCCC
1 TGGAGTATCCC
14892 CAATTGTGAA
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
79 75 0.99
80 1 0.01
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (79 bp):
TGGAGTATCCCTGATTATAGAAAATCGATATTCTGAAAATAAAATCGAGATTAGAGTATCCCCTC
GAAAATAACAGGGT
Found at i:14921 original size:79 final size:79
Alignment explanation
Indices: 14776--14943 Score: 180
Period size: 79 Copynumber: 2.1 Consensus size: 79
14766 ATCGAGATTA
* *** *
14776 GAGTATCCCCTCAGAAATAACAGGGTTGGAGTATCCTTGATTATAGAAAATCGATATTTTGAAAA
1 GAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCAATTATAGAAAATCGATACTTTGAAAA
**
14841 TAAAATTGGGGTTG
66 TAAAACCGGGGTTG
* * *
14855 GAGTATCCCCTC-GAAAATAACGGGGTTAGAGTATCCCCAATTGT-GAAAAATCGATGCTTT-AT
1 GAGTATCCCCTCAG-AAATAACAGGGTTAGAGTATCCCCAATTATAG-AAAATCGATACTTTGA-
**
14917 AAATAAGGCCGGGGTTG
63 AAATAAAACCGGGGTTG
14934 GAGTATCCCC
1 GAGTATCCCC
14944 GATTGTGAGA
Statistics
Matches: 74, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
78 3 0.04
79 71 0.96
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.27
Consensus pattern (79 bp):
GAGTATCCCCTCAGAAATAACAGGGTTAGAGTATCCCCAATTATAGAAAATCGATACTTTGAAAA
TAAAACCGGGGTTG
Found at i:14933 original size:130 final size:127
Alignment explanation
Indices: 14800--15311 Score: 566
Period size: 130 Copynumber: 4.0 Consensus size: 127
14790 AAATAACAGG
** * * *
14800 GTTGGAGTATCCTTGATTATAGAAAATCGATATTTT-GAAAATAAAATTGGGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGT-GAAAATCGATATTTTAG-AAATAAAACTGAGGTTGGAGTAT-CC
* * * * * ***
14864 CTCGAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAAAATCGATGCTTTATAAATAAGGCCGG
63 CTCGAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTA-AAATAAAATCGG
*
14929 G
127 A
* * *
14930 GTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAA-GAAAGTCGAGGTTGGAGTATCCC
1 GTTGGAGTATCCCCGATTGTGA-AAATCGATATTTTAGAAATAAAACT-GAGGTTGGAGTAT-CC
* *
14994 CTC-AGAAATAACGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCA
63 CTCGA-AAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTT-AAAATAAAATCG
15058 GA
126 GA
* * ** *
15060 GTTGGAGTATCCCTGATTGCGGAAAATTTATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATTG-TGAAAATCGATATTTTAGAAATAAAACTGAGGTTGGAGTATCCCT
* * *
15125 CGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAAAATCGGA
65 CGAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTT-AAAATAAAATCGGA
* *
15189 GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAAAACTGAGGTTGGAGTATCCCT
1 GTTGGAGTATCCCCGATTGTG-AAAATCGATATTTTAGAAATAAAACTGAGGTTGGAGTATCCCT
* * * *
15254 CGGAAATAAC-AGGTTGGAGTATCCACGATTGTAAAAAATT-AGTGTTTTGGAAATAAAA
65 CGAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGA-TGTTTT-AAAATAAAA
15312 ACATGAATGA
Statistics
Matches: 338, Mismatches: 34, Indels: 22
0.86 0.09 0.06
Matches are distributed among these distances:
128 45 0.13
129 139 0.41
130 146 0.43
131 8 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.29
Consensus pattern (127 bp):
GTTGGAGTATCCCCGATTGTGAAAATCGATATTTTAGAAATAAAACTGAGGTTGGAGTATCCCTC
GAAAATAACGGGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTAAAATAAAATCGGA
Found at i:14984 original size:51 final size:51
Alignment explanation
Indices: 14878--14994 Score: 135
Period size: 51 Copynumber: 2.3 Consensus size: 51
14868 AAAATAACGG
* * * * * * *
14878 GGTTAGAGTATCCCCAATTGTGAAAAATCGATGCTTTATAAATAAGGCCGG
1 GGTTGGAGTATCCCCAATTGTGAAAAATCAATACTTTAGAAAGAAAGCCGA
* * * *
14929 GGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAAGAAAGTCGA
1 GGTTGGAGTATCCCCAATTGTGAAAAATCAATACTTTAGAAAGAAAGCCGA
14980 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
14995 TCAGAAATAA
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (51 bp):
GGTTGGAGTATCCCCAATTGTGAAAAATCAATACTTTAGAAAGAAAGCCGA
Found at i:15064 original size:79 final size:79
Alignment explanation
Indices: 14926--15072 Score: 208
Period size: 79 Copynumber: 1.9 Consensus size: 79
14916 TAAATAAGGC
* *
14926 CGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTAGAAAGAAAGTCGAGGTTGGAGTAT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAAGAAAATCGAGGTTGGAGTAT
14991 CCCCTCAGAAATAA
66 CCCCTCAGAAATAA
** * *
15005 CGGGGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTT-GAAAATAAAATC-AGAGTTGGAGT
1 CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAG-AAAGAAAATCGAG-GTTGGAGT
15068 ATCCC
64 ATCCC
15073 TGATTGCGGA
Statistics
Matches: 60, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
78 3 0.05
79 57 0.95
ACGTcount: A:0.32, C:0.14, G:0.27, T:0.27
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCGATTGTGAAAAATCAATATTTTAGAAAGAAAATCGAGGTTGGAGTAT
CCCCTCAGAAATAA
Found at i:15124 original size:51 final size:50
Alignment explanation
Indices: 15008--15124 Score: 155
Period size: 51 Copynumber: 2.3 Consensus size: 50
14998 GAAATAACGG
* *
15008 GGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTGAAAATAAAATCA
1 GGTTGGAGTATCCCTGATTGCGAAAAATTGATGTTTTGAAAATAAAATCA
* * *
15058 GAGTTGGAGTATCCCTGATTGCGGAAAATTTATGTTTT-AGAAATAAAACTGA
1 G-GTTGGAGTATCCCTGATTGCGAAAAATTGATGTTTTGA-AAATAAAA-TCA
15110 GGTTGGAGTATCCCT
1 GGTTGGAGTATCCCT
15125 CGGAAATAAC
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
50 2 0.03
51 54 0.92
52 3 0.05
ACGTcount: A:0.32, C:0.11, G:0.24, T:0.32
Consensus pattern (50 bp):
GGTTGGAGTATCCCTGATTGCGAAAAATTGATGTTTTGAAAATAAAATCA
Found at i:15172 original size:129 final size:129
Alignment explanation
Indices: 14838--15311 Score: 591
Period size: 129 Copynumber: 3.7 Consensus size: 129
14828 GATATTTTGA
* * * * * *
14838 AAATAAAATTGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTAGAGTATCCCCAATTGTGAAA
1 AAATAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAA
* * *** * * * *
14903 AATCGATGCTTT-ATAAATAAGGCCGGGGTTGGAGTATCCCCGATTGTGAGAAATCAATATTTTA
66 AATTGATGTTTTGA-AAATAAAATCGGAGTTGGAGTATCCCCGATTGGGA-AAATTAATGTTTTA
14967 G
129 G
* * * *
14968 AAA-GAAAGTCGAGGTTGGAGTATCCCCTCAGAAATAACGGGGTTGGAGTATCCCCGATTGTGAA
1 AAATAAAACT-GAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAA
* * *
15032 AAATTGATGTTTTGAAAATAAAATCAGAGTTGGAGTATCCCTGATTGCGGAAAATTTATGTTTTA
65 AAATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTG-GGAAAATTAATGTTTTA
15097 G
129 G
15098 AAATAAAACTGAGGTTGGAGTAT-CCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAA
1 AAATAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAA
* * * *
15162 AATTGGTGTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAG
66 AATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTG-GGAAAATTAATGTTTTAG
* *
15227 AAATAAAACTGAGGTTGGAGTAT-CCCTCGGAAATAAC-AGGTTGGAGTATCCACGATTGTAAAA
1 AAATAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAA
*
15290 AATT-AGTGTTTTGGAAATAAAA
66 AATTGA-TGTTTTGAAAATAAAA
15312 ACATGAATGA
Statistics
Matches: 306, Mismatches: 33, Indels: 12
0.87 0.09 0.03
Matches are distributed among these distances:
128 44 0.14
129 138 0.45
130 117 0.38
131 7 0.02
ACGTcount: A:0.34, C:0.12, G:0.25, T:0.28
Consensus pattern (129 bp):
AAATAAAACTGAGGTTGGAGTATCCCCTCGGAAATAACGGGGTTGGAGTATCCCCGATTGTAAAA
AATTGATGTTTTGAAAATAAAATCGGAGTTGGAGTATCCCCGATTGGGAAAATTAATGTTTTAG
Found at i:15198 original size:51 final size:51
Alignment explanation
Indices: 15132--15252 Score: 183
Period size: 51 Copynumber: 2.4 Consensus size: 51
15122 CCTCGGAAAT
* *
15132 AACGG-GGTTGGAGTATCCCCGATTGTAAAAAATTGGTGTTTTGGAAATAA
1 AACGGAGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAA
*
15182 AATCGGA-GTTGGAGTATCCCCGATTGTGAAAAATTGATGTTTTAGAAATAA
1 AA-CGGAGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAA
*
15233 AACTGAGGTTGGAGTATCCC
1 AACGGAGGTTGGAGTATCCC
15253 TCGGAAATAA
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
50 5 0.08
51 59 0.92
ACGTcount: A:0.32, C:0.12, G:0.26, T:0.30
Consensus pattern (51 bp):
AACGGAGGTTGGAGTATCCCCGATTGTAAAAAATTGATGTTTTAGAAATAA
Found at i:17717 original size:49 final size:50
Alignment explanation
Indices: 17661--17794 Score: 200
Period size: 50 Copynumber: 2.7 Consensus size: 50
17651 AAGAATGCCT
* * *
17661 GAATGTATCGATACATTGCAA-AATGTATCGATGCATCTGGGT-AAACCCA
1 GAATGTATCGATACAATG-AACAATGTATCGATACATCTGGGTAAAACCAA
*
17710 GAATGTATCGATACAATGAACAATGTATCGGTACATCTGGGTAAAACCAA
1 GAATGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCAA
*
17760 AAATGTATCGATACAATGAACAATGTATCGATACA
1 GAATGTATCGATACAATGAACAATGTATCGATACA
17795 AATTGTGAAA
Statistics
Matches: 77, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
48 2 0.03
49 36 0.47
50 39 0.51
ACGTcount: A:0.40, C:0.16, G:0.19, T:0.25
Consensus pattern (50 bp):
GAATGTATCGATACAATGAACAATGTATCGATACATCTGGGTAAAACCAA
Found at i:18962 original size:42 final size:42
Alignment explanation
Indices: 18911--20099 Score: 528
Period size: 42 Copynumber: 28.1 Consensus size: 42
18901 AGATAAAGAC
* * * *
18911 TAAAAAAGTCTTCCGGGCCAAAGTCGATGGGCAGACAAAAGG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * *
18953 TAAAGAAGTC-TCTTGGGTCAAAGTCGACAGGAAGACAAGAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * * *
18995 TAAAAAAGTC-TCTTGAGTTAAAGCCGATGGGCAGACAAGAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * **
19037 TAAAGAAGTCTTTCAGGTCAAAGCCGACAAGCAGA-AAAAGGG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAA-GG
* ** * * * *
19079 TAAAGAAGT-GTCCTAAGTCAAAGCTGATGGGTAGACAAAGGG
1 TAAAGAAGTCTTCC-GGGTCAAAGCCGACGGGCAGACAAAAGG
* * * *
19121 TAAAGAAGTCTTTCTGGTCAAAGTCGACGGGCAGACAAAAAG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* *** * *
19163 TAAAGAAGT-TTCTGGGGTCAAAGCCGATAAGTAGACAAGAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * *
19205 TCAAGAAGT-TTCCCAGGTCAAAGCTGACGGACAGACAAAAGG
1 TAAAGAAGTCTT-CCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * *
19247 TAAAGAAGTC-TCTTGGGTCAAAGCCAATGGGCAGACAAAAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
** * * * * *
19289 TAATTAAGTCTCCCAGGTCAAAGTCGACGGGCAGATAAGAGG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * *
19331 TAAAGAAGTC-TCTCGAGTTAAAGCCGACGGGCAAACAAAAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * ** * * *
19373 TAAAAAAGTTTTCAAGGTCAAAACCGATGGGCAAAC-AAAGAG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAG-G
* * * *
19415 TGAAGAAGTC-TCTCAGGTCAAAGTCGACGGGTAGACAAAAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * *
19457 TAAAAAAGCCCTT-CGGGTCAAAGCCGACAGGCAGACAAAAGG
1 TAAAGAAG-TCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * *
19499 TAAAAAAGTC-TCTCGGGTCAAAGCTGACGGGTAGACAAGAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * ** ** * * **
19541 TAAAGAAGTCTTTCGGGTCGAAGTTGATAGGTAGAGAATGGG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
** * *
19583 TAAAGAAGTC-TCCTTAGTCAAAGTCGACGGGCAAACAAAAGG
1 TAAAGAAGTCTTCC-GGGTCAAAGCCGACGGGCAGACAAAAGG
* * * ** * *
19625 TAAAGAAGTTTTTCAGGTCAAAGCCGATAGGTAGACAAAAAG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* ** * *** ** * * *
19667 TAAAAAAGTC-TCTAGGTTAAAATTGATAGGCAAACCAAGGG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * * ** *
19708 TAAAGAAG-CCTCTCGGGTTAAAGTCGACGAGTAGGTAAAGGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * ** * *
19750 TAAAAAAGTCTCTCAGGTTATCTCAGGTTAAAGATGACGAGCAGACAAGAGG
1 TAAAGAAG----TC----T-TC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * *
19802 TAATGAAGTCTTCTGGGTCAAAGCCGACGGGTAGACAAAAAG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * * *
19844 TAAAGAAGTCTCCCAGGTTAAAGTCGACGGGCAAACAAAGGG
1 TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * * * *
19886 TAAAGAAGTC-TCCTAGGTTAAAGCCGATGGACTGATAAAGGG
1 TAAAGAAGTCTTCC-GGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * * ** * *
19928 AAAAAAATTC-TCCTGGGTTAAAGCCTATAGGTAGACAAAGGG
1 TAAAGAAGTCTTCC-GGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * * *
19970 AAAAAAAGTC-TCGCAGGTCAAAGCCGATGGGCAGATAAAGGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * *
20012 TAAAAAAGTC-TCTCAGGTCAAAACCGATGGGCAGATAAAAGG
1 TAAAGAAGTCTTC-CGGGTCAAAGCCGACGGGCAGACAAAAGG
* * * * *
20054 AAAAGAAGT-TTCCCAGGTCAAAGCTGATGGGCAAACAAAAGG
1 TAAAGAAGTCTT-CCGGGTCAAAGCCGACGGGCAGACAAAAGG
20096 TAAA
1 TAAA
20100 AAAAAAAAGG
Statistics
Matches: 866, Mismatches: 242, Indels: 78
0.73 0.20 0.07
Matches are distributed among these distances:
40 2 0.00
41 51 0.06
42 756 0.87
43 22 0.03
44 2 0.00
47 1 0.00
48 2 0.00
52 30 0.03
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.18
Consensus pattern (42 bp):
TAAAGAAGTCTTCCGGGTCAAAGCCGACGGGCAGACAAAAGG
Found at i:18999 original size:84 final size:84
Alignment explanation
Indices: 18911--20099 Score: 664
Period size: 84 Copynumber: 14.0 Consensus size: 84
18901 AGATAAAGAC
* * * *
18911 TAAAAAAGTCT-TCCGGGCCAAAGTCGATGGGCAGACAAAAGGTAAAGAAGTCTCTT-GGGTCAA
1 TAAAGAAGTCTCT-CGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCT-TTCAGGTCAA
* * *
18974 AGTCGACAGGAAGACAAGAGG
64 AGCCGACAGGCAGACAAAAGG
* * * * *
18995 TAAAAAAGTCTCTTGAGTTAAAGCCGATGGGCAGACAAGAGGTAAAGAAGTCTTTCAGGTCAAAG
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAAG
*
19060 CCGACAAGCAGA-AAAAGGG
66 CCGACAGGCAGACAAAA-GG
* ** * * * *
19079 TAAAGAAGTGTC-CTAAGTCAAAGCTGATGGGTAGACAAAGGGTAAAGAAGTCTTTCTGGTCAAA
1 TAAAGAAGTCTCTC-GGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAA
* * *
19143 GTCGACGGGCAGACAAAAAG
65 GCCGACAGGCAGACAAAAGG
* * ** * * * *
19163 TAAAGAAGTTTCTGGGGTCAAAGCCGATAAGTAGACAAGAGGTCAAGAAGT-TTCCCAGGTCAAA
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTT-TCAGGTCAAA
*
19227 GCTGAC-GGACAGACAAAAGG
65 GCCGACAGG-CAGACAAAAGG
* * ** **
19247 TAAAGAAGTCTCTTGGGTCAAAGCCAATGGGCAGACAAAAGGTAATTAAGTCTCCCAGGTCAAAG
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAAG
* * * *
19312 TCGACGGGCAGATAAGAGG
66 CCGACAGGCAGACAAAAGG
* * * * *
19331 TAAAGAAGTCTCTCGAGTTAAAGCCGACGGGCAAACAAAAGGTAAAAAAGT-TTTCAAGGTCAAA
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTC-AGGTCAAA
* ** *
19395 ACCGATGGGCAAAC-AAAGAG
65 GCCGACAGGCAGACAAAAG-G
* * * * * * * * *
19415 TGAAGAAGTCTCTCAGGTCAAAGTCGACGGGTAGACAAAAGGTAAAAAAGCCCTTCGGGTCAAAG
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAAG
19480 CCGACAGGCAGACAAAAGG
66 CCGACAGGCAGACAAAAGG
* * * * * * *
19499 TAAAAAAGTCTCTCGGGTCAAAGCTGACGGGTAGACAAGAGGTAAAGAAGTCTTTCGGGTCGAAG
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAAG
** * * * **
19564 TTGATAGGTAGAGAATGGG
66 CCGACAGGCAGACAAAAGG
** * * * *
19583 TAAAGAAGTCTC-CTTAGTCAAAGTCGACGGGCAAACAAAAGGTAAAGAAGTTTTTCAGGTCAAA
1 TAAAGAAGTCTCTC-GGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAA
* * *
19647 GCCGATAGGTAGACAAAAAG
65 GCCGACAGGCAGACAAAAGG
* * * *** * * * * * * * *
19667 TAAAAAAGTCTCT-AGGTTAAAATTGATAGGCAAACCAAGGGTAAAGAAGCCTCTCGGGTTAAAG
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAAG
* * ** *
19731 TCGAC-GAGTAGGTAAAGGG
66 CCGACAG-GCAGACAAAAGG
* * ** * * * *
19750 TAAAAAAGTCTCTCAGGTTATCTCAGGTTAAAGATGACGAGCAGACAAGAGGTAATGAAGTC-TT
1 TAAAGAAGTCTCTC--G--------GGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTT
* * * *
19814 CTGGGTCAAAGCCGACGGGTAGACAAAAAG
56 C-AGGTCAAAGCCGACAGGCAGACAAAAGG
* * * * * * * * *
19844 TAAAGAAGTCTCCCAGGTTAAAGTCGACGGGCAAACAAAGGGTAAAGAAGTC-TCCTAGGTTAAA
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTC-AGGTCAAA
* * * *
19908 GCCGA-TGGACTGATAAAGGG
65 GCCGACAGG-CAGACAAAAGG
* * * * * * * * * * **
19928 AAAAAAATTCTC-CTGGGTTAAAGCCTATAGGTAGACAAAGGGAAAAAAAGTCTCGCAGGTCAAA
1 TAAAGAAGTCTCTC-GGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAA
** * *
19992 GCCGATGGGCAGATAAAGGG
65 GCCGACAGGCAGACAAAAGG
* * * * * *
20012 TAAAAAAGTCTCTCAGGTCAAAACCGATGGGCAGATAAAAGGAAAAGAAGT-TTCCCAGGTCAAA
1 TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTT-TCAGGTCAAA
* ** *
20076 GCTGATGGGCAAACAAAAGG
65 GCCGACAGGCAGACAAAAGG
20096 TAAA
1 TAAA
20100 AAAAAAAAGG
Statistics
Matches: 857, Mismatches: 212, Indels: 72
0.75 0.19 0.06
Matches are distributed among these distances:
82 1 0.00
83 80 0.09
84 696 0.81
85 19 0.02
93 2 0.00
94 58 0.07
95 1 0.00
ACGTcount: A:0.39, C:0.16, G:0.28, T:0.18
Consensus pattern (84 bp):
TAAAGAAGTCTCTCGGGTCAAAGCCGATGGGCAGACAAAAGGTAAAGAAGTCTTTCAGGTCAAAG
CCGACAGGCAGACAAAAGG
Found at i:20707 original size:22 final size:21
Alignment explanation
Indices: 20676--20724 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
20666 GGTATGGGAT
20676 CTTTTT-CCAAAAGAAATCAAG
1 CTTTTTGCC-AAAGAAATCAAG
* *
20697 CTTTTTGCCAAAGATATCAGG
1 CTTTTTGCCAAAGAAATCAAG
20718 CTTTTTG
1 CTTTTTG
20725 GCGAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (21 bp):
CTTTTTGCCAAAGAAATCAAG
Found at i:28349 original size:30 final size:30
Alignment explanation
Indices: 28315--28371 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
28305 AAGAGGGCTT
28315 TCTCCTCT-TTTTTTTTACTCTCTGCTGGAA
1 TCTCCTCTCTTTTTTTT-CTCTCTGCTGGAA
*
28345 TCTCCTCTCTTTTTTTTCTCTTTGCTG
1 TCTCCTCTCTTTTTTTTCTCTCTGCTG
28372 AGCCAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
30 17 0.68
31 8 0.32
ACGTcount: A:0.05, C:0.28, G:0.09, T:0.58
Consensus pattern (30 bp):
TCTCCTCTCTTTTTTTTCTCTCTGCTGGAA
Found at i:28393 original size:27 final size:28
Alignment explanation
Indices: 28354--28408 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
28344 ATCTCCTCTC
* *
28354 TTTTTTTTCTC-TT-TGCTGAGCCAATG
1 TTTTTTTTATCTTTATGCTCAGCCAATG
28380 TTTTTCTTTATCTTTATGCTCAGCCAATG
1 TTTTT-TTTATCTTTATGCTCAGCCAATG
28409 AGCTTAGAAC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
26 5 0.21
27 5 0.21
28 2 0.08
29 12 0.50
ACGTcount: A:0.15, C:0.20, G:0.13, T:0.53
Consensus pattern (28 bp):
TTTTTTTTATCTTTATGCTCAGCCAATG
Found at i:28913 original size:21 final size:21
Alignment explanation
Indices: 28887--28942 Score: 69
Period size: 20 Copynumber: 2.7 Consensus size: 21
28877 AGAGTGGCTT
28887 TGTATCGATATATTTCAAGCA
1 TGTATCGATATATTTCAAGCA
* ***
28908 TGTATCGATACA-TTCACTTA
1 TGTATCGATATATTTCAAGCA
28928 TGTATCGATATATTT
1 TGTATCGATATATTT
28943 ATTATTTGTA
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.30, C:0.14, G:0.12, T:0.43
Consensus pattern (21 bp):
TGTATCGATATATTTCAAGCA
Found at i:28930 original size:20 final size:19
Alignment explanation
Indices: 28907--28960 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
28897 TATTTCAAGC
28907 ATGTATCGATACATTCACTT
1 ATGTATCGATACATTCA-TT
* *
28927 ATGTATCGATATATTTATT
1 ATGTATCGATACATTCATT
28946 ATTTGTATCGATACA
1 A--TGTATCGATACA
28961 ATTTGTACAA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
19 3 0.10
20 15 0.52
21 11 0.38
ACGTcount: A:0.31, C:0.13, G:0.11, T:0.44
Consensus pattern (19 bp):
ATGTATCGATACATTCATT
Found at i:29493 original size:31 final size:31
Alignment explanation
Indices: 29458--30283 Score: 530
Period size: 31 Copynumber: 26.6 Consensus size: 31
29448 TCAGACTTAA
* *
29458 GTGCCACCAACTCGTGTGGGCTTTGACTCGA
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * *
29489 GTGCCGCCAACTTGTGTAGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* ** * *
29520 GTGCTATAAACTCGTGTGGGCTTAGACTTA-T
1 GTGCCACCAACTCGTGTGGGCTTTGAC-TAGG
29551 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * *
29582 GTGCCACCAACTCGTGTGGG-TTTAAATTCGG
1 GTGCCACCAACTCGTGTGGGCTTT-GACTAGG
* ** ** * * * *
29613 CTATCGTCAACTTGTGCGGGCTTAGACTTGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* *
29644 GTGCCACTAACTTGTGTGGGCTTTGACTCA-G
1 GTGCCACCAACTCGTGTGGGCTTTGACT-AGG
*** * * **
29675 GTGTTGCTAACTCATGCAGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
*
29706 GTGCCACCAACTTGTGTGGGCTTTGACTCA-G
1 GTGCCACCAACTCGTGTGGGCTTTGACT-AGG
* * *
29737 GTGTCGCCAACTCGTGCGGGCTTT-AGCTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGA-CTAGG
* *
29768 GTGCCACCAACTTGTGTGGGCTTTGACTCA-A
1 GTGCCACCAACTCGTGTGGGCTTTGACT-AGG
* *
29799 GTGCCGCCAACTCGTGCGGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * * *
29830 GTGCCACTAACTTGTGTGGGCTTTTACTCA-A
1 GTGCCACCAACTCGTGTGGGCTTTGACT-AGG
* * *
29861 GTGCCGCCAACTCATGCGGGCTTTGGA--AGG
1 GTGCCACCAACTCGTGTGGGCTTT-GACTAGG
* * * * *
29891 GTTTCCACCGACTTGGGTGGACTTTAGA--AGG
1 G-TGCCACCAACTCGTGTGGGCTTT-GACTAGG
* * *
29922 GTTGCCATCGACTTGTGTGGGCTTTGACTAGG
1 G-TGCCACCAACTCGTGTGGGCTTTGACTAGG
* *
29954 GTGCCACCAACTCGTGTAGGCTTTGACTCA-A
1 GTGCCACCAACTCGTGTGGGCTTTGACT-AGG
* * **
29985 GTGCCGCCAACTAGTGCT-GGCTTTGACTTCG
1 GTGCCACCAACTCGTG-TGGGCTTTGACTAGG
* ** *** *
30016 GTGCCGCCAACTTATGCAAGCTTTGACTATG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* ** *
30047 GTGCCACCAATTCGTGTTAGCTTGGACTCA-G
1 GTGCCACCAACTCGTGTGGGCTTTGACT-AGG
* * * *
30078 GTGTCATCAACTCGTATGGGTTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * * *
30109 GTGCCATCAACTCATGCGGGTTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * * *
30140 GTGCTACCAACTCGTGTGGACTTAGACTTGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * * * *
30171 GTGTCGCCAACTTGTGCGGGCTTTGACTAAG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* * * * *
30202 GTTCCACCAACTCATGTAGGTTTTGAGTTA-G
1 GTGCCACCAACTCGTGTGGGCTTTGA-CTAGG
* * *
30233 GTGCCTCTAACTCGTGCGGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTAGG
* *
30264 GTACCACCAACTCATGTGGG
1 GTGCCACCAACTCGTGTGGG
30284 TTTTAGAAAG
Statistics
Matches: 601, Mismatches: 168, Indels: 52
0.73 0.20 0.06
Matches are distributed among these distances:
29 1 0.00
30 15 0.02
31 567 0.94
32 18 0.03
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (31 bp):
GTGCCACCAACTCGTGTGGGCTTTGACTAGG
Found at i:30287 original size:62 final size:62
Alignment explanation
Indices: 29458--30283 Score: 639
Period size: 62 Copynumber: 13.3 Consensus size: 62
29448 TCAGACTTAA
* * **
29458 GTGCCACCAACTCGTGTGGGCTTTGAC-TCGAGTGCCGCCAACTTGTGTAGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAG-GTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* ** * * * *
29520 GTGCTATAAACTCGTGTGGGCTTAGACTTATGTGCCACCAACTCGTGTGGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* * * ** * * * *
29582 GTGCCACCAACTCGTGTGGG-TTTAAATTCGGCTATCGTCAACTTGTGCGGGCTTAGACTTGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGG-TGCCGCCAACTCGTGCGGGCTTTGACTAGG
* * * ** * * *
29644 GTGCCACTAACTTGTGTGGGCTTTGACTCAGGTGTTGCTAACTCATGCAGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* * *
29706 GTGCCACCAACTTGTGTGGGCTTTGACTCAGGTGTCGCCAACTCGTGCGGGCTTT-AGCTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGA-CTAGG
* * *
29768 GTGCCACCAACTTGTGTGGGCTTTGACTCAAGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* * * * * *
29830 GTGCCACTAACTTGTGTGGGCTTTTACTCAAGTGCCGCCAACTCATGCGGGCTTTGGA--AGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTT-GACTAGG
* * * * * ** * * *
29891 GTTTCCACCGACTTGGGTGGACTTTAGA---AGGGTTGCCATCGACTTGTGTGGGCTTTGACTAG
1 G-TGCCACCAACTCGTGTGGGCTTT-GACTTA-GG-TGCCGCCAACTCGTGCGGGCTTTGACTAG
29953 G
62 G
* * * * * **
29954 GTGCCACCAACTCGTGTAGGCTTTGACTCAAGTGCCGCCAACTAGTGCTGGCTTTGACTTCG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* ** *** * * *** *
30016 GTGCCGCCAACTTATGCAAGCTTTGAC-TATGGTGCCACCAATTCGTGTTAGCTTGGACTCA-G
1 GTGCCACCAACTCGTGTGGGCTTTGACTTA-GGTGCCGCCAACTCGTGCGGGCTTTGACT-AGG
* * * * ** * *
30078 GTGTCATCAACTCGTATGGGTTTTGAC-TAGGGTGCCATCAACTCATGCGGGTTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTA-GGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* * * * * * *
30140 GTGCTACCAACTCGTGTGGACTTAGACTTGGGTGTCGCCAACTTGTGCGGGCTTTGACTAAG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* * * * * * *
30202 GTTCCACCAACTCATGTAGGTTTTGAGTTAGGTGCCTCTAACTCGTGCGGGCTTTGACTAGG
1 GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
* *
30264 GTACCACCAACTCATGTGGG
1 GTGCCACCAACTCGTGTGGG
30284 TTTTAGAAAG
Statistics
Matches: 603, Mismatches: 142, Indels: 38
0.77 0.18 0.05
Matches are distributed among these distances:
60 1 0.00
61 18 0.03
62 565 0.94
63 18 0.03
64 1 0.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (62 bp):
GTGCCACCAACTCGTGTGGGCTTTGACTTAGGTGCCGCCAACTCGTGCGGGCTTTGACTAGG
Found at i:38871 original size:30 final size:31
Alignment explanation
Indices: 38820--39024 Score: 177
Period size: 30 Copynumber: 6.6 Consensus size: 31
38810 CAGTGAGTTG
*
38820 TGGACTTTGAAGAAAAGATGCCACTAAGTCA
1 TGGACTTTGGAGAAAAGATGCCACTAAGTCA
** * *
38851 TGGACTTTGG-GAGGAGATGCCACTGAGTCG
1 TGGACTTTGGAGAAAAGATGCCACTAAGTCA
* *
38881 TGGACTTTGAAGAAAAAAGATGCCACTGAGTCA
1 TGGACTTTG--GAGAAAAGATGCCACTAAGTCA
*
38914 TGGAC-TTGGAAGAAAAGGATGCCACTAAGTCG
1 TGGACTTTGG-AGAAAA-GATGCCACTAAGTCA
* * * **
38946 TGGAC-TT-AAAAAAGAGATGCCACTGAGTTG
1 TGGACTTTGGAGAAA-AGATGCCACTAAGTCA
* * *
38976 TGGACTTTGAAGAAAAAGATGCCACTGAGTCG
1 TGGACTTTGGAG-AAAAGATGCCACTAAGTCA
39008 TGGACTTT-GAGAAAAGA
1 TGGACTTTGGAGAAAAGA
39025 GATTTGAAGA
Statistics
Matches: 146, Mismatches: 19, Indels: 19
0.79 0.10 0.10
Matches are distributed among these distances:
30 54 0.37
31 19 0.13
32 49 0.34
33 24 0.16
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.22
Consensus pattern (31 bp):
TGGACTTTGGAGAAAAGATGCCACTAAGTCA
Found at i:38950 original size:32 final size:32
Alignment explanation
Indices: 38813--39023 Score: 247
Period size: 32 Copynumber: 6.8 Consensus size: 32
38803 TCCTTGGCAG
*
38813 TGAGTTGTGGACTTTGAAGAAAA-GATGCCAC
1 TGAGTCGTGGACTTTGAAGAAAAGGATGCCAC
* * * **
38844 TAAGTCATGGACTTTG-GGAGGA-GATGCCAC
1 TGAGTCGTGGACTTTGAAGAAAAGGATGCCAC
*
38874 TGAGTCGTGGACTTTGAAGAAAAAAGATGCCAC
1 TGAGTCGTGGACTTTGAAG-AAAAGGATGCCAC
* *
38907 TGAGTCATGGACTTGGAAGAAAAGGATGCCAC
1 TGAGTCGTGGACTTTGAAGAAAAGGATGCCAC
*
38939 TAAGTCGTGGAC-TT-AA-AAAAGAGATGCCAC
1 TGAGTCGTGGACTTTGAAGAAAAG-GATGCCAC
* *
38969 TGAGTTGTGGACTTTGAAGAAAAAGATGCCAC
1 TGAGTCGTGGACTTTGAAGAAAAGGATGCCAC
39001 TGAGTCGTGGACTTTG-AGAAAAG
1 TGAGTCGTGGACTTTGAAGAAAAG
39024 AGATTTGAAG
Statistics
Matches: 151, Mismatches: 22, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
29 5 0.03
30 45 0.30
31 23 0.15
32 49 0.32
33 29 0.19
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (32 bp):
TGAGTCGTGGACTTTGAAGAAAAGGATGCCAC
Found at i:38979 original size:95 final size:94
Alignment explanation
Indices: 38820--39023 Score: 304
Period size: 95 Copynumber: 2.2 Consensus size: 94
38810 CAGTGAGTTG
**** *
38820 TGGACTTTGAAGAAAA-GATGCCACTAAGTCATGGACTTTGGGAGGAGATGCCACTGAGTCGTGG
1 TGGACTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTAAAAAAGAGATGCCACTGAGTCGTGG
38884 ACTTTGAAGAAAAAAGATGCCACTGAGTCA
66 ACTTTGAAG-AAAAAGATGCCACTGAGTCA
* * *
38914 TGGACTTGGAAGAAAAGGATGCCACTAAGTCGTGGACTTAAAAAAGAGATGCCACTGAGTTGTGG
1 TGGACTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTAAAAAAGAGATGCCACTGAGTCGTGG
*
38979 ACTTTGAAGAAAAAGATGCCACTGAGTCG
66 ACTTTGAAGAAAAAGATGCCACTGAGTCA
39008 TGGACTTTG-AGAAAAG
1 TGGACTTTGAAGAAAAG
39024 AGATTTGAAG
Statistics
Matches: 99, Mismatches: 10, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
93 7 0.07
94 42 0.42
95 50 0.51
ACGTcount: A:0.34, C:0.15, G:0.29, T:0.22
Consensus pattern (94 bp):
TGGACTTTGAAGAAAAGGATGCCACTAAGTCATGGACTTAAAAAAGAGATGCCACTGAGTCGTGG
ACTTTGAAGAAAAAGATGCCACTGAGTCA
Found at i:38982 original size:62 final size:64
Alignment explanation
Indices: 38813--39027 Score: 239
Period size: 62 Copynumber: 3.4 Consensus size: 64
38803 TCCTTGGCAG
* * **
38813 TGAGTTGTGGACTTTGAAG--AAAAGATGCCACTAAGTCATGGACTTTGG--G-AGGAGATGCCA
1 TGAGTCGTGGAC-TTGAAGAAAAAAGATGCCACTGAGTCATGGAC-TTGGAAGAAAAAGATGCCA
38873 C
64 C
*
38874 TGAGTCGTGGACTTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAGGATGCCAC
1 TGAGTCGTGGAC-TTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAAGATGCCAC
* * ** *
38939 TAAGTCGTGGACTT-AA-AAAAGAGATGCCACTGAGTTGTGGACTTTGAAGAAAAAGATGCCAC
1 TGAGTCGTGGACTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAAGATGCCAC
*
39001 TGAGTCGTGGACTTTG-AGAAAAGAGAT
1 TGAGTCGTGGAC-TTGAAGAAAAAAGAT
39028 TTGAAGAATT
Statistics
Matches: 134, Mismatches: 12, Indels: 13
0.84 0.08 0.08
Matches are distributed among these distances:
61 18 0.13
62 56 0.42
63 28 0.21
64 12 0.09
65 20 0.15
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (64 bp):
TGAGTCGTGGACTTGAAGAAAAAAGATGCCACTGAGTCATGGACTTGGAAGAAAAAGATGCCAC
Found at i:48137 original size:13 final size:13
Alignment explanation
Indices: 48119--48144 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
48109 ATAATCACCC
48119 TGTATCGATACAA
1 TGTATCGATACAA
48132 TGTATCGATACAA
1 TGTATCGATACAA
48145 AGAAAAATGT
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:48646 original size:13 final size:13
Alignment explanation
Indices: 48628--48655 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
48618 TGGTGCAAGG
48628 TATCTACAAATTC
1 TATCTACAAATTC
48641 TATCTACAAATTC
1 TATCTACAAATTC
48654 TA
1 TA
48656 CGGATATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.21, G:0.00, T:0.39
Consensus pattern (13 bp):
TATCTACAAATTC
Found at i:51447 original size:21 final size:20
Alignment explanation
Indices: 51421--51475 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
51411 AGAGTAGTTT
51421 TGTATCAATATATTTCATGCA
1 TGTATCAATATATTTCAT-CA
* * *
51442 TGTATCGATACA-TTCATTA
1 TGTATCAATATATTTCATCA
*
51461 TGTATCAACATATTT
1 TGTATCAATATATTT
51476 ACTATTTGTA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
19 10 0.37
20 7 0.26
21 10 0.37
ACGTcount: A:0.33, C:0.15, G:0.09, T:0.44
Consensus pattern (20 bp):
TGTATCAATATATTTCATCA
Found at i:57733 original size:165 final size:166
Alignment explanation
Indices: 57497--57798 Score: 419
Period size: 165 Copynumber: 1.8 Consensus size: 166
57487 AGAATTTATT
* * *** * * * *
57497 TGTTATTTTACTTTATTATTTTTTTATTTTTGAAAATTTTATTTCGTACCTTAATGGAAATTCAA
1 TGTTATTTTACTTTATTATTATTTTATTTTCGAAAATACAATTTCATACCTCAATAGAAATCCAA
** * *
57562 AAAGATACAAAAAGTTTTTGAAATATTTTACACCCTTACGGATGCTCATAGCAATATAAAAGATT
66 AAAGATACAAAAAGTTTTTGAAATATTTTACACCCCCACAGATGCCCATAGCAATATAAAAGATT
*
57627 AGAAAAATAGATTAAAATTTATCTCGATTATTAAAG
131 AAAAAAATAGATTAAAATTTATCTCGATTATTAAAG
* *
57663 TGTTAATTTTATTTTATT-TTATTTTA-TTTCGAAAATACAATTTCATACCTCAATAGAAGTCCA
1 TGTT-ATTTTACTTTATTATTATTTTATTTTCGAAAATACAATTTCATACCTCAATAGAAATCCA
* *
57726 AAAAGATACAAAAAGTTTTTGAAATATTTTATACCCCCACAGATGCCCATAGGAATATAAAAGAT
65 AAAAGATACAAAAAGTTTTTGAAATATTTTACACCCCCACAGATGCCCATAGCAATATAAAAGAT
57791 TAAAAAAA
130 TAAAAAAA
57799 AAATTTAAAT
Statistics
Matches: 117, Mismatches: 18, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
165 94 0.80
166 11 0.09
167 12 0.10
ACGTcount: A:0.40, C:0.11, G:0.10, T:0.39
Consensus pattern (166 bp):
TGTTATTTTACTTTATTATTATTTTATTTTCGAAAATACAATTTCATACCTCAATAGAAATCCAA
AAAGATACAAAAAGTTTTTGAAATATTTTACACCCCCACAGATGCCCATAGCAATATAAAAGATT
AAAAAAATAGATTAAAATTTATCTCGATTATTAAAG
Found at i:58163 original size:20 final size:20
Alignment explanation
Indices: 58140--58212 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
58130 ACAATTCAAA
58140 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
58160 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
58181 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
58201 GTATCGATACAT
1 GTATCGATACAT
58213 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:58184 original size:21 final size:21
Alignment explanation
Indices: 58158--58233 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
58148 ACATGTTGCA
58158 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
58179 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
58199 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
58220 TTGTATCGATACAT
1 ATGTATCGATACAT
58234 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:58191 original size:41 final size:41
Alignment explanation
Indices: 58140--58233 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
58130 ACAATTCAAA
*
58140 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
58181 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
58222 GTATCGATACAT
1 GTATCGATACAT
58234 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:58290 original size:13 final size:13
Alignment explanation
Indices: 58272--58297 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
58262 TACAGCAAGT
58272 ATGTATCGATACA
1 ATGTATCGATACA
58285 ATGTATCGATACA
1 ATGTATCGATACA
58298 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:62810 original size:83 final size:83
Alignment explanation
Indices: 62671--62840 Score: 340
Period size: 83 Copynumber: 2.0 Consensus size: 83
62661 TTGGCCTGAT
62671 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTG
1 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTG
62736 TTATAAAGGAAGAAATTG
66 TTATAAAGGAAGAAATTG
62754 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTG
1 AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTG
62819 TTATAAAGGAAGAAATTG
66 TTATAAAGGAAGAAATTG
62837 AAAA
1 AAAA
62841 TATTGAAGAA
Statistics
Matches: 87, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
83 87 1.00
ACGTcount: A:0.45, C:0.04, G:0.27, T:0.25
Consensus pattern (83 bp):
AAAAAGGGGGAAAAAGATGTTTCACAATGGGGGAGAATTCGTAGAGAAATAGAATTGATTATTTG
TTATAAAGGAAGAAATTG
Found at i:63735 original size:20 final size:20
Alignment explanation
Indices: 63712--63784 Score: 101
Period size: 20 Copynumber: 3.6 Consensus size: 20
63702 ACAATTCAAA
63712 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
****
63732 GTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCA-AT
63753 GTATCGATACATGTTGCAAT
1 GTATCGATACATGTTGCAAT
63773 GTATCGATACAT
1 GTATCGATACAT
63785 AAAAAAGTTG
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 28 0.64
21 16 0.36
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (20 bp):
GTATCGATACATGTTGCAAT
Found at i:63756 original size:21 final size:21
Alignment explanation
Indices: 63730--63805 Score: 91
Period size: 21 Copynumber: 3.7 Consensus size: 21
63720 ACATGTTGCA
63730 ATGTATCGATACATGAAAAAG
1 ATGTATCGATACATGAAAAAG
****
63751 ATGTATCGATACATGTTGCA-
1 ATGTATCGATACATGAAAAAG
*
63771 ATGTATCGATACATAAAAAAG
1 ATGTATCGATACATGAAAAAG
*
63792 TTGTATCGATACAT
1 ATGTATCGATACAT
63806 TTCTTGGCAG
Statistics
Matches: 44, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
20 15 0.34
21 29 0.66
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (21 bp):
ATGTATCGATACATGAAAAAG
Found at i:63763 original size:41 final size:41
Alignment explanation
Indices: 63712--63805 Score: 170
Period size: 41 Copynumber: 2.3 Consensus size: 41
63702 ACAATTCAAA
*
63712 GTATCGATACATGTTGCAATGTATCGATACATGAAAAAGAT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
*
63753 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGTT
1 GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
63794 GTATCGATACAT
1 GTATCGATACAT
63806 TTCTTGGCAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (41 bp):
GTATCGATACATGTTGCAATGTATCGATACATAAAAAAGAT
Found at i:63862 original size:13 final size:13
Alignment explanation
Indices: 63844--63869 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63834 TACAGCAAGT
63844 ATGTATCGATACA
1 ATGTATCGATACA
63857 ATGTATCGATACA
1 ATGTATCGATACA
63870 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:65353 original size:10 final size:10
Alignment explanation
Indices: 65340--65401 Score: 51
Period size: 9 Copynumber: 6.5 Consensus size: 10
65330 TTTTTCCTAA
65340 TTTTTCTCTCT
1 TTTTTCT-TCT
65351 TTTTTCTTCT
1 TTTTTCTTCT
*
65361 TTTTTTTTCT
1 TTTTTCTTCT
* *
65371 ATATT-TTC-
1 TTTTTCTTCT
*
65379 TTTCTCTT-T
1 TTTTTCTTCT
65388 TTTTT-TTCT
1 TTTTTCTTCT
65397 TTTTT
1 TTTTT
65402 TCAGCTGAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
8 4 0.10
9 15 0.37
10 15 0.37
11 7 0.17
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTCTTCT
Found at i:65367 original size:33 final size:36
Alignment explanation
Indices: 65330--65402 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
65320 AGCTAGTTAA
65330 TTTTTCCTA-ATTTT-TCTCTC-TTTTTTCTTCTTT
1 TTTTTCCTATATTTTCTCTCTCTTTTTTTCTTCTTT
* * *
65363 TTTTTTCTATATTTTCTTTCTCTTTTTTTTTTCTTT
1 TTTTTCCTATATTTTCTCTCTCTTTTTTTCTTCTTT
65399 TTTT
1 TTTT
65403 CAGCTGAAGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 8 0.24
34 5 0.15
35 5 0.15
36 16 0.47
ACGTcount: A:0.05, C:0.16, G:0.00, T:0.78
Consensus pattern (36 bp):
TTTTTCCTATATTTTCTCTCTCTTTTTTTCTTCTTT
Found at i:65368 original size:13 final size:13
Alignment explanation
Indices: 65350--65402 Score: 51
Period size: 13 Copynumber: 4.3 Consensus size: 13
65340 TTTTTCTCTC
65350 TTTTTTCTTCTTT
1 TTTTTTCTTCTTT
*
65363 TTTTTTCTAT-ATT
1 TTTTTTCT-TCTTT
*
65376 TTCTTTC-TC-TT
1 TTTTTTCTTCTTT
65387 TTTTTT-TTCTTT
1 TTTTTTCTTCTTT
65399 TTTT
1 TTTT
65403 CAGCTGAAGC
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
11 10 0.30
12 6 0.18
13 16 0.48
14 1 0.03
ACGTcount: A:0.04, C:0.13, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTTTCTTCTTT
Found at i:65402 original size:11 final size:11
Alignment explanation
Indices: 65340--65402 Score: 56
Period size: 12 Copynumber: 5.4 Consensus size: 11
65330 TTTTTCCTAA
*
65340 TTTTTCTCTCTT
1 TTTTTTTCT-TT
*
65352 TTTTCTTC-TT
1 TTTTTTTCTTT
65362 TTTTTTTCTATAT
1 TTTTTTTCT-T-T
65375 TTTCTTTCTCTTT
1 TTT-TTT-TCTTT
65388 TTTTTTTCTTT
1 TTTTTTTCTTT
65399 TTTT
1 TTTT
65403 CAGCTGAAGC
Statistics
Matches: 43, Mismatches: 3, Indels: 11
0.75 0.05 0.19
Matches are distributed among these distances:
10 9 0.21
11 9 0.21
12 10 0.23
13 8 0.19
14 4 0.09
15 3 0.07
ACGTcount: A:0.03, C:0.16, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTTTTTCTTT
Found at i:73331 original size:13 final size:13
Alignment explanation
Indices: 73300--73345 Score: 53
Period size: 13 Copynumber: 3.7 Consensus size: 13
73290 TTGCTTTGTT
73300 TTTCTCTTTT-TTC
1 TTTCT-TTTTCTTC
*
73313 TCTCTTTTTCTTC
1 TTTCTTTTTCTTC
73326 TTTCTTTTTC-TC
1 TTTCTTTTTCTTC
73338 -TTCTTTTT
1 TTTCTTTTT
73346 TTTACTTGCT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
11 8 0.27
12 6 0.20
13 16 0.53
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTCTTTTTCTTC
Found at i:74171 original size:163 final size:164
Alignment explanation
Indices: 73676--74286 Score: 637
Period size: 164 Copynumber: 3.7 Consensus size: 164
73666 TGAAAGAAAT
* ** * * * * **
73676 TGAATTTCTTGAAACTAACTTAATGGGAGTTTAATAACAATATTAGATTAATTTTAAAAATTTTA
1 TGAATTT-TTGAAACTAATTTAATATGAATTAAATAATAATATT-GATGAATTTTAAAAATTAAA
* * * * ** *
73741 AATCGAGAAAAATC-CTCTCGAAAATATTTACGAAGTAGAAAACTCAATTTTTCAAAAACAGGGG
64 AACCAAGAAAAATCAC-CCCGAAAACATTTACGAAGTAGAAAACTCTGTATTTCAAAAACAGGGG
** * *
73805 CTTTTCAA-GAAAAAAAT-AAAAATTCATTAAAATGAA
128 -AATTCAAGGAAAAAAATGAAAAACTCATGAAAATGAA
* *
73841 TGAATTTTTGAAAATAGATTTAACATGAATTAAATAATAATATTGATGAATTTTAAAAATTAAAA
1 TGAATTTTTGAAACTA-ATTTAATATGAATTAAATAATAATATTGATGAATTTTAAAAATTAAAA
* * *
73906 ACCAAGAAAAATCACCCTGAAAACATTTACGGAGTAGAAAACTCTGTATTTTAGAAATA-AGGGG
65 ACCAAGAAAAATCACCCCGAAAACATTTACGAAGTAGAAAACTCTGTATTTCA-AAA-ACAGGGG
* * *
73970 AATTCAAGGAAAAAACTGAAAAACTCAAGAACATGAA
128 AATTCAAGGAAAAAAATGAAAAACTCATGAAAATGAA
* * * * * * * * *
74007 TGAGTTTTTGGGAACTAATTTAATATTAATCAAATAATCATATTTAAT-AAATTCAAACATTAAA
1 TGAATTTTT-GAAACTAATTTAATATGAATTAAATAATAATA-TTGATGAATTTTAAAAATTAAA
* *
74071 AACCAAG-AAAATCACCCCAAAAACATTTA-GAAGTAGAAGACTC-GTATTTCAAAAACATGGGG
64 AACCAAGAAAAATCACCCCGAAAACATTTACGAAGTAGAAAACTCTGTATTTCAAAAACA-GGGG
*
74133 AATTCAAGGAAAAAAATGAAAAACACATGAAAATGAA
128 AATTCAAGGAAAAAAATGAAAAACTCATGAAAATGAA
74170 TGAAATTTTCT-AAACTAATTTAATATGAATTAAATAATAATAATTGATGAATTTTAAAAATTAA
1 TG-AATTTT-TGAAACTAATTTAATATGAATTAAATAATAAT-ATTGATGAATTTTAAAAATTAA
* * * * *
74234 AAACCAAGAAAAATCTCTCCGAGAACATTTAAGGAGTAGAAAACTCTGTATTT
63 AAACCAAGAAAAATCACCCCGAAAACATTTACGAAGTAGAAAACTCTGTATTT
74287 TGAAAATAGG
Statistics
Matches: 366, Mismatches: 63, Indels: 32
0.79 0.14 0.07
Matches are distributed among these distances:
161 1 0.00
162 4 0.01
163 76 0.21
164 110 0.30
165 83 0.23
166 77 0.21
167 15 0.04
ACGTcount: A:0.49, C:0.10, G:0.12, T:0.29
Consensus pattern (164 bp):
TGAATTTTTGAAACTAATTTAATATGAATTAAATAATAATATTGATGAATTTTAAAAATTAAAAA
CCAAGAAAAATCACCCCGAAAACATTTACGAAGTAGAAAACTCTGTATTTCAAAAACAGGGGAAT
TCAAGGAAAAAAATGAAAAACTCATGAAAATGAA
Found at i:74370 original size:166 final size:161
Alignment explanation
Indices: 73808--74351 Score: 516
Period size: 166 Copynumber: 3.3 Consensus size: 161
73798 ACAGGGGCTT
* * * *
73808 TTCAAGAAAAAAAT-AAAAATTCATTAAA-ATGAATGAATTTTTGAAAA-TAGATTTAACATGAA
1 TTCAAG-AAAAAATGAAAAACTCATGAAATA-GAATGAATTTTTCAAAACTA-ATTTAATAT-AA
73870 TTAAATAATAAT-ATTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCACCCTGAAAACATTT
62 TTAAATAATAATAATTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCACCC-GAAAACATTT
*
73934 ACGGAGTAGAAAACTCTGTATTTTAGAAATAAGGGGAA
126 AAGGAGTAGAAAACTCTGTATTTTA-AAAT-AGGGGAA
* * ***
73972 TTCAAGGAAAAAACTGAAAAACTCAAGAACAT-GAATGAGTTTTTGGGAACTAATTTAATATTAA
1 TTCAA-GAAAAAA-TGAAAAACTCATGAA-ATAGAATGAATTTTTCAAAACTAATTTAATA-TAA
* * * * * * * *
74036 TCAAATAATCATATTTAAT-AAATTCAAACATTAAAAACCAAG-AAAATCACCCCAAAAACATTT
62 TTAAATAATAATAATTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCA-CCCGAAAACATTT
* * * *
74099 -AGAAGTAGAAGACTC-GTATTTCAAAAACATGGGGAA
126 AAGGAGTAGAAAACTCTGTATTT-TAAAATA-GGGGAA
* * *
74135 TTCAAGGAAAAAAATGAAAAACACATGAAA-ATGAATGAAATTTTCTAAACTAATTTAATATGAA
1 TTCAA-G-AAAAAATGAAAAACTCATGAAATA-GAATGAATTTTTCAAAACTAATTTAATAT-AA
* *
74199 TTAAATAATAATAATTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCTCTCCGAGAACATTT
62 TTAAATAATAATAATTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCAC-CCGAAAACATTT
*
74264 AAGGAGTAGAAAACTCTGTATTTTGAAAATAGGGATAA
126 AAGGAGTAGAAAACTCTGTATTTT-AAAATAGGG-GAA
* * * *
74302 TTCTAA-AAGAAAATCAATAACTCATGAAATAAAAAGAATTTTTCAAAACT
1 TTC-AAGAA-AAAATGAAAAACTCATGAAATAGAATGAATTTTTCAAAACT
74352 GATTGCATGG
Statistics
Matches: 306, Mismatches: 49, Indels: 48
0.76 0.12 0.12
Matches are distributed among these distances:
162 3 0.01
163 75 0.25
164 51 0.17
165 36 0.12
166 114 0.37
167 25 0.08
168 2 0.01
ACGTcount: A:0.51, C:0.10, G:0.12, T:0.27
Consensus pattern (161 bp):
TTCAAGAAAAAATGAAAAACTCATGAAATAGAATGAATTTTTCAAAACTAATTTAATATAATTAA
ATAATAATAATTGATGAATTTTAAAAATTAAAAACCAAGAAAAATCACCCGAAAACATTTAAGGA
GTAGAAAACTCTGTATTTTAAAATAGGGGAA
Found at i:76041 original size:21 final size:23
Alignment explanation
Indices: 76015--76059 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
76005 GGCTCTCGTT
*
76015 AAAAAATTT-T-CCCTTTGATAA
1 AAAAAATTTCTCCCCCTTGATAA
76036 AAAAAATTTCTCCCCCTTGATAA
1 AAAAAATTTCTCCCCCTTGATAA
76059 A
1 A
76060 CGATTAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 1 0.05
23 11 0.52
ACGTcount: A:0.42, C:0.20, G:0.04, T:0.33
Consensus pattern (23 bp):
AAAAAATTTCTCCCCCTTGATAA
Found at i:79336 original size:19 final size:20
Alignment explanation
Indices: 79290--79341 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
79280 TCACATTTAA
* *
79290 ATGTATCGATACAGATAGCAT
1 ATGTATCGATACACACA-CAT
79311 A-GTATCGATACACACA-AT
1 ATGTATCGATACACACACAT
79329 ATGTATCGATACA
1 ATGTATCGATACA
79342 TTGGCAGTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
18 3 0.11
19 11 0.39
20 13 0.46
21 1 0.04
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.27
Consensus pattern (20 bp):
ATGTATCGATACACACACAT
Found at i:79384 original size:10 final size:10
Alignment explanation
Indices: 79365--79436 Score: 63
Period size: 10 Copynumber: 7.0 Consensus size: 10
79355 AATCTCATTT
79365 TCACTGTTCA
1 TCACTGTTCA
*
79375 TCACTATTCA
1 TCACTGTTCA
79385 TCACTGTTCA
1 TCACTGTTCA
* ** *
79395 TGTATCAATACA
1 T-CA-CTGTTCA
*
79407 TCACTTTTCA
1 TCACTGTTCA
79417 TCACTGTTCA
1 TCACTGTTCA
*
79427 CCACTGTTCA
1 TCACTGTTCA
79437 CGTATCACTA
Statistics
Matches: 48, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
10 41 0.85
11 2 0.04
12 5 0.10
ACGTcount: A:0.25, C:0.29, G:0.07, T:0.39
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:80043 original size:34 final size:35
Alignment explanation
Indices: 79980--80046 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
79970 CTAAGTGATT
79980 GAGAGGTTCTATCTTAGCCTTTGAAAAAGATAGAGA
1 GAGAGGTTCTATCTTAGCCTTTG-AAAAGATAGAGA
80016 GAGAGGTTTCTATCTTAGCC-TTG-AAAGATAG
1 GAGAGG-TTCTATCTTAGCCTTTGAAAAGATAG
80047 TGTTGTAAGG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 8 0.27
36 9 0.30
37 13 0.43
ACGTcount: A:0.33, C:0.12, G:0.25, T:0.30
Consensus pattern (35 bp):
GAGAGGTTCTATCTTAGCCTTTGAAAAGATAGAGA
Found at i:83064 original size:425 final size:425
Alignment explanation
Indices: 82274--83546 Score: 2501
Period size: 425 Copynumber: 3.0 Consensus size: 425
82264 GTTTATGGGT
*
82274 TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCTTAATCAAATTT
1 TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCGTAATCAAATTT
82339 AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
66 AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
82404 AGTAACGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTCGGTTTTGAAACAACACAATT
131 AGTAACGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTCGGTTTTGAAACAACACAATT
82469 CGAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAAA
196 CGAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAAA
82534 CACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTACCCAATTCACTAACCGA
261 CACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTACCCAATTCACTAACCGA
82599 ATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCAA
326 ATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCAA
82664 CCTTACAATCTCTTTGCAAACTATACCACAAGGTC
391 CCTTACAATCTCTTTGCAAACTATACCACAAGGTC
82699 TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCGTAATCAAATTT
1 TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCGTAATCAAATTT
82764 AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
66 AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
82829 AGTAACGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTCGGTTTTGAAACAACACAATT
131 AGTAACGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTCGGTTTTGAAACAACACAATT
82894 CGAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAAA
196 CGAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAAA
82959 CACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTACCCAATTCACTAACCGA
261 CACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTACCCAATTCACTAACCGA
83024 ATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCAA
326 ATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCAA
83089 CCTTACAATCTCTTTGCAAACTATACCACAAGGTC
391 CCTTACAATCTCTTTGCAAACTATACCACAAGGTC
83124 TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCGTAATCAAATTT
1 TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCGTAATCAAATTT
83189 AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
66 AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
*
83254 AGTAACGAACCAAGAGGGGGGGTGAATTGGTTCTTTTCGAATTTTCGGTTTTGAAACAACACAAT
131 AGTAACGAACCAAGA-GGGGGGTGAATTGGTTCTTTTTGAATTTTCGGTTTTGAAACAACACAAT
*
83319 TCAAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAA
195 TCGAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAA
*
83384 ACACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCATCGAGTGATTACCCAATTCACTAACCG
260 ACACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTACCCAATTCACTAACCG
83449 AATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCA
325 AATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCA
83514 ACCTTACAATCTCTTTGCAAACTATACCACAAG
390 ACCTTACAATCTCTTTGCAAACTATACCACAAG
83547 TTCCAAAGAG
Statistics
Matches: 843, Mismatches: 4, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
425 569 0.67
426 274 0.33
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (425 bp):
TTAAAAGTATTTCTTTTATGCTTACCCTTAATACATGCATCACATACTTTATCGTAATCAAATTT
AACCTTAGGCAATCCAATAACAAGGTCTTTCCTAGATAACTTAGAAAGTACGTGAAAGCTTATCA
AGTAACGAACCAAGAGGGGGGTGAATTGGTTCTTTTTGAATTTTCGGTTTTGAAACAACACAATT
CGAAATGAAAAGAGATTTAGGGAAGGAAAACTTGACACAAGAAATTTATAGAGGTTCGGTCCAAA
CACGGCACCTACGTCCTCTCTCCTCGACACTTCCTCGTCGAGTGATTACCCAATTCACTAACCGA
ATTGATTACCTTTAAGGCAAAGGTATAACCTTACAACTCGTATCTTTTACGGGCTTAGATACCAA
CCTTACAATCTCTTTGCAAACTATACCACAAGGTC
Found at i:84023 original size:13 final size:13
Alignment explanation
Indices: 84005--84030 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83995 AATTTTTTTG
84005 TGTATCGATACAT
1 TGTATCGATACAT
84018 TGTATCGATACAT
1 TGTATCGATACAT
84031 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86245 original size:13 final size:13
Alignment explanation
Indices: 86227--86252 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
86217 TACAGCAAGT
86227 ATGTATCGATACA
1 ATGTATCGATACA
86240 ATGTATCGATACA
1 ATGTATCGATACA
86253 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:88504 original size:21 final size:21
Alignment explanation
Indices: 88471--88515 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
88461 TTGCAAGTTG
*
88471 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
88493 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
88513 AAA
1 AAA
88516 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:90339 original size:15 final size:15
Alignment explanation
Indices: 90319--90349 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
90309 TAAAAATGTC
*
90319 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
90334 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
90349 C
1 C
90350 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:92445 original size:13 final size:13
Alignment explanation
Indices: 92427--92452 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92417 ACATTTTTCT
92427 TTGTATCGATACA
1 TTGTATCGATACA
92440 TTGTATCGATACA
1 TTGTATCGATACA
92453 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:95029 original size:13 final size:13
Alignment explanation
Indices: 95011--95036 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
95001 TACAGCAAGT
95011 ATGTATCGATACA
1 ATGTATCGATACA
95024 ATGTATCGATACA
1 ATGTATCGATACA
95037 CAAAAAATTG
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:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:98099 original size:19 final size:19
Alignment explanation
Indices: 98055--98110 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
98045 CTGCCAGTTT
**
98055 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
98075 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
98094 CATGTATTGATACAATG
1 CATGTATCGATACAATG
98111 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:98117 original size:32 final size:33
Alignment explanation
Indices: 98076--98140 Score: 98
Period size: 32 Copynumber: 2.0 Consensus size: 33
98066 ACAATTGTCC
*
98076 ATGTATCGATACAATG-A-ACATGTATTGATACA
1 ATGTATCGATACAAAGCATA-ATGTATTGATACA
98108 ATGTATCGATACAAAGCATAATGTATTGATACA
1 ATGTATCGATACAAAGCATAATGTATTGATACA
98141 TCTGGGTGTG
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.50
33 14 0.47
34 1 0.03
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.31
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATGTATTGATACA
Found at i:99576 original size:34 final size:34
Alignment explanation
Indices: 99533--99777 Score: 249
Period size: 34 Copynumber: 7.3 Consensus size: 34
99523 ACTCTTTTTA
99533 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
**
99567 AAGCCCACAACTCTATGGCACTCTTTTTCCTTCT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
*
99601 AAGCCCACAACTCCGTGGCA--C-----CCTTTT
1 AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
*
99628 AAGCCCATAACTCCGTGGCACT-TTTTTCATCTT-T
1 AAGCCCACAACTCCGTGGCACTCTTTTTC--CTTCT
* * * *
99662 AAGTCCACAACTCCGTGGCACCTTTTTTTTCTTTT
1 AAGCCCACAACTCCGTGGCA-CTCTTTTTCCTTCT
*
99697 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCACTCTTTTT-CCTTCT
* *
99733 AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCT
1 AAGCCCACAACTCCGTGGCACTCTTT-TTCCTT-CT
99768 AAAGCCCACA
1 -AAGCCCACA
99778 CAAGTCGGTG
Statistics
Matches: 178, Mismatches: 16, Indels: 32
0.79 0.07 0.14
Matches are distributed among these distances:
27 24 0.13
32 1 0.01
33 1 0.01
34 81 0.46
35 34 0.19
36 37 0.21
ACGTcount: A:0.20, C:0.36, G:0.11, T:0.33
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACTCTTTTTCCTTCT
Found at i:99640 original size:61 final size:60
Alignment explanation
Indices: 99561--99752 Score: 206
Period size: 61 Copynumber: 3.0 Consensus size: 60
99551 CACTCTTTTT
* ** *
99561 CCTTCTAAGCCCACAACTCTATGGCACTCTTTTTCCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTT-TAAGTCCACAACTCCGTGGCAC
*
99622 CCTTTTAAGCCCATAACTCCGTGGCACT-TTTTTCATCTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTC--CTTTAAGTCCACAACTCCGTGGCAC
99683 CTTTTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCG
1 C--------CTTTT-AAGCCCACAACTCCGTGGCACTCTTTTT-CC-TTTAAGTCCACAACTCCG
99748 TGGCA
55 TGGCA
99753 TCTTTCTCCC
Statistics
Matches: 111, Mismatches: 6, Indels: 18
0.82 0.04 0.13
Matches are distributed among these distances:
60 6 0.05
61 46 0.41
62 3 0.03
69 5 0.05
70 22 0.20
71 28 0.25
72 1 0.01
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.33
Consensus pattern (60 bp):
CCTTTTAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTAAGTCCACAACTCCGTGGCAC
Found at i:99654 original size:27 final size:27
Alignment explanation
Indices: 99595--99648 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
99585 CACTCTTTTT
*
99595 CCTTCTAAGCCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
*
99622 CCTTTTAAGCCCATAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAC
99649 TTTTTTCATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.22, C:0.41, G:0.15, T:0.22
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAC
Found at i:99706 original size:36 final size:34
Alignment explanation
Indices: 99623--99757 Score: 164
Period size: 35 Copynumber: 3.9 Consensus size: 34
99613 CCGTGGCACC
*
99623 CTTTTAAGCCCATAACTCCGTGGCACTTTTTTCAT
1 CTTTTAAGCCCACAACTCCGTGGCACTTTTTT-AT
* *
99658 C-TTTAAGTCCACAACTCCGTGGCACCTTTTTTTT
1 CTTTTAAGCCCACAACTCCGTGGCA-CTTTTTTAT
**
99692 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCC
1 CTTTT-AAGCCCACAACTCCGTGGCACT-TTTTTAT
*
99728 CTTTTAAGTCCACAACTCCGTGGCATCTTT
1 CTTTTAAGCCCACAACTCCGTGGCA-CTTT
99758 CTCCCTTCCT
Statistics
Matches: 88, Mismatches: 7, Indels: 10
0.84 0.07 0.10
Matches are distributed among these distances:
34 23 0.26
35 34 0.39
36 31 0.35
ACGTcount: A:0.19, C:0.31, G:0.12, T:0.38
Consensus pattern (34 bp):
CTTTTAAGCCCACAACTCCGTGGCACTTTTTTAT
Found at i:99771 original size:71 final size:70
Alignment explanation
Indices: 99628--99777 Score: 196
Period size: 71 Copynumber: 2.1 Consensus size: 70
99618 GCACCCTTTT
* * **
99628 AAGCCCATAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTTTTTC
1 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
*
99693 TTTTA
66 TTCTA
* *
99698 AAGCCCACAACTCCGTGGCACTCTTTTTC-CCTTTTAAGTCCACAACTCCGTGGCATC-TTTCTC
1 AAGCCCACAACTCCGTGGCACT-TTTTTCATC-TTTAAGTCCACAACTCCGTGGCACCTTTTCTC
99761 CCTTCCTA
64 CCTT-CTA
99769 AAGCCCACA
1 AAGCCCACA
99778 CAAGTCGGTG
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
70 29 0.41
71 41 0.59
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (70 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGTCCACAACTCCGTGGCACCTTTTCTCCC
TTCTA
Found at i:99809 original size:33 final size:35
Alignment explanation
Indices: 99762--99831 Score: 117
Period size: 33 Copynumber: 2.1 Consensus size: 35
99752 ATCTTTCTCC
*
99762 CTTCCTAAAGCCCACACAAGTCGGTGGCAA-CCTT
1 CTTCCTAAACCCCACACAAGTCGGTGGCAACCCTT
99796 CTTCC-AAACCCCACACAAGTCGGTGGCAACCCTT
1 CTTCCTAAACCCCACACAAGTCGGTGGCAACCCTT
99830 CT
1 CT
99832 AAGCCCAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
33 23 0.68
34 11 0.32
ACGTcount: A:0.26, C:0.39, G:0.16, T:0.20
Consensus pattern (35 bp):
CTTCCTAAACCCCACACAAGTCGGTGGCAACCCTT
Found at i:99895 original size:49 final size:49
Alignment explanation
Indices: 99831--101015 Score: 1467
Period size: 49 Copynumber: 24.8 Consensus size: 49
99821 GCAACCCTTC
* * *
99831 TAAGCCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
99880 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
99923 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* * *
99975 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
100024 TAAGTCCAATGTAGCTGACCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
100067 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
100116 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTAGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
100159 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
*
100208 TAAGTCCAATGTAGCTGGCCTTGAATCAGCATATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
100251 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
100300 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
100343 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
100392 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
100441 TAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCA-CCT-ATTCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCA-TCTT
* * *
100489 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
100538 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
100586 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
100629 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
100678 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
100727 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCAT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
100776 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCACCTTTATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* *
100825 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * *
100874 TAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
* * * *
100923 TAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA--TCTT-CATCTT
* *
100975 TAAGTTCAATGTAGCTGGCCTTGAATCAGCACATTGACATC
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATC
101016 CTTTTTCATC
Statistics
Matches: 995, Mismatches: 96, Indels: 89
0.84 0.08 0.08
Matches are distributed among these distances:
43 231 0.23
45 5 0.01
47 6 0.01
48 88 0.09
49 581 0.58
50 5 0.01
51 2 0.00
52 77 0.08
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.31
Consensus pattern (49 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCATCTTCATCTT
Found at i:100129 original size:92 final size:92
Alignment explanation
Indices: 99972--101019 Score: 1364
Period size: 92 Copynumber: 11.0 Consensus size: 92
99962 CCTTTTCCAT
* * * * *
99972 CTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTTATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
100037 GCTGACCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
100064 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTCTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
100129 GCTGGCCTTGAATCAGCACATTAGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
100156 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
100221 GCTGGCCTTGAATCAGCATATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
*
100248 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
100313 GCTGGCCTTGAATCAGCACATTGGCAC
66 GCTGGCCTTGAATCAGCACATTGGCAC
* *
100340 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
100405 GCTGGCCTTGACTCAGCACATTGGCACCTTC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
100436 ATCTTTAAGTCCAATGTAACTGGCCTTGAATCAGCACATTGGCA-CCT-ATTCTTTAAGTCCAAT
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCA-TCTTTAAGTCCAAT
*
100499 GTAGCTGGCCTTGACTCAGCACATTGGCACCTCC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA----C
* * * *
100533 ATCTTTAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA-CCTCACCTTTAAGTCCAATG
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
100597 TAGCTGGCCTTGAATCAGCACATTGGCAC
64 TAGCTGGCCTTGAATCAGCACATTGGCAC
* *
100626 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCATCATCTTTAAGTCCAATGTA
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
*
100691 GCTGGCCTTGACTCAGCACATTGGCACCTCC
66 GCTGGCCTTGAATCAGCACATTGGCA----C
* * * * * * *
100722 ATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCACCATTAAGTCCAATA
1 --CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
*
100787 TAGCTGGCCTTGAATCAGCATATTGGCACC
64 TAGCTGGCCTTGAATCAGCACATTGGCA-C
* * * *
100817 TTTATCTTTAAGTCCAATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCATCTTTAAGTCCA
1 -----CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCA
*
100882 ATGTAGCTGGCCTTGACTCAGCACATTGGCACCTTCAC
61 ATGTAGCTGGCCTTGAATCAGCACATTGG------CAC
* * *
100920 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATCGGCACCTTTTCCATCTTTAAGTTCAAT
1 CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCA--TCTT-CATCTTTAAGTCCAAT
*
100985 GTAGCTGGCCTTGAATCAGCACATTGACATC
63 GTAGCTGGCCTTGAATCAGCACATTGGCA-C
101016 CTTT
1 CTTT
101020 TTCATCATCT
Statistics
Matches: 873, Mismatches: 55, Indels: 52
0.89 0.06 0.05
Matches are distributed among these distances:
91 39 0.04
92 397 0.45
93 1 0.00
95 4 0.00
96 8 0.01
97 136 0.16
98 243 0.28
100 2 0.00
101 40 0.05
103 1 0.00
104 2 0.00
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.31
Consensus pattern (92 bp):
CTTTAAGTCCAATATAGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
GCTGGCCTTGAATCAGCACATTGGCAC
Found at i:101929 original size:13 final size:13
Alignment explanation
Indices: 101911--101935 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101901 TTAATAATGT
101911 TGTATCGATACAA
1 TGTATCGATACAA
101924 TGTATCGATACA
1 TGTATCGATACA
101936 TATTTTTTTT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:102017 original size:13 final size:13
Alignment explanation
Indices: 101999--102023 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
101989 ATTACTCAAA
101999 TGTATCGATACAT
1 TGTATCGATACAT
102012 TGTATCGATACA
1 TGTATCGATACA
102024 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:102136 original size:52 final size:52
Alignment explanation
Indices: 102032--102155 Score: 189
Period size: 52 Copynumber: 2.4 Consensus size: 52
102022 CACTGATCTT
* * *
102032 TGTATCGATACATGCAGGC-AATTTGCCCAGATGTATGGATATATTTTAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATTAAAA
102083 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATT-AAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACA-TATTAAAA
*
102135 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
102156 CTTTTCATAT
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
51 19 0.28
52 45 0.67
53 3 0.04
ACGTcount: A:0.35, C:0.17, G:0.19, T:0.30
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATATTAAAA
Found at i:105844 original size:127 final size:127
Alignment explanation
Indices: 105618--105852 Score: 362
Period size: 127 Copynumber: 1.9 Consensus size: 127
105608 AAATGGGGAG
* * *
105618 AGTTTGACCAGGGTGGTAACCATACATCAAATAGGAAGGAGGCAAATTTGACCAGGGTGGTAACC
1 AGTTTGACCAGGGTGGTAACCATACATAAAATAGGAAGGAGGCAAATTTAACCAAGGTGGTAACC
** *
105683 ATACATCAAATCCGAATGAAAATAATCTAACCAGGGTGATAACCATTAGACCAAATAAAAAA
66 ATACATCAAATCAAAATGAAAAGAATCTAACCAGGGTGATAACCATTAGACCAAATAAAAAA
* * *
105745 AGTTTGACCATGGTGGTAACCATACATAAAATAGGAAGGAGGCAGATTTAACTAAGGTGGTAACC
1 AGTTTGACCAGGGTGGTAACCATACATAAAATAGGAAGGAGGCAAATTTAACCAAGGTGGTAACC
* * *
105810 ATACGTCAAATCAAAATGAAAAGAATCTGACCAGGGTGGTAAC
66 ATACATCAAATCAAAATGAAAAGAATCTAACCAGGGTGATAAC
105853 TGTAGACACA
Statistics
Matches: 96, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
127 96 1.00
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.20
Consensus pattern (127 bp):
AGTTTGACCAGGGTGGTAACCATACATAAAATAGGAAGGAGGCAAATTTAACCAAGGTGGTAACC
ATACATCAAATCAAAATGAAAAGAATCTAACCAGGGTGATAACCATTAGACCAAATAAAAAA
Found at i:105848 original size:44 final size:43
Alignment explanation
Indices: 105620--105852 Score: 165
Period size: 44 Copynumber: 5.4 Consensus size: 43
105610 ATGGGGAGAG
**
105620 TTTGACCAGGGTGGTAACCATACATCAAATAGGAAGGAGGCA-AA
1 TTTGACCAGGGTGGTAACCATACATCAAATA-GAAGGA-AAAGAA
* * *
105664 TTTGACCAGGGTGGTAACCATACATCAAATCCGAATGAAAATAA
1 TTTGACCAGGGTGGTAACCATACATCAAAT-AGAAGGAAAAGAA
* * * * *
105708 TCTAACCAGGGTGATAACCATTAGACCAAATA-AA--AAAAG--
1 TTTGACCAGGGTGGTAACCA-TACATCAAATAGAAGGAAAAGAA
* * **
105747 TTTGACCATGGTGGTAACCATACATAAAATAGGAAGGAGGCAG-A
1 TTTGACCAGGGTGGTAACCATACATCAAATA-GAAGGA-AAAGAA
* * * * * *
105791 TTTAACTAAGGTGGTAACCATACGTCAAATCAAAATGAAAAGAA
1 TTTGACCAGGGTGGTAACCATACATCAAAT-AGAAGGAAAAGAA
*
105835 TCTGACCAGGGTGGTAAC
1 TTTGACCAGGGTGGTAAC
105853 TGTAGACACA
Statistics
Matches: 145, Mismatches: 33, Indels: 22
0.73 0.17 0.11
Matches are distributed among these distances:
38 8 0.06
39 16 0.11
40 2 0.01
41 4 0.03
42 1 0.01
43 7 0.05
44 98 0.68
45 9 0.06
ACGTcount: A:0.41, C:0.16, G:0.22, T:0.21
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACATCAAATAGAAGGAAAAGAA
Found at i:106237 original size:51 final size:52
Alignment explanation
Indices: 106173--106297 Score: 148
Period size: 51 Copynumber: 2.4 Consensus size: 52
106163 TCTTTAAAGA
*
106173 AAATGTATCGATACATTTTTTATTGTATCGATAAATTC-TGGGTTTTGA-CC
1 AAATGTATCGATACATTTTTTATTGTATCGATAAATTCAAGGGTTTTGAGCC
* * * * *
106223 TAATTGTATGGATACATTCTTCT-TTGTATCGATACATTCAAGGTTTTTGAGCC
1 -AAATGTATCGATACATT-TTTTATTGTATCGATAAATTCAAGGGTTTTGAGCC
*
106276 AAATGTATCGATACATTATTTA
1 AAATGTATCGATACATTTTTTA
106298 ATGGATTGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
51 32 0.53
52 26 0.43
53 2 0.03
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (52 bp):
AAATGTATCGATACATTTTTTATTGTATCGATAAATTCAAGGGTTTTGAGCC
Found at i:107947 original size:13 final size:13
Alignment explanation
Indices: 107929--107954 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
107919 AATTTTTTAG
107929 TGTATCGATACAT
1 TGTATCGATACAT
107942 TGTATCGATACAT
1 TGTATCGATACAT
107955 ACTTGGTGTA
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:110539 original size:13 final size:13
Alignment explanation
Indices: 110521--110559 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
110511 ATAATCCCCC
*
110521 TGTATCGATACAG
1 TGTATCGATACAA
110534 TGTATCGATACAA
1 TGTATCGATACAA
110547 TGTATCGATACAA
1 TGTATCGATACAA
110560 AGAAAAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:112653 original size:15 final size:15
Alignment explanation
Indices: 112633--112673 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
112623 GTTCATCAAT
112633 TTCATTTGGAGCTTC
1 TTCATTTGGAGCTTC
*
112648 TTCATTTTGAGCTTC
1 TTCATTTGGAGCTTC
*
112663 CTCAATTTGGA
1 TTC-ATTTGGA
112674 CATTTTTATC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (15 bp):
TTCATTTGGAGCTTC
Found at i:116743 original size:21 final size:20
Alignment explanation
Indices: 116718--116770 Score: 72
Period size: 19 Copynumber: 2.6 Consensus size: 20
116708 TACAAGCCAA
**
116718 TGTATCGATACAATTTTTTGG
1 TGTATCGATACAA-TACTTGG
116739 TGTATCGATAC-ATACTTGG
1 TGTATCGATACAATACTTGG
116758 TGTATCGATACAA
1 TGTATCGATACAA
116771 GTTTGGCTAC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 16 0.55
20 2 0.07
21 11 0.38
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (20 bp):
TGTATCGATACAATACTTGG
Found at i:116776 original size:19 final size:18
Alignment explanation
Indices: 116718--116776 Score: 64
Period size: 19 Copynumber: 3.0 Consensus size: 18
116708 TACAAGCCAA
116718 TGTATCGATACAATTTTTTGG
1 TGTATCGATACAA---TTTGG
*
116739 TGTATCGATACATACTTGG
1 TGTATCGATACA-ATTTGG
116758 TGTATCGATACAAGTTTGG
1 TGTATCGATACAA-TTTGG
116777 CTACTGCCAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 1 0.03
19 20 0.59
21 12 0.35
22 1 0.03
ACGTcount: A:0.25, C:0.12, G:0.22, T:0.41
Consensus pattern (18 bp):
TGTATCGATACAATTTGG
Found at i:124620 original size:2 final size:2
Alignment explanation
Indices: 124613--124638 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
124603 GGATGATTTG
124613 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
124639 GAAAGAAAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:129702 original size:28 final size:27
Alignment explanation
Indices: 129648--129704 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 27
129638 TAAGTTTAAA
*
129648 AATGGAGTTGGAGTATCCCCTTGGAAT
1 AATGGAGTTGGAGTATCCCCATGGAAT
*
129675 AATGGGGTTGGAGTTATCCCCGAT-GAAT
1 AATGGAGTTGGAG-TATCCCC-ATGGAAT
129703 AA
1 AA
129705 AATTTTGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
27 12 0.46
28 13 0.50
29 1 0.04
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (27 bp):
AATGGAGTTGGAGTATCCCCATGGAAT
Found at i:133120 original size:31 final size:31
Alignment explanation
Indices: 133082--133192 Score: 150
Period size: 31 Copynumber: 3.5 Consensus size: 31
133072 TTTGGAAAGA
*
133082 AAATGTATCGATACATTTTGGTTTTTGATCC
1 AAATGTATCAATACATTTTGGTTTTTGATCC
* * *
133113 AAATGTATCAATACATTCTGGGTTTTGATCT
1 AAATGTATCAATACATTTTGGTTTTTGATCC
* * *
133144 AAATGTATCGATACATTTTGGGTTTTTAACCC
1 AAATGTATCAATACATTTT-GGTTTTTGATCC
133176 AAATGTATCAATACATT
1 AAATGTATCAATACATT
133193 CTTCAATGTA
Statistics
Matches: 68, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 44 0.65
32 24 0.35
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (31 bp):
AAATGTATCAATACATTTTGGTTTTTGATCC
Found at i:138745 original size:12 final size:12
Alignment explanation
Indices: 138728--138752 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
138718 CCAAAATTAA
138728 TTTTTTCAGGGT
1 TTTTTTCAGGGT
138740 TTTTTTCAGGGT
1 TTTTTTCAGGGT
138752 T
1 T
138753 ATGAAACCCT
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:0.08, C:0.08, G:0.24, T:0.60
Consensus pattern (12 bp):
TTTTTTCAGGGT
Found at i:141478 original size:23 final size:24
Alignment explanation
Indices: 141444--141489 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
141434 GTTTGCTTTG
141444 TTTTTTCCTTTTCTCT-CTTTTTC
1 TTTTTTCCTTTTCTCTCCTTTTTC
*
141467 TTTTTTCTTTTTCTCTCCTTTTT
1 TTTTTTCCTTTTCTCTCCTTTTT
141490 TTACTTGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (24 bp):
TTTTTTCCTTTTCTCTCCTTTTTC
Found at i:141491 original size:21 final size:23
Alignment explanation
Indices: 141439--141491 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
141429 CATGAGTTTG
*
141439 CTTTGTTTTTTCCTTTTCTCTCT
1 CTTTCTTTTTTCCTTTTCTCTCT
* *
141462 TTTTCTTTTTTCTTTTTCTCTC-
1 CTTTCTTTTTTCCTTTTCTCTCT
141484 CTTT-TTTT
1 CTTTCTTTT
141492 ACTTGTTGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 4 0.15
22 3 0.12
23 19 0.73
ACGTcount: A:0.00, C:0.23, G:0.02, T:0.75
Consensus pattern (23 bp):
CTTTCTTTTTTCCTTTTCTCTCT
Found at i:143161 original size:153 final size:149
Alignment explanation
Indices: 142907--143349 Score: 446
Period size: 153 Copynumber: 2.9 Consensus size: 149
142897 AAATACGAAG
* * * * *
142907 TTTTCTACTTCATCAATTTCACCAATAGGATTTTTCTAAGTTTATAATTTTCAAAATTCTTCAAA
1 TTTTCTAATCCATAAATTTCTCCAGTAGGATTTTTCTAA-TTTATAATTTTCAAAATTCTTCAAA
* * *
142972 TATTATCATTTAATTCATAATAAATCAGTTTAGAAAATTTAATTTATTTTATGAATTTTAAAATT
65 TATTAT-TTTTAATTCATATTAAATCAGTTTTGAAAATTTAATTTATTTTATGAATTTTAAAATT
143037 TTACTTGT-TACTAAGATACAAAA
129 TT--TT-TATACTAAGATACAAAA
* * * *
143060 TTTTTTAATCCGTAAATTTCTCCAGTAGAATTTTTCTAATCTTATAATTTTGAAAATTCTTCAAA
1 TTTTCTAATCCATAAATTTCTCCAGTAGGATTTTTCTAAT-TTATAATTTTCAAAATTCTTCAAA
** * ** *
143125 TATTATTGTTTAACCCATATTAATTCAGTTTTGAAAATTTCAATTTATTTTATGAGCTTTAGAAT
65 TATTATT-TTTAATTCATATTAAATCAGTTTTGAAAATTT-AATTTATTTTATGAATTTTAAAAT
* * *
143190 TTTTTTATACTAAGATATAGAG
128 TTTTTTATACTAAGATACAAAA
* * * * *
143212 TTTTCTACTTCATAAATTTCTTCAGTTGGA-TTTTCTCAATTTA-AAGTTTTCAAAATT-TATAA
1 TTTTCTAATCCATAAATTTCTCCAGTAGGATTTTTCT-AATTTATAA-TTTTCAAAATTCT-TCA
* * **
143274 AATA-TATTTATGAAATTCATATTAAATCATTTTATGAAAATTTAATTTATTTTATGAATTTTGT
63 AATATTATTT-T-TAATTCATATTAAATCAGTTT-TGAAAATTTAATTTATTTTATGAATTTTAA
*
143338 ATTTTTTTTATA
125 AATTTTTTTATA
143350 TAACAAATTT
Statistics
Matches: 240, Mismatches: 40, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
149 1 0.00
150 8 0.03
151 70 0.29
152 50 0.21
153 87 0.36
154 24 0.10
ACGTcount: A:0.35, C:0.10, G:0.07, T:0.49
Consensus pattern (149 bp):
TTTTCTAATCCATAAATTTCTCCAGTAGGATTTTTCTAATTTATAATTTTCAAAATTCTTCAAAT
ATTATTTTTAATTCATATTAAATCAGTTTTGAAAATTTAATTTATTTTATGAATTTTAAAATTTT
TTTATACTAAGATACAAAA
Found at i:143698 original size:11 final size:11
Alignment explanation
Indices: 143647--143698 Score: 52
Period size: 12 Copynumber: 4.6 Consensus size: 11
143637 ACATTAAATC
143647 AAAAAATAATGA
1 AAAAAATAAT-A
*
143659 CAAAAA-AATA
1 AAAAAATAATA
*
143669 AAAAAATCATA
1 AAAAAATAATA
143680 AATAAAATAATA
1 AA-AAAATAATA
*
143692 TAAAAAT
1 AAAAAAT
143699 GAAAAAAGCA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 6 0.18
11 13 0.39
12 14 0.42
ACGTcount: A:0.75, C:0.04, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:144505 original size:147 final size:148
Alignment explanation
Indices: 144157--144508 Score: 362
Period size: 148 Copynumber: 2.4 Consensus size: 148
144147 TATTGCAATG
* * * *
144157 TTTTTCAAGTCC-CTTAGGATCA-CCGAGCACTTCTAAGTCGATGGTAAACCTTAGGGATATTTT
1 TTTTTCAAATCCTC-TAGGATCATCAG-GCACTTCTAAGTCGATGGTAAGCCTTAGGGACATTTT
* * * *
144220 AGCATTTTCCTTGAAACCTAGTCCTATAAAACTACCAAGTCCACTTCTAGTCGAAGGTACAAATT
64 AGCATTCTCCTTAAAACCTAGTCCTACAAAACTACCAAGTCCACTTCTAGCCGAAGGTACAAATT
*
144285 ATGAGTAGATTCGCTTTTAC
129 AGGAGTAGATTCGCTTTTAC
* * *
144305 TTTTTCAAATCCTCTAGGATCATCAGGCACTTCTAAGTTGATGAT-AGACCTTAGGGACCTTTTA
1 TTTTTCAAATCCTCTAGGATCATCAGGCACTTCTAAGTCGATGGTAAG-CCTTAGGGACATTTTA
* * * **
144369 GCATTCTCC-TAAAACCTAGTCTTACAAAACTA-CAAGGTCCGCTTCTATGCCTAAGGTATGAAT
65 GCATTCTCCTTAAAACCTAGTCCTACAAAACTACCAA-GTCCACTTCTA-GCCGAAGGTACAAAT
144432 TAGGAGTAGGATT-G-TTTTATC
128 TAGGAGTA-GATTCGCTTTTA-C
* * * * * *
144453 TTTTT-AAGTGCTGTAGG-TCCTCCAGGCACTTCTATGTCGATGGTAAGTCTTAGGGA
1 TTTTTCAAATCCTCTAGGATCAT-CAGGCACTTCTAAGTCGATGGTAAGCCTTAGGGA
144509 TATCCTAGTA
Statistics
Matches: 170, Mismatches: 25, Indels: 19
0.79 0.12 0.09
Matches are distributed among these distances:
146 6 0.04
147 72 0.42
148 85 0.50
149 7 0.04
ACGTcount: A:0.27, C:0.20, G:0.18, T:0.34
Consensus pattern (148 bp):
TTTTTCAAATCCTCTAGGATCATCAGGCACTTCTAAGTCGATGGTAAGCCTTAGGGACATTTTAG
CATTCTCCTTAAAACCTAGTCCTACAAAACTACCAAGTCCACTTCTAGCCGAAGGTACAAATTAG
GAGTAGATTCGCTTTTAC
Found at i:147920 original size:18 final size:17
Alignment explanation
Indices: 147899--147944 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
147889 AATTTCCTTT
147899 AAACAAAAAAAAGGAAAA
1 AAACAAAAAAAA-GAAAA
*
147917 AAAC-AAAAAAATAAAA
1 AAACAAAAAAAAGAAAA
*
147933 AAATAAAAAAAA
1 AAACAAAAAAAA
147945 AAGTGGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.28
17 14 0.56
18 4 0.16
ACGTcount: A:0.87, C:0.04, G:0.04, T:0.04
Consensus pattern (17 bp):
AAACAAAAAAAAGAAAA
Found at i:147924 original size:16 final size:16
Alignment explanation
Indices: 147899--147943 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
147889 AATTTCCTTT
147899 AAACAAAAAAAAGGAAAA
1 AAAC-AAAAAAA-GAAAA
*
147917 AAACAAAAAAATAAAA
1 AAACAAAAAAAGAAAA
*
147933 AAATAAAAAAA
1 AAACAAAAAAA
147944 AAAGTGGAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.56
17 7 0.28
18 4 0.16
ACGTcount: A:0.87, C:0.04, G:0.04, T:0.04
Consensus pattern (16 bp):
AAACAAAAAAAGAAAA
Found at i:148008 original size:17 final size:16
Alignment explanation
Indices: 147969--148008 Score: 62
Period size: 16 Copynumber: 2.4 Consensus size: 16
147959 GAAAAAGTGT
147969 AAATAGAAAAAAGAAAA
1 AAAT-GAAAAAAGAAAA
147986 AAATGAAAAAAGAAAA
1 AAATGAAAAAAGAAAA
148002 AAGATGA
1 AA-ATGA
148009 GGAAACAAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (16 bp):
AAATGAAAAAAGAAAA
Found at i:148290 original size:10 final size:10
Alignment explanation
Indices: 148257--148291 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
148247 GAACATGATG
148257 AAATGAAAAA
1 AAATGAAAAA
* *
148267 AAAAGAGAAA
1 AAATGAAAAA
148277 AAATGAAAAA
1 AAATGAAAAA
148287 AAATG
1 AAATG
148292 GAAGGAATGA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.77, C:0.00, G:0.14, T:0.09
Consensus pattern (10 bp):
AAATGAAAAA
Found at i:149466 original size:20 final size:20
Alignment explanation
Indices: 149429--149482 Score: 90
Period size: 20 Copynumber: 2.6 Consensus size: 20
149419 TTCTATAATT
*
149429 TGTATCGATACAATAAGTTAA
1 TGTATCGATAC-ATAAGTGAA
149450 TGTATCGATACATAAGTGAA
1 TGTATCGATACATAAGTGAA
149470 TGTATCGATACAT
1 TGTATCGATACAT
149483 GTTTGTAATG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
20 21 0.66
21 11 0.34
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
TGTATCGATACATAAGTGAA
Found at i:149566 original size:20 final size:20
Alignment explanation
Indices: 149541--149614 Score: 89
Period size: 20 Copynumber: 3.6 Consensus size: 20
149531 CTGGAAAAAT
*
149541 TGTATCGATACATCCACTTA
1 TGTATCGATACATCCACTAA
149561 TGTATCGATACATCCTAGC-AA
1 TGTATCGATACATCC-A-CTAA
*
149582 TGTATCGATACAT-CACTCAT
1 TGTATCGATACATCCACT-AA
149602 TGTATCGATACAT
1 TGTATCGATACAT
149615 TCTGGATTTT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.02
19 1 0.02
20 30 0.62
21 15 0.31
22 1 0.02
ACGTcount: A:0.31, C:0.23, G:0.12, T:0.34
Consensus pattern (20 bp):
TGTATCGATACATCCACTAA
Found at i:149705 original size:93 final size:93
Alignment explanation
Indices: 149560--149761 Score: 323
Period size: 93 Copynumber: 2.2 Consensus size: 93
149550 ACATCCACTT
* *
149560 ATGTATCGATACATCCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTCTGGATTTT
1 ATGTATCGATACATGCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTATGGATTTT
149625 TGACCCAAATGTATCAATACATTCTTCA
66 TGACCCAAATGTATCAATACATTCTTCA
* * * * * *
149653 ATGTATCGATAAATGCTGGTAATGTATTGATACATCACTCATTGTATTGATACATTATGGGTTTT
1 ATGTATCGATACATGCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTATGGATTTT
*
149718 TGACCCAAATGTATCGATACATTCTTCA
66 TGACCCAAATGTATCAATACATTCTTCA
149746 ATGTATCGATACATGC
1 ATGTATCGATACATGC
149762 AAGCTATTTT
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 99 1.00
ACGTcount: A:0.31, C:0.18, G:0.14, T:0.37
Consensus pattern (93 bp):
ATGTATCGATACATGCTAGCAATGTATCGATACATCACTCATTGTATCGATACATTATGGATTTT
TGACCCAAATGTATCAATACATTCTTCA
Found at i:151348 original size:13 final size:13
Alignment explanation
Indices: 151330--151386 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
151320 TTCAATGATT
151330 TGTATCGATACAA
1 TGTATCGATACAA
151343 TGTATCGATACATAA
1 TGTATCGATAC--AA
151358 GTGTTGTATCGATACAA
1 ----TGTATCGATACAA
*
151375 TGTATAGATACA
1 TGTATCGATACA
151387 TAAGTTTTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 12
0.74 0.02 0.24
Matches are distributed among these distances:
13 22 0.59
15 2 0.05
17 2 0.05
19 11 0.30
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:151367 original size:19 final size:18
Alignment explanation
Indices: 151343--151405 Score: 64
Period size: 19 Copynumber: 3.7 Consensus size: 18
151333 ATCGATACAA
151343 TGTATCGATACATAAGTGT
1 TGTATCGATACATAAGT-T
151362 TGTATCGATAC--AA---
1 TGTATCGATACATAAGTT
*
151375 TGTATAGATACATAAGTTT
1 TGTATCGATACATAAG-TT
151394 TGTATCGATACA
1 TGTATCGATACA
151406 ATGTATCGCT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 10 0.28
15 2 0.06
17 2 0.06
19 22 0.61
ACGTcount: A:0.35, C:0.11, G:0.17, T:0.37
Consensus pattern (18 bp):
TGTATCGATACATAAGTT
Found at i:151370 original size:32 final size:32
Alignment explanation
Indices: 151329--151413 Score: 152
Period size: 32 Copynumber: 2.7 Consensus size: 32
151319 TTTCAATGAT
151329 TTGTATCGATACAATGTATCGATACATAAGTG
1 TTGTATCGATACAATGTATCGATACATAAGTG
* *
151361 TTGTATCGATACAATGTATAGATACATAAGTT
1 TTGTATCGATACAATGTATCGATACATAAGTG
151393 TTGTATCGATACAATGTATCG
1 TTGTATCGATACAATGTATCG
151414 CTACGAAGCT
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 50 1.00
ACGTcount: A:0.34, C:0.12, G:0.18, T:0.36
Consensus pattern (32 bp):
TTGTATCGATACAATGTATCGATACATAAGTG
Found at i:155755 original size:54 final size:50
Alignment explanation
Indices: 155670--155816 Score: 141
Period size: 53 Copynumber: 2.8 Consensus size: 50
155660 AACATCACTC
* * *
155670 CAACCCCTTTTTACTTCTAAAACACCAAATTTTTCATCTCTTAAGAGATACT
1 CAACCCCTTTTTACTTCTAAAATATCGAATTTTTCATCTC-T-AGAGATACT
* * *
155722 CAAACCCCATTTTTACTTCCAAAATATTGAATTTTTTAATCTCTAGAGATACTT
1 C-AACCCC-TTTTTACTTCTAAAATATCGAA-TTTTTCATCTCTAGAGATAC-T
** * *
155776 CAACCTTGTTTTTACTTCTAAAATGTCGTATTTTTCATCTC
1 CAACC-CCTTTTTACTTCTAAAATATCGAATTTTTCATCTC
155817 CGAGGATATC
Statistics
Matches: 77, Mismatches: 13, Indels: 10
0.77 0.13 0.10
Matches are distributed among these distances:
52 11 0.14
53 36 0.47
54 20 0.26
55 10 0.13
ACGTcount: A:0.30, C:0.23, G:0.05, T:0.41
Consensus pattern (50 bp):
CAACCCCTTTTTACTTCTAAAATATCGAATTTTTCATCTCTAGAGATACT
Found at i:157554 original size:37 final size:37
Alignment explanation
Indices: 157472--157544 Score: 105
Period size: 37 Copynumber: 2.0 Consensus size: 37
157462 TGGTTCTCAC
*
157472 CCTAGTC-AACA-CCTTTTCATTCCCATTTGACTATA
1 CCTAGTCAAACATTCTTTTCATTCCCATTTGACTATA
* *
157507 CCTAGTCAAACATTCTTTTCTTTCCCATTTGATTATA
1 CCTAGTCAAACATTCTTTTCATTCCCATTTGACTATA
157544 C
1 C
157545 GCGGTCAAAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
35 7 0.21
36 4 0.12
37 22 0.67
ACGTcount: A:0.25, C:0.29, G:0.05, T:0.41
Consensus pattern (37 bp):
CCTAGTCAAACATTCTTTTCATTCCCATTTGACTATA
Found at i:157643 original size:117 final size:117
Alignment explanation
Indices: 157394--157643 Score: 287
Period size: 117 Copynumber: 2.1 Consensus size: 117
157384 TAACTAACTG
* * * **
157394 AGTCAAA-ATCCTTTTCTTTCCCGTTT-AATAGTACTTGGTCAAACTCTTTTCATTACTATTTGA
1 AGTCAAACATTCTTTTCTTTCCCATTTGATTA-TACGCGGTCAAACTCTTTTCATTACTATTTGA
* *
157457 CGTGATGGTTCTCACCCTAGTCAACACCTTTTCATTCCCATTTGACTATACCT
65 CGGGATGGTTCTCACCCTAGTAAACACCTTTTCATTCCCATTTGACTATACCT
*
157510 AGTCAAACATTCTTTTCTTTCCCATTTGATTATACGCGGTCAAACGT-TTTTCATTACTGTTTGA
1 AGTCAAACATTCTTTTCTTTCCCATTTGATTATACGCGGTCAAAC-TCTTTTCATTACTATTTGA
* * * * *
157574 CGGGATGGTTCTTACCCTGGTTAAACATCTTTTCATT-TCTTGTTCGACTATACCT
65 CGGGATGGTTCTCACCCTAG-TAAACACCTTTTCATTCCCAT-TT-GACTATACCT
*
157629 GGTCAAAC-TT-TTTTC
1 AGTCAAACATTCTTTTC
157644 ATTACTGTTT
Statistics
Matches: 114, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
116 7 0.06
117 68 0.60
118 22 0.19
119 17 0.15
ACGTcount: A:0.22, C:0.24, G:0.12, T:0.42
Consensus pattern (117 bp):
AGTCAAACATTCTTTTCTTTCCCATTTGATTATACGCGGTCAAACTCTTTTCATTACTATTTGAC
GGGATGGTTCTCACCCTAGTAAACACCTTTTCATTCCCATTTGACTATACCT
Found at i:157651 original size:82 final size:80
Alignment explanation
Indices: 157507--157729 Score: 216
Period size: 82 Copynumber: 2.7 Consensus size: 80
157497 TTTGACTATA
* * * * * *
157507 CCTAGTCAAACATTCTTTTCTTTCCCATTTGATTATACGC-GGTCAAACGTTTTTCATTACTGTT
1 CCTAGTCAAACA-TCTTTTC-ATCTCGTTCGACTATAC-CTGGTCAAACTTTTTTCATTACTGTT
* * *
157571 TGACGGGATGGTTCTTAC
63 TAACAGGATGGTTCTCAC
* * *
157589 CCTGGTTAAACATCTTTTCATTTCTTGTTCGACTATACCTGGTCAAACTTTTTTCATTACTGTTT
1 CCTAGTCAAACATCTTTTCA--TCTCGTTCGACTATACCTGGTCAAACTTTTTTCATTACTGTTT
*
157654 AACATGATGGTTCTCAC
64 AACAGGATGGTTCTCAC
* * * * *
157671 CTTAGTCAAACATCTTTTCATCTCGTTTGATTGTACCTGGTTAAACTTCTTTT-ATTACT
1 CCTAGTCAAACATCTTTTCATCTCGTTCGACTATACCTGGTCAAACTT-TTTTCATTACT
157730 CTTTTGAGGT
Statistics
Matches: 116, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
80 29 0.25
81 12 0.10
82 75 0.65
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.44
Consensus pattern (80 bp):
CCTAGTCAAACATCTTTTCATCTCGTTCGACTATACCTGGTCAAACTTTTTTCATTACTGTTTAA
CAGGATGGTTCTCAC
Found at i:160383 original size:16 final size:15
Alignment explanation
Indices: 160354--160394 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
160344 GAAATTTTTG
160354 AAAATAAA-AAAATA
1 AAAATAAATAAAATA
160368 TAAAATAAATAAAATA
1 -AAAATAAATAAAATA
160384 ATAAATAAATA
1 A-AAATAAATA
160395 TTATTTTTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.38
16 15 0.62
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (15 bp):
AAAATAAATAAAATA
Found at i:166090 original size:156 final size:155
Alignment explanation
Indices: 165807--166812 Score: 932
Period size: 155 Copynumber: 6.5 Consensus size: 155
165797 GCTGAGTTTA
* * * *
165807 AAAAAATTACTAAAATGCCCTTAAGGGATAAC-TTCGACGTAAAAGTAT-CTGATACCCCTAAA-
1 AAAAAATTACAAAAATACCCCTAAGGGAT-ACTTTCGACGTAAAAGTATCCCGATACCCCTAAAG
* * * ** *
165869 AGACTTAAAAAGGATTATAAATGGGACAAACCTATCCTAAATACCCACTTTCGGCATAAAAGCGG
65 A-ACTTAAAAAAGACTATAAA-AGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGG
165934 ACCCGGTGATAACCTAGGACTCGATTCT
128 ACCCGGTGATAACCTAGGACTCGATTCT
*** * * * * *
165962 AAAAAATTACCGTAATACCCCTAGGGGATATTTTCGACGTAAAAGT-GCCCGATATCCCTAAATA
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCCGATACCCCTAAAGA
* * * *
166026 ATTTAAAAAAGATTACAAACTAGGATGAACCTATCCTAAATACCCACCTTCGGCATAGAAGCGGA
66 ACTTAAAAAAGACTATAAA--AGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGA
* * *
166091 CCCGGTGATAACCTAAGACTTGACTCT
129 CCCGGTGATAACCTAGGACTCGATTCT
* * * *
166118 AAAAAATTACAAAAATACCCCT-AGGGATAATTTCAATGTAAAAGTAT-CCTAGTACCCCTAAAG
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCCGA-TACCCCTAAA-
* * * *
166181 GAA-TTAAAAAGGACTATAAAAGGGGTGAACCTATCCTAAATATCCACCTTCGGCATAGAAGCGG
64 GAACTTAAAAAAGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGG
* * * *
166245 ACCCGGTGATAACTTAAGACTTGACTCT
128 ACCCGGTGATAACCTAGGACTCGATTCT
* * * * *
166273 AAAAAATTACAAAAATACCCCTAGGGGATACTTTCGATGTAAAAGTATCCTGGTACCCCTAAAGG
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCCGATACCCCTAAAGA
* * * * *
166338 ACTT-AAAAAGGCTATAAAAGGGGTGAACCTATCCTAAATACCTACCTTTGGCATAAAAGTGGAC
66 ACTTAAAAAAGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGAC
** * *
166402 CTAGTGATAACTTAGGACTCGGTTCT
130 CCGGTGATAACCTAGGACTCGATTCT
* * * * *
166428 AGAAAAA-CACAAAAATGCCCCTAAAGGTATACTTTCGACGTGAAAA-TATCCCGGTAACCCTAA
1 A-AAAAATTACAAAAATACCCCT-AAGGGATACTTTCGACGT-AAAAGTATCCCGATACCCCTAA
* *
166491 A-AGA-TGTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAACACCTACCTTCGGCATAAAAG
63 AGA-ACT-TAAAAAAGACTATAAAA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAG
** * * *
166554 CAAACTCGGTGATAACCTAGGACTCGGTTTT
125 CGGACCCGGTGATAACCTAGGACTCGATTCT
** * * * * * *
166585 AAAAAATTATGAAAATATCCCTACAAGTATACCTTCGATGTAAAAGTATCCCAGCA-A-CCTTAA
1 AAAAAATTACAAAAATACCCCTA-AGGGATACTTTCGACGTAAAAGTATCCC-G-ATACCCCTAA
* * * ** * * *
166648 AGGACTT-AAAAAGACAAGAGATGGGATGAACCTATCCTAAATATCTACTTTCGGCATAAAAGCG
63 AGAACTTAAAAAAGACTATA-AAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCG
*
166712 GACCCGGTGACAACCTAGGACTCGATTCT
127 GACCCGGTGATAACCTAGGACTCGATTCT
* * * * *
166741 AAAAAATTACAAAAATGCCCCTAAGGGATACCTTT-GACGTGAAAGTA-CTCAATACTCCTAAA-
1 AAAAAATTACAAAAATACCCCTAAGGGATA-CTTTCGACGTAAAAGTATCCCGATACCCCTAAAG
166803 AGACTTAAAA
65 A-ACTTAAAA
166813 TGATAAGAGA
Statistics
Matches: 705, Mismatches: 116, Indels: 60
0.80 0.13 0.07
Matches are distributed among these distances:
152 1 0.00
153 1 0.00
154 13 0.02
155 284 0.40
156 282 0.40
157 121 0.17
158 3 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (155 bp):
AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCCGATACCCCTAAAGA
ACTTAAAAAAGACTATAAAAGGATGAACCTATCCTAAATACCCACCTTCGGCATAAAAGCGGACC
CGGTGATAACCTAGGACTCGATTCT
Found at i:166243 original size:155 final size:155
Alignment explanation
Indices: 165807--166787 Score: 980
Period size: 156 Copynumber: 6.3 Consensus size: 155
165797 GCTGAGTTTA
* * *
165807 AAAAAATTACTAAAATGCCCTTAAGGGATAAC-TTCGACGTAAAAGTAT-CT-GATACCCCTAAA
1 AAAAAATTACAAAAATACCCCTAAGGGAT-ACTTTCGACGTAAAAGTATCCTAG-TACCCCTAAA
* * * * ** *
165869 AGACTTAAAAAGGATTATAAATGGGACAAACCTATCCTAAATACCCACTTTCGGCATAAAAGCGG
64 GGAATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGG
165934 ACCCGGTGATAACCTAGGACTCGATTCT
128 ACCCGGTGATAACCTAGGACTCGATTCT
*** * * ** * * *
165962 AAAAAATTACCGTAATACCCCTAGGGGATATTTTCGACGTAAAAGTGCCCGA-TATCCCTAAA-T
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
* * * *
166025 AATTTAAAAAAGATTACAAACTA-GGATGAACCTATCCTAAATACCCACCTTCGGCATAGAAGCG
66 AA-TTAAAAAGGACTATAAA--AGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCG
* * *
166089 GACCCGGTGATAACCTAAGACTTGACTCT
127 GACCCGGTGATAACCTAGGACTCGATTCT
* * *
166118 AAAAAATTACAAAAATACCCCT-AGGGATAATTTCAATGTAAAAGTATCCTAGTACCCCTAAAGG
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
* *
166182 AATTAAAAAGGACTATAAAAGGGGTGAACCTATCCTAAATATCCACCTTCGGCATAGAAGCGGAC
66 AATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGAC
* * * *
166247 CCGGTGATAACTTAAGACTTGACTCT
130 CCGGTGATAACCTAGGACTCGATTCT
* * *
166273 AAAAAATTACAAAAATACCCCTAGGGGATACTTTCGATGTAAAAGTATCCTGGTACCCCTAAAGG
1 AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
* * * *
166338 ACTTAAAAAGG-CTATAAAAGGGGTGAACCTATCCTAAATACCTACCTTTGGCATAAAAGTGGAC
66 AATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACC-ACCTTCGGCATAAAAGCGGAC
** * *
166402 CTAGTGATAACTTAGGACTCGGTTCT
130 CCGGTGATAACCTAGGACTCGATTCT
* * * ** *
166428 AGAAAAA-CACAAAAATGCCCCTAAAGGTATACTTTCGACGTGAAAA-TATCCCGGTAACCCTAA
1 A-AAAAATTACAAAAATACCCCT-AAGGGATACTTTCGACGT-AAAAGTATCCTAGTACCCCTAA
* * *
166491 AAG-ATGTAAAAAAGACTATAAAAGGGATGAACCTATCCTAAACACCTACCTTCGGCATAAAAGC
63 AGGAAT-TAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACC-ACCTTCGGCATAAAAGC
** * * *
166555 AAACTCGGTGATAACCTAGGACTCGGTTTT
126 GGACCCGGTGATAACCTAGGACTCGATTCT
** * * * * * * * * *
166585 AAAAAATTATGAAAATATCCCTACAAGTATACCTTCGATGTAAAAGTATCCCAGCAACCTTAAAG
1 AAAAAATTACAAAAATACCCCTA-AGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAG
* * * * * * *
166650 GACTTAAAAA-GACAAGAGATGGGATGAACCTATCCTAAATATCTACTTTCGGCATAAAAGCGGA
65 GAATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATA-CCACCTTCGGCATAAAAGCGGA
*
166714 CCCGGTGACAACCTAGGACTCGATTCT
129 CCCGGTGATAACCTAGGACTCGATTCT
* *
166741 AAAAAATTACAAAAATGCCCCTAAGGGATACCTTT-GACGTGAAAGTA
1 AAAAAATTACAAAAATACCCCTAAGGGATA-CTTTCGACGTAAAAGTA
166788 CTCAATACTC
Statistics
Matches: 693, Mismatches: 111, Indels: 44
0.82 0.13 0.05
Matches are distributed among these distances:
154 5 0.01
155 269 0.39
156 296 0.43
157 122 0.18
158 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.17, T:0.23
Consensus pattern (155 bp):
AAAAAATTACAAAAATACCCCTAAGGGATACTTTCGACGTAAAAGTATCCTAGTACCCCTAAAGG
AATTAAAAAGGACTATAAAAGGGATGAACCTATCCTAAATACCACCTTCGGCATAAAAGCGGACC
CGGTGATAACCTAGGACTCGATTCT
Found at i:168272 original size:14 final size:13
Alignment explanation
Indices: 168253--168303 Score: 52
Period size: 12 Copynumber: 4.0 Consensus size: 13
168243 TTTCATTCTA
168253 TTTTCTCTTTTTTC
1 TTTTCT-TTTTTTC
168267 TTTTCTTTTTTT-
1 TTTTCTTTTTTTC
**
168279 TAATCTTTTTTTC
1 TTTTCTTTTTTTC
*
168292 -TCTCTTTTTTTC
1 TTTTCTTTTTTTC
168304 AGCTCAACCA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
12 20 0.62
13 6 0.19
14 6 0.19
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTTCTTTTTTTC
Found at i:169242 original size:165 final size:162
Alignment explanation
Indices: 168916--169483 Score: 559
Period size: 165 Copynumber: 3.5 Consensus size: 162
168906 GATTTGAAAG
* * * * * * *
168916 AAAAAATTCAAAACTCAAGAAAATGAATGAATTTTTTAAAAAATAATTTAATAAAAATCAAATGA
1 AAAAAATTAAAAACTCATGAAAATGAATGAA-TTTTTGAAAACTAAATTAATAGAAAT-AAATAA
* * * * * *
168981 TGATGTTTGATGAATTGTAAAAATTTAAAACCAAGAAAAATCCCCTC--AAAAAATTACGGAGTT
64 TAATATTTGATGAATT-TAAAAATTAAAAACCAAGAAAAATTCCCTCGAAAAAAATTACAGAGTA
* *
169044 GAAAACACTGTATTTTGAAAAAAAAGAAATTTCAAGA
128 GAAAACACCGTATTTAG-AAAAAAAG-AATTTCAAGA
*
169081 AAAAAATTTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATATGAAATAAATGA
1 AAAAAA-TTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATA-GAAATAAATAA
* * *
169146 TGATATTTGATTAATTTAAAAAATTGAAAACCAAGAAAAATTCCCTCGAAAAAAATTACAGAGTA
64 TAATATTTGATGAATTT-AAAAATTAAAAACCAAGAAAAATTCCCTCGAAAAAAATTACAGAGTA
169211 GAAAACACCGTATTTAGAAAAAAAGAATTTCAAGA
128 GAAAACACCGTATTTAGAAAAAAAGAATTTCAAGA
* * * ** * *
169246 AAAAAAATAAAAACTCATGAAAATTAATTAATTTTTTCAAA-TAATTTAATAGGAATAAATAATA
1 AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATAGAAATAAATAATA
* * ** *
169310 ATATTTGATAAATTTTAAAAATCAAAAACCAAG-AAAATTCTTTTCGAAAAAATTTACAGAGTAA
66 ATATTTGATGAA-TTTAAAAATTAAAAACCAAGAAAAATTC-CCTCGAAAAAAATTACAGAGT-A
* * *
169374 AAAAAAACCGTATTTTAGAAAAAGGAA-AGTTT---GA
128 GAAAACACCGTA-TTTAGAAAAA--AAGAATTTCAAGA
** * *
169408 AGGAAA--AAAAA-TCA--AAAACGAATGAATTTTTGAAAACTGAATTAATATGAAATAAATAAT
1 AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATA-GAAATAAATAAT
*
169468 AATATTCGATGAATTT
65 AATATTTGATGAATTT
169484 TGATGTTTGA
Statistics
Matches: 346, Mismatches: 44, Indels: 33
0.82 0.10 0.08
Matches are distributed among these distances:
157 17 0.05
158 11 0.03
159 25 0.07
160 5 0.01
161 7 0.02
162 60 0.17
163 23 0.07
164 41 0.12
165 91 0.26
166 37 0.11
167 29 0.08
ACGTcount: A:0.54, C:0.08, G:0.10, T:0.28
Consensus pattern (162 bp):
AAAAAATTAAAAACTCATGAAAATGAATGAATTTTTGAAAACTAAATTAATAGAAATAAATAATA
ATATTTGATGAATTTAAAAATTAAAAACCAAGAAAAATTCCCTCGAAAAAAATTACAGAGTAGAA
AACACCGTATTTAGAAAAAAAGAATTTCAAGA
Found at i:171176 original size:143 final size:140
Alignment explanation
Indices: 170842--171193 Score: 372
Period size: 139 Copynumber: 2.5 Consensus size: 140
170832 GTAAATTTTG
* * * * * * *
170842 AAAATCTCATTTCGTACCTTAATGAAAAACTGAAAAGATACGAAAAGTTTTGAAGATTTTTACAC
1 AAAAT-TCATTTCATACCTCAATGGAAAACCGAAAAGATACGACAAGTTTTGAAGATTTCTATAC
* * * * * * * *
170907 TCTTACGAAAAATCACA-G-GAATA-TAGAAATCTTGAAAAATTAAGACAATAATTTTATTTAAT
65 CCCTAAGGAAAA-C-CATGAGACTATTAGAAATCCTAAAAAATTAAGACAATAATTTTATCTAAT
170969 TTTAAATTTCCAA
128 TTTAAATTTCCAA
* * * *
170982 AAAATTCATTTCGTACCTTAATGGAGAACCGAAAAGATACGACAAGTTTTGAAGATTTCTATATC
1 AAAATTCATTTCATACCTCAATGGAAAACCGAAAAGATACGACAAGTTTTGAAGATTTCTATACC
* *
171047 CCTAAGGAAAACCATGAGACTATTAGAAATCCTAAAAAATTAAGATAATAATTTTTATCTGATAT
66 CCTAAGGAAAACCATGAGACTATTAGAAATCCTAAAAAATTAAGACAATAA-TTTTATCTAAT-T
**
171112 TT-AATTTTTAA
129 TTAAATTTCCAA
* *
171123 GAAAATTCATTTTTATACCTCAATGGAAAACCGAAAAGTTACGA-AATGTTTTGAAGATTTCTAT
1 -AAAATTCA-TTTCATACCTCAATGGAAAACCGAAAAGATACGACAA-GTTTTGAAGATTTCTAT
171187 ACCCCTA
63 ACCCCTA
171194 CAAAAGAAAT
Statistics
Matches: 179, Mismatches: 25, Indels: 13
0.82 0.12 0.06
Matches are distributed among these distances:
137 2 0.01
138 2 0.01
139 64 0.36
140 30 0.17
141 16 0.09
142 13 0.07
143 52 0.29
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (140 bp):
AAAATTCATTTCATACCTCAATGGAAAACCGAAAAGATACGACAAGTTTTGAAGATTTCTATACC
CCTAAGGAAAACCATGAGACTATTAGAAATCCTAAAAAATTAAGACAATAATTTTATCTAATTTT
AAATTTCCAA
Found at i:172126 original size:11 final size:11
Alignment explanation
Indices: 172110--172146 Score: 56
Period size: 12 Copynumber: 3.2 Consensus size: 11
172100 TTTGACTTAG
172110 TTTTTCTTTTT
1 TTTTTCTTTTT
172121 TTTTTCTCTTTT
1 TTTTTCT-TTTT
172133 TTCTTTCTTTTT
1 TT-TTTCTTTTT
172145 TT
1 TT
172147 CTCCAAGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
11 7 0.29
12 12 0.50
13 5 0.21
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:172132 original size:13 final size:13
Alignment explanation
Indices: 172110--172146 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
172100 TTTGACTTAG
172110 TTTT-TCTTTTTT
1 TTTTCTCTTTTTT
172122 TTTTCTCTTTTTT
1 TTTTCTCTTTTTT
*
172135 CTTTCT-TTTTTT
1 TTTTCTCTTTTTT
172147 CTCCAAGTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (13 bp):
TTTTCTCTTTTTT
Found at i:172143 original size:21 final size:20
Alignment explanation
Indices: 172110--172149 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
172100 TTTGACTTAG
172110 TTTTTCTTTTTTTTTTCTCT
1 TTTTTCTTTTTTTTTTCTCT
172130 TTTTTCTTTCTTTTTTTCTC
1 TTTTTCTTT-TTTTTTTCTC
172150 CAAGTTTCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.82
Consensus pattern (20 bp):
TTTTTCTTTTTTTTTTCTCT
Found at i:172648 original size:21 final size:20
Alignment explanation
Indices: 172622--172661 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
172612 TTTGTGCAAG
172622 AAAACTAATACAAAAAAATTC
1 AAAACTAATA-AAAAAAATTC
* *
172643 AAAACTCATAAAATAAATT
1 AAAACTAATAAAAAAAATT
172662 GAATTTTCTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.65, C:0.12, G:0.00, T:0.23
Consensus pattern (20 bp):
AAAACTAATAAAAAAAATTC
Found at i:175895 original size:20 final size:20
Alignment explanation
Indices: 175870--175923 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
175860 ATTTACCTGC
175870 ATGTATCGATACATGGAATA
1 ATGTATCGATACATGGAATA
*
175890 ATGTATCGATACATTGAATA
1 ATGTATCGATACATGGAATA
175910 ATGTATCGATACAT
1 ATGTATCGATACAT
175924 CTGGGTAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.39, C:0.11, G:0.17, T:0.33
Consensus pattern (20 bp):
ATGTATCGATACATGGAATA
Found at i:175977 original size:13 final size:13
Alignment explanation
Indices: 175959--175987 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
175949 ATACAAAGAT
175959 CAATGTATCGATA
1 CAATGTATCGATA
175972 CAATGTATCGATA
1 CAATGTATCGATA
175985 CAA
1 CAA
175988 ATTGTTGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.28
Consensus pattern (13 bp):
CAATGTATCGATA
Done.