Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold511
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: 1668812
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
File 1 of 12
Found at i:1680 original size:20 final size:20
Alignment explanation
Indices: 1655--1707 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
1645 TCCCGTAGCC
1655 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
1675 ATGTATCAATACAATTCATA
1 ATGTATCGATACAATTCATA
1695 ATGTATCGATACA
1 ATGTATCGATACA
1708 TTGATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:1786 original size:13 final size:13
Alignment explanation
Indices: 1745--1793 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
1735 CCGTTACAAG
*
1745 CAATGTATTGATA
1 CAATGTATCGATA
1758 CAAT-T-TC-AT-
1 CAATGTATCGATA
1767 C-ATGTATCGATA
1 CAATGTATCGATA
1779 CAATGTATCGATA
1 CAATGTATCGATA
1792 CA
1 CA
1794 TTGTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 3 0.10
12 2 0.07
13 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:1809 original size:33 final size:34
Alignment explanation
Indices: 1745--1814 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
1735 CCGTTACAAG
* *
1745 CAATGTATTGATACAATTTCATCATGTATCGATA
1 CAATGTATCGATACAATTTCACCATGTATCGATA
1779 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCGATACAATT-TCACCATGTATCGATA
1812 CAA
1 CAA
1815 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (34 bp):
CAATGTATCGATACAATTTCACCATGTATCGATA
Found at i:1868 original size:20 final size:19
Alignment explanation
Indices: 1843--1896 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
1833 CTGCTAGTTT
*
1843 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGA-C
*
1863 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
1882 CATGTATCGATACAA
1 CATGTATCGATACAA
1897 AACAGTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:1908 original size:20 final size:20
Alignment explanation
Indices: 1863--1915 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
1853 TACAATTATC
**
1863 CATGTATCGATAC-AATGAG
1 CATGTATCGATACAAAACAG
1882 CATGTATCGATACAAAACAG
1 CATGTATCGATACAAAACAG
*
1902 TATGTATCGATACA
1 CATGTATCGATACA
1916 TCTGGGAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAAAACAG
Found at i:2484 original size:4 final size:4
Alignment explanation
Indices: 2475--2504 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
2465 TTTGAATGCA
2475 AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
2505 ATAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:2933 original size:166 final size:163
Alignment explanation
Indices: 2696--3441 Score: 653
Period size: 166 Copynumber: 4.6 Consensus size: 163
2686 ATGAGAGTTT
** * *
2696 AATAATAATATTAT-ATGAATTTTAAAAATTTTAAACCGAGAAAACTCCCTTTCAAAAAATTTAC
1 AATAATAATATT-TGATGAATTTTAAAAATTAAAAACCGAGAAAAATCCC-TTGAAAAAATTTAC
2760 GGAGTAGAAAACTCAGT-TTCTTGAAAAAGAGGAAAATTTCAAAG-AAAAATACAAAACTCATGA
64 GGAGTAGAAAACTCAGTATT-TTGAAAAA-AGG--AATTTCAAAGAAAAAATACAAAACTCATGA
* * * *
2823 AAATGAATTAATTTTTTTAAAACTGATTTCATATGAGTCA
125 AAATGAATGAA-TTTTTGAAAACTGATTTAATATGAATCA
* * *
2863 AATGATGATATTTGA-GAAATTTTAAAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTATG
1 AATAATAATATTTGATG-AATTTTAAAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTACG
* * * * * * * *
2927 GAGTAGAAAACAT-TGTATTTCGGAAAAAATGAGTTTC-AAGAAAAAATTCAAATATTTATAAAA
65 GAGTAGAAAAC-TCAGTATTT-TGAAAAAAGGAATTTCAAAGAAAAAATACAAA-ACTCATGAAA
* *
2990 ATGAATGAATTTTTGAGAACTGATTTAATATGAATTA
127 ATGAATGAATTTTTGAAAACTGATTTAATATGAATCA
* ** * *
3027 AATAACAATATTTGATGAATTTTAAAAATTAAAAATGGAGAAAAATCCCCCTGAAAACATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCGAGAAAAAT-CCCTTGAAAAAATTTACG
* * *
3092 TAGTAAAAAACTCTA-TATTTTGAAAAAAAAGAATTTCAAAGAAAAAATA-AGAAACTCATGAAA
65 GAGTAGAAAACTC-AGTATTTTG-AAAAAAGGAATTTCAAAGAAAAAATACA-AAACTCATGAAA
* * * *
3155 ATAAATTAATTTTT-TAAA---A---ACTA--AATCA
127 ATGAATGAATTTTTGAAAACTGATTTAATATGAATCA
* * * * * * *
3183 AATGATTATATTTGATAAATTTTAAAAATTGAAAACTGTGAAAAATCGCCTTGAAAAAATTTATG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCGAGAAAAATC-CCTTGAAAAAATTTACG
* * * * * ** * * *
3248 AAGTAGAAAACACTGTATTTTGAGAAAAGGGAGTTTCAGGGAAAAAATTCAAAAATTTATGAAAA
65 GAGTAGAAAACTCAGTATTTTGA-AAAAAGGAATTTCAAAGAAAAAATAC-AAAACTCATGAAAA
* * * * *
3313 TGAATGAATTTTTGAGAACTAATTTAAAATAAATTA
128 TGAATGAATTTTTGAAAACTGATTTAATATGAATCA
* * ** *
3349 AATAATAATATTTGATGAATTTAAAAAATTAAAAATCGAGAAAAATCCCGCCGAAAATATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACCGAGAAAAATCCC-TTGAAAAAATTTACG
*
3414 GAGTAGAAAACTCCGTATTTTGAAAAAA
65 GAGTAGAAAACTCAGTATTTTGAAAAAA
3442 AAGAGATTAA
Statistics
Matches: 459, Mismatches: 91, Indels: 60
0.75 0.15 0.10
Matches are distributed among these distances:
155 2 0.00
156 92 0.20
157 22 0.05
158 6 0.01
161 2 0.00
163 3 0.01
164 83 0.18
165 83 0.18
166 117 0.25
167 49 0.11
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (163 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTACGG
AGTAGAAAACTCAGTATTTTGAAAAAAGGAATTTCAAAGAAAAAATACAAAACTCATGAAAATGA
ATGAATTTTTGAAAACTGATTTAATATGAATCA
Found at i:3350 original size:322 final size:323
Alignment explanation
Indices: 2696--3445 Score: 955
Period size: 322 Copynumber: 2.3 Consensus size: 323
2686 ATGAGAGTTT
** * * ** *
2696 AATAATAATATTAT-ATGAATTTTAAAAATTTTAAACCGAGAAAACTCCCTTTCAAAAAATTTAC
1 AATAATAATATT-TGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCCCCTGAAAAAATTTAC
2760 GGAGTAGAAAACTCAGT-TTCTTGAAAAAGAGGAA-AATTTCAAAGAAAAATACAAAACTCATGA
65 GGAGTAGAAAACTCA-TATT-TTGAAAAA-A--AAGAATTTCAAAGAAAAATACAAAACTCATGA
* *
2823 AAATGAATTAATTTTTTTAAAACTGATTTCATATGAGTCAAATGATGATATTTGAGAAATTTTAA
125 AAATAAATTAATTTTTTTAAAAC--A--TCATA-GAATCAAATGATGATATTTGAGAAATTTTAA
* *
2888 AAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTATGGAGTAGAAAACATTGTATTTCGGAAA
185 AAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTCGGAAA
* * *
2953 AAATGAGTTTCAAGAAAAAATTCAAATATTTATAAAAATGAATGAATTTTTGAGAACTGATTTAA
250 AAAGGAGTTTCAAGAAAAAATTCAAAAATTTATAAAAATGAATGAATTTTTGAGAACTAATTTAA
* *
3018 TATGAATTA
315 AATAAATTA
* * *
3027 AATAACAATATTTGATGAATTTTAAAAATTAAAAATGGAGAAAAATCCCCCTGAAAACATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCCCCTGAAAAAATTTACG
* *
3092 TAGTAAAAAACTCTATATTTTGAAAAAAAAGAATTTCAAAGAAAAAATA-AGAAACTCATGAAAA
66 GAGTAGAAAACTC-ATATTTTGAAAAAAAAGAATTTCAAAG-AAAAATACA-AAACTCATGAAAA
* * *
3156 TAAATTAA-TTTTTTAAAA-A-C-TA-AATCAAATGATTATATTTGATAAATTTTAAAAATTGAA
128 TAAATTAATTTTTTTAAAACATCATAGAATCAAATGATGATATTTGAGAAATTTTAAAAATTAAA
* * * *
3216 AACTGTGAAAAATCGCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTT-TGAGAAAAGGGA
193 AACCGAGAAAAATC-CCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTCGGA-AAAAAGGA
* *
3280 GTTTCAGGGAAAAAATTCAAAAATTTATGAAAATGAATGAATTTTTGAGAACTAATTTAAAATAA
256 GTTTCA-AGAAAAAATTCAAAAATTTATAAAAATGAATGAATTTTTGAGAACTAATTTAAAATAA
3345 ATTA
320 ATTA
* *
3349 AATAATAATATTTGATGAATTTAAAAAATTAAAAATCGAGAAAAATCCCGCC-GAAAATATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCC-CCTGAAAAAATTTAC
*
3413 GGAGTAGAAAACTCCGTATTTTGAAAAAAAAGA
65 GGAGTAGAAAACT-CATATTTTGAAAAAAAAGA
3446 GATTAACAGT
Statistics
Matches: 371, Mismatches: 37, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
320 48 0.13
321 47 0.13
322 143 0.39
323 4 0.01
326 1 0.00
328 2 0.01
329 21 0.06
330 29 0.08
331 73 0.20
332 3 0.01
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (323 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCCCCTGAAAAAATTTACG
GAGTAGAAAACTCATATTTTGAAAAAAAAGAATTTCAAAGAAAAATACAAAACTCATGAAAATAA
ATTAATTTTTTTAAAACATCATAGAATCAAATGATGATATTTGAGAAATTTTAAAAATTAAAAAC
CGAGAAAAATCCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTCGGAAAAAAGGAGTTTC
AAGAAAAAATTCAAAAATTTATAAAAATGAATGAATTTTTGAGAACTAATTTAAAATAAATTA
Found at i:3818 original size:20 final size:20
Alignment explanation
Indices: 3793--3845 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
3783 TCCCGTAGCC
3793 ATGTATCGATACAATTCATA
1 ATGTATCGATACAATTCATA
*
3813 ATGTATCAATACAATTCATA
1 ATGTATCGATACAATTCATA
3833 ATGTATCGATACA
1 ATGTATCGATACA
3846 TTGATTTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (20 bp):
ATGTATCGATACAATTCATA
Found at i:3924 original size:13 final size:13
Alignment explanation
Indices: 3883--3931 Score: 54
Period size: 13 Copynumber: 4.2 Consensus size: 13
3873 CCGTTACAAG
*
3883 CAATGTATTGATA
1 CAATGTATCGATA
3896 CAAT-T-TC-AT-
1 CAATGTATCGATA
3905 C-ATGTATCGATA
1 CAATGTATCGATA
3917 CAATGTATCGATA
1 CAATGTATCGATA
3930 CA
1 CA
3932 TTGTCCCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 10
0.73 0.02 0.24
Matches are distributed among these distances:
8 2 0.07
9 2 0.07
10 4 0.13
11 3 0.10
12 2 0.07
13 17 0.57
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (13 bp):
CAATGTATCGATA
Found at i:3947 original size:33 final size:34
Alignment explanation
Indices: 3883--3952 Score: 99
Period size: 33 Copynumber: 2.1 Consensus size: 34
3873 CCGTTACAAG
* *
3883 CAATGTATTGATACAATTTCATCATGTATCGATA
1 CAATGTATCGATACAATTTCACCATGTATCGATA
3917 CAATGTATCGATAC-ATTGTC-CCATGTATCGATA
1 CAATGTATCGATACAATT-TCACCATGTATCGATA
3950 CAA
1 CAA
3953 ATAGTGATAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
33 18 0.55
34 15 0.45
ACGTcount: A:0.34, C:0.19, G:0.13, T:0.34
Consensus pattern (34 bp):
CAATGTATCGATACAATTTCACCATGTATCGATA
Found at i:4006 original size:20 final size:19
Alignment explanation
Indices: 3981--4034 Score: 81
Period size: 20 Copynumber: 2.8 Consensus size: 19
3971 CTGCTAGTTT
*
3981 CATGTATCGATACAATTATC
1 CATGTATCGATACAATGA-C
*
4001 CATGTATCGATACAATGAG
1 CATGTATCGATACAATGAC
4020 CATGTATCGATACAA
1 CATGTATCGATACAA
4035 AACAGTATGT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 15 0.47
20 17 0.53
ACGTcount: A:0.37, C:0.19, G:0.15, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAC
Found at i:4046 original size:20 final size:20
Alignment explanation
Indices: 4001--4053 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
3991 TACAATTATC
**
4001 CATGTATCGATAC-AATGAG
1 CATGTATCGATACAAAACAG
4020 CATGTATCGATACAAAACAG
1 CATGTATCGATACAAAACAG
*
4040 TATGTATCGATACA
1 CATGTATCGATACA
4054 TCTGGGAGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 13 0.43
20 17 0.57
ACGTcount: A:0.40, C:0.17, G:0.17, T:0.26
Consensus pattern (20 bp):
CATGTATCGATACAAAACAG
Found at i:4621 original size:4 final size:4
Alignment explanation
Indices: 4612--4641 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
4602 TTTGAATGCA
4612 AAAT AAAT AAAT AAAT AAAT AAAT -AAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAA
4642 ATAATTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 3 0.12
4 22 0.88
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:5070 original size:166 final size:164
Alignment explanation
Indices: 4792--5700 Score: 764
Period size: 166 Copynumber: 5.5 Consensus size: 164
4782 AAAATTTTAA
* * * * * *
4792 AAAATAAATTGAATTTTTCAAAACTAAATTAATGA-GAGTTTAATAATAATATTAT-ATGAATTT
1 AAAATGAATT-AATTTTTGAAAACTGATTTAAT-ATGAATTAAATAATAATATT-TGATGAATTT
** * *
4855 TAAAAATTTTAAACCGAGAAAACTCCCTTTCAAAAAATTTACGGAGTAGAAAACTCAGT-TTCTT
63 TAAAAATTAAAAACCGAGAAAAATCCC-TTGAAAAAATTTACGGAGTAGAAAACTCAGTATT-TT
4919 GAAAAAGAGGAAAATTTCAAAG-AAAAATACAAAACTCATG
126 GAAAAA-AGG-AAATTTCAAAGAAAAAATACAAAACTCATG
* * * * * *
4959 AAAATGAATTAATTTTTTTAAAACTGATTTCATATGAGTCAAATGATGATATTTGA-GAAATTTT
1 AAAATGAATTAA-TTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATG-AATTTT
* * *
5023 AAAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTATGGAGTAGAAAACAT-TGTATTTCGG
64 AAAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTACGGAGTAGAAAAC-TCAGTATTT-TG
* * * * * *
5087 AAAAAATG-AGTTTC-AAGAAAAAATTCAAATATTTATA
127 AAAAAAGGAAATTTCAAAGAAAAAATACAAA-ACTCATG
* * *
5124 AAAATGAATGAATTTTTGAGAACTGATTTAATATGAATTAAATAACAATATTTGATGAATTTTAA
1 AAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
** * * * *
5189 AAATTAAAAATGGAGAAAAATCCCCCTGAAAACATTTACGTAGTAAAAAACTCTA-TATTTTGAA
66 AAATTAAAAACCGAGAAAAAT-CCCTTGAAAAAATTTACGGAGTAGAAAACTC-AGTATTTTGAA
*
5253 AAAA-AAGAATTTCAAAGAAAAAATA-AGAAACTCATG
129 AAAAGGA-AATTTCAAAGAAAAAATACA-AAACTCATG
* * * * * * *
5289 AAAATAAATTAATTTTT-TAAA---A---ACTA--AATCAAATGATTATATTTGATAAATTTTAA
1 AAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* * * * * * * *
5345 AAATTGAAAACTGTGAAAAATCGCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTTGAGA
66 AAATTAAAAACCGAGAAAAATC-CCTTGAAAAAATTTACGGAGTAGAAAACTCAGTATTTTGAAA
* * ** * * *
5410 AAAGGGAGTTTCAGGGAAAAAATTCAAAAATTTATG
130 AAAGGAAATTTCAAAGAAAAAATAC-AAAACTCATG
* * * * * *
5446 AAAATGAATGAATTTTTGAGAACTAATTTAAAATAAATTAAATAATAATATTTGATGAATTTAAA
1 AAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
* ** * *
5511 AAATTAAAAATCGAGAAAAATCCCGCCGAAAATATTTACGGAGTAGAAAACTCCGTATTTTGAAA
66 AAATTAAAAACCGAGAAAAATCCC-TTGAAAAAATTTACGGAGTAGAAAACTCAGTATTTTG-AA
* *
5576 AAAAAGAGAATTTCAAGGAAAAAA-ATCAAAAACTCATG
129 AAAAGGA-AATTTCAAAGAAAAAATA-C-AAAACTCATG
* * *
5614 AAAATG-GTTGAATTTTTGCAAACTGATTTAATATGAATTAAATCATAATATTTGATGAATTTTA
1 AAAATGAATT-AATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTA
* * *
5678 AAAATTAGAAACCAAGAGAAATC
65 AAAATTAAAAACCGAGAAAAATC
5701 GTCGCAAAAA
Statistics
Matches: 587, Mismatches: 119, Indels: 71
0.76 0.15 0.09
Matches are distributed among these distances:
155 1 0.00
156 92 0.16
157 22 0.04
158 6 0.01
161 2 0.00
163 3 0.01
164 89 0.15
165 72 0.12
166 119 0.20
167 85 0.14
168 96 0.16
ACGTcount: A:0.49, C:0.08, G:0.12, T:0.30
Consensus pattern (164 bp):
AAAATGAATTAATTTTTGAAAACTGATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
AAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTACGGAGTAGAAAACTCAGTATTTTGAAAA
AAGGAAATTTCAAAGAAAAAATACAAAACTCATG
Found at i:5487 original size:322 final size:323
Alignment explanation
Indices: 4833--5618 Score: 982
Period size: 322 Copynumber: 2.4 Consensus size: 323
4823 ATGAGAGTTT
** * * ** *
4833 AATAATAATATTAT-ATGAATTTTAAAAATTTTAAACCGAGAAAACTCCCTTTCAAAAAATTTAC
1 AATAATAATATT-TGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCCCCTGAAAAAATTTAC
4897 GGAGTAGAAAACTCAGT-TTCTTGAAAAAGAGGAA-AATTTCAAAG-AAAAATACAAAACTCATG
65 GGAGTAGAAAACTCA-TATT-TTGAAAAA-A--AAGAATTTCAAAGAAAAAATA-AAAACTCATG
* *
4959 AAAATGAATTAATTTTTTTAAAACTGATTTCATATGAGTCAAATGATGATATTTGAGAAATTTTA
124 AAAATAAATTAATTTTTTTAAAAC--A--TCATA-GAATCAAATGATGATATTTGAGAAATTTTA
* *
5024 AAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTATGGAGTAGAAAACATTGTATTTCGGAA
184 AAAATTAAAAACCGAGAAAAATCCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTCGGAA
* * *
5089 AAAATGAGTTTCAAGAAAAAATTCAAATATTTATAAAAATGAATGAATTTTTGAGAACTGATTTA
249 AAAAGGAGTTTCAAGAAAAAATTCAAAAATTTATAAAAATGAATGAATTTTTGAGAACTAATTTA
* *
5154 ATATGAATTA
314 AAATAAATTA
* * *
5164 AATAACAATATTTGATGAATTTTAAAAATTAAAAATGGAGAAAAATCCCCCTGAAAACATTTACG
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCCCCTGAAAAAATTTACG
* *
5229 TAGTAAAAAACTCTATATTTTGAAAAAAAAGAATTTCAAAGAAAAAATAAGAAACTCATGAAAAT
66 GAGTAGAAAACTC-ATATTTTGAAAAAAAAGAATTTCAAAGAAAAAATAA-AAACTCATGAAAAT
* * *
5294 AAATTAA-TTTTTTAAAA-A-C-TA-AATCAAATGATTATATTTGATAAATTTTAAAAATTGAAA
129 AAATTAATTTTTTTAAAACATCATAGAATCAAATGATGATATTTGAGAAATTTTAAAAATTAAAA
* * * *
5354 ACTGTGAAAAATCGCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTT-TGAGAAAAGGGAG
194 ACCGAGAAAAATC-CCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTCGGA-AAAAAGGAG
* *
5418 TTTCAGGGAAAAAATTCAAAAATTTATGAAAATGAATGAATTTTTGAGAACTAATTTAAAATAAA
257 TTTCA-AGAAAAAATTCAAAAATTTATAAAAATGAATGAATTTTTGAGAACTAATTTAAAATAAA
5483 TTA
321 TTA
* *
5486 AATAATAATATTTGATGAATTTAAAAAATTAAAAATCGAGAAAAATCCCGCC-GAAAATATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCC-CCTGAAAAAATTTAC
* *
5550 GGAGTAGAAAACTCCGTATTTTGAAAAAAAAGAGAATTTCAAGGAAAAAAATCAAAAACTCATGA
65 GGAGTAGAAAACT-CATATTTTG-AAAAAAA-AGAATTTCAAAG-AAAAAAT-AAAAACTCATGA
5615 AAAT
125 AAAT
5619 GGTTGAATTT
Statistics
Matches: 402, Mismatches: 38, Indels: 36
0.84 0.08 0.08
Matches are distributed among these distances:
320 48 0.12
321 47 0.12
322 133 0.33
323 11 0.03
324 11 0.03
325 21 0.05
326 3 0.01
328 2 0.00
329 21 0.05
330 29 0.07
331 73 0.18
332 3 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.30
Consensus pattern (323 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAATCGAGAAAAATCCCCCTGAAAAAATTTACG
GAGTAGAAAACTCATATTTTGAAAAAAAAGAATTTCAAAGAAAAAATAAAAACTCATGAAAATAA
ATTAATTTTTTTAAAACATCATAGAATCAAATGATGATATTTGAGAAATTTTAAAAATTAAAAAC
CGAGAAAAATCCCTTGAAAAAATTTATGAAGTAGAAAACACTGTATTTCGGAAAAAAGGAGTTTC
AAGAAAAAATTCAAAAATTTATAAAAATGAATGAATTTTTGAGAACTAATTTAAAATAAATTA
Found at i:5617 original size:168 final size:165
Alignment explanation
Indices: 5308--5689 Score: 437
Period size: 168 Copynumber: 2.3 Consensus size: 165
5298 TAATTTTTTA
* * * * * *
5308 AAAACTAAATCAAATGATTATATTTGATAAATTTTAAAAATTGAAAACTGTGAAAAATCGCCTTG
1 AAAA-TAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTGAGAAAAATCGCC-TG
* * * * * * *
5373 AAAAAATTTATGAAGTAGAAAACACTGTATTTTGAGAAAAGGGAGTTTCAGGGAAAAAATTCAAA
64 AAAAAATTTACGAAGTAGAAAACACCGTATTTTGAAAAAAGAGAATTTCAAGGAAAAAAATCAAA
* *
5438 AATTTATGAAAATGAATGAATTTTTG-AGAACTAATTT
129 AACTCATGAAAATGAATGAATTTTTGCA-AACTAATTT
*
5475 AAAATAAATTAAATAATAATATTTGATGAATTTAAAAAATTAAAAA-TCGAGAAAAATCCCGCC-
1 AAAATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACT-GAGAAAAAT--CGCCT
* * *
5538 GAAAATATTTACGGAGTAGAAAACTCCGTATTTTGAAAAAAAAGAGAATTTCAAGGAAAAAAATC
63 GAAAAAATTTACGAAGTAGAAAACACCGTATTTTG--AAAAAAGAGAATTTCAAGGAAAAAAATC
** *
5603 AAAAACTCATGAAAATGGTTGAATTTTTGCAAACTGATTT
126 AAAAACTCATGAAAATGAATGAATTTTTGCAAACTAATTT
* * * *
5643 AATATGAATTAAATCATAATATTTGATGAATTTTAAAAATTAGAAAC
1 AAAATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAAC
5690 CAAGAGAAAT
Statistics
Matches: 181, Mismatches: 27, Indels: 12
0.82 0.12 0.05
Matches are distributed among these distances:
165 1 0.01
166 74 0.41
167 4 0.02
168 101 0.56
169 1 0.01
ACGTcount: A:0.49, C:0.08, G:0.13, T:0.30
Consensus pattern (165 bp):
AAAATAAATTAAATAATAATATTTGATGAATTTTAAAAATTAAAAACTGAGAAAAATCGCCTGAA
AAAATTTACGAAGTAGAAAACACCGTATTTTGAAAAAAGAGAATTTCAAGGAAAAAAATCAAAAA
CTCATGAAAATGAATGAATTTTTGCAAACTAATTT
Found at i:7183 original size:44 final size:43
Alignment explanation
Indices: 7135--7725 Score: 426
Period size: 44 Copynumber: 13.7 Consensus size: 43
7125 AATACAAATT
* * *
7135 ATTTGACCAAGGTGGTAACCATATGTCAAA-CAAAAAGAAAGTAG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAA--AG
* * *
7179 ATTTGACCAGGGTGGTAACCATATGTCAAATTAGAATGAAAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG
* * * * *
7222 AATTTGACCAGGGTGGCAACTATACATCAGAT-AGAAAGGAAAAG
1 -ATTTGACCAGGGTGGTAACCATACGTCAAATCA-AAATGAAAAG
* *
7266 ATTTGACTAGGGTGGTAACCATACGTTAAATCAAAATGAAAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG
* * * * * * *
7309 AATCTGACTAGGGTGGTAACCATACATCAAACCTGAAACGAGAAG
1 -ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAG
* * *
7354 AGTTTAACTAGGGTGGTAACCATACGTCAAA-CAAAAAAGAAAAG
1 A-TTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAG
7398 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG
* * * * * *
7441 AATCTGACTAGGGTGGTAGCCATACGTCAGACCTGAAATGAGAATAG
1 -ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGA-AA-AG
* *
7488 -TTTGACCAGTGTGGTAACCATACGTCAAATCAAAATGAAAGG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG
* * * * * * *
7530 AATCTGACTAGGATGGTAACCATATGTCAGACCTAAAATGAGAAG
1 -ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAG
* * * *
7575 AGTTTGACTA--G-GGT---CA-A-ATCAGGATGAAAA-G----G
1 A-TTTGACCAGGGTGGTAACCATACGTCA-AATCAAAATGAAAAG
* * * * *
7607 GTATGACCAGGGTGATAACCATACGTCAGAT-AGAAAGGAAAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCA-AAATGAAAAG
* * *
7650 ATTTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAG
1 ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAG
*
7694 AGTTTGACCAGGGTGGTAACCATACGTTAAAT
1 A-TTTGACCAGGGTGGTAACCATACGTCAAAT
7726 AGAAAGGAAA
Statistics
Matches: 436, Mismatches: 77, Indels: 67
0.75 0.13 0.12
Matches are distributed among these distances:
31 6 0.01
32 1 0.00
33 1 0.00
34 2 0.00
36 1 0.00
37 10 0.02
38 10 0.02
39 6 0.01
42 4 0.01
43 104 0.24
44 171 0.39
45 116 0.27
46 2 0.00
47 2 0.00
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (43 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG
Found at i:7413 original size:132 final size:132
Alignment explanation
Indices: 7135--7720 Score: 501
Period size: 132 Copynumber: 4.5 Consensus size: 132
7125 AATACAAATT
* * * * *
7135 ATTTGACCAAGGTGGTAACCATATGTCAAA-CAAAAAG-AAAGTAGATTTGACCAGGGTGGTAAC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG-A-ATCTGACTAGGGTGGTAAC
* * * * * * * * * * *
7198 CATATGTCAAA--TTAGAATGAAAAGAATTTGACCAGGGTGGCAACTATACATCAGATAGAAAGG
64 CATACGTCAAACCTGA-AATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAAAAAAG
7261 AAAAG
128 AAAAG
* *
7266 ATTTGACTAGGGTGGTAACCATACGTTAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
* * * *
7331 TACATCAAACCTGAAACGAGAAGAGTTTAACTAGGGTGGTAACCATACGTCAAACAAAAAAGAAA
66 TACGTCAAACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAAAAAAGAAA
7396 AG
131 AG
*
7398 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAGCCA
1 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
* * * *
7463 TACGTCAGACCTGAAATGAGAATAGTTTGACCAGTGTGGTAACCATACGTCAAATC-AAAATGAA
66 TACGTCAAACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAA-CAAAAAAGAA
*
7527 AGG
130 AAG
* * * * * * * * *
7530 AATCTGACTAGGATGGTAACCATATGTCAGACCTAAAATGAGAAGAGTTTGACTA--G-GGT---
1 -ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAGAATCTGACTAGGGTGGTAAC
* * * * * * * *
7589 CA-A-ATCAGGA--TGAAA--AG--G-GTATGACCAGGGTGATAACCATACGTCAGATAGAAAGG
64 CATACGTCA-AACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAAAAAAG
7645 AAAAG
128 AAAAG
* * * * * *
7650 ATTTGACCAGGGTGGTAACCATACGTCAGACCTAAAATGAGAAGAGTTTGACCAGGGTGGTAACC
1 ATTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAGAATCTGACTAGGGTGGTAACC
7715 ATACGT
65 ATACGT
7721 TAAATAGAAA
Statistics
Matches: 379, Mismatches: 59, Indels: 38
0.80 0.12 0.08
Matches are distributed among these distances:
119 49 0.13
120 34 0.09
121 1 0.00
122 3 0.01
123 2 0.01
125 7 0.02
126 4 0.01
127 4 0.01
128 2 0.01
131 55 0.15
132 167 0.44
133 33 0.09
134 18 0.05
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.21
Consensus pattern (132 bp):
ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
TACGTCAAACCTGAAATGAGAAGAGTTTGACCAGGGTGGTAACCATACGTCAAACAAAAAAGAAA
AG
Found at i:7553 original size:89 final size:88
Alignment explanation
Indices: 7136--7588 Score: 384
Period size: 89 Copynumber: 5.1 Consensus size: 88
7126 ATACAAATTA
* * * * *
7136 TTTGACCAAGGTGGTAACCATATGTCAAA-CAAAAAG-AAAGTAGATTTGACCAGGGTGGTAACC
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAG-A-ATCTGACTAGGGTGGTAACC
* ** *
7199 ATATGTCA-AATTAGAATGA-AAAGAA
64 ATACGTCAGACCTA-AATGAGAAA-AG
* * * * * *
7224 TTTGACCAGGGTGGCAACTATACATCAGAT-AGAAAGGAAAAG-ATTTGACTAGGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAATCA-AAATGAAAAGAATCTGACTAGGGTGGTAACCA
* * * * *
7287 TACGTTAAATCAAAATGA-AAAGAA
65 TACGTCAGACCTAAATGAGAAA-AG
* * * * * * * * * *
7311 TCTGACTAGGGTGGTAACCATACATCAAACCTGAAACGAGAAGAGTTTAACTAGGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAATC-AAAATGAAAAGAATCTGACTAGGGTGGTAACCA
* **
7376 TACGTCA-AAC-AAAAAAGAAAAG
65 TACGTCAGACCTAAATGAGAAAAG
*
7398 ATTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAGCCA
1 -TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCA
*
7463 TACGTCAGACCTGAAATGAGAATAG
65 TACGTCAGACCT-AAATGAGAAAAG
* * *
7488 TTTGACCAGTGTGGTAACCATACGTCAAATCAAAATGAAAGGAATCTGACTAGGATGGTAACCAT
1 TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCAT
* *
7553 ATGTCAGACCTAAAATGAGAAGAG
66 ACGTCAGACCT-AAATGAGAAAAG
*
7577 TTTGACTAGGGT
1 TTTGACCAGGGT
7589 CAAATCAGGA
Statistics
Matches: 300, Mismatches: 53, Indels: 23
0.80 0.14 0.06
Matches are distributed among these distances:
87 98 0.33
88 68 0.23
89 121 0.40
90 13 0.04
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (88 bp):
TTTGACCAGGGTGGTAACCATACGTCAAATCAAAATGAAAAGAATCTGACTAGGGTGGTAACCAT
ACGTCAGACCTAAATGAGAAAAG
Found at i:7671 original size:43 final size:44
Alignment explanation
Indices: 7600--7736 Score: 179
Period size: 43 Copynumber: 3.1 Consensus size: 44
7590 AAATCAGGAT
* * *
7600 GAAAAGGGTATGACCAGGGTGATAACCATACGTCAGATAGAAAG
1 GAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAGATAGAAAG
*
7644 GAAAAGA-TTTGACCAGGGTGGTAACCATACGTCAGACCTA-AAAT
1 GAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAGA--TAGAAAG
* * *
7688 GAGAAGAGTTTGACCAGGGTGGTAACCATACGTTAAATAGAAAG
1 GAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAGATAGAAAG
7732 GAAAA
1 GAAAA
7737 AACACTTGGC
Statistics
Matches: 80, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
43 29 0.36
44 22 0.28
45 29 0.36
ACGTcount: A:0.41, C:0.14, G:0.27, T:0.18
Consensus pattern (44 bp):
GAAAAGAGTTTGACCAGGGTGGTAACCATACGTCAGATAGAAAG
Found at i:7707 original size:119 final size:120
Alignment explanation
Indices: 7490--7707 Score: 323
Period size: 119 Copynumber: 1.8 Consensus size: 120
7480 GAGAATAGTT
* * * * * *
7490 TGACCAGTGTGGTAACCATACGTCAAATCAAAATGAAAGGAATCTGACTAGGATGGTAACCATAT
1 TGACCAGGGTGATAACCATACGTCAAATCAAAAGGAAAAGAATCTGACCAGGATGGTAACCATAC
*
7555 GTCAGACCTAAAATGAGAAGAGTTTGACTAGGGTCAAATCAGGATGAAAAGGGTA
66 GTCAGACCTAAAATGAGAAGAGTTTGACCAGGGTCAAATCAGGATGAAAAGGGTA
* * *
7610 TGACCAGGGTGATAACCATACGTCAGAT-AGAAAGGAAAAG-ATTTGACCAGGGTGGTAACCATA
1 TGACCAGGGTGATAACCATACGTCAAATCA-AAAGGAAAAGAATCTGACCAGGATGGTAACCATA
7673 CGTCAGACCTAAAATGAGAAGAGTTTGACCAGGGT
65 CGTCAGACCTAAAATGAGAAGAGTTTGACCAGGGT
7708 GGTAACCATA
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 54 0.62
120 33 0.38
ACGTcount: A:0.38, C:0.15, G:0.26, T:0.21
Consensus pattern (120 bp):
TGACCAGGGTGATAACCATACGTCAAATCAAAAGGAAAAGAATCTGACCAGGATGGTAACCATAC
GTCAGACCTAAAATGAGAAGAGTTTGACCAGGGTCAAATCAGGATGAAAAGGGTA
Found at i:7710 original size:45 final size:43
Alignment explanation
Indices: 7610--7736 Score: 175
Period size: 45 Copynumber: 2.9 Consensus size: 43
7600 GAAAAGGGTA
*
7610 TGACCAGGGTGATAACCATACGTCAGATAGAAAGGAAAAGATT
1 TGACCAGGGTGGTAACCATACGTCAGATAGAAAGGAAAAGATT
* *
7653 TGACCAGGGTGGTAACCATACGTCAGACCTA-AAATGAGAAGAGTT
1 TGACCAGGGTGGTAACCATACGTCAGA--TAGAAAGGAAAAGA-TT
* *
7698 TGACCAGGGTGGTAACCATACGTTAAATAGAAAGGAAAA
1 TGACCAGGGTGGTAACCATACGTCAGATAGAAAGGAAAA
7737 AACACTTGGC
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
43 28 0.38
44 16 0.22
45 29 0.40
ACGTcount: A:0.40, C:0.15, G:0.26, T:0.19
Consensus pattern (43 bp):
TGACCAGGGTGGTAACCATACGTCAGATAGAAAGGAAAAGATT
Found at i:16236 original size:247 final size:247
Alignment explanation
Indices: 15790--16291 Score: 860
Period size: 247 Copynumber: 2.0 Consensus size: 247
15780 TTTTTGGGAT
* * *
15790 TGCCTTTTGAGTTAGTTTCTTTGGGCACTGCTTCGGGGTCGATAATAATAACAGGTGGAGGGGCT
1 TGCCTCTTGAGTTAGTTTCTTTGGGCACTGCTTCAGGGTCGATAATAATAACAGGTGGAGAGGCT
*
15855 GGTACTTTTGGCTATACACTCTAGGCAAGTGCTAGGGGTGTACTGGTGTTTGGTTTCTCCACCGA
66 GGTACTTTTGGCTATACACTCTAGGCAAGCGCTAGGGGTGTACTGGTGTTTGGTTTCTCCACCGA
* * *
15920 TGGCCCCGTGATCCACCAGCAGGAGCACCAATATTTTTATTATGTTGGCCTTGGTGAGCTGGTGT
131 TGGCCCCCTGATCCACCAGCAGGAGCACCAATATTTTTATTATCTTGGCCTTGGCGAGCTGGTGT
*
15985 TCTGGCTAATAATAATTCCATCATTTGGGCAATCTAAGCTTGTAGCTCATCC
196 TCTGGCTAATAATAATTCCATCATTTGGGCAATCTAAGCTTGCAGCTCATCC
* *
16037 TGCCTCTTGGGTTAGTTTCTTTGGGCACTGCTTCAGGGTTGATAATAATAACAGGTGGAGAGGCT
1 TGCCTCTTGAGTTAGTTTCTTTGGGCACTGCTTCAGGGTCGATAATAATAACAGGTGGAGAGGCT
* * * *
16102 GGTACTTTTGGCTGTACACTCTGGGCAAGCGCTAGGGGTGTACTGGTGTTTGGTTTCTCCACTGG
66 GGTACTTTTGGCTATACACTCTAGGCAAGCGCTAGGGGTGTACTGGTGTTTGGTTTCTCCACCGA
*
16167 TGGCCCCCTGATCCACCAGCAGGAGCACCAGTATTTTTATTATCTTGGCCTTGGCGAGCTGGTGT
131 TGGCCCCCTGATCCACCAGCAGGAGCACCAATATTTTTATTATCTTGGCCTTGGCGAGCTGGTGT
*
16232 TCTGGCTAATAATAATTCCATCATTTGGGCAATCTGAGCTTGCAGCTCATCC
196 TCTGGCTAATAATAATTCCATCATTTGGGCAATCTAAGCTTGCAGCTCATCC
16284 TGCCTCTT
1 TGCCTCTT
16292 CATCATGGCT
Statistics
Matches: 239, Mismatches: 16, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
247 239 1.00
ACGTcount: A:0.19, C:0.21, G:0.27, T:0.33
Consensus pattern (247 bp):
TGCCTCTTGAGTTAGTTTCTTTGGGCACTGCTTCAGGGTCGATAATAATAACAGGTGGAGAGGCT
GGTACTTTTGGCTATACACTCTAGGCAAGCGCTAGGGGTGTACTGGTGTTTGGTTTCTCCACCGA
TGGCCCCCTGATCCACCAGCAGGAGCACCAATATTTTTATTATCTTGGCCTTGGCGAGCTGGTGT
TCTGGCTAATAATAATTCCATCATTTGGGCAATCTAAGCTTGCAGCTCATCC
Found at i:20013 original size:23 final size:23
Alignment explanation
Indices: 19985--20030 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
19975 TTAACATGTG
*
19985 GTATTTAATCATAATTTCTGTAA
1 GTATTTAATCATAATTTATGTAA
20008 GTATTTAATCATAATTTATGTAA
1 GTATTTAATCATAATTTATGTAA
20031 AAATATTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
GTATTTAATCATAATTTATGTAA
Found at i:21439 original size:154 final size:154
Alignment explanation
Indices: 21042--21511 Score: 530
Period size: 154 Copynumber: 3.0 Consensus size: 154
21032 TTTTTTCTCG
* * * * * * * *
21042 AAAGTATTAATCCAACTTAATTTTATTTATTTTCGAAAACACTATTTCAAACCCTAATGGAAGCT
1 AAAGTATTAATTCAATTTAATTTTATTTATTTTCAAAAATACCATTTCATACCCTAATAGAAGCC
** * **
21107 TGAAAGGACACAGAATATTTTTTTTGAAATCTTTTATATCCCCTACGGATGCCTATAGGAATATA
66 CAAAAGGATA-AGAA-A-CATTTTTGAAATCTTTTATA-CCCCTACGGATGCCTATAGGAATAT-
* * *
21172 AAAGATTAGAAAAAAAATATTTAAATTTATCCCG
126 -AA-A--AGAAAAAATA-ATTAAAATTTATCCCC
* *
21206 AAAGTATTAATTCAATTTAATTTT-TATATTTTTAAAAATACCATTTCATACCCTAATAGAAGCC
1 AAAGTATTAATTCAATTTAATTTTATTTATTTTCAAAAATACCATTTCATACCCTAATAGAAGCC
* * * * *
21270 CGAAAA-GATACGAAACATTTTAGAAATCTTTTACACCCCTACGGTTGCCTATTGGAATATAAAA
66 C-AAAAGGATAAGAAACATTTTTGAAATCTTTTATACCCCTACGGATGCCTATAGGAATATAAAA
21334 GAAAAAATAATTAAAATTTATCCCC
130 GAAAAAATAATTAAAATTTATCCCC
* * *
21359 AAAGTATTAATTCAGTTTAATTTTATTTATTTTCAAAAATACCATTTCGTACCCTAATTGAAGCC
1 AAAGTATTAATTCAATTTAATTTTATTTATTTTCAAAAATACCATTTCATACCCTAATAGAAGCC
* * *
21424 CAAAAGGATAAGAAACATTTTTGAAATCTTTTATACCCCTACGAATGCCCATAGGAATTTAAAAG
66 CAAAAGGATAAGAAACATTTTTGAAATCTTTTATACCCCTACGGATGCCTATAGGAATATAAAAG
21489 ATTAAAAAAATAATTAAAATTTA
131 ----AAAAAATAATTAAAATTTA
21512 ATTTTATCAC
Statistics
Matches: 263, Mismatches: 36, Indels: 20
0.82 0.11 0.06
Matches are distributed among these distances:
153 41 0.16
154 97 0.37
156 1 0.00
157 2 0.01
158 19 0.07
159 23 0.09
160 16 0.06
161 1 0.00
162 3 0.01
163 35 0.13
164 25 0.10
ACGTcount: A:0.41, C:0.15, G:0.10, T:0.34
Consensus pattern (154 bp):
AAAGTATTAATTCAATTTAATTTTATTTATTTTCAAAAATACCATTTCATACCCTAATAGAAGCC
CAAAAGGATAAGAAACATTTTTGAAATCTTTTATACCCCTACGGATGCCTATAGGAATATAAAAG
AAAAAATAATTAAAATTTATCCCC
Found at i:23293 original size:167 final size:165
Alignment explanation
Indices: 22968--23982 Score: 731
Period size: 167 Copynumber: 6.1 Consensus size: 165
22958 ATGGCAGTTT
* * * *
22968 AATAAAAATATTAGATGAATTTTAAAAAAATT-TAAACTA-AGAAAAATCCCCTTGAAAAAATTT
1 AATAATAATATTTGATGAATTTT--AAAAATTAAAAAC-AGAGAAAAATCCCCTCGAAAAAATTT
* * * * * * * * * *
23031 ACGGAGTAAAAAAC-TCG-ATTCCTAAAAAAAGGGGAAATTTCAAAG-AAAAAATCT-AAAACTC
63 ACAGAGTAGAAAACATCGTATTTCGAGATAAA--GG-AGTTTCAAGGAAAAAAAT-TAAAAATTT
* * *
23092 ATGAAAATGAATTAATTTTGTAAAACTAATTTAATATGAATAA
124 ATGAAAATGAATGAATTTT-TAAAACTAATTTAATATAAATTA
* * * * *
23135 AATGATGATATTTGATGAATTTTAAAAATTGAAAACAGAGAAAAATCTCCTTGAAAAAATTTACA
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACAGAGAAAAATCCCCTCGAAAAAATTTACA
* * * *
23200 GAGTAGAAAACATCTTATTTCGGGATAGAGGAGTTTCAAGGAAAAAAATTAAAAAATTTGTGAAA
66 GAGTAGAAAACATCGTATTTCGAGATAAAGGAGTTTCAAGGAAAAAAATT-AAAAATTTATGAAA
*
23265 ATGAATGAATTTTTAAGAACTGATTTAATATAAATTA
130 ATGAATGAATTTTTAA-AACTAATTTAATATAAATTA
* ** * * *
23302 AATAATAATATTTGATGAATTTTTAAAATTAAAAATGGAGAAAAATCCCCCCGAAAATATTTGCA
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAACAGAGAAAAATCCCCTCGAAAAAATTTACA
* * * * * * * *
23367 AAGTAGAAAACTTCGTATTT-TAAATAAAGGGAAATTTCAA--ATAAAAAATTCAAAACTCATGA
66 GAGTAGAAAACATCGTATTTCGAGATAAA-GG-AGTTTCAAGGA-AAAAAATTAAAAATTTATGA
* * *
23429 AAATGAATTAATTTTTTTAAAAATAATTTAATATAAATCA
128 AAATGAATGAA--TTTTTAAAACTAATTTAATATAAATTA
* * * * * * * * *
23469 CATGATGATATTTGATAAATTTTAAAAATTGAAAACTA-AGAAATATCTCATTGAAAAAATTTAC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAAC-AGAGAAAAATCCCCTCGAAAAAATTTAC
* * * *
23533 GGAGTAGAAAAGACCGTATTTCGAGAAATAAA--AGTTTCGAGGAAAAAAATTAAAAATTTATGA
65 AGAGTAGAAAACATCGTATTTCGAG--ATAAAGGAGTTTCAAGGAAAAAAATTAAAAATTTATGA
* * *
23596 AAATGAATGAATTTTTGAGA-T-ATTTAATATGAATTA
128 AAATGAATGAATTTTTAAAACTAATTTAATATAAATTA
* *
23632 AATAATAATATTTGATGAATTTTAAAAATTAAAAATC-GAGAAAAATCCCCTCGAAAACATTTGC
1 AATAATAATATTTGATGAATTTTAAAAATTAAAAA-CAGAGAAAAATCCCCTCGAAAAAATTTAC
* * * ** * * * *
23696 GGAGTAGAAAACTTCGTATTTCGA-A-AAATGGTAATTTTGAGGAACAAAATAAAAAACTCATGA
65 AGAGTAGAAAACATCGTATTTCGAGATAAA-GG-AGTTTCAAGGAAAAAAATTAAAAATTTATGA
* * *
23759 AAAT-AGATGAATTTTTGCAAACAAATTTAGTATAAATTA
128 AAATGA-ATGAATTTTT-AAAACTAATTTAATATAAATTA
* * *
23798 AATAATAATATTTAATGAATTTT-AAAATTAGAAACCA-AGAAAAATCTCCCT--AAAAAAATTA
1 AATAATAATATTTGATGAATTTTAAAAATTA-AAAACAGAGAAAAATC-CCCTCGAAAAAATTTA
* * * * * * * *
23859 C-GAAATAGAAAATAAT-ATATTTCG-GA-AAAGGAAAATTTCAA-G-CAAAAATCGAAAACTCT
64 CAG-AGTAGAAAA-CATCGTATTTCGAGATAAAGG--AGTTTCAAGGAAAAAAAT-TAAAAATTT
* *
23918 -TGAAAATGAATTAATTTTTAAAAAATAATTTAATATGAAA-TA
124 ATGAAAATGAATGAATTTTT-AAAACTAATTTAATAT-AAATTA
* *
23960 AATGATAGTATTTGATGAATTTT
1 AATAATAATATTTGATGAATTTT
23983 GATGTTTGAA
Statistics
Matches: 673, Mismatches: 136, Indels: 83
0.75 0.15 0.09
Matches are distributed among these distances:
159 3 0.00
160 1 0.00
162 56 0.08
163 135 0.20
164 37 0.05
165 42 0.06
166 122 0.18
167 249 0.37
168 23 0.03
170 5 0.01
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (165 bp):
AATAATAATATTTGATGAATTTTAAAAATTAAAAACAGAGAAAAATCCCCTCGAAAAAATTTACA
GAGTAGAAAACATCGTATTTCGAGATAAAGGAGTTTCAAGGAAAAAAATTAAAAATTTATGAAAA
TGAATGAATTTTTAAAACTAATTTAATATAAATTA
Found at i:23759 original size:330 final size:333
Alignment explanation
Indices: 22927--23982 Score: 1045
Period size: 334 Copynumber: 3.2 Consensus size: 333
22917 AAAATTCAAA
* * * *** * * * *
22927 AAAATAAATTGAATTTTTAAAAACTGAATTAATGGCAGTTTAATAAAAATATTAGATGAATTTTA
1 AAAATGAA-TGAATTTTTAAGAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTT-
* * * ** * * ** * *
22992 AAAAAATTTAAACT-AAGAAAAATCCCCTTGAAAAAATTTACGGAGTAAAAAAC-TCG-ATTCCT
64 -AAAAATTAAAAATCGAGAAAAATCCCCCCGAAAACATTTGCAAAGTAGAAAACTTCGTATTTC-
* ** *
23054 AAAAAAAGGGGAAATTTCAAAGAAAAAATCTAAAACTCATGAAAATGAATTAA-TTTTGTAAAAC
127 AAATAAA-GGGAAATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTGTAAAAA
*
23118 TAATTTAATATGAATAAAATGATGATATTTGATGAATTTTAAAAATTGAAAACAGAGAAAAATCT
191 TAATTTAATATAAATAAAATGATGATATTTGATGAATTTTAAAAATTGAAAACA-AGAAAAATCT
* * * * * **
23183 CCTTGAAAAAATTTACAGAGTAGAAAACATCTTATTTCGGGATAGAGGAGTTTCAAGGAAAAAAA
255 CATTGAAAAAATTTACAGAGTAGAAAACACCGTATTTCGAGAAAGAAAAGTTTCAAGGAAAAAAA
*
23248 TTAAAAAATTTGTG
320 TTAAAAAATTTATG
*
23262 AAAATGAATGAATTTTTAAGAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTTTA
1 AAAATGAATGAATTTTTAAGAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAA
* * *
23327 AAATTAAAAATGGAGAAAAATCCCCCCGAAAATATTTGCAAAGTAGAAAACTTCGTATTTTAAAT
66 AAATTAAAAATCGAGAAAAATCCCCCCGAAAACATTTGCAAAGTAGAAAACTTCGTATTTCAAAT
* ** *
23392 AAAGGGAAATTTCAAATAAAAAATTCAAAACTCATGAAAATGAATTAATTTTTTTAAAAATAATT
131 AAAGGGAAATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTGTAAAAATAATT
* * * *
23457 TAATATAAATCACATGATGATATTTGATAAATTTTAAAAATTGAAAACTAAGAAATATCTCATTG
196 TAATATAAATAAAATGATGATATTTGATGAATTTTAAAAATTGAAAAC-AAGAAAAATCTCATTG
* * * *
23522 AAAAAATTTACGGAGTAGAAAAGACCGTATTTCGAGAAATAAAAGTTTCGAGGAAAAAAATT-AA
260 AAAAAATTTACAGAGTAGAAAACACCGTATTTCGAGAAAGAAAAGTTTCAAGGAAAAAAATTAAA
23586 AAATTTATG
325 AAATTTATG
* *
23595 AAAATGAATGAATTTTTGAG-A-T-ATTTAATATGAATTAAATAATAATATTTGATGAATTTTAA
1 AAAATGAATGAATTTTTAAGAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAA
* ** *
23657 AAATTAAAAATCGAGAAAAATCCCCTCGAAAACATTTGCGGAGTAGAAAACTTCGTATTTCGAA-
66 AAATTAAAAATCGAGAAAAATCCCCCCGAAAACATTTGCAAAGTAGAAAACTTCGTATTTCAAAT
* * ** * * * *
23721 AAATGGTAATTTTGAGGAACAAAATAAAAAACTCATGAAAAT-AGATGAATTTTTGCAAACA-AA
131 AAAGGGAAATTTCAAAGAA-AAAATAAAAAACTCATGAAAATGA-ATTAATTTTTGTAAAAATAA
* * * * * * **
23784 TTTAGTATAAATTAAATAATAATATTTAATGAATTTT-AAAATTAGAAACCAAGAAAAATCTCCC
194 TTTAATATAAATAAAATGATGATATTTGATGAATTTTAAAAATT-GAAAACAAGAAAAATCTCAT
* * * *** *
23848 T-AAAAAAATTAC-GAAATAGAAAATAATATATTTCG-GAAAAGGAAAA-TTTCAA-G-CAAAAA
258 TGAAAAAATTTACAG-AGTAGAAAACACCGTATTTCGAG-AAA-GAAAAGTTTCAAGGAAAAAAA
** * *
23907 TCGAAAACTCT-TG
320 TTAAAAAATTTATG
* * * * * *
23920 AAAATGAATTAATTTTTAAAAAATAATTTAATATGAAA-TAAATGATAGTATTTGATGAATTTT
1 AAAATGAATGAATTTTTAAGAACTGATTTAATAT-AAATTAAATAATAATATTTGATGAATTTT
23983 GATGTTTGAA
Statistics
Matches: 608, Mismatches: 97, Indels: 39
0.82 0.13 0.05
Matches are distributed among these distances:
325 25 0.04
326 10 0.02
327 35 0.06
328 54 0.09
329 53 0.09
330 128 0.21
331 1 0.00
332 11 0.02
333 102 0.17
334 178 0.29
335 11 0.02
ACGTcount: A:0.50, C:0.07, G:0.12, T:0.31
Consensus pattern (333 bp):
AAAATGAATGAATTTTTAAGAACTGATTTAATATAAATTAAATAATAATATTTGATGAATTTTAA
AAATTAAAAATCGAGAAAAATCCCCCCGAAAACATTTGCAAAGTAGAAAACTTCGTATTTCAAAT
AAAGGGAAATTTCAAAGAAAAAATAAAAAACTCATGAAAATGAATTAATTTTTGTAAAAATAATT
TAATATAAATAAAATGATGATATTTGATGAATTTTAAAAATTGAAAACAAGAAAAATCTCATTGA
AAAAATTTACAGAGTAGAAAACACCGTATTTCGAGAAAGAAAAGTTTCAAGGAAAAAAATTAAAA
AATTTATG
Found at i:29847 original size:29 final size:28
Alignment explanation
Indices: 29813--29899 Score: 102
Period size: 29 Copynumber: 3.0 Consensus size: 28
29803 GCAATCCATC
29813 AAAGTCCACAATTTCGTGGCATCTTTTTT
1 AAAGTCCACAA-TTCGTGGCATCTTTTTT
* * *
29842 AAAGTCCACAACTCCGTAGCATCTCTTTT
1 AAAGTCCACAA-TTCGTGGCATCTTTTTT
* *
29871 AAAGTCCACGACTCAGTGGCATCTTTTTT
1 AAAGTCCACAATTC-GTGGCATCTTTTTT
29900 CTTCAAAGTC
Statistics
Matches: 48, Mismatches: 9, Indels: 2
0.81 0.15 0.03
Matches are distributed among these distances:
28 1 0.02
29 47 0.98
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (28 bp):
AAAGTCCACAATTCGTGGCATCTTTTTT
Found at i:29984 original size:30 final size:30
Alignment explanation
Indices: 29903--29984 Score: 78
Period size: 30 Copynumber: 2.7 Consensus size: 30
29893 CTTTTTTCTT
* * *
29903 CAAAGTCCACAACTCCATGGCAGCCTTTTT
1 CAAAGTCTACAACTTCATGGCAGCCTTTTA
***
29933 CAAAGTCTATTGCTT-AGTGGCA-CCTTTTCA
1 CAAAGTCTACAACTTCA-TGGCAGCCTTTT-A
29963 CAAAGTCTACAACTTCATGGCA
1 CAAAGTCTACAACTTCATGGCA
29985 TCCCTTTCTG
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
29 7 0.17
30 32 0.80
31 1 0.03
ACGTcount: A:0.28, C:0.28, G:0.15, T:0.29
Consensus pattern (30 bp):
CAAAGTCTACAACTTCATGGCAGCCTTTTA
Found at i:30138 original size:33 final size:33
Alignment explanation
Indices: 30001--30373 Score: 271
Period size: 32 Copynumber: 11.5 Consensus size: 33
29991 TCTGAAGCTT
* *
30001 ACACAAGTCAGTGGCAACCATT-TCTAAAGCCC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* * *
30033 ATACAAGTCAGTGGCAAACC--TCCCTAAAGCCC
1 ACACAAGTCGGTGGC-AACCTTTCTCTAAAGCCC
* * ** * ** *
30065 AAAAAAGTTAGTGGTAACTCCAT-TC-AAAGCCT
1 ACACAAGTCGGTGGCAAC-CTTTCTCTAAAGCCC
*
30097 ACATAAGTCGGTGGCAACCTTTCTCTAAAGCCC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* *
30130 ACACAAGTCGGTGGTAACCCTTCTCTAAAGCCC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* * * * * *
30163 ACATAAATCGGTGG-AAACTTTTTTTAAAGCTC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* * * *
30195 ACACAAGTTGATGGCAACCTTTTTC-AAAACCC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* * *
30227 ACATAAGTCGATGGCAACCTTTC-CAAAAGCCC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* *
30259 ACACAAGTCGGTGGCAACCCTTCTCTAAAACCC
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
* *
30292 ACACAAGTCAGTGGCAACTCTTCCT-TAAAGCCC
1 ACACAAGTCGGTGGCAAC-CTTTCTCTAAAGCCC
* * * * * * * *
30325 ATACAAGTCAGTAGTAAAC-GTCCCTAAAGCCA
1 ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
*
30357 ATACAAGTCGGTGGCAA
1 ACACAAGTCGGTGGCAA
30374 TCCTCTCTAT
Statistics
Matches: 271, Mismatches: 58, Indels: 24
0.77 0.16 0.07
Matches are distributed among these distances:
31 8 0.03
32 152 0.56
33 106 0.39
34 5 0.02
ACGTcount: A:0.34, C:0.28, G:0.16, T:0.22
Consensus pattern (33 bp):
ACACAAGTCGGTGGCAACCTTTCTCTAAAGCCC
Found at i:30147 original size:65 final size:66
Alignment explanation
Indices: 30001--30333 Score: 288
Period size: 65 Copynumber: 5.1 Consensus size: 66
29991 TCTGAAGCTT
* * * * * * *
30001 ACACAAGTCAGTGGCAACCATT-TCTAAAGCCCATACAAGTCAGTGGCAAACC--TCCCTAAAGC
1 ACACAAGTCGGTGGCAACCCTTCTCTAAAACCCACATAAGTCGGTGGC-AACCTTTCTCTAAAGC
30063 CC
65 CC
* * ** * * * *
30065 AAAAAAGTTAGTGGTAACTCCAT-TC-AAAGCCTACATAAGTCGGTGGCAACCTTTCTCTAAAGC
1 ACACAAGTCGGTGGCAAC-CCTTCTCTAAAACCCACATAAGTCGGTGGCAACCTTTCTCTAAAGC
30128 CC
65 CC
* * * * * * *
30130 ACACAAGTCGGTGGTAACCCTTCTCTAAAGCCCACATAAATCGGTGG-AAACTTTTTTTAAAGCT
1 ACACAAGTCGGTGGCAACCCTTCTCTAAAACCCACATAAGTCGGTGGCAACCTTTCTCTAAAGCC
30194 C
66 C
* * * * * *
30195 ACACAAGTTGATGGCAACCTTTTTC-AAAACCCACATAAGTCGATGGCAACCTTTC-CAAAAGCC
1 ACACAAGTCGGTGGCAACCCTTCTCTAAAACCCACATAAGTCGGTGGCAACCTTTCTCTAAAGCC
30258 C
66 C
* * *
30259 ACACAAGTCGGTGGCAACCCTTCTCTAAAACCCACACAAGTCAGTGGCAACTCTTCCT-TAAAGC
1 ACACAAGTCGGTGGCAACCCTTCTCTAAAACCCACATAAGTCGGTGGCAAC-CTTTCTCTAAAGC
30323 CC
65 CC
*
30325 ATACAAGTC
1 ACACAAGTC
30334 AGTAGTAAAC
Statistics
Matches: 215, Mismatches: 45, Indels: 16
0.78 0.16 0.06
Matches are distributed among these distances:
63 4 0.02
64 80 0.37
65 93 0.43
66 38 0.18
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (66 bp):
ACACAAGTCGGTGGCAACCCTTCTCTAAAACCCACATAAGTCGGTGGCAACCTTTCTCTAAAGCC
C
Found at i:34805 original size:52 final size:52
Alignment explanation
Indices: 34727--34854 Score: 224
Period size: 52 Copynumber: 2.5 Consensus size: 52
34717 CGAAATATGA
*
34727 AAATTTGCCTGCATGTATCGATACA-TTTAATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGC
34779 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
34831 AAA-TTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
34855 AAGATCAGTG
Statistics
Matches: 74, Mismatches: 1, Indels: 3
0.95 0.01 0.04
Matches are distributed among these distances:
51 21 0.28
52 48 0.65
53 5 0.07
ACGTcount: A:0.30, C:0.18, G:0.18, T:0.34
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTTAAAATGTATCGATACATCTGGGC
Found at i:34881 original size:13 final size:13
Alignment explanation
Indices: 34863--34887 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34853 CAAAGATCAG
34863 TGTATCGATACAA
1 TGTATCGATACAA
34876 TGTATCGATACA
1 TGTATCGATACA
34888 TTTGAGTAAT
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:34965 original size:33 final size:33
Alignment explanation
Indices: 34928--34994 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
34918 AGTAGCTTAA
34928 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
34961 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
34994 A
1 A
34995 GATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:34968 original size:13 final size:13
Alignment explanation
Indices: 34950--34974 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34940 CAAAAAAATA
34950 TGTATCGATACAT
1 TGTATCGATACAT
34963 TGTATCGATACA
1 TGTATCGATACA
34975 ACATTTTATG
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:35058 original size:21 final size:21
Alignment explanation
Indices: 35032--35087 Score: 112
Period size: 21 Copynumber: 2.7 Consensus size: 21
35022 GTTGGGACCT
35032 TGTATCGATACATTATAACAA
1 TGTATCGATACATTATAACAA
35053 TGTATCGATACATTATAACAA
1 TGTATCGATACATTATAACAA
35074 TGTATCGATACATT
1 TGTATCGATACATT
35088 TGGACCAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.11, T:0.36
Consensus pattern (21 bp):
TGTATCGATACATTATAACAA
Found at i:39045 original size:104 final size:104
Alignment explanation
Indices: 38855--39097 Score: 294
Period size: 104 Copynumber: 2.3 Consensus size: 104
38845 GTTGCGAAGA
* * *
38855 ATGATAAAGGTGCCAATATGCTGATTCACA-GCCAACGATATTGGGCTTAAAGATGACAAAGGTG
1 ATGACAAAGGTGCCAATATGCTGATTCA-AGGCCAACGATATTGGACTTAAAGAAGACAAAGGTG
38919 CCAATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAG
65 CCAATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAG
* * * ** *
38959 ATGGCAAAGGTGCTAATATGCTGATTCAAGGCTAGTGATATTGGACTT-AAGAAAGA-AGAATGT
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAG-AAGACA-AAGGT
* * *
39022 GCCAATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAG
64 GCCAATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAG
* * * *
39063 ATGATAAAGGTGCCAATGTGCTAATTCTAGGCCAA
1 ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAA
39098 TGCTATTAGA
Statistics
Matches: 116, Mismatches: 20, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
103 5 0.04
104 111 0.96
ACGTcount: A:0.35, C:0.16, G:0.25, T:0.25
Consensus pattern (104 bp):
ATGACAAAGGTGCCAATATGCTGATTCAAGGCCAACGATATTGGACTTAAAGAAGACAAAGGTGC
CAATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAG
Found at i:39095 original size:52 final size:52
Alignment explanation
Indices: 38855--39096 Score: 265
Period size: 52 Copynumber: 4.7 Consensus size: 52
38845 GTTGCGAAGA
* * * * *
38855 ATGATAAAGGTGCCAATATGCTGATTCACA-GCCAACGATATTGGGCTTAAAG
1 ATGACAAAGGTGCCAATGTGCTGATTCA-AGGCCAGCGACATTGGACTTAAAG
* *
38907 ATGACAAAGGTGCCAATGTGCTGATTCAAAGCCAGCGACATTAGACTTAAAG
1 ATGACAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * * * * *
38959 ATGGCAAAGGTGCTAATATGCTGATTCAAGGCTAGTGATATTGGACTT-AAG
1 ATGACAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * *
39010 AAAGA-AGAATGTGCCAATGTGCTGATTTAAGGCCAGCGACATTGGACTTAAAG
1 -ATGACA-AAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
* * *
39063 ATGATAAAGGTGCCAATGTGCTAATTCTAGGCCA
1 ATGACAAAGGTGCCAATGTGCTGATTCAAGGCCA
39097 ATGCTATTAG
Statistics
Matches: 157, Mismatches: 28, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
51 5 0.03
52 148 0.94
53 4 0.03
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (52 bp):
ATGACAAAGGTGCCAATGTGCTGATTCAAGGCCAGCGACATTGGACTTAAAG
Found at i:39342 original size:92 final size:92
Alignment explanation
Indices: 39181--39397 Score: 312
Period size: 92 Copynumber: 2.4 Consensus size: 92
39171 TTGATTCACA
* * * *
39181 GCCAATATGCTGATTCAAGGCCAGTGATATTGAGCTTGTGCCAATGTGCTAATTCAAGACCAGCG
1 GCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTTGTGCCAATGTGCTAATTAAAGACCAGCA
39246 ACATT-GATCTTAAAAGATGACAAGGGT
66 ACATTAG-TCTTAAAAGATGACAAGGGT
* * * *
39273 GCCAATATGCTGAGTT-AAGGCTAGCGATATTGGGCTTGTGCTAATGTGCTGATTAAAGGCCAGC
1 GCCAATATGCTGA-TTCAAGGCTAGTGATATTGGGCTTGTGCCAATGTGCTAATTAAAGACCAGC
*
39337 AACATTAGTCTTAAAAGATGATAAGGGT
65 AACATTAGTCTTAAAAGATGACAAGGGT
*
39365 GCCAGTATGCTGATTCAAGGCTAGTGATATTGG
1 GCCAATATGCTGATTCAAGGCTAGTGATATTGG
39398 ACTTAAGATG
Statistics
Matches: 111, Mismatches: 11, Indels: 6
0.87 0.09 0.05
Matches are distributed among these distances:
91 2 0.02
92 106 0.95
93 3 0.03
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (92 bp):
GCCAATATGCTGATTCAAGGCTAGTGATATTGGGCTTGTGCCAATGTGCTAATTAAAGACCAGCA
ACATTAGTCTTAAAAGATGACAAGGGT
Found at i:39697 original size:35 final size:35
Alignment explanation
Indices: 39648--40001 Score: 200
Period size: 35 Copynumber: 10.7 Consensus size: 35
39638 TAAAAGGAAC
* *
39648 AAGGTGCCACGGAGTTGTGGATTTTTGGAGGAAAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
* * **
39683 AAGGTGCCATGGAGTTATGGGC-TTT-GAAAAGAAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGA-AAA
39717 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
* ** * **
39752 ATGGTGCCATAGAGTTATGGGC-TTT-GAAAAGAAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGA-AAA
**
39786 AAGGTGCCACGGAGTTATAAAC--TT------AAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
* ** * *** *
39813 AGGGTGCCATAGAGTTGTGGAC-TTAAAAGGAACA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
39847 AA-GTGCCACGGAGTTATGGACTTTTGGAGG-AAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
* * **
39880 AAGCGTGCCACGGAGTTTTGGGC-TTT-GAAAAGAAA
1 AAG-GTGCCACGGAGTTATGGACTTTTGGAGGA-AAA
* *
39915 AAGGTGCCACGAAGTTGTGGAC--TT------AAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
* *
39942 AAGTTGCCACGGAGTTGTGGACTTTTGGAGGAAAA
1 AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
* * *
39977 AGGGTGCCACGAAGTTATGGGCTTT
1 AAGGTGCCACGGAGTTATGGACTTT
40002 GAAAAGAAAA
Statistics
Matches: 243, Mismatches: 52, Indels: 48
0.71 0.15 0.14
Matches are distributed among these distances:
27 42 0.17
28 1 0.00
29 2 0.01
33 32 0.13
34 75 0.31
35 88 0.36
36 3 0.01
ACGTcount: A:0.32, C:0.12, G:0.32, T:0.24
Consensus pattern (35 bp):
AAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
Found at i:39723 original size:69 final size:68
Alignment explanation
Indices: 39612--39938 Score: 363
Period size: 69 Copynumber: 4.9 Consensus size: 68
39602 AAGTGGACTT
* * * * * *
39612 AAAAGGGTGCCATAGAGTTGTGGAC-TT-AAAAGGAACAAGGTGCCACGGAGTTGTGGATTTTTG
1 AAAAAGGTGCCATAGAGTTATGGGCTTTGAAAA-GAAAAAGGTGCCACGGAGTTATGGACTTTTG
39675 GAGG
65 GAGG
*
39679 AAAAAAGGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTG
1 -AAAAAGGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTG
39744 GAGG
65 GAGG
**
39748 AAAAATGGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAAC--TT-
1 AAAAA-GGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTG
39810 ----
65 GAGG
* * *
39810 AAAAGGGTGCCATAGAGTTGTGGAC-TT-AAAAGGAACAAA-GTGCCACGGAGTTATGGACTTTT
1 AAAAAGGTGCCATAGAGTTATGGGCTTTGAAAA-GAA-AAAGGTGCCACGGAGTTATGGACTTTT
39872 GGAGG
64 GGAGG
** * * *
39877 AAAAAGCGTGCCACGGAGTTTTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAAG-GTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTT
39939 AAAAAGTTGC
Statistics
Matches: 221, Mismatches: 22, Indels: 31
0.81 0.08 0.11
Matches are distributed among these distances:
59 4 0.02
60 22 0.10
61 21 0.10
62 6 0.03
67 7 0.03
68 44 0.20
69 109 0.49
70 8 0.04
ACGTcount: A:0.33, C:0.12, G:0.32, T:0.23
Consensus pattern (68 bp):
AAAAAGGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTGG
AGG
Found at i:39827 original size:27 final size:27
Alignment explanation
Indices: 39783--39842 Score: 66
Period size: 27 Copynumber: 2.2 Consensus size: 27
39773 CTTTGAAAAG
* *
39783 AAAAAGGTGCCACGGAGTTATAAACTT
1 AAAAGGGTGCCACAGAGTTATAAACTT
* * **
39810 AAAAGGGTGCCATAGAGTTGTGGACTT
1 AAAAGGGTGCCACAGAGTTATAAACTT
39837 AAAAGG
1 AAAAGG
39843 AACAAAGTGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.38, C:0.12, G:0.28, T:0.22
Consensus pattern (27 bp):
AAAAGGGTGCCACAGAGTTATAAACTT
Found at i:39861 original size:129 final size:129
Alignment explanation
Indices: 39680--40001 Score: 400
Period size: 129 Copynumber: 2.5 Consensus size: 129
39670 TTTTGGAGGA
* *
39680 AAAAAGGTGCCATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTGG
1 AAAAAGGTGCCATGGAGTTGTGGAC-TTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTGG
* *
39745 AGGAAAAATG-GTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAACT
65 AGGAAAAA-GCGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATAAACT
39809 T
129 T
* *
39810 AAAAGGGTGCCATAGAGTTGTGGACTT-AAAAGGAACAAA-GTGCCACGGAGTTATGGACTTTTG
1 AAAAAGGTGCCATGGAGTTGTGGACTTGAAAA-GAA-AAAGGTGCCACGGAGTTATGGACTTTTG
* * * **
39873 GAGGAAAAAGCGTGCCACGGAGTTTTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACT
64 GAGGAAAAAGCGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATAAACT
39938 T
129 T
* * * * * *
39939 AAAAAGTTGCCACGGAGTTGTGGACTTTTG-GAGGAAAAAGGGTGCCACGAAGTTATGGGCTTT
1 AAAAAGGTGCCATGGAGTTGTGGAC--TTGAAAAGAAAAA-GGTGCCACGGAGTTATGGACTTT
40002 GAAAAGAAAA
Statistics
Matches: 165, Mismatches: 19, Indels: 15
0.83 0.10 0.08
Matches are distributed among these distances:
128 5 0.03
129 110 0.67
130 27 0.16
131 23 0.14
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (129 bp):
AAAAAGGTGCCATGGAGTTGTGGACTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTGGA
GGAAAAAGCGTGCCACAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATAAACTT
Found at i:39862 original size:60 final size:61
Alignment explanation
Indices: 39749--39863 Score: 164
Period size: 61 Copynumber: 1.9 Consensus size: 61
39739 TTTTGGAGGA
* *
39749 AAAATGGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAACTT
1 AAAAGGGTGCCATAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAACTT
*
39810 AAAAGGGTGCCATAGAGTTGTGGAC-TT-AAAAGGAACAAA-GTGCCACGGAGTTAT
1 AAAAGGGTGCCATAGAGTTATGGACTTTGAAAA-GAA-AAAGGTGCCACGGAGTTAT
39864 GGACTTTTGG
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
59 4 0.08
60 20 0.41
61 25 0.51
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.23
Consensus pattern (61 bp):
AAAAGGGTGCCATAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAACTT
Found at i:39909 original size:198 final size:195
Alignment explanation
Indices: 39559--39938 Score: 600
Period size: 198 Copynumber: 1.9 Consensus size: 195
39549 GATTTTAAAG
* * * **
39559 GGTGGCATGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTGGACTTAAAAGGGTGCCA
1 GGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTAAACTTAAAAGGGTGCCA
* * *
39624 TAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGATTTTTGGAGGAAAAAAGGTG
66 TAGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAAGGTG
* *
39689 CCATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAT
131 CCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTTTGGAGGAAAAAT
*
39754 GGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAACTTAAAAGGGTG
1 GGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAG---TAAACTTAAAAGGGTG
39819 CCATAGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGG-AAAAAG
63 CCATAGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAAG
* *
39883 CGTGCCACGGAGTTTTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGACTT
128 -GTGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTT
39939 AAAAAGTTGC
Statistics
Matches: 168, Mismatches: 13, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
195 42 0.25
197 6 0.04
198 120 0.71
ACGTcount: A:0.33, C:0.12, G:0.33, T:0.23
Consensus pattern (195 bp):
GGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTAAACTTAAAAGGGTGCCA
TAGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAAGGTG
CCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTTTGGAGGAAAAAT
Found at i:39950 original size:27 final size:27
Alignment explanation
Indices: 39912--39965 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
39902 CTTTGAAAAG
39912 AAAAAGGTGCCACGAAGTTGTGGACTT
1 AAAAAGGTGCCACGAAGTTGTGGACTT
* *
39939 AAAAAGTTGCCACGGAGTTGTGGACTT
1 AAAAAGGTGCCACGAAGTTGTGGACTT
39966 TTGGAGGAAA
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:0.31, C:0.15, G:0.30, T:0.24
Consensus pattern (27 bp):
AAAAAGGTGCCACGAAGTTGTGGACTT
Found at i:39969 original size:96 final size:95
Alignment explanation
Indices: 39846--40061 Score: 342
Period size: 96 Copynumber: 2.3 Consensus size: 95
39836 TAAAAGGAAC
* * *
39846 AAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAGCGTGCCACGGAGTTTTGGGCTTTGAAAA
1 AAAGTGCCACGGAGTTGTGGACTTTTGGAGGAAAAAGCGTGCCACGAAGTTATGGGCTTTGAAAA
* *
39911 GAAAAAGGTGCCACGAAGTTGTGGACTTAA
66 GAAAAAGGTACCACAAAGTTGTGGACTTAA
*
39941 AAAGTTGCCACGGAGTTGTGGACTTTTGGAGGAAAAAGGGTGCCACGAAGTTATGGGCTTTGAAA
1 AAAG-TGCCACGGAGTTGTGGACTTTTGGAGGAAAAAGCGTGCCACGAAGTTATGGGCTTTGAAA
40006 AGAAAAAGGTACCACAAAGTTGTGGACTTAA
65 AGAAAAAGGTACCACAAAGTTGTGGACTTAA
* *
40037 AAGGGTGCCACGGATTTGTGGACTT
1 AA-AGTGCCACGGAGTTGTGGACTT
40062 AAGAGGAACA
Statistics
Matches: 111, Mismatches: 8, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
95 4 0.04
96 106 0.95
97 1 0.01
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.24
Consensus pattern (95 bp):
AAAGTGCCACGGAGTTGTGGACTTTTGGAGGAAAAAGCGTGCCACGAAGTTATGGGCTTTGAAAA
GAAAAAGGTACCACAAAGTTGTGGACTTAA
Found at i:40029 original size:198 final size:193
Alignment explanation
Indices: 39498--40040 Score: 505
Period size: 198 Copynumber: 2.8 Consensus size: 193
39488 TTTAGAGGGT
* * * * * * * *
39498 TGCCACTGACTTATGTGTGCTTTGAAAAAAAAAAGGTACCACGGAGTTGTGGA-TTT--TAAAGG
1 TGCCACGGAGTTATG-G-GCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTTGAAAAATG
* ** * * ** *
39560 GTGGCATGGAGTTGTGGGCTTTGAAAAGAAAAAGGTGCCACGAAG---TGGACTTAAAAGGGTGC
64 GTGCCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGAAGTTATAAACTTAAAAGGGTAC
* * * * *
39622 CATAGAGTTGTGGACTTAAAAGGAACAAGGTGCCACGGAGTTGTGGATTTTTGGAGGAAAAAAGG
129 CACAAAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAAGG
* *
39687 TGCCATGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATGGACTTTTGGAGGAAAA
1 TGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGAC-TTT----GAAAA
* * *
39752 ATGGTGCCATAGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGGAGTTATAAACTTAAAAGGG
61 ATGGTGCCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGAAGTTATAAACTTAAAAGGG
* * *
39817 TGCCATAGAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGG-AAAA
126 TACCACAAAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAA
39881 AGCG
191 AG-G
* * *
39885 TGCCACGGAGTTTTGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTGTGGAC-TT-AAAAA-GTT
1 TGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTTGAAAAATGGT
* * * * ***
39947 GCCACGGAGTTGTGGACTTTTG-GAGGAAAAAGGGTGCCACGAAGTTATGGGCTTTGAAAAGAAA
66 GCCACAGAGTTATGGAC-TTTGAAAAGAAAAA-GGTGCCACGAAGTTATAAAC-TT-AAAAG---
40011 AAGGTACCACAAAGTTGTGGACTTAAAAGG
124 --GGTACCACAAAGTTGTGGACTTAAAAGG
40041 GTGCCACGGA
Statistics
Matches: 298, Mismatches: 35, Indels: 33
0.81 0.10 0.09
Matches are distributed among these distances:
187 32 0.11
188 1 0.00
189 15 0.05
190 22 0.07
191 25 0.08
192 2 0.01
193 5 0.02
195 45 0.15
196 2 0.01
197 6 0.02
198 143 0.48
ACGTcount: A:0.33, C:0.12, G:0.31, T:0.24
Consensus pattern (193 bp):
TGCCACGGAGTTATGGGCTTTGAAAAGAAAAAGGTGCCACGAAGTTATGGACTTTGAAAAATGGT
GCCACAGAGTTATGGACTTTGAAAAGAAAAAGGTGCCACGAAGTTATAAACTTAAAAGGGTACCA
CAAAGTTGTGGACTTAAAAGGAACAAAGTGCCACGGAGTTATGGACTTTTGGAGGAAAAAAGG
Found at i:40047 original size:27 final size:27
Alignment explanation
Indices: 40008--40063 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
39998 CTTTGAAAAG
40008 AAAAAGGTACCACAAAGTTGTGGACTT
1 AAAAAGGTACCACAAAGTTGTGGACTT
* * ** *
40035 AAAAGGGTGCCACGGATTTGTGGACTT
1 AAAAAGGTACCACAAAGTTGTGGACTT
40062 AA
1 AA
40064 GAGGAACAAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.36, C:0.14, G:0.27, T:0.23
Consensus pattern (27 bp):
AAAAAGGTACCACAAAGTTGTGGACTT
Found at i:41422 original size:19 final size:17
Alignment explanation
Indices: 41398--41433 Score: 54
Period size: 19 Copynumber: 2.0 Consensus size: 17
41388 GTTTTTTATG
41398 TTTTTTGTTATTTGTTTTT
1 TTTTTTGTT-TTT-TTTTT
41417 TTTTTTGTTTTTTTTTT
1 TTTTTTGTTTTTTTTTT
41434 GCTTTTGATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 9 0.53
ACGTcount: A:0.03, C:0.00, G:0.08, T:0.89
Consensus pattern (17 bp):
TTTTTTGTTTTTTTTTT
Found at i:41439 original size:12 final size:12
Alignment explanation
Indices: 41389--41433 Score: 63
Period size: 12 Copynumber: 3.6 Consensus size: 12
41379 TTTACCCATG
*
41389 TTTTTTATGTTT
1 TTTTTTTTGTTT
41401 TTTGTTATTTGTTT
1 TTT-TT-TTTGTTT
41415 TTTTTTTTGTTT
1 TTTTTTTTGTTT
41427 TTTTTTT
1 TTTTTTT
41434 GCTTTTGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
12 17 0.57
13 4 0.13
14 9 0.30
ACGTcount: A:0.04, C:0.00, G:0.09, T:0.87
Consensus pattern (12 bp):
TTTTTTTTGTTT
Found at i:48481 original size:51 final size:50
Alignment explanation
Indices: 48442--48558 Score: 164
Period size: 50 Copynumber: 2.3 Consensus size: 50
48432 TACATTATTC
* *
48442 AATGTATCGATATATCTGGGTAAAATA-CCTAGATGTATCGATACAATGATA
1 AATGTATCGATACAT-TGGGTAAAAAATCC-AGATGTATCGATACAATGATA
* * *
48493 AATGTATCAATACATTTGGTAAAAAATCCAGATGTATCAATACAATGATA
1 AATGTATCGATACATTGGGTAAAAAATCCAGATGTATCGATACAATGATA
48543 AATGTATCGATACATT
1 AATGTATCGATACATT
48559 TCCTTTGCAA
Statistics
Matches: 59, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
50 44 0.75
51 15 0.25
ACGTcount: A:0.42, C:0.12, G:0.15, T:0.32
Consensus pattern (50 bp):
AATGTATCGATACATTGGGTAAAAAATCCAGATGTATCGATACAATGATA
Found at i:51876 original size:20 final size:20
Alignment explanation
Indices: 51823--51876 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
51813 AAATTCCCAG
*
51823 ATGTATCGATACAAAGATCA
1 ATGTATCGATACATAGATCA
*
51843 ATGTATCGATACATTGAAT-A
1 ATGTATCGATACATAG-ATCA
51863 ATGTATCGATACAT
1 ATGTATCGATACAT
51877 GTCTTTGGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
20 29 0.94
21 2 0.06
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (20 bp):
ATGTATCGATACATAGATCA
Found at i:51939 original size:32 final size:32
Alignment explanation
Indices: 51903--51980 Score: 156
Period size: 32 Copynumber: 2.4 Consensus size: 32
51893 AGAGTAGCTT
51903 TGTATCGATACATTATATCGATACAACACTCA
1 TGTATCGATACATTATATCGATACAACACTCA
51935 TGTATCGATACATTATATCGATACAACACTCA
1 TGTATCGATACATTATATCGATACAACACTCA
51967 TGTATCGATACATT
1 TGTATCGATACATT
51981 TACTGTTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.36, C:0.21, G:0.10, T:0.33
Consensus pattern (32 bp):
TGTATCGATACATTATATCGATACAACACTCA
Found at i:51942 original size:19 final size:19
Alignment explanation
Indices: 51918--51978 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
51908 CGATACATTA
51918 TATCGATACAACACTCATG
1 TATCGATACAACACTCATG
*
51937 TATCGAT---ACA-T--TA
1 TATCGATACAACACTCATG
51950 TATCGATACAACACTCATG
1 TATCGATACAACACTCATG
51969 TATCGATACA
1 TATCGATACA
51979 TTTACTGTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 12
0.71 0.04 0.25
Matches are distributed among these distances:
13 8 0.24
15 1 0.03
16 6 0.18
17 1 0.03
19 18 0.53
ACGTcount: A:0.38, C:0.23, G:0.10, T:0.30
Consensus pattern (19 bp):
TATCGATACAACACTCATG
Found at i:52614 original size:49 final size:49
Alignment explanation
Indices: 52536--52764 Score: 287
Period size: 49 Copynumber: 4.7 Consensus size: 49
52526 CTAGTGTGTA
* * * * * ** *
52536 GATTCAAGGCCTGCAATACTAGACTTAAAGGTGAAGGTGTTAATGTGCT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATGCCAATATGCT
** * * *
52585 GATTCAAGGCCAGCGGCATTGGACATAAAGATGAAGATGCCAATGTGCT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATGCCAATATGCT
* *
52634 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATATGCT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATGCCAATATGCT
* * * *
52683 GATTTAAGACCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCT
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATGCCAATATGCT
52732 GATTCAAGGCCAGCAACATTGGACTTAAAGGTG
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTG
52765 CCAATATGTT
Statistics
Matches: 152, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
49 152 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (49 bp):
GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGATGCCAATATGCT
Found at i:52705 original size:98 final size:98
Alignment explanation
Indices: 52536--52764 Score: 359
Period size: 98 Copynumber: 2.3 Consensus size: 98
52526 CTAGTGTGTA
* * * * * * * *
52536 GATTCAAGGCCTGCAATACTAGACTTAAAGGTGAAGGTGTTAATGTGCTGATTCAAGGCCAGCGG
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATATGCTGATTCAAGACCAGCGA
*
52601 CATTGGACATAAAGATGAAGATGCCAATGTGCT
66 CATTGGACATAAAGATGAAGATGCCAATATGCT
*
52634 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATATGCTGATTTAAGACCAGCGA
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATATGCTGATTCAAGACCAGCGA
*
52699 CATTGGACTTAAAGATGAAGATGCCAATATGCT
66 CATTGGACATAAAGATGAAGATGCCAATATGCT
52732 GATTCAAGGCCAGCAACATTGGACTTAAAGGTG
1 GATTCAAGGCCAGCAACATTGGACTTAAAGGTG
52765 CCAATATGTT
Statistics
Matches: 120, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
98 120 1.00
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (98 bp):
GATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATATGCTGATTCAAGACCAGCGA
CATTGGACATAAAGATGAAGATGCCAATATGCT
Found at i:52784 original size:43 final size:44
Alignment explanation
Indices: 52581--52801 Score: 192
Period size: 49 Copynumber: 4.7 Consensus size: 44
52571 GGTGTTAATG
** * *
52581 TGCTGATTCAAGGCCAGCGGCATTGGACATAAAGATGAAGATGCCAATG
1 TGCTGATTCAAGGCCAGCAACATTGGACTTAAA-A-G--G-TGCCAATA
*
52630 TGCTGATTCAAGGCCAGCAACATTGGACTTAAAGGTGAAGGTGCTAATA
1 TGCTGATTCAAGGCCAGCAACATTGGACTT-AA----AAGGTGCCAATA
* * *
52679 TGCTGATTTAAGACCAGCGACATTGGACTTAAAGATGAAGATGCCAATA
1 TGCTGATTCAAGGCCAGCAACATTGGACTTAAA-A-G--G-TGCCAATA
52728 TGCTGATTCAAGGCCAGCAACATTGGACTT-AAAGGTGCCAATA
1 TGCTGATTCAAGGCCAGCAACATTGGACTTAAAAGGTGCCAATA
* * * *
52771 TGTTGATTTAAGGCCAGCGATATTGGACTTA
1 TGCTGATTCAAGGCCAGCAACATTGGACTTA
52802 GAAGAAGATG
Statistics
Matches: 145, Mismatches: 16, Indels: 27
0.77 0.09 0.14
Matches are distributed among these distances:
43 34 0.23
44 2 0.01
45 1 0.01
46 2 0.01
47 1 0.01
48 5 0.03
49 94 0.65
50 3 0.02
52 1 0.01
53 1 0.01
54 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.25, T:0.25
Consensus pattern (44 bp):
TGCTGATTCAAGGCCAGCAACATTGGACTTAAAAGGTGCCAATA
Found at i:52790 original size:92 final size:94
Alignment explanation
Indices: 52581--52814 Score: 323
Period size: 98 Copynumber: 2.5 Consensus size: 94
52571 GGTGTTAATG
* * * *
52581 TGCTGATTCAAGGCCAGCGGCATTGGACATAAAGATGAAGATGCCAATGTGCTGATTCAAGGCCA
1 TGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
*
52646 GCAACATTGGACTTAAAGGTGAAGGTGCTAATA
66 GCAACATTGGACTT-AA---GAAGGTGCCAATA
*
52679 TGCTGATTTAAGACCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
1 TGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
52744 GCAACATTGGACTT-A-AAGGTGCCAATA
66 GCAACATTGGACTTAAGAAGGTGCCAATA
* * *
52771 TGTTGATTTAAGGCCAGCGATATTGGACTT--AGAAGAAGATGCCA
1 TGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCA
52815 CTAACTTATG
Statistics
Matches: 126, Mismatches: 10, Indels: 8
0.88 0.07 0.06
Matches are distributed among these distances:
90 13 0.10
92 38 0.30
96 1 0.01
98 74 0.59
ACGTcount: A:0.33, C:0.17, G:0.26, T:0.24
Consensus pattern (94 bp):
TGCTGATTTAAGGCCAGCGACATTGGACTTAAAGATGAAGATGCCAATATGCTGATTCAAGGCCA
GCAACATTGGACTTAAGAAGGTGCCAATA
Found at i:52854 original size:28 final size:28
Alignment explanation
Indices: 52810--53281 Score: 536
Period size: 28 Copynumber: 16.8 Consensus size: 28
52800 TAGAAGAAGA
* *
52810 TGCCACTAACTTATGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
52838 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGG
52867 TGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
* * ** *
52895 TGCTACTAACTTGTGGGCTTCAAAAAGA
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
52923 TGCCACTGACTTGT-GGCTTTTG--AAGG
1 TGCCACTGACTTGTGGGC-TTTGAAAAGG
*
52949 TTGCCACTGACTTGTGGGCTTTGAAAGGGG
1 -TGCCACTGACTTGTGGGCTTTGAAA-AGG
*
52979 TGCCACCGACTTGTGGGCTTCTG--AAGG
1 TGCCACTGACTTGTGGGCTT-TGAAAAGG
*
53006 TTGCCACTAACTTGTGGGCTTTG--AAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
53033 TTGCCACTGACTTGTGGACTTTGAAAATG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
53062 TGCCACTAACTTGTGGGCTTTTG--CAGG
1 TGCCACTGACTTGTGGGC-TTTGAAAAGG
53089 TTGCCACTGACTTGTGGGCTTTGAAAAGG
1 -TGCCACTGACTTGTGGGCTTTGAAAAGG
* *
53118 TGCCACTAACTTGTGGGCTTTTGAAAAGA
1 TGCCACTGACTTGTGGGC-TTTGAAAAGG
53147 TGCCACTGACTTGTGGGCTTTGAAAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
*
53175 TGCCACTAACTTGTGGGCTTTG-AAAGG
1 TGCCACTGACTTGTGGGCTTTGAAAAGG
*
53202 ATGCCACTGACTTGTTGGCTTTTG--AAGG
1 -TGCCACTGACTTGTGGGC-TTTGAAAAGG
*
53230 TTGCCACTGACTTGTGGGCTTTGAAAGGGG
1 -TGCCACTGACTTGTGGGCTTTGAAA-AGG
*
53260 TGCCACCGACTTGTGGGCTTTG
1 TGCCACTGACTTGTGGGCTTTG
53282 GAAGGTGAGG
Statistics
Matches: 384, Mismatches: 39, Indels: 41
0.83 0.08 0.09
Matches are distributed among these distances:
26 3 0.01
27 65 0.17
28 202 0.53
29 108 0.28
30 6 0.02
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (28 bp):
TGCCACTGACTTGTGGGCTTTGAAAAGG
Found at i:52894 original size:57 final size:56
Alignment explanation
Indices: 52808--53281 Score: 606
Period size: 56 Copynumber: 8.4 Consensus size: 56
52798 CTTAGAAGAA
* * *
52808 GATGCCACTAACTTATGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAA
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGC-TTTGAAAG
* ** *
52865 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCTACTAACTTGTGGGCTTCAAAAA
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAG
*
52921 GATGCCACTGACTTGT-GGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGC-TTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAA-G
* *
52977 GGTGCCACCGACTTGTGGGCTTCTG--AAGGTTGCCACTAACTTGTGGGCTTTG-AAG
1 GATGCCACTGACTTGTGGGCTT-TGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAG
* * * *
53032 GTTGCCACTGACTTGTGGACTTTGAAAATGTGCCACTAACTTGTGGGCTTTTG-CAG
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGC-TTTGAAAG
* *
53088 GTTGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTTGAAAA
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGC-TTTGAAAG
53145 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAG
1 GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAG
* *
53201 GATGCCACTGACTTGTTGGCTTTTG--AAGGTTGCCACTGACTTGTGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGC-TTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAA-G
* *
53258 GGTGCCACCGACTTGTGGGCTTTG
1 GATGCCACTGACTTGTGGGCTTTG
53282 GAAGGTGAGG
Statistics
Matches: 376, Mismatches: 29, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
54 6 0.02
55 66 0.18
56 158 0.42
57 146 0.39
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (56 bp):
GATGCCACTGACTTGTGGGCTTTGAAAAGGTGCCACTAACTTGTGGGCTTTGAAAG
Found at i:52983 original size:56 final size:55
Alignment explanation
Indices: 52808--53287 Score: 560
Period size: 57 Copynumber: 8.5 Consensus size: 55
52798 CTTAGAAGAA
* * *
52808 GATGCCACTAACTTATGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTTGAAAA
1 GATGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTAACTTGTGGGC-TTTGAAAG
* ** *
52865 GATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCTACTAACTTGTGGGCTTCAAAAA
1 GATGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTAACTTGTGGGCTTTGAAAG
*
52921 GATGCCACTGACTTGT-GGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGC-TTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAA-G
* *
52977 GGTGCCACCGACTTGTGGGCTTCTGAAGGTTGCCACTAACTTGTGGGCTTTG-AAG
1 GATGCCACTGACTTGTGGGCTT-TGAAGGTTGCCACTAACTTGTGGGCTTTGAAAG
* * ** *
53032 GTTGCCACTGACTTGTGGACTTTGAAAATGTGCCACTAACTTGTGGGCTTTTG-CAG
1 GATGCCACTGACTTGTGGGCTTTGAAGGT-TGCCACTAACTTGTGGGC-TTTGAAAG
* *
53088 GTTGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTTGAAAA
1 GATGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTAACTTGTGGGC-TTTGAAAG
53145 GATGCCACTGACTTGTGGGCTTTGAAAAGG-TGCCACTAACTTGTGGGCTTTGAAAG
1 GATGCCACTGACTTGTGGGCTTTG--AAGGTTGCCACTAACTTGTGGGCTTTGAAAG
* *
53201 GATGCCACTGACTTGTTGGCTTTTGAAGGTTGCCACTGACTTGTGGGCTTTGAAAGG
1 GATGCCACTGACTTGTGGGC-TTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAA-G
* *
53258 GGTGCCACCGACTTGTGGGCTTTGGAAGGT
1 GATGCCACTGACTTGTGGGCTTT-GAAGGT
53288 GAGGAATGTC
Statistics
Matches: 378, Mismatches: 31, Indels: 28
0.86 0.07 0.06
Matches are distributed among these distances:
54 9 0.02
55 66 0.17
56 149 0.39
57 152 0.40
58 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.31
Consensus pattern (55 bp):
GATGCCACTGACTTGTGGGCTTTGAAGGTTGCCACTAACTTGTGGGCTTTGAAAG
Found at i:53637 original size:37 final size:37
Alignment explanation
Indices: 53593--53677 Score: 143
Period size: 37 Copynumber: 2.3 Consensus size: 37
53583 AAAGATGAAG
53593 CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
* * *
53630 CATAAATGCATCATGCAAAATGGAATGTTATGAATGT
1 CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
53667 CACAAATGCAT
1 CACAAATGCAT
53678 GATTGTTGCA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.44, C:0.14, G:0.15, T:0.27
Consensus pattern (37 bp):
CACAAATGCATCATGCAAAATGAAATGTTATGAATAT
Found at i:54736 original size:20 final size:20
Alignment explanation
Indices: 54711--54756 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
54701 TTTTTGTTGT
*
54711 TTTTTTCT-TTTTCTTTTTTA
1 TTTTTTCTCTTTTC-TCTTTA
*
54731 TTTTTTGTCTTTTCTCTTTA
1 TTTTTTCTCTTTTCTCTTTA
54751 TTTTTT
1 TTTTTT
54757 GGCAGGGGAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.04, C:0.11, G:0.02, T:0.83
Consensus pattern (20 bp):
TTTTTTCTCTTTTCTCTTTA
Found at i:65746 original size:21 final size:20
Alignment explanation
Indices: 65718--65756 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
65708 CACATTTTTG
65718 TCTAAATGTATCGATACATT
1 TCTAAATGTATCGATACATT
65738 TCTAGAATGTATCGATACA
1 TCTA-AATGTATCGATACA
65757 AGGAACGGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.36, C:0.15, G:0.13, T:0.36
Consensus pattern (20 bp):
TCTAAATGTATCGATACATT
Found at i:79208 original size:20 final size:20
Alignment explanation
Indices: 79183--79235 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
79173 TTTCAACGAT
79183 TTGTATCGATACATAAAGTG
1 TTGTATCGATACATAAAGTG
** *
79203 TTGTATCGATACATAATTTT
1 TTGTATCGATACATAAAGTG
79223 TTGTATCGATACA
1 TTGTATCGATACA
79236 ATTTAAGCTA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (20 bp):
TTGTATCGATACATAAAGTG
Found at i:86204 original size:18 final size:18
Alignment explanation
Indices: 86183--86217 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
86173 AAAGTGATGA
86183 AAAAAAAAAAACAAAAAC
1 AAAAAAAAAAACAAAAAC
* *
86201 AAAACAAAACACAAAAA
1 AAAAAAAAAAACAAAAA
86218 AACACAGAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.86, C:0.14, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAAAAAC
Found at i:87468 original size:31 final size:30
Alignment explanation
Indices: 87431--87592 Score: 164
Period size: 32 Copynumber: 5.2 Consensus size: 30
87421 AATTCTTCAA
*
87431 ATCTCTTCTCAAAGCCCACGACTCAGTGGC
1 ATCTTTTCTCAAAGCCCACGACTCAGTGGC
* * * *
87461 AATCTCTTCTTAAAGTCCACGACTCAATGGC
1 -ATCTTTTCTCAAAGCCCACGACTCAGTGGC
* *
87492 ATCCTTTTCTTTAAAGTCCACGACTCAGTGGC
1 AT-CTTTTC-TCAAAGCCCACGACTCAGTGGC
*
87524 AT-TTTGTCTCAAAGGCCACGACTCAGTGGC
1 ATCTTT-TCTCAAAGCCCACGACTCAGTGGC
* *
87554 ATCCTTTTCTTCAAAGCCCACAACTCTGTGGC
1 AT-CTTTTC-TCAAAGCCCACGACTCAGTGGC
*
87586 ACCTTTT
1 ATCTTTT
87593 TCTTTTTTTT
Statistics
Matches: 114, Mismatches: 11, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
30 27 0.24
31 41 0.36
32 46 0.40
ACGTcount: A:0.23, C:0.31, G:0.15, T:0.30
Consensus pattern (30 bp):
ATCTTTTCTCAAAGCCCACGACTCAGTGGC
Found at i:87511 original size:32 final size:32
Alignment explanation
Indices: 87441--87894 Score: 175
Period size: 35 Copynumber: 13.8 Consensus size: 32
87431 ATCTCTTCTC
*
87441 AAAGCCCACGACTCAGTGGCAAT-CTCTTC-TT
1 AAAGCCCACGACTCAGTGGC-ATCCTTTTCTTT
* *
87472 AAAGTCCACGACTCAATGGCATCCTTTTCTTT
1 AAAGCCCACGACTCAGTGGCATCCTTTTCTTT
* *
87504 AAAGTCCACGACTCAGTGGCAT--TTTGTC-TC
1 AAAGCCCACGACTCAGTGGCATCCTTT-TCTTT
* *
87534 AAAGGCCACGACTCAGTGGCATCCTTTTCTTC
1 AAAGCCCACGACTCAGTGGCATCCTTTTCTTT
* *
87566 AAAGCCCACAACTCTGTGGCA-CCTTTTTCTTTTTTTT
1 AAAGCCCACGACTCAGTGGCATCC-TTTTC-----TTT
* *
87603 AAAGCCCACAACTCCA-TGGCACTCTTTTTCCCTTT
1 AAAGCCCACGACT-CAGTGGCA-TCCTTTT--CTTT
* * * *
87638 TAAGTCCACAACTCCGTGGCA-CCTTGTTCCTTT
1 AAAGCCCACGACTCAGTGGCATCCTT-TT-CTTT
* * * * *
87671 TAAGTCCACAACTCCGTGGCA-CC--CT-TTT
1 AAAGCCCACGACTCAGTGGCATCCTTTTCTTT
* * * *
87699 AAAGCCCACAATTCCGTGGCAACCTTTTTCTTCT
1 AAAGCCCACGACTCAGTGGCATCC-TTTTCTT-T
* *
87733 CAAAGCCCACCACTCCGTGGCA--CTTATTCTTTTT
1 -AAAGCCCACGACTCAGTGGCATCCTT-TTC--TTT
* * *
87767 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTT
1 AAAGCCCACGACTCAGTGGCA-TCCTTTT--CTTT
* * * * *
87802 TAAGTCCACAACTCCGTGGCACCCTTTTTCCCTTTT
1 AAAGCCCACGACTCAGTGGCATCC-TTTT--C-TTT
* * * *
87838 AAAGTCCACGATTCCGTGGCA-CCTTCTT-TTC
1 AAAGCCCACGACTCAGTGGCATCCTT-TTCTTT
* * *
87869 AAAGCCCACAACTCCGTGGCACCCTT
1 AAAGCCCACGACTCAGTGGCATCCTT
87895 GTAAGCCCAC
Statistics
Matches: 349, Mismatches: 36, Indels: 75
0.76 0.08 0.16
Matches are distributed among these distances:
28 21 0.06
29 2 0.01
30 28 0.08
31 49 0.14
32 58 0.17
33 57 0.16
34 8 0.02
35 75 0.21
36 23 0.07
37 21 0.06
38 5 0.01
39 1 0.00
40 1 0.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.31
Consensus pattern (32 bp):
AAAGCCCACGACTCAGTGGCATCCTTTTCTTT
Found at i:87555 original size:62 final size:62
Alignment explanation
Indices: 87439--87586 Score: 199
Period size: 62 Copynumber: 2.4 Consensus size: 62
87429 AAATCTCTTC
* *
87439 TCAAAGCCCACGACTCAGTGGCAATCTCTTCTTAAAGTCCACGACTCAATGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGC-ATCTCTTCTCAAAGGCCACGACTCAATGGCATCCTTTTCT
* * * *
87502 TTAAAGTCCACGACTCAGTGGCAT-TTTGTCTCAAAGGCCACGACTCAGTGGCATCCTTTTCT
1 TCAAAGCCCACGACTCAGTGGCATCTCT-TCTCAAAGGCCACGACTCAATGGCATCCTTTTCT
* *
87564 TCAAAGCCCACAACTCTGTGGCA
1 TCAAAGCCCACGACTCAGTGGCA
87587 CCTTTTTCTT
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
61 2 0.03
62 52 0.70
63 20 0.27
ACGTcount: A:0.25, C:0.30, G:0.17, T:0.28
Consensus pattern (62 bp):
TCAAAGCCCACGACTCAGTGGCATCTCTTCTCAAAGGCCACGACTCAATGGCATCCTTTTCT
Found at i:87658 original size:35 final size:34
Alignment explanation
Indices: 87567--88222 Score: 541
Period size: 33 Copynumber: 19.9 Consensus size: 34
87557 CTTTTCTTCA
* **
87567 AAGCCCACAACTCTGTGGCACCTTTTTCTTTTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTC--CCTTTT
*
87603 AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTT
* *
87639 AAGTCCACAACTCCGTGGCACCTTGTT-CCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
*
87672 AAGTCCACAACTCCGTGGCA-------CCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
* *
87699 AAAGCCCACAATTCCGTGGCAACCTTTTT--CTTCTCA
1 -AAGCCCACAACTCCGTGGC-ACCTTTTTCCCTT-T-T
* * *
87735 AAGCCCACCACTCCGTGGCA-CTTATT-CTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
87767 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTT
*
87803 AAGTCCACAACTCCGTGGCACCCTTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCA-CCTTTTTCCCTTTT
* * * * **
87838 AAAGTCCACGATTCCGTGGCACCTTCTT---TTCA
1 -AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
*
87870 AAGCCCACAACTCCGTGGCA-------CCCTTGT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
* *
87897 AAGCCCACAACTCCGTGGCA-CTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCT-TTT
*
87931 AAGTCCACAACTCCGTGGCA-------CCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
* *
87958 AAGCCCACAACTCCGTGGCA-CTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCT-TTT
*
87992 AAGTCCACAACTCCGTGGCA-------CCCTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
* *
88019 AAGCCCACAACTCCGTGGCACCTTTCT-CCTTCT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
*
88052 AAGCCCACAACTCCGTGGCACCTTTTT-CTTTTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
88085 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTT
*
88121 CAAAGCCCACAACTCCGTGACACCTTTTT--CTTTT
1 --AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
88155 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCAC-CTTTTTCCCTTTT
* * *
88191 AAGTCCACAACTCCGTGGCATCTTTCTCCCTT
1 AAGCCCACAACTCCGTGGCACCTTTTTCCCTT
88223 CCCAAAGCCC
Statistics
Matches: 516, Mismatches: 52, Indels: 105
0.77 0.08 0.16
Matches are distributed among these distances:
27 72 0.14
28 21 0.04
29 1 0.00
31 17 0.03
32 2 0.00
33 111 0.22
34 96 0.19
35 105 0.20
36 44 0.09
37 40 0.08
38 7 0.01
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (34 bp):
AAGCCCACAACTCCGTGGCACCTTTTTCCCTTTT
Found at i:87714 original size:28 final size:27
Alignment explanation
Indices: 87666--87726 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
87656 GCACCTTGTT
* *
87666 CCTTTTAAGTCCACAACTCCGTGGCAC
1 CCTTTTAAGCCCACAACTCCGTGGCAA
*
87693 CCTTTTAAAGCCCACAATTCCGTGGCAA
1 CCTTTT-AAGCCCACAACTCCGTGGCAA
87721 CCTTTT
1 CCTTTT
87727 TCTTCTCAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 6 0.20
28 24 0.80
ACGTcount: A:0.23, C:0.34, G:0.13, T:0.30
Consensus pattern (27 bp):
CCTTTTAAGCCCACAACTCCGTGGCAA
Found at i:87891 original size:67 final size:67
Alignment explanation
Indices: 87692--88268 Score: 239
Period size: 61 Copynumber: 8.7 Consensus size: 67
87682 CTCCGTGGCA
* *
87692 CCCTTTTAAAGCCCACAATTCCGTGGCAACCTTTTTCTTCTCAAAGCCCACCACTCCGTGGCA--
1 CCCTTTTAAAGCCCACAATTCCGTGGC-ACC---TTCTTTTCAAAGCCCACAACTCCGTGGCACC
87755 CTTATT
62 CTTATT
* * * ** *
87761 -CTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACC
1 CCCTTTTAAAGCCCACAATTCCGTGGCAC-CTTCTT---TTCAAAGCCCACAACTCCGTGGCACC
*
87825 CTTTTT
62 CTTATT
* *
87831 CCCTTTTAAAGTCCACGATTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGG----C--A
1 CCCTTTTAAAGCCCACAATTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTA
87890 --
66 TT
* * *
87890 CCCTTGT-AAGCCCACAACTCCGTGGCA-CTT-TTTTCATCTTTAAGTCCACAACTCCGTGG---
1 CCCTTTTAAAGCCCACAATTCCGTGGCACCTTCTTTTCA-----AAGCCCACAACTCCGTGGCAC
87949 -C--A--
61 CCTTATT
* *
87951 CCCTTTT-AAGCCCACAACTCCGTGGCA-CTT-TTTTCATCTTTAAGTCCACAACTCCGTGG---
1 CCCTTTTAAAGCCCACAATTCCGTGGCACCTTCTTTTCA-----AAGCCCACAACTCCGTGGCAC
88010 -C--A--
61 CCTTATT
* * *
88012 CCCTTTT-AAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAGCCCACAACTCCGTGGCA-CCT
1 CCCTTTTAAAGCCCACAATTCCGTGGCACC-TTCT-TTTCAAAGCCCACAACTCCGTGGCACCCT
88075 T-TT
64 TATT
* * * *
88078 TCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGACA
1 CCCTTTTAAAGCCCACAATTCCGTGGCAC-C---TT--CTTTTCAAAGCCCACAACTCCGTGGCA
88143 -CCTT-TT
60 CCCTTATT
* * * ** * *
88149 -TCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCA-T
1 CCCTTTTAAAGCCCACAATTCCGTGGCAC-CTTCTT---TTCAAAGCCCACAACTCCGTGGCACC
88212 CTT-TCT
62 CTTAT-T
** * *
88218 CCCTTCCCAAAGCCCACACAAGTCGGTGGCAACCTTC-TTTCAAAGCCCACA
1 CCCTT-TTAAAG-CC-CACAATTCCGTGGC-ACCTTCTTTTCAAAGCCCACA
88269 CAAGTCGGTG
Statistics
Matches: 421, Mismatches: 49, Indels: 76
0.77 0.09 0.14
Matches are distributed among these distances:
56 6 0.01
57 3 0.01
58 17 0.04
59 6 0.01
60 17 0.04
61 106 0.25
62 1 0.00
63 4 0.01
64 1 0.00
65 9 0.02
66 5 0.01
67 44 0.10
68 69 0.16
69 11 0.03
70 44 0.10
71 56 0.13
72 5 0.01
73 15 0.04
74 2 0.00
ACGTcount: A:0.21, C:0.36, G:0.12, T:0.31
Consensus pattern (67 bp):
CCCTTTTAAAGCCCACAATTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCACCCTTA
TT
Found at i:87908 original size:27 final size:26
Alignment explanation
Indices: 87870--88073 Score: 156
Period size: 27 Copynumber: 6.8 Consensus size: 26
87860 CTTCTTTTCA
87870 AAGCCCACAACTCCGTGGCACCCTTGT
1 AAGCCCACAACTCCGTGGCACCCTT-T
87897 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCAC------C--CTTT
*
87931 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACCC-TTT
87958 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCAC------C--CTTT
*
87992 AAGTCCACAACTCCGTGGCACCCTTTT
1 AAGCCCACAACTCCGTGGCACCC-TTT
88019 AAGCCCACAACTCCGTGGCACCTTTCTCCTTCT
1 AAGCCCACAACTCCGTGGCA-----C-CCTT-T
88052 AAGCCCACAACTCCGTGGCACC
1 AAGCCCACAACTCCGTGGCACC
88074 TTTTTCTTTT
Statistics
Matches: 148, Mismatches: 4, Indels: 50
0.73 0.02 0.25
Matches are distributed among these distances:
26 2 0.01
27 67 0.45
28 3 0.02
32 3 0.02
33 25 0.17
34 44 0.30
35 4 0.03
ACGTcount: A:0.22, C:0.38, G:0.14, T:0.26
Consensus pattern (26 bp):
AAGCCCACAACTCCGTGGCACCCTTT
Found at i:87944 original size:34 final size:33
Alignment explanation
Indices: 87567--88215 Score: 453
Period size: 35 Copynumber: 19.7 Consensus size: 33
87557 CTTTTCTTCA
* * *
87567 AAGCCCACAACTCTGTGGCACCTTTTTCTTTTTTTT
1 AAGCCCACAACTCCGTGGCA-C-TTTT-TTCTCTTT
* *
87603 AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
* * *
87639 AAGTCCACAACTCCGTGGCACCTTGTTC-CTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTC-TTT
* *
87672 AAGTCCACAACTCCGTGGCAC-----CCT-TTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* * **
87699 AAAGCCCACAATTCCGTGGCAACCTTTTTCTTCTCA
1 -AAGCCCACAACTCCGTGGC-ACTTTTTTC-TCTTT
* * *
87735 AAGCCCACCACTCCGTGGCAC-TTATTCTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
87767 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
* * *
87803 AAGTCCACAACTCCGTGGCACCCTTTTTCCCTTTT
1 AAGCCCACAACTCCGTGGCA-CTTTTTTCTC-TTT
* * * * *
87838 AAAGTCCACGATTCCGTGGCACCTTCTTT-TC--A
1 -AAGCCCACAACTCCGTGGCA-CTTTTTTCTCTTT
87870 AAGCCCACAACTCCGTGGCAC------C-CTTGT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTT-T
87897 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
* *
87931 AAGTCCACAACTCCGTGGCAC-----CCT-TTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
87958 AAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTC-TCTTT
* *
87992 AAGTCCACAACTCCGTGGCAC-----CCT-TTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
* *
88019 AAGCCCACAACTCCGTGGCACCTTTCTC-CTTCT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTT-T
* *
88052 AAGCCCACAACTCCGTGGCACCTTTTTCTTTTT
1 AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
88085 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
* *
88121 CAAAGCCCACAACTCCGTGACACCTTTTTCT-TTT
1 --AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
*
88155 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 -AAGCCCACAACTCCGTGGCACT-TTTTTCTC-TTT
*
88191 AAGTCCACAACTCCGTGGCATCTTT
1 AAGCCCACAACTCCGTGGCA-CTTT
88216 CTCCCTTCCC
Statistics
Matches: 502, Mismatches: 57, Indels: 108
0.75 0.09 0.16
Matches are distributed among these distances:
24 1 0.00
27 70 0.14
28 20 0.04
29 4 0.01
30 1 0.00
31 17 0.03
32 6 0.01
33 103 0.21
34 84 0.17
35 107 0.21
36 50 0.10
37 39 0.08
ACGTcount: A:0.20, C:0.35, G:0.12, T:0.32
Consensus pattern (33 bp):
AAGCCCACAACTCCGTGGCACTTTTTTCTCTTT
Found at i:87944 original size:61 final size:60
Alignment explanation
Indices: 87874--88210 Score: 397
Period size: 61 Copynumber: 5.3 Consensus size: 60
87864 TTTTCAAAGC
* *
87874 CCACAACTCCGTGGCACCCTTGTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTC-CCTTTAAGT
*
87935 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTTAAGT
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTC-CCTTTAAGT
* * *
87996 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACCTTTCT-CCTTCTAAGC
1 CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCCCTT-TAAGT
88056 CCACAACTCCGTGGCACCTTTTTCTTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTT
1 CCACAACTCCGTGGCACC-----C-TTTT-AAGCCCACAACTCCGTGGCACT-TTTTTCCC-TTT
*
88121 CAAAGC
57 --AAGT
*
88127 CCACAACTCCGTGACACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTA
1 CCACAACTCCGTGGCACC-----CTTTT-AAGCCCACAACTCCGTGGCACT-TTTTTCCC-TTTA
88192 AGT
58 AGT
88195 CCACAACTCCGTGGCA
1 CCACAACTCCGTGGCA
88211 TCTTTCTCCC
Statistics
Matches: 253, Mismatches: 10, Indels: 19
0.90 0.04 0.07
Matches are distributed among these distances:
59 3 0.01
60 22 0.09
61 108 0.43
65 1 0.00
66 4 0.02
67 21 0.08
68 22 0.09
69 3 0.01
70 42 0.17
71 27 0.11
ACGTcount: A:0.21, C:0.36, G:0.13, T:0.30
Consensus pattern (60 bp):
CCACAACTCCGTGGCACCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCCCTTTAAGT
Found at i:88055 original size:155 final size:155
Alignment explanation
Indices: 87441--88182 Score: 618
Period size: 164 Copynumber: 4.6 Consensus size: 155
87431 ATCTCTTCTC
* * * * * **
87441 AAAGCCCACGACTCAGTGGCAATCTCTTCTTAAAGTCCACGACTCAATGGCATCC-TTTTC-TTT
1 AAAGCCCACAACTCCGTGGC-ATCCCTT-TT-AAGCCCACAACTCCGTGGCA-CCTTTTTCTTTT
* * ** * * *
87504 AAAGTCCACGACTCAGTGGCA-TTTTGTCTCAAAGGCCACGACTCAGTGGCATCCTTT-T-CTTC
62 AAAGTCCACAACTCCGTGGCACCCTT-T-T-AAAGCCCACAACTCCGTGGCA-CCTTTCTCCTTC
* *
87566 AAAGCCCACAACTCTGTGGCACCTTTTTCTTTTTTTT
123 TAAGCCCACAACTCCGTGGCA-CTTTTTC---TTTTT
* * *
87603 AAAGCCCACAACTCCATGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCTTGTTCC
1 AAAGCCCACAACTCCGTGGCA-------TCCCTTTTAAGCCCACAACTCCGTGGCACCTT-TTTC
* *
87668 TTTT-AAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAATTCCGTGGCAACCTTT-TTCTT
58 TTTTAAAGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGC-ACCTTTCTCCTT
* *
87731 CTCAAAGCCCACCACTCCGTGGCACTTATTCTTTTT
122 CT--AAGCCCACAACTCCGTGGCACTTTTTCTTTTT
*
87767 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTAAGTCCACAACTCCGTGGCACCCTTTTTC
1 AAAGCCCACAACTCCGTGGCA-------TCCCTTTTAAGCCCACAACTCCGTGGCA-CCTTTTT-
* *
87832 CCTTTTAAAGTCCACGATTCCGTGGCACCTTCTTTTCAAAGCCCACAACTCCGTGGCA-----C-
57 -CTTTTAAAGTCCACAACTCCGTGGCACC--CTTTT-AAAGCCCACAACTCCGTGGCACCTTTCT
* *
87891 CCTTGTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT
118 CCTTCTAAGCCCACAACTCCGTGGCAC-TTTTTC-TTTTT
* *
87931 -AAGTCCACAACTCCGTGGCA-CCCTTTTAAGCCCACAACTCCGTGGCACTTTTTTCATCTTT-A
1 AAAGCCCACAACTCCGTGGCATCCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTC-T-TTTAA
87993 AGTCCACAACTCCGTGGCACCCTTTT-AAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAGCC
64 AGTCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAGCC
88057 CACAACTCCGTGGCACCTTTTTCTTTTT
129 CACAACTCCGTGGCA-CTTTTTCTTTTT
*
88085 AAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCAAAGCCCACAACTCCGTGACACCTTTTT
1 AAAGCCCACAACTCCGTGGCA-------TCCCTTTT--AAGCCCACAACTCCGTGGCACCTTTTT
* *
88150 CTTTTAAAGCCCACAACTCCGTGGCACTCTTTT
57 CTTTTAAAGTCCACAACTCCGTGGCACCCTTTT
88183 TCCCTTTTAA
Statistics
Matches: 492, Mismatches: 42, Indels: 90
0.79 0.07 0.14
Matches are distributed among these distances:
149 20 0.04
151 5 0.01
152 1 0.00
153 21 0.04
154 14 0.03
155 76 0.15
156 1 0.00
161 1 0.00
162 37 0.08
163 34 0.07
164 96 0.20
165 54 0.11
166 29 0.06
167 50 0.10
168 28 0.06
169 6 0.01
170 19 0.04
ACGTcount: A:0.21, C:0.34, G:0.13, T:0.31
Consensus pattern (155 bp):
AAAGCCCACAACTCCGTGGCATCCCTTTTAAGCCCACAACTCCGTGGCACCTTTTTCTTTTAAAG
TCCACAACTCCGTGGCACCCTTTTAAAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAGCCCA
CAACTCCGTGGCACTTTTTCTTTTT
Found at i:88256 original size:104 final size:102
Alignment explanation
Indices: 88019--88268 Score: 299
Period size: 104 Copynumber: 2.4 Consensus size: 102
88009 GCACCCTTTT
* * *
88019 AAGCCCACAACTCCGTGGCACCTTTCTCCTTCTAAGCCCACAACTCCGTGGCACCTTTTTCTTTT
1 AAGCCCACAACTCCGTGACACCTTTCT--TTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTT
* **
88084 TAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTTTTCA
64 TAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCCA
*
88123 AAGCCCACAACTCCGTGACACCTTTTTCTTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCCT
1 AAGCCCACAACTCCGTGACACC--TTTCTTTCAAAGCCCACAACTCCGTGGCAC-CTTTTT-CCT
*
88188 TTT-AAGTCCACAACTCCGTGGCA-TCTTTCTCCCTTCCCA
62 TTTAAAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCCA
* * *
88227 AAGCCCACACAAGTCGGTGGCAACC-TTCTTTCAAAGCCCACA
1 AAG-CC-CACAACTCCGTGAC-ACCTTTCTTTCAAAGCCCACA
88269 CAAGTCGGTG
Statistics
Matches: 127, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
104 76 0.60
105 27 0.21
106 21 0.17
107 3 0.02
ACGTcount: A:0.22, C:0.37, G:0.12, T:0.29
Consensus pattern (102 bp):
AAGCCCACAACTCCGTGACACCTTTCTTTCAAAGCCCACAACTCCGTGGCACCTTTTTCCTTTTA
AAGCCCACAACTCCGTGGCACTCTTTCTCCCTTCCCA
Found at i:88262 original size:33 final size:32
Alignment explanation
Indices: 88226--88395 Score: 236
Period size: 33 Copynumber: 5.2 Consensus size: 32
88216 CTCCCTTCCC
*
88226 AAAGCCCACACAAGTCGGTGGCAACCTTCTTT
1 AAAGCCCACACAAGTCGGTGGCAACCTTCTCT
*
88258 CAAAGCCCACACAAGTCGGTGGCAACCTTCTTTT
1 -AAAGCCCACACAAGTCGGTGGCAACCTTC-TCT
*
88292 AAAGCCCACACAAGTCGGTGACAACCCTTCTCT
1 AAAGCCCACACAAGTCGGTGGCAA-CCTTCTCT
* *
88325 AAAGCCCACACAGGTTGGTGGCAACCATTCTCT
1 AAAGCCCACACAAGTCGGTGGCAACC-TTCTCT
*
88358 AAAGCCCACACAAGTCGGTGGCAACCCT-TCT
1 AAAGCCCACACAAGTCGGTGGCAACCTTCTCT
88389 -AAGCCCA
1 AAAGCCCA
88396 ATGTAGCTGG
Statistics
Matches: 126, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
30 7 0.06
31 3 0.02
32 3 0.02
33 105 0.83
34 8 0.06
ACGTcount: A:0.29, C:0.34, G:0.18, T:0.19
Consensus pattern (32 bp):
AAAGCCCACACAAGTCGGTGGCAACCTTCTCT
Found at i:88500 original size:49 final size:48
Alignment explanation
Indices: 88401--88899 Score: 516
Period size: 49 Copynumber: 10.6 Consensus size: 48
88391 GCCCAATGTA
*
88401 GCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATTTCATCTTTAAGTCCAATATC
* *
88444 GCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-TTTCATCTTTAAGTCCAATATC
*
88493 GCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATTTCATCTTTAAGTCCAATATC
* * *
88536 GCTGGCCTTGAATTAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCAT-TTCATCTTTAAGTCCAATATC
* * *
88585 GCTGGCCTTGAATCAGAACATTGG-A----ACCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATTTCATCTTTAAGTCCAATATC
* *
88628 GCTGGCCTTGAATCAGCATATTGGCACCTTCACCTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCA-TTTCATCTTTAAGTCCAATATC
* *
88677 GCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCAT-TTCATCTTTAAGTCCAATATC
*
88726 GCTGGCCTTGAATCAGCACATTGGCA---C--CTTTAAGTCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCATTTCATCTTTAAGTCCAATATC
* * * *
88769 GCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTTCAATGTA
1 GCTGGCCTTGAATCAGCATATTGGCA-TTTCATCTTTAAGTCCAATATC
* * * *
88818 GTTGGCCTTGAATCAGCACATTGACATCCTTTTTCTCATCTTTAAGCCCAATATC
1 GCTGGCCTTGAATCAGCATATTGGCA------TT-TCATCTTTAAGTCCAATATC
* * *
88873 GTTGGCCATGAATCAACATATTGGCAT
1 GCTGGCCTTGAATCAGCATATTGGCAT
88900 CTTTATCACT
Statistics
Matches: 383, Mismatches: 42, Indels: 56
0.80 0.09 0.12
Matches are distributed among these distances:
43 139 0.36
44 1 0.00
45 2 0.01
47 3 0.01
48 1 0.00
49 198 0.52
54 1 0.00
55 38 0.10
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.32
Consensus pattern (48 bp):
GCTGGCCTTGAATCAGCATATTGGCATTTCATCTTTAAGTCCAATATC
Found at i:88554 original size:92 final size:91
Alignment explanation
Indices: 88388--88798 Score: 571
Period size: 92 Copynumber: 4.5 Consensus size: 91
88378 GCAACCCTTC
*
88388 TAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
88453 GAATCAGCATATTGGCACTTTCATCTT
66 GAATCAGCATATTGGCA-TTTCATCTT
88480 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
*
88545 GAATTAGCATATTGGCATCTTCATCTT
66 GAATCAGCATATTGGCAT-TTCATCTT
* *
88572 TAAGTCCAATGTAGCTGGCCTTGAATCAGAACATTGGAACCTTTAAGTCCAATATCGCTGGCCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
* *
88637 GAATCAGCATATTGGCACCTTCACCTT
66 GAATCAGCATATTGGCA-TTTCATCTT
* * * * *
88664 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGTAGCT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATATCGCT
*
88729 GGCCTTGAATCAGCACATTGGCA---C--CTT
60 GGCCTTGAATCAGCATATTGGCATTTCATCTT
* * *
88756 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTT
1 TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTT
88799 CATCTTTAAG
Statistics
Matches: 296, Mismatches: 15, Indels: 22
0.89 0.05 0.07
Matches are distributed among these distances:
86 3 0.01
88 1 0.00
91 1 0.00
92 250 0.84
94 1 0.00
96 1 0.00
98 39 0.13
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (91 bp):
TAAGTCCAATGTAGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTT
GAATCAGCATATTGGCATTTCATCTT
Found at i:88682 original size:141 final size:141
Alignment explanation
Indices: 88383--88845 Score: 581
Period size: 141 Copynumber: 3.3 Consensus size: 141
88373 CGGTGGCAAC
* * * * *
88383 CCTTCTAAGCCCAATGTAGCTGGCCTTGAATCAGCACATTGGCA----C--CTTTAAGTCCAATA
1 CCTT-TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATG
* * * * * *
88442 TCGCTGGCCTTGAATCAGCATATTGGCACTTTCATCTTTAAGTCCAATGTAGCTGGCCTTGAATC
65 TAGCTGGCCTTGAATCAGAACATTGG-A-----ACCTTTAAGTCCAATATCGCTGGCCTTGAATC
*
88507 AGCACATTGG------CA
124 AGCATATTGGCACCTTCA
*
88519 CCTTTAAGTCCAATATCGCTGGCCTTGAATTAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
88584 AGCTGGCCTTGAATCAGAACATTGGAACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGAACATTGGAACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
88649 TGGCACCTTCA
131 TGGCACCTTCA
88660 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
* *
88725 AGCTGGCCTTGAATCAGCACATTGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
66 AGCTGGCCTTGAATCAGAACATTGGAACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
88790 TGGCACCTTCA
131 TGGCACCTTCA
* * * * * * *
88801 TCTTTAAGTTCAATGTAGTTGGCCTTGAATCAGCACATTGACATC
1 CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATC
88846 CTTTTTCTCA
Statistics
Matches: 292, Mismatches: 23, Indels: 19
0.87 0.07 0.06
Matches are distributed among these distances:
135 72 0.25
136 4 0.01
139 1 0.00
140 1 0.00
141 214 0.73
ACGTcount: A:0.25, C:0.25, G:0.18, T:0.31
Consensus pattern (141 bp):
CCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAATGT
AGCTGGCCTTGAATCAGAACATTGGAACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATAT
TGGCACCTTCA
Found at i:88800 original size:92 final size:92
Alignment explanation
Indices: 88658--88849 Score: 339
Period size: 92 Copynumber: 2.1 Consensus size: 92
88648 TTGGCACCTT
*
88658 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCATCTTCATCTTTAAGTCCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
88723 GTAGCTGGCCTTGAATCAGCACATTGG
66 GTAGCTGGCCTTGAATCAGCACATTGA
*
88750 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTTCAAT
1 CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
*
88815 GTAGTTGGCCTTGAATCAGCACATTGA
66 GTAGCTGGCCTTGAATCAGCACATTGA
88842 CATCCTTT
1 CA-CCTTT
88850 TTCTCATCTT
Statistics
Matches: 95, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 90 0.95
93 5 0.05
ACGTcount: A:0.25, C:0.25, G:0.17, T:0.33
Consensus pattern (92 bp):
CACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTCATCTTTAAGTCCAAT
GTAGCTGGCCTTGAATCAGCACATTGA
Found at i:89779 original size:13 final size:13
Alignment explanation
Indices: 89761--89785 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89751 CATAAAGTGT
89761 TGTATCGATACAA
1 TGTATCGATACAA
89774 TGTATCGATACA
1 TGTATCGATACA
89786 TATTTTTTTG
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:89783 original size:33 final size:33
Alignment explanation
Indices: 89741--89807 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
89731 TTCAACGATT
89741 TGTATCGATACATAAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
*** *
89774 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAGTGTTGTATCGATACAA
89807 T
1 T
89808 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAGTGTTGTATCGATACAA
Found at i:89866 original size:13 final size:13
Alignment explanation
Indices: 89848--89872 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89838 ATTACTCAAA
89848 TGTATCGATACAT
1 TGTATCGATACAT
89861 TGTATCGATACA
1 TGTATCGATACA
89873 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:89937 original size:52 final size:52
Alignment explanation
Indices: 89881--90005 Score: 223
Period size: 52 Copynumber: 2.4 Consensus size: 52
89871 CACTGATCTT
*
89881 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
89933 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
*
89985 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
90006 CTTTTCATAT
Statistics
Matches: 70, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 70 1.00
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATGTATCGATACACTATAAAA
Found at i:102423 original size:52 final size:54
Alignment explanation
Indices: 102345--102452 Score: 148
Period size: 52 Copynumber: 2.0 Consensus size: 54
102335 CGAAATATGA
*
102345 AAATTTACCTGCATGTGTCGATACATTT-AATAATGTATCGATACA-TCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTGAATAATGTATCGATACATTCTGGGC
* ** *
102397 AAATTTGCCTGCATGTATCGATACATTTGGGTAGTGTATCGATACATTTCTGGGC
1 AAATTTACCTGCATGTATCGATACATTTGAATAATGTATCGATACA-TTCTGGGC
102452 A
1 A
102453 GTAGCTTACA
Statistics
Matches: 48, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
52 26 0.54
53 14 0.29
55 8 0.17
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (54 bp):
AAATTTACCTGCATGTATCGATACATTTGAATAATGTATCGATACATTCTGGGC
Found at i:102492 original size:19 final size:18
Alignment explanation
Indices: 102464--102561 Score: 72
Period size: 13 Copynumber: 5.8 Consensus size: 18
102454 TAGCTTACAT
102464 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
*
102483 TGTATTGATAC--A--T-
1 TGTATCGATACAAACTTA
*
102496 TGTATTGATACAACACTTA
1 TGTATCGATACAA-ACTTA
102515 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
102528 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
102548 TGTATCGATACAAA
1 TGTATCGATACAAA
102562 TCGTTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 26
0.70 0.02 0.28
Matches are distributed among these distances:
13 22 0.34
14 2 0.03
16 4 0.06
18 1 0.02
19 22 0.34
20 13 0.20
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:102500 original size:32 final size:32
Alignment explanation
Indices: 102459--102559 Score: 166
Period size: 32 Copynumber: 3.1 Consensus size: 32
102449 GGCAGTAGCT
* *
102459 TACATTGTATCGATACAAAACTTATGTATTGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
102491 TACATTGTATTGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
102523 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
102556 TACA
1 TACA
102560 AATCGTTGAA
Statistics
Matches: 64, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
32 49 0.77
33 15 0.23
ACGTcount: A:0.36, C:0.16, G:0.12, T:0.37
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:102826 original size:31 final size:31
Alignment explanation
Indices: 102759--102942 Score: 246
Period size: 31 Copynumber: 5.9 Consensus size: 31
102749 TTTAAAAGGA
*
102759 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTT-AAGAAGA-GAT
*
102791 TGCCACTGAGTCATGGACTTTAAGAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
* * *
102822 TGCCACTGAGTCGTGGACTTTGAGAGGGGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
*
102853 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-
1 TGCCACTGAGTCGTGGACTTT-AAGAAGA-GAT
*
102885 TGCCACTGAGTCGTGGACTTTAAAAAGAGAT
1 TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
*
102916 TGCCACTGAGTCGTGGACTTTGAGAAG
1 TGCCACTGAGTCGTGGACTTTAAGAAG
102943 GTATTTGAAG
Statistics
Matches: 134, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
30 4 0.03
31 84 0.63
32 44 0.33
33 2 0.01
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.24
Consensus pattern (31 bp):
TGCCACTGAGTCGTGGACTTTAAGAAGAGAT
Found at i:102832 original size:63 final size:63
Alignment explanation
Indices: 102755--102942 Score: 260
Period size: 63 Copynumber: 3.0 Consensus size: 63
102745 CATTTTTAAA
*
102755 AGGATGCCACTGAGTCGTGGACTTTGAAGAAAAGGA-TGCCACTGAGTCATGGACTTTAAGAAG
1 AGGATGCCACTGAGTCGTGGACTTTG-AGAAAAGGATTGCCACTGAGTCGTGGACTTTAAGAAG
** *
102818 A-GATTGCCACTGAGTCGTGGACTTTGAG-AGGGGATTGCCACTGAGTCGTGGACTTTGAAGAAA
1 AGGA-TGCCACTGAGTCGTGGACTTTGAGAAAAGGATTGCCACTGAGTCGTGGACTTT-AAGAAG
*
102881 AGGATGCCACTGAGTCGTGGACTTT-A-AAAAGAGATTGCCACTGAGTCGTGGACTTTGAGAAG
1 AGGATGCCACTGAGTCGTGGACTTTGAGAAAAG-GATTGCCACTGAGTCGTGGACTTTAAGAAG
102943 GTATTTGAAG
Statistics
Matches: 111, Mismatches: 8, Indels: 13
0.84 0.06 0.10
Matches are distributed among these distances:
61 4 0.04
62 31 0.28
63 74 0.67
64 2 0.02
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (63 bp):
AGGATGCCACTGAGTCGTGGACTTTGAGAAAAGGATTGCCACTGAGTCGTGGACTTTAAGAAG
Found at i:102920 original size:94 final size:94
Alignment explanation
Indices: 102759--102940 Score: 346
Period size: 94 Copynumber: 1.9 Consensus size: 94
102749 TTTAAAAGGA
*
102759 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTAAGAAGAGATTG
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTAAAAAGAGATTG
102824 CCACTGAGTCGTGGACTTTGAGAGGGGAT
66 CCACTGAGTCGTGGACTTTGAGAGGGGAT
*
102853 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCGTGGACTTTAAAAAGAGATTG
1 TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTAAAAAGAGATTG
102918 CCACTGAGTCGTGGACTTTGAGA
66 CCACTGAGTCGTGGACTTTGAGA
102941 AGGTATTTGA
Statistics
Matches: 86, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.28, C:0.16, G:0.31, T:0.25
Consensus pattern (94 bp):
TGCCACTGAGTCGTGGACTTTGAAGAAAAGGATGCCACTGAGTCATGGACTTTAAAAAGAGATTG
CCACTGAGTCGTGGACTTTGAGAGGGGAT
Found at i:103072 original size:16 final size:17
Alignment explanation
Indices: 103041--103078 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
103031 GATGCAAATA
* *
103041 ATGATGTTATTGATGTT
1 ATGATGTCATTGATGTC
103058 ATGATGTCA-TGATGTC
1 ATGATGTCATTGATGTC
103074 ATGAT
1 ATGAT
103079 TATAGCACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 11 0.58
17 8 0.42
ACGTcount: A:0.26, C:0.05, G:0.24, T:0.45
Consensus pattern (17 bp):
ATGATGTCATTGATGTC
Found at i:111292 original size:52 final size:52
Alignment explanation
Indices: 111214--111342 Score: 213
Period size: 52 Copynumber: 2.5 Consensus size: 52
111204 CGAAATATGA
*
111214 AAATTTGCCTGCATGTATCAATACATTTAATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
* * * *
111266 AAATTTGCCTGCATGTATCGATACATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
111318 AAATTTGCCTGCATGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACA
111343 AAGATTAGTG
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 72 1.00
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTAGGC
Found at i:111352 original size:52 final size:52
Alignment explanation
Indices: 111214--111362 Score: 201
Period size: 52 Copynumber: 2.9 Consensus size: 52
111204 CGAAATATGA
* * * *
111214 AAATTTGCCTGCATGTATCAATACATTTAATAATGTATCGATACATCTAGGC
1 AAATTTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATCTAGGC
* * *
111266 AAATTTGCCTGCATGTATCGATAC-ATTTTATAGTGTATCGATACATCTGGGT
1 AAATTTGCCTGCATGTATCGATACAATTAT-TAGTGTATCGATACATCTAGGC
**
111318 AAATTTGCCTGCATGTATCGATACAAAGATTAGTGTATCGATACA
1 AAATTTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACA
111363 ATGTATCGAT
Statistics
Matches: 85, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
51 2 0.02
52 81 0.95
53 2 0.02
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACAATTATTAGTGTATCGATACATCTAGGC
Found at i:111369 original size:13 final size:13
Alignment explanation
Indices: 111351--111375 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
111341 CAAAGATTAG
111351 TGTATCGATACAA
1 TGTATCGATACAA
111364 TGTATCGATACA
1 TGTATCGATACA
111376 TTTGGGTAGT
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:111397 original size:86 final size:84
Alignment explanation
Indices: 111278--111461 Score: 212
Period size: 86 Copynumber: 2.2 Consensus size: 84
111268 ATTTGCCTGC
* * * *
111278 ATGTATCGATACATTTTATAGTGTATCGATACA-TCTGGGTAAATTTGCCTGCA-TGTATCGATA
1 ATGTATCGATACATTTGATAGTGTATCGATACATTCTGGG--AAGTAGCCTACATTGTATCGATA
111341 CAAAGA-TTAGTGTATCGATACA
64 CAAA-ACTTA-TGTATCGATACA
* * * *
111363 ATGTATCGATACATTTGGGTAGTGTATCGATACATTTCTTGGCAGTAGCTTACATTGTATCGATA
1 ATGTATCGATACATTT-GATAGTGTATCGATACA-TTCTGGGAAGTAGCCTACATTGTATCGATA
111428 CAAAACTTATGTATCGATACA
64 CAAAACTTATGTATCGATACA
*
111449 TTGTATCGATACA
1 ATGTATCGATACA
111462 ACACTTATGT
Statistics
Matches: 85, Mismatches: 9, Indels: 9
0.83 0.09 0.09
Matches are distributed among these distances:
85 16 0.19
86 47 0.55
87 17 0.20
88 5 0.06
ACGTcount: A:0.31, C:0.15, G:0.18, T:0.36
Consensus pattern (84 bp):
ATGTATCGATACATTTGATAGTGTATCGATACATTCTGGGAAGTAGCCTACATTGTATCGATACA
AAACTTATGTATCGATACA
Found at i:111442 original size:19 final size:18
Alignment explanation
Indices: 111418--111515 Score: 90
Period size: 19 Copynumber: 5.8 Consensus size: 18
111408 TAGCTTACAT
111418 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
111437 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
111450 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
111469 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
111482 TGTATCGATACAACACTTTA
1 TGTATCGATACAA-AC-TTA
111502 TGTATCGATACAAA
1 TGTATCGATACAAA
111516 TCGTTGAAAT
Statistics
Matches: 66, Mismatches: 0, Indels: 26
0.72 0.00 0.28
Matches are distributed among these distances:
13 22 0.33
14 2 0.03
16 4 0.06
18 1 0.02
19 24 0.36
20 13 0.20
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:111454 original size:32 final size:32
Alignment explanation
Indices: 111413--111513 Score: 184
Period size: 32 Copynumber: 3.1 Consensus size: 32
111403 GGCAGTAGCT
*
111413 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
111445 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
111477 TACATTGTATCGATACAACACTTTATGTATCGA
1 TACATTGTATCGATACAACAC-TTATGTATCGA
111510 TACA
1 TACA
111514 AATCGTTGAA
Statistics
Matches: 67, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
32 52 0.78
33 15 0.22
ACGTcount: A:0.36, C:0.18, G:0.12, T:0.35
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:111455 original size:13 final size:13
Alignment explanation
Indices: 111437--111493 Score: 60
Period size: 13 Copynumber: 3.9 Consensus size: 13
111427 ACAAAACTTA
111437 TGTATCGATACAT
1 TGTATCGATACAT
111450 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
111468 ATGTATCGATACAT
1 -TGTATCGATACAT
111482 TGTATCGATACA
1 TGTATCGATACA
111494 ACACTTTATG
Statistics
Matches: 38, Mismatches: 0, Indels: 12
0.76 0.00 0.24
Matches are distributed among these distances:
13 21 0.55
14 1 0.03
16 6 0.16
18 1 0.03
19 9 0.24
ACGTcount: A:0.33, C:0.18, G:0.14, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:114457 original size:20 final size:21
Alignment explanation
Indices: 114415--114460 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
114405 TTTTACTATT
* * *
114415 TGTATCAATACAATAAGTTAA
1 TGTATCAAAACAATAAATGAA
114436 TGTATCAAAAC-ATAAATGAA
1 TGTATCAAAACAATAAATGAA
114456 TGTAT
1 TGTAT
114461 GGATACATGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.48, C:0.09, G:0.11, T:0.33
Consensus pattern (21 bp):
TGTATCAAAACAATAAATGAA
Found at i:116984 original size:26 final size:27
Alignment explanation
Indices: 116955--117007 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 27
116945 CCGAATTCTT
116955 CATATCT-GGGGATACTCCAACCCCAC
1 CATATCTAGGGGATACTCCAACCCCAC
*
116981 CATATCTAAGGGGGTACTCCAACCCCA
1 CATATCT-AGGGGATACTCCAACCCCA
117008 ATTTTACCTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
26 7 0.29
28 17 0.71
ACGTcount: A:0.28, C:0.36, G:0.17, T:0.19
Consensus pattern (27 bp):
CATATCTAGGGGATACTCCAACCCCAC
Found at i:117083 original size:53 final size:52
Alignment explanation
Indices: 116995--117112 Score: 139
Period size: 53 Copynumber: 2.2 Consensus size: 52
116985 TCTAAGGGGG
*
116995 TACTCCAACCCCAATTTTACCTCCAAAACATTGAATTTTTCAT-TACTAAAGA
1 TACTCCAACCCCAATTTTACCTCCAAAACATTGAATTCTTCATCT-CTAAAGA
* * * * * **
117047 TACTCCAACCCCATTTTTTACTTCCACAATATTGAATTCTTCATCTTTAGGGA
1 TACTCCAACCCCA-ATTTTACCTCCAAAACATTGAATTCTTCATCTCTAAAGA
117100 TACTCCAACCCCA
1 TACTCCAACCCCA
117113 CCATCTCCAA
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
52 13 0.23
53 42 0.75
54 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.05, T:0.34
Consensus pattern (52 bp):
TACTCCAACCCCAATTTTACCTCCAAAACATTGAATTCTTCATCTCTAAAGA
Found at i:117197 original size:79 final size:80
Alignment explanation
Indices: 117045--117304 Score: 324
Period size: 79 Copynumber: 3.2 Consensus size: 80
117035 CATTACTAAA
* * *
117045 GATACTCCAACCCCATTTTTTACTTCCACAATATTGAATTCTTCATCTTTAGGGATACTCCAACC
1 GATACTCCAACCCCA-TTTTTACTTCCAAAACATTGAATTCTTCATCTCTAGGGATACTCCAACC
*
117110 CCACCATCTCCAAGGG
65 CCACCATCTCCGAGGG
* * * * * *
117126 GATACTCTAATCTCGTTTTTACTTCTAAAACATTGAATTCTTTATCTCT-GGGATACTCCAACCC
1 GATACTCCAACCCCATTTTTACTTCCAAAACATTGAATTCTTCATCTCTAGGGATACTCCAACCC
* *
117190 CAACATCTCCGAGAG
66 CACCATCTCCGAGGG
* * * *
117205 GATATTCCAACCCCATTTTTACTTCCAAAACTTTAAATTCTTCATCTCTAGGGATACTCTAACCC
1 GATACTCCAACCCCATTTTTACTTCCAAAACATTGAATTCTTCATCTCTAGGGATACTCCAACCC
*
117270 CACCATCTTCGAGGG
66 CACCATCTCCGAGGG
**
117285 GATACTATAACCCCGATTTT
1 GATACTCCAACCCC-ATTTT
117305 CACCAAAAGT
Statistics
Matches: 149, Mismatches: 28, Indels: 4
0.82 0.15 0.02
Matches are distributed among these distances:
79 67 0.45
80 66 0.44
81 16 0.11
ACGTcount: A:0.28, C:0.29, G:0.10, T:0.33
Consensus pattern (80 bp):
GATACTCCAACCCCATTTTTACTTCCAAAACATTGAATTCTTCATCTCTAGGGATACTCCAACCC
CACCATCTCCGAGGG
Found at i:119349 original size:25 final size:25
Alignment explanation
Indices: 119317--119386 Score: 72
Period size: 25 Copynumber: 2.8 Consensus size: 25
119307 AGAAACTATC
* *
119317 GTCAAGAACTTTTTTCGAGAATGTTT
1 GTCAAGAACTTTTATCAAGAAT-TTT
119343 GTC-AGAAAC-TTTATCAAGAATTTT
1 GTCAAG-AACTTTTATCAAGAATTTT
* *
119367 GTCAAGAACTTATGTCAAGA
1 GTCAAGAACTTTTATCAAGA
119387 CCCTTTCATC
Statistics
Matches: 37, Mismatches: 4, Indels: 7
0.77 0.08 0.15
Matches are distributed among these distances:
24 9 0.24
25 22 0.59
26 6 0.16
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (25 bp):
GTCAAGAACTTTTATCAAGAATTTT
Found at i:119373 original size:12 final size:12
Alignment explanation
Indices: 119317--119386 Score: 52
Period size: 13 Copynumber: 5.6 Consensus size: 12
119307 AGAAACTATC
119317 GTCAAGAACTTTT
1 GTCAAGAA-TTTT
* *
119330 TTCGAGAATGTTT
1 GTCAAGAAT-TTT
*
119343 GTC-AGAAACTTT
1 GTCAAG-AATTTT
*
119355 ATCAAGAATTTT
1 GTCAAGAATTTT
*
119367 GTCAAGAACTTAT
1 GTCAAGAA-TTTT
119380 GTCAAGA
1 GTCAAGA
119387 CCCTTTCATC
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
12 20 0.44
13 25 0.56
ACGTcount: A:0.34, C:0.13, G:0.17, T:0.36
Consensus pattern (12 bp):
GTCAAGAATTTT
Found at i:119838 original size:29 final size:29
Alignment explanation
Indices: 119783--119838 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
119773 AGGAGTTGAA
* *
119783 CCTTTTCAAAGCCTACAAGTTAGTGGCAC
1 CCTTTTCAAAGCCTACAAGTAAATGGCAC
119812 CCTTTTCAAAG-CTCACAAGTAAATGGC
1 CCTTTTCAAAGCCT-ACAAGTAAATGGC
119839 GTCTCTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.27
Consensus pattern (29 bp):
CCTTTTCAAAGCCTACAAGTAAATGGCAC
Found at i:128415 original size:12 final size:12
Alignment explanation
Indices: 128382--128424 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
128372 ATAAGATACG
128382 AATATAATA-AA
1 AATATAATATAA
128393 AA-ATAAT-TAA
1 AATATAATATAA
128403 AATATAATATAA
1 AATATAATATAA
*
128415 AAAATAATAT
1 AATATAATAT
128425 GAATACGACA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.32
11 7 0.25
12 12 0.43
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (12 bp):
AATATAATATAA
Found at i:128429 original size:23 final size:21
Alignment explanation
Indices: 128381--128422 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
128371 TATAAGATAC
128381 GAATATAATAAAAAATAATTA
1 GAATATAATAAAAAATAATTA
*
128402 AAATATAATATAAAAAATAAT
1 GAATAT-A-ATAAAAAATAAT
128423 ATGAATACGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 1 0.06
23 12 0.67
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (21 bp):
GAATATAATAAAAAATAATTA
Found at i:131649 original size:116 final size:112
Alignment explanation
Indices: 131515--131862 Score: 347
Period size: 116 Copynumber: 3.0 Consensus size: 112
131505 AAAAAAAGAT
* * **
131515 GTTGAATAATTTACTTCATTTAAGGTTGAGATGCAAGACCCTAATGAAGTAGATAGTTTTCTTTG
1 GTTGAATAATGTGCTTCATTTAAGGTTGAGATGCAACTCCCTAATGAAGTAGATAGTTTT-TTTG
** *
131580 GCCACCATTATAATCATTCATATATTGGCCTAAGTCATTTATTCAAAAAA
65 GCCA-CA-TATAATCGCTCATACATTGGCCTAAGTCATTTATTCAAAAAA
* * * * * *
131630 CTTTGAATAATGTGTTTCATTTAAGGTTGAGATGCAATCTCCCCAATGAAGTAAATAATTTGTTT
1 -GTTGAATAATGTGCTTCATTTAAGGTTGAGATGCAA-CTCCCTAATGAAGTAGATAGTTTTTTT
** *
131695 GGTTGTAGC-TATAATCGCTCATACATTGGCCTAAGTTATTTATTCGAAAAAA
64 GG--CCA-CATATAATCGCTCATACATTGGCCTAAGTCATTTATTC-AAAAAA
* * * * * * *
131747 GTTGACTAATTTGCTTCATTTAAGGTTGAGATACATCTCCCTAATAAAGTAGAGAGTCCTTTTTG
1 GTTGAATAATGTGCTTCATTTAAGGTTGAGATGCAACTCCCTAATGAAGTAGATAGT-TTTTTTG
* * *
131812 GTCACAGCCATAATCGCTCATACATTGGCCTAAGTCACTTATTCAAAAAA
65 GCCACA--TATAATCGCTCATACATTGGCCTAAGTCATTTATTCAAAAAA
131862 G
1 G
131863 GGTTAAATAA
Statistics
Matches: 189, Mismatches: 35, Indels: 17
0.78 0.15 0.07
Matches are distributed among these distances:
113 1 0.01
114 1 0.01
115 23 0.12
116 138 0.73
117 24 0.13
118 2 0.01
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (112 bp):
GTTGAATAATGTGCTTCATTTAAGGTTGAGATGCAACTCCCTAATGAAGTAGATAGTTTTTTTGG
CCACATATAATCGCTCATACATTGGCCTAAGTCATTTATTCAAAAAA
Found at i:132799 original size:24 final size:24
Alignment explanation
Indices: 132772--132898 Score: 85
Period size: 24 Copynumber: 5.3 Consensus size: 24
132762 ATATTCTAGG
*
132772 AGTTATGCCAAAAGTTGTTCCATA
1 AGTTATGCCAAAAGTTGTTCCAAA
* * ** **
132796 AGTTGTGCCAAAAGATGTTTTAGG
1 AGTTATGCCAAAAGTTGTTCCAAA
* * **
132820 AGTTGTGCCAAAGGTTGTTTTAAA
1 AGTTATGCCAAAAGTTGTTCCAAA
* *
132844 AGTCATGCCAAAAGATGTTCCAAA
1 AGTTATGCCAAAAGTTGTTCCAAA
** * *
132868 AGGCATGCCAAATGTTGTGCCAAGA
1 AGTTATGCCAAAAGTTGTTCCAA-A
132893 A-TTATG
1 AGTTATG
132899 TTGAAAGTAC
Statistics
Matches: 80, Mismatches: 22, Indels: 2
0.77 0.21 0.02
Matches are distributed among these distances:
24 78 0.98
25 2 0.03
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (24 bp):
AGTTATGCCAAAAGTTGTTCCAAA
Found at i:132853 original size:48 final size:48
Alignment explanation
Indices: 132739--132863 Score: 142
Period size: 48 Copynumber: 2.6 Consensus size: 48
132729 ATCCAAATTG
** * *
132739 TGTTCCAAGGGTCATGCCAAATGATATTCTAGGAGTTATGCCAAAAGT
1 TGTTCCAAAAGTCATGCCAAAAGATGTTCTAGGAGTTATGCCAAAAGT
* ** * * *
132787 TGTTCCATAAGTTGTGCCAAAAGATGTTTTAGGAGTTGTGCCAAAGGT
1 TGTTCCAAAAGTCATGCCAAAAGATGTTCTAGGAGTTATGCCAAAAGT
**
132835 TGTTTTAAAAGTCATGCCAAAAGATGTTC
1 TGTTCCAAAAGTCATGCCAAAAGATGTTC
132864 CAAAAGGCAT
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
48 61 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.32
Consensus pattern (48 bp):
TGTTCCAAAAGTCATGCCAAAAGATGTTCTAGGAGTTATGCCAAAAGT
Found at i:134141 original size:20 final size:20
Alignment explanation
Indices: 134095--134148 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
134085 AAGTACCCAG
* *
134095 ATGTATCGATACATTTTTCA
1 ATGTATCGATACATGTATCA
* * *
134115 ATTTATCAATACATGTATGA
1 ATGTATCGATACATGTATCA
134135 ATGTATCGATACAT
1 ATGTATCGATACAT
134149 TCTGTCTTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (20 bp):
ATGTATCGATACATGTATCA
Found at i:136475 original size:26 final size:25
Alignment explanation
Indices: 136419--136475 Score: 69
Period size: 26 Copynumber: 2.2 Consensus size: 25
136409 TAAATTATTA
136419 TTTTCAGGGACACTCCAACCCCATT
1 TTTTCAGGGACACTCCAACCCCATT
** * *
136444 CCTTCAGGGGATACTCCAACCCCTTT
1 TTTTCA-GGGACACTCCAACCCCATT
136470 TTTTCA
1 TTTTCA
136476 ATAAAAAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
25 4 0.16
26 21 0.84
ACGTcount: A:0.21, C:0.35, G:0.12, T:0.32
Consensus pattern (25 bp):
TTTTCAGGGACACTCCAACCCCATT
Found at i:139403 original size:16 final size:17
Alignment explanation
Indices: 139372--139418 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 17
139362 TAAAAAAATT
139372 TTAATATATATTTTAAA
1 TTAATATATATTTTAAA
*
139389 TTAATA-ATCTTTTAAA
1 TTAATATATATTTTAAA
139405 -T-ATATAT-TTTTAAA
1 TTAATATATATTTTAAA
139419 AAGTTATTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
14 10 0.36
15 3 0.11
16 9 0.32
17 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATATATATTTTAAA
Found at i:139417 original size:14 final size:14
Alignment explanation
Indices: 139370--139418 Score: 50
Period size: 16 Copynumber: 3.5 Consensus size: 14
139360 ACTAAAAAAA
139370 TTTT-AATATATA-
1 TTTTAAATATATAT
139382 TTTTAAAT-TAATAAT
1 TTTTAAATAT-AT-AT
139397 CTTTTAAATATATAT
1 -TTTTAAATATATAT
139412 TTTTAAA
1 TTTTAAA
139419 AAGTTATTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 10
0.76 0.00 0.24
Matches are distributed among these distances:
12 5 0.16
13 5 0.16
14 8 0.26
15 2 0.06
16 10 0.32
17 1 0.03
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (14 bp):
TTTTAAATATATAT
Found at i:139618 original size:5 final size:5
Alignment explanation
Indices: 139608--139632 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
139598 CTCTAAAAAA
139608 TTTAT TTTAT TTTAT TTTAT TTTAT
1 TTTAT TTTAT TTTAT TTTAT TTTAT
139633 CTTTTATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:140323 original size:14 final size:15
Alignment explanation
Indices: 140297--140333 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
140287 ACACTTTTCA
*
140297 TTTTATT-TATTTAT
1 TTTTATTATGTTTAT
140311 TTTT-TTATGTTTAT
1 TTTTATTATGTTTAT
140325 TTTTATTAT
1 TTTTATTAT
140334 TATTATTTCA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
13 2 0.10
14 14 0.70
15 4 0.20
ACGTcount: A:0.19, C:0.00, G:0.03, T:0.78
Consensus pattern (15 bp):
TTTTATTATGTTTAT
Done.