Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004045.1 Hibiscus syriacus cultivar Beakdansim tig00008835_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 122605
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
Found at i:938 original size:16 final size:17
Alignment explanation
Indices: 919--951 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
909 ATATGATCCT
919 AATAATTCAT-ATTCTG
1 AATAATTCATGATTCTG
*
935 AATAATTGATGATTCTG
1 AATAATTCATGATTCTG
952 TCAGTTAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (17 bp):
AATAATTCATGATTCTG
Found at i:1131 original size:24 final size:24
Alignment explanation
Indices: 1104--1176 Score: 110
Period size: 24 Copynumber: 3.0 Consensus size: 24
1094 TTTTATCTGG
*
1104 TTTCTGATTTGAAATATGTTATGA
1 TTTCTGATTTGAATTATGTTATGA
* *
1128 TTTCTGATTTGAATTCTGTTCTGA
1 TTTCTGATTTGAATTATGTTATGA
*
1152 TTTCTGATCTGAATTATGTTATGA
1 TTTCTGATTTGAATTATGTTATGA
1176 T
1 T
1177 ATGATATCTG
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.23, C:0.08, G:0.16, T:0.52
Consensus pattern (24 bp):
TTTCTGATTTGAATTATGTTATGA
Found at i:4634 original size:9 final size:9
Alignment explanation
Indices: 4602--4640 Score: 51
Period size: 9 Copynumber: 4.2 Consensus size: 9
4592 TTATTTTTAA
4602 TAGTATTTT
1 TAGTATTTT
* *
4611 TAATATATAT
1 TAGTAT-TTT
4621 TAGTATTTT
1 TAGTATTTT
4630 TAGTATTTT
1 TAGTATTTT
4639 TA
1 TA
4641 CATTTAATTT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (9 bp):
TAGTATTTT
Found at i:4662 original size:17 final size:17
Alignment explanation
Indices: 4642--4694 Score: 72
Period size: 17 Copynumber: 3.2 Consensus size: 17
4632 GTATTTTTAC
*
4642 ATTTAATTTTTTAAATA
1 ATTTAATTTTTAAAATA
*
4659 ATTTAA-ATTTAAAATA
1 ATTTAATTTTTAAAATA
*
4675 ATTTTATTTTTAAAATA
1 ATTTAATTTTTAAAATA
4692 ATT
1 ATT
4695 AAGTAAACCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
16 13 0.42
17 18 0.58
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
ATTTAATTTTTAAAATA
Found at i:5540 original size:18 final size:18
Alignment explanation
Indices: 5517--5554 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
5507 AAAATATATA
5517 AATATTTTCCAACTTGTT
1 AATATTTTCCAACTTGTT
*
5535 AATATTTTCTAACTTGTT
1 AATATTTTCCAACTTGTT
5553 AA
1 AA
5555 AAACAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.13, G:0.05, T:0.50
Consensus pattern (18 bp):
AATATTTTCCAACTTGTT
Found at i:11808 original size:21 final size:23
Alignment explanation
Indices: 11783--11835 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 23
11773 ACCAAATTCT
*
11783 ATTTTAATC-ATTA-ATCTTTTA
1 ATTTTAATCAATTAGATCATTTA
11804 ATTTT-ATCAATTAGATCATTTA
1 ATTTTAATCAATTAGATCATTTA
11826 ACTATTTAAT
1 A-T-TTTAAT
11836 TATTGTCAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 3 0.12
21 9 0.35
22 8 0.31
23 1 0.04
24 3 0.12
25 2 0.08
ACGTcount: A:0.36, C:0.09, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTAATCAATTAGATCATTTA
Found at i:16802 original size:3 final size:3
Alignment explanation
Indices: 16794--16823 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
16784 CAACACAAAG
16794 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
16824 GGCTTCATCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:24758 original size:14 final size:15
Alignment explanation
Indices: 24739--24767 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
24729 CAATGGACAA
24739 CAACGGTCA-CATGG
1 CAACGGTCACCATGG
24753 CAACGGTCACCATGG
1 CAACGGTCACCATGG
24768 AACCTCTATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.28, C:0.31, G:0.28, T:0.14
Consensus pattern (15 bp):
CAACGGTCACCATGG
Found at i:33994 original size:228 final size:229
Alignment explanation
Indices: 33597--34091 Score: 904
Period size: 229 Copynumber: 2.2 Consensus size: 229
33587 GTTATATTGT
* *
33597 AAAGTATCTATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
* *
33662 TCTTTGGTTAATATTGTTAAATTTAAATTCTCAATAATATTTTATAAAATATCAAAACAATCAAA
66 TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
*
33727 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT-A
131 TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAA
*
33791 AAAAAATTGAAACATAAATTATATAACTTTAAAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
33825 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGT-GAAAACATATTTATTATT
*
33890 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
65 ATATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
33954 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
130 ATAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTA
34019 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
195 AAAAAAATTGAAACATAAATTACATAACTTTAAAA
34054 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTAT
34092 AAAAGTAGGT
Statistics
Matches: 258, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
228 117 0.45
229 141 0.55
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTA
TATTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGAAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:34394 original size:20 final size:19
Alignment explanation
Indices: 34371--34416 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 19
34361 GATATACCAT
34371 GTAAAAATATGATAAAACCG
1 GTAAAAA-ATGATAAAACCG
34391 GTAACAAAATGATAAAACCG
1 GTAA-AAAATGATAAAACCG
34411 GTAAAA
1 GTAAAA
34417 CGTTACCTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 2 0.08
20 20 0.80
21 3 0.12
ACGTcount: A:0.57, C:0.11, G:0.15, T:0.17
Consensus pattern (19 bp):
GTAAAAAATGATAAAACCG
Found at i:34573 original size:20 final size:19
Alignment explanation
Indices: 34550--34596 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
34540 CGATATAACA
34550 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
34570 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
34590 GGTAAAA
1 GGTAAAA
34597 TGATACCGGG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:34586 original size:180 final size:182
Alignment explanation
Indices: 34158--34629 Score: 673
Period size: 180 Copynumber: 2.6 Consensus size: 182
34148 GATCCAAATT
* * * *
34158 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTAT-AGAAATGAT
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCA-AAATGAT
* * * * *
34222 AAAACCGGTAAAGCGCTACCGGATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTT
*
34287 CATGAATTTAAAAGAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
130 CATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
* * * *
34340 AAAAATGTATCGATCCAAAACGATATACCATGTAAAAATATGATAAAACCGGTAACAAAATGATA
1 AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
34405 AAACCGGTAAAACGTTACCTGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * ** *
34469 TTGAATTTAAAAGAGAATCAGTTTTAGCGCCTATAATGTGTCGATAC-TTT-
131 ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
*
34519 AAAAATAATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAAT-ATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* *
34584 AAAACCGGTAAAATGATACCGGGTATATTGAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
34630 CGTAAGTACG
Statistics
Matches: 260, Mismatches: 28, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
179 6 0.02
180 98 0.38
181 59 0.23
182 96 0.37
183 1 0.00
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.27
Consensus pattern (182 bp):
AAAAATATATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
ATGAATTTAAAAGAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTTA
Found at i:34598 original size:17 final size:19
Alignment explanation
Indices: 34559--34601 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
34549 AGGTAAAAAT
34559 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
34579 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
34596 ATGATA
1 ATGATA
34602 CCGGGTATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:36841 original size:21 final size:21
Alignment explanation
Indices: 36817--36860 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
36807 AAGACAATCA
36817 AGAGTAGAAGAGAAACTTGAG
1 AGAGTAGAAGAGAAACTTGAG
* * *
36838 AGAGTCGAAGATACACTTGAG
1 AGAGTAGAAGAGAAACTTGAG
36859 AG
1 AG
36861 GCATAAGGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.43, C:0.09, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTAGAAGAGAAACTTGAG
Found at i:36936 original size:33 final size:33
Alignment explanation
Indices: 36894--36959 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
36884 AAATAGATGG
*
36894 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
36927 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
36960 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:38497 original size:19 final size:19
Alignment explanation
Indices: 38473--38521 Score: 71
Period size: 19 Copynumber: 2.6 Consensus size: 19
38463 AATATAGGGT
38473 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
* *
38492 TAATTTTTTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
38511 TATTTTTGTAT
1 TAATTTTGTAT
38522 GTGAATATAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:38983 original size:200 final size:200
Alignment explanation
Indices: 38640--40008 Score: 2421
Period size: 199 Copynumber: 6.9 Consensus size: 200
38630 CAATATGGCC
*
38640 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
38705 CCAAAAGTATAATGTAATATGTAATTTTTCAATGTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
38770 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
38835 TGGAA
196 TGGAA
38840 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
38905 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
38970 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA-TTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
39034 TGGAA
196 TGGAA
*
39039 AACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTATCGATCCC-AAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
39101 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * ****
39166 GAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
39231 TGGAA
196 TGGAA
39236 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
39301 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
*
39366 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
39431 TGGAA
196 TGGAA
*
39436 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
39500 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* * ****
39565 GAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
39630 TGGAA
196 TGGAA
39635 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC-AAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
39699 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
* ****
39764 GAATATGTCTAAATAATGTGTCGACACCATTTTAAAAAGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
39829 TGGAA
196 TGGAA
* *
39834 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
39898 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
39963 GAATATGTCTAAATAATGTGTCGACA-CTTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATA
40009 CTAATTTAAA
Statistics
Matches: 1123, Mismatches: 40, Indels: 14
0.95 0.03 0.01
Matches are distributed among these distances:
196 107 0.10
197 66 0.06
198 43 0.04
199 542 0.48
200 365 0.33
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (200 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACCTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAA
Found at i:39996 original size:596 final size:596
Alignment explanation
Indices: 38640--40008 Score: 2528
Period size: 596 Copynumber: 2.3 Consensus size: 596
38630 CAATATGGCC
*
38640 AACAGGGTGCAACCATAAAGTGTCGAACCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
38705 CCAAAAGTATAATGTAATATGTAATTTTTCAATGTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
38770 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
*
38835 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATC
38900 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
** * ****
38965 TGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTGGTCCAGAA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTGGTCCAGAA
39030 TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTATCGATCCCAAAACA
391 TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTATCGATCCCAAAACA
* *
39095 TCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTT
456 TCAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
39160 ATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAG
521 ATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAG
39225 AATGAATGGAA
586 AATGAATGGAA
39236 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
39301 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
39366 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
39431 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATC
196 TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATC
*
39496 G-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAATCGGTACAAGTATACCGGTTTTA
261 GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
39560 TGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAGA
326 TGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATA-TTTTGGTCCAGA
*
39625 ATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAA
390 ATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATAT-AAAAGTATCGATCCC-AAA
39690 ACATCAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
453 ACATCAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGT
*
39755 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTTAAAAAGTGTCGATATTTTTGGTC
518 TTTATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTC
39820 CAGAATGAATGGAA
583 CAGAATGAATGGAA
* *
39834 AACAGTGTGCAACCATAAGGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCG-AAC
1 AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
*
39898 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTTATGAGA
66 CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
39963 GAATATGTCTAAATAATGTGTCGACAC-TTTTTAGTTTGTGTCGATA
131 GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATA
40009 CTAATTTAAA
Statistics
Matches: 752, Mismatches: 18, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
595 107 0.14
596 334 0.44
597 108 0.14
598 203 0.27
ACGTcount: A:0.37, C:0.15, G:0.18, T:0.30
Consensus pattern (596 bp):
AACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAAACATCGAAAC
CCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTATGAGA
GAATATGTCTAAATAATGTGTCGACACTTTTTTAGTTTGTGTCGATATTTTTGGTCCAGAATGAA
TGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTATCGATCCCAAAAACATC
GAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTTA
TGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTGGTCCAGAA
TGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAGTATCGATCCCAAAACA
TCAAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATATGTCTAAATAATGTGTCGACACCATTTAAAAAAGTGTCGATATTTTTGGTCCAG
AATGAATGGAA
Found at i:41563 original size:65 final size:64
Alignment explanation
Indices: 41446--41654 Score: 210
Period size: 65 Copynumber: 3.2 Consensus size: 64
41436 ATTCAAAGGC
* ** * *
41446 ATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCAC
1 ATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-A-GAATATTTTTCAAACATCGAATGCAT
41508 TTG
62 TTG
* * *** *
41511 GTGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCATTT
1 ATGCATCGATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGAATGCATTT
41575 G
64 G
** *
41576 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTTC
1 ATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTTG
41640 ATGCATCGATGCACA
1 ATGCATCGATGCACA
41655 CTTGGTGCAC
Statistics
Matches: 121, Mismatches: 17, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
63 6 0.05
64 53 0.44
65 62 0.51
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (64 bp):
ATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTTG
Found at i:44667 original size:21 final size:21
Alignment explanation
Indices: 44625--44668 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
44615 ACCCCGGGAG
*
44625 CTAGTTCTTCACGAGCTGCTC
1 CTAGTTCTTCACGAGCTCCTC
* *
44646 CTAGTTCTTCTCGTGCTCCTC
1 CTAGTTCTTCACGAGCTCCTC
44667 CT
1 CT
44669 CCTCCTCCAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.09, C:0.36, G:0.16, T:0.39
Consensus pattern (21 bp):
CTAGTTCTTCACGAGCTCCTC
Found at i:45733 original size:19 final size:19
Alignment explanation
Indices: 45697--45747 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
45687 ATTAATTGAA
45697 CATCGAATGCA-T-TCCATG
1 CATCG-ATGCACTCTCCATG
45715 CA-CTGATGCACTCTCCATG
1 CATC-GATGCACTCTCCATG
45734 CATCGATGCACTCT
1 CATCGATGCACTCT
45748 GAATATTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
17 6 0.21
18 4 0.14
19 18 0.62
20 1 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (19 bp):
CATCGATGCACTCTCCATG
Found at i:45764 original size:65 final size:64
Alignment explanation
Indices: 45646--45855 Score: 214
Period size: 65 Copynumber: 3.2 Consensus size: 64
45636 TATTCAAAGG
* ** *
45646 CATGCACCGATGCATC-AGTCCATGCATCGATGCATCGATGAAT-TAATT-GAACATCGAATGCA
1 CATGCATCGATGCA-CAAG-CCATGCATCGATGCATC-A-GAATATTTTTCAAACATCGAATGCA
*
45708 TTC
62 TTT
*** *
45711 CATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTTCAAAACATCGAATGCAT
1 CATGCATC-GATGCACAAGCCATGCATCGATGCA-TCAGAATATTTTTC-AAACATCGAATGCAT
45774 TT
63 TT
* **
45776 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTT
45840 CATGCATCGATGCACA
1 CATGCATCGATGCACA
45856 CTTGGTGCAC
Statistics
Matches: 122, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
63 6 0.05
64 54 0.44
65 61 0.50
66 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.17, T:0.28
Consensus pattern (64 bp):
CATGCATCGATGCACAAGCCATGCATCGATGCATCAGAATATTTTTCAAACATCGAATGCATTT
Found at i:45870 original size:64 final size:64
Alignment explanation
Indices: 45646--45875 Score: 218
Period size: 64 Copynumber: 3.6 Consensus size: 64
45636 TATTCAAAGG
* * * *
45646 CATGCACCGATGCATCAGTCCATGCATCGATGCATCGATGAAT-TAATT--GAACATCGAATGCA
1 CATGCATCGATGCA-CACTCCATGCATCGATGCATC-A-GAATAT-TTTCAAAACATCGAATGCA
*
45708 TTC
62 TTT
* *
45711 CATGCA-CTGATGCACTCTCCATGCATCGATGCACTCTGAATATTTTCAAAACATCGAATGCATT
1 CATGCATC-GATGCACACTCCATGCATCGATGCA-TCAGAATATTTTCAAAACATCGAATGCATT
45775 T
64 T
* ** **
45776 GATGCATCGATGCACAAGCCATGCATCGATGCATCAGGCTATTTTTC-AAACATCGAATGCATTT
1 CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATA-TTTTCAAAACATCGAATGCATTT
*** *
45840 CATGCATCGATGCACACTTGGTGCACCGATGCATCA
1 CATGCATCGATGCACACTCCATGCATCGATGCATCA
45876 AGTGTTCCAA
Statistics
Matches: 138, Mismatches: 20, Indels: 15
0.80 0.12 0.09
Matches are distributed among these distances:
63 6 0.04
64 70 0.51
65 61 0.44
66 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (64 bp):
CATGCATCGATGCACACTCCATGCATCGATGCATCAGAATATTTTCAAAACATCGAATGCATTT
Found at i:46874 original size:18 final size:18
Alignment explanation
Indices: 46853--46916 Score: 92
Period size: 18 Copynumber: 3.6 Consensus size: 18
46843 CAAGCGGTCA
46853 ATGAAGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
* * *
46871 ATGAAGATGACGATGATG
1 ATGAAGATGAAGCTGACG
*
46889 ATGATGATGAAGCTGACG
1 ATGAAGATGAAGCTGACG
46907 ATGAAGATGA
1 ATGAAGATGA
46917 TGACGATGAT
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.39, C:0.08, G:0.33, T:0.20
Consensus pattern (18 bp):
ATGAAGATGAAGCTGACG
Found at i:46890 original size:3 final size:3
Alignment explanation
Indices: 46870--46941 Score: 81
Period size: 3 Copynumber: 24.0 Consensus size: 3
46860 TGAAGCTGAC
* * * * * *
46870 GAT GAA GAT GAC GAT GAT GAT GAT GAT GAA GCT GAC GAT GAA GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
46918 GAC GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT
46942 CCAAACAAGT
Statistics
Matches: 55, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.36, C:0.06, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:46902 original size:36 final size:36
Alignment explanation
Indices: 46853--46934 Score: 137
Period size: 36 Copynumber: 2.3 Consensus size: 36
46843 CAAGCGGTCA
* *
46853 ATGAAGATGAAGCTGACGATGAAGATGACGATGATG
1 ATGATGATGAAGCTGACGATGAAGATGACGACGATG
*
46889 ATGATGATGAAGCTGACGATGAAGATGATGACGATG
1 ATGATGATGAAGCTGACGATGAAGATGACGACGATG
46925 ATGATGATGA
1 ATGATGATGA
46935 TGATGATCCA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.38, C:0.07, G:0.33, T:0.22
Consensus pattern (36 bp):
ATGATGATGAAGCTGACGATGAAGATGACGACGATG
Found at i:46941 original size:12 final size:12
Alignment explanation
Indices: 46853--46941 Score: 88
Period size: 12 Copynumber: 7.4 Consensus size: 12
46843 CAAGCGGTCA
*
46853 ATGAAGATGAAG
1 ATGATGATGAAG
* *
46865 CTGACGATGAAG
1 ATGATGATGAAG
* *
46877 ATGACGATGATG
1 ATGATGATGAAG
46889 ATGATGATGAAG
1 ATGATGATGAAG
* *
46901 CTGACGATGAAG
1 ATGATGATGAAG
* *
46913 ATGATGACGATG
1 ATGATGATGAAG
*
46925 ATGATGATGATG
1 ATGATGATGAAG
46937 ATGAT
1 ATGAT
46942 CCAAACAAGT
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 64 1.00
ACGTcount: A:0.37, C:0.07, G:0.33, T:0.24
Consensus pattern (12 bp):
ATGATGATGAAG
Found at i:48156 original size:16 final size:16
Alignment explanation
Indices: 48135--48168 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
48125 TATCCACAAC
*
48135 AAAGTGTCGATTTAAA
1 AAAGTGTCGATTGAAA
48151 AAAGTGTCGATTGAAA
1 AAAGTGTCGATTGAAA
48167 AA
1 AA
48169 TGTAATAGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.06, G:0.21, T:0.26
Consensus pattern (16 bp):
AAAGTGTCGATTGAAA
Found at i:48560 original size:23 final size:23
Alignment explanation
Indices: 48529--48601 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
48519 ATAGGTAAAA
*
48529 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
48552 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
48575 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
48598 ATAT
1 ATAT
48602 TGTAAAATAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:48988 original size:23 final size:23
Alignment explanation
Indices: 48957--49029 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
48947 ATAGGTAAAA
*
48957 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
48980 ATATAATGTAATAAGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
49003 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
49026 ATAT
1 ATAT
49030 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:49420 original size:23 final size:23
Alignment explanation
Indices: 49389--49461 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
49379 ATAGGTAAAA
*
49389 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
49412 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
49435 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
49458 ATAT
1 ATAT
49462 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:49443 original size:432 final size:431
Alignment explanation
Indices: 48322--49802 Score: 2762
Period size: 428 Copynumber: 3.5 Consensus size: 431
48312 CTTTGGTTAA
* *
48322 TATTGTTAAATT-TAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
48386 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTT-AAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
48450 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
* *
48515 TAGAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATA
* *
48580 ATGTAATAGGTAGTGGTTATATTGTAAAATATCTATCCTTTTTATAAAAGTGTCTATATTTTTTT
261 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
* *
48645 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAATATATTAATTCAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
48710 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
48751 TATTATTAAATTAAAAATTCTAAATATTATTTTAT-AAA-ATCAAAACAATCAAATAA-TTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
48813 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
48878 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
48943 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATA
196 TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATA
49008 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
261 ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
49073 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
326 CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
* *
49138 ATAGGCGTCTAATGATTTATTTCTTACGTTACGATATATAT
391 ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
*
49179 TATTATTAAATTAAAAATTCTAAATATTATTTTACAAAATATCAAAAACAATCAAATAATTTTTT
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATC-AAAACAATCAAATAATTTTTT
*
49244 GTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACATACTTAAAAAAAATTG
65 GTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTG
49309 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
130 AAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCA
*
49374 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTTATAT
195 ATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATAT
*
49439 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCATTTTTATAAAAG-GTCTATAC-TTTT
260 AATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTT
49502 TCACTGTGGAAAACATTAATTTAAGGTTATC-TTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
325 TCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAAT
49566 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
390 TATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
49608 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
1 TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
*
49673 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATATTTAAAAAAAATTGA
66 TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
49738 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
131 AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
49803 CATATTATAA
Statistics
Matches: 1027, Mismatches: 19, Indels: 13
0.97 0.02 0.01
Matches are distributed among these distances:
427 59 0.06
428 506 0.49
429 132 0.13
430 59 0.06
431 23 0.02
432 248 0.24
ACGTcount: A:0.41, C:0.08, G:0.12, T:0.39
Consensus pattern (431 bp):
TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTG
TGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACATACTTAAAAAAAATTGA
AACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAA
TATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAAGTATCGTTTATATA
ATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCTATACTTTTTT
CACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATT
ATAGGCGTCTAATGATTTCTTTTTTACGTTACGATATATAT
Found at i:49486 original size:46 final size:45
Alignment explanation
Indices: 49389--49486 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
49379 ATAGGTAAAA
* * *
49389 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTATCATTT
* *
49435 ATATAATGTAATAGGTAGTGGTTATAT-TGTAAAGTATCTATCATTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTATCATTT
*
49481 TTATAA
1 ATATAA
49487 AAGGTCTATA
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.35, C:0.05, G:0.17, T:0.43
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTATCATTT
Found at i:52779 original size:23 final size:23
Alignment explanation
Indices: 52749--52816 Score: 100
Period size: 23 Copynumber: 3.0 Consensus size: 23
52739 TAAAATTATG
52749 ATGTAATAGGTAGCGCTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
52772 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAGCGCTTATATA
* *
52795 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTAGCGCTTATAT
52817 TGTAAAGTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATGTAATAGGTAGCGCTTATATA
Found at i:53199 original size:23 final size:23
Alignment explanation
Indices: 53168--53240 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
53158 ATAGGTAAAA
*
53168 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
53191 ATATAATGTAATAGATATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
53214 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
53237 ATAT
1 ATAT
53241 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:53307 original size:424 final size:427
Alignment explanation
Indices: 52461--53833 Score: 2498
Period size: 428 Copynumber: 3.2 Consensus size: 427
52451 AGGTATATAC
*
52461 ATCTTTTGAGTGAG-TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
52525 GTTACG-ATATA-TATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
66 GTTACGAATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
52588 AAATAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
131 AAATAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
52653 AAAAAAAATTGAAACATAAATTACATAACTTTAAACA-AAGTATCGATCCTTTTTATAAAAAGTA
196 -AAAAAAATTGAAACATAAATTACATAACTTTAAA-AGAAGTATCGATCCTTTTTATAAAAAGTA
*
52717 TGGACACTTTCAATATAATAGGTAAAATTATGATGTAATAGGTAGCGCTTATATAATGTAATAGG
259 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA-G
52782 TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
323 TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
* *
52847 TCTATACTTTTTTCACTATGAAAAATATTAATTTAAGGTT
388 TCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
52887 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
52952 GTTACG-ATATATTATTATTAAATT-AAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
66 GTTACGAATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
53015 AAATAATTTTTTGTGTAAATGAAATTATT-AATTAATATTGTAGGTGGAAAACATGAAACACTAT
131 AAATAA-TTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTAT
53079 TAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTAT-AAAAGTAT
195 TAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTAT
53143 -GACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGAT
260 GGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAG-T
53207 ATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGT
324 ATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGT
*
53272 CTATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTT
389 CTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
*
53311 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTCTTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
53376 GTTACGATATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
66 GTTACGA-ATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAAT
* *
53441 C-AATAATTTTTGTGCAAATGAAATTATTAAATTAATATTGTATGTGGAAAACATGAAACA-TAC
130 CAAATAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTA-
53504 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
194 TTAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTA
*
53569 TGGACACTGTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATATG
259 TGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA-G
53634 TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
323 TATCGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTG
*
53699 TCTATATTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
388 TCTATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
53739 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
1 ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
53804 GTTACGATATATATTATTATTAAATTAAAA
66 GTTACGA-ATATATTATTATTAAATTAAAA
53834 CAATAAACAT
Statistics
Matches: 922, Mismatches: 12, Indels: 24
0.96 0.01 0.03
Matches are distributed among these distances:
423 1 0.00
424 232 0.25
425 32 0.03
426 177 0.19
427 188 0.20
428 291 0.32
429 1 0.00
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (427 bp):
ATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTAC
GTTACGAATATATTATTATTAAATTAAAAATTCTAAATATTATTTTATAAAATATCAAAACAATC
AAATAATTTTTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATT
AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATG
GACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATAGTAT
CGTTTATATAATGTAATAGGTAGTGGTTATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCT
ATACTTTTTTCACTGTGAAAAACATTAATTTAAGGTT
Found at i:53627 original size:23 final size:23
Alignment explanation
Indices: 53596--53668 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 23
53586 ATAGGTAAAA
*
53596 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* * *
53619 ATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
53642 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
53665 ATAT
1 ATAT
53669 TGTAAAGTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.34, C:0.04, G:0.21, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:53693 original size:46 final size:45
Alignment explanation
Indices: 53596--53693 Score: 108
Period size: 46 Copynumber: 2.1 Consensus size: 45
53586 ATAGGTAAAA
* * *
53596 ATATGATGTAATAGGTAGCGCTTATATAATGTAATATGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTTATAT-ATGTAATATCTATCCTTT
* *
53642 ATATAATGTAATAGGTAGTGGTTATAT-TGTAAAGTATCTATCCTTT
1 ATATAATGTAATAGGTAGCGCTTATATATGT-AA-TATCTATCCTTT
*
53688 TTATAA
1 ATATAA
53694 AAGTGTCTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
44 3 0.07
45 2 0.05
46 39 0.89
ACGTcount: A:0.34, C:0.06, G:0.17, T:0.43
Consensus pattern (45 bp):
ATATAATGTAATAGGTAGCGCTTATATATGTAATATCTATCCTTT
Found at i:63077 original size:15 final size:15
Alignment explanation
Indices: 63057--63105 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
63047 TTTAGCTGGA
63057 CGGGAGGATGTGGGG
1 CGGGAGGATGTGGGG
63072 CGGGAGGATGTGGGG
1 CGGGAGGATGTGGGG
*
63087 CGGGCGGATGCT-GGG
1 CGGGAGGATG-TGGGG
63102 CGGG
1 CGGG
63106 TAATGTCTCA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 31 0.97
16 1 0.03
ACGTcount: A:0.10, C:0.12, G:0.65, T:0.12
Consensus pattern (15 bp):
CGGGAGGATGTGGGG
Found at i:66298 original size:26 final size:26
Alignment explanation
Indices: 66250--66300 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
66240 CTAAATTAAT
* *
66250 CAAAATTTATGCATTGTCAAACTATC
1 CAAAATTTATGCATAGACAAACTATC
66276 CAAAATTTATGCAATAGAC-AACTAT
1 CAAAATTTATGC-ATAGACAAACTAT
66301 ATAGGATACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 18 0.82
27 4 0.18
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (26 bp):
CAAAATTTATGCATAGACAAACTATC
Found at i:70004 original size:20 final size:20
Alignment explanation
Indices: 69979--70070 Score: 75
Period size: 19 Copynumber: 4.7 Consensus size: 20
69969 TATGAAAGTA
*
69979 TTTTAAAATATTTATTTATT
1 TTTTAAAATATATATTTATT
69999 TTTTAAAATCATAATATTTATT
1 TTTTAAAAT-AT-ATATTTATT
*
70021 TATTTGAAATA-ATA-TTA-T
1 T-TTTAAAATATATATTTATT
* * *
70039 TTTTAAATTATCTATTTA-A
1 TTTTAAAATATATATTTATT
*
70058 TTTTAAAAAATAT
1 TTTTAAAATATAT
70071 TATATGGAAC
Statistics
Matches: 58, Mismatches: 9, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
17 7 0.12
18 4 0.07
19 16 0.28
20 12 0.21
21 2 0.03
22 10 0.17
23 7 0.12
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (20 bp):
TTTTAAAATATATATTTATT
Found at i:70039 original size:23 final size:22
Alignment explanation
Indices: 69979--70040 Score: 74
Period size: 23 Copynumber: 2.9 Consensus size: 22
69969 TATGAAAGTA
69979 TTTTAAAAT-AT-TTATTTATT
1 TTTTAAAATAATATTATTTATT
* *
69999 TTTTAAAATCATAATATTTATT
1 TTTTAAAATAATATTATTTATT
*
70021 TATTTGAAATAATATTATTT
1 T-TTTAAAATAATATTATTT
70041 TTAAATTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
20 9 0.26
21 2 0.06
22 9 0.26
23 15 0.43
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTTAAAATAATATTATTTATT
Found at i:71584 original size:23 final size:23
Alignment explanation
Indices: 71554--71625 Score: 144
Period size: 23 Copynumber: 3.1 Consensus size: 23
71544 ATCTCTTCCT
71554 TCATTTCATCAGAGCTCAACTTG
1 TCATTTCATCAGAGCTCAACTTG
71577 TCATTTCATCAGAGCTCAACTTG
1 TCATTTCATCAGAGCTCAACTTG
71600 TCATTTCATCAGAGCTCAACTTG
1 TCATTTCATCAGAGCTCAACTTG
71623 TCA
1 TCA
71626 AGGTTTTCAC
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 49 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.35
Consensus pattern (23 bp):
TCATTTCATCAGAGCTCAACTTG
Found at i:73857 original size:18 final size:18
Alignment explanation
Indices: 73834--73874 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
73824 AGGCATTTGA
*
73834 TCCTCTGGTCGTGCTTGT
1 TCCTCTGGTCGAGCTTGT
*
73852 TCCTCTGGTGGAGCTTGT
1 TCCTCTGGTCGAGCTTGT
73870 TCCTC
1 TCCTC
73875 GTGCTATTCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.02, C:0.29, G:0.27, T:0.41
Consensus pattern (18 bp):
TCCTCTGGTCGAGCTTGT
Found at i:76178 original size:165 final size:166
Alignment explanation
Indices: 75906--76237 Score: 632
Period size: 165 Copynumber: 2.0 Consensus size: 166
75896 ACAAGCCATA
75906 GAATTGGAATCAAAACATATTGCAAAGTTGGTTTAATTCTTGAGTTACATATGAGGAATAGAATT
1 GAATTGGAATCAAAACATATTGCAAAGTTGGTTTAATTCTTGAGTTACATATGAGGAATAGAATT
75971 TTGAAGTTAAAGATGTTTATATGGATATAAATTGGTTTAAGCATGTGTATATGAGTT-GAACATG
66 TTGAAGTTAAAGATGTTTATATGGATATAAATTGGTTTAAGCATGTGTATATGAGTTAGAACATG
76035 AAAGGGGATGAAAGATGAAACATTTTCCTTACAAAG
131 AAAGGGGATGAAAGATGAAACATTTTCCTTACAAAG
76071 GAATTGGAATCAAAACATATTGCAAAGTTGGTTTAATTCTTGAGTTACATATGAGGAATAGAA-T
1 GAATTGGAATCAAAACATATTGCAAAGTTGGTTTAATTCTTGAGTTACATATGAGGAATAGAATT
76135 TTGAAGTTAAAGATGGTTTATATGGATATAAATTGGTTTAAGCATGTGTATATGAGTTGAGAACA
66 TTGAAGTTAAAGAT-GTTTATATGGATATAAATTGGTTTAAGCATGTGTATATGAGTT-AGAACA
76200 TGAAAGGGGATGAAAGATGAAACATTTTCCTTACAAAG
129 TGAAAGGGGATGAAAGATGAAACATTTTCCTTACAAAG
76238 TTTCAGATAA
Statistics
Matches: 164, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
164 15 0.09
165 106 0.65
167 43 0.26
ACGTcount: A:0.38, C:0.07, G:0.22, T:0.33
Consensus pattern (166 bp):
GAATTGGAATCAAAACATATTGCAAAGTTGGTTTAATTCTTGAGTTACATATGAGGAATAGAATT
TTGAAGTTAAAGATGTTTATATGGATATAAATTGGTTTAAGCATGTGTATATGAGTTAGAACATG
AAAGGGGATGAAAGATGAAACATTTTCCTTACAAAG
Found at i:82065 original size:22 final size:22
Alignment explanation
Indices: 82039--82094 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
82029 AAACCATTCA
82039 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
82061 GGGGGAATCGGTACCCCCTTGG
1 GGGGGAATCGGTACCCCCTTGG
82083 GGGGGAATCGGT
1 GGGGGAATCGGT
82095 TCCCTCTGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.14, C:0.23, G:0.45, T:0.18
Consensus pattern (22 bp):
GGGGGAATCGGTACCCCCTTGG
Found at i:83156 original size:104 final size:102
Alignment explanation
Indices: 82968--83160 Score: 239
Period size: 104 Copynumber: 1.9 Consensus size: 102
82958 CTCGGAACAT
* * **
82968 AAATTTTAAAGTTGTTTTACTTGAAACAAAATTAATCTCACTTGAGATTGTTTCTTTCAAAAACA
1 AAATTTTAAAATTGTTTCACTTGAAACAAAATTAATAACACTTGAGATTGTTTCTTTCAAAAACA
*
83033 GTTTCGTCTCGCTTGAGACAATTTTTCATAAAAATAC
66 GTTTCGTCTCGCTTAAGACAATTTTTCATAAAAATAC
* *
83070 AAATTTTAAAAATTGTTTCACTTGAAACAAAATTGATAA-ACCTTTGAGATTGTTTCTCTTGAAA
1 AAATTTT-AAAATTGTTTCACTTGAAACAAAATTAATAACA-C-TTGAGATTGTTTCT-TTCAAA
* *
83134 TAA-A-TTTTGTCTCTCTTAAGACAATTT
62 -AACAGTTTCGTCTCGCTTAAGACAATTT
83161 CTCTTGAAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
102 8 0.10
103 27 0.35
104 34 0.44
105 6 0.08
106 2 0.03
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.40
Consensus pattern (102 bp):
AAATTTTAAAATTGTTTCACTTGAAACAAAATTAATAACACTTGAGATTGTTTCTTTCAAAAACA
GTTTCGTCTCGCTTAAGACAATTTTTCATAAAAATAC
Found at i:83398 original size:65 final size:67
Alignment explanation
Indices: 83107--83437 Score: 425
Period size: 67 Copynumber: 5.0 Consensus size: 67
83097 CAAAATTGAT
* * * *
83107 AAACCTTTGAGATTGTTTCTCTTGAAATAAATTTTGTCTCTCTTAAGACAATTTCTCTTGAAACA
1 AAACATTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
83172 TA
66 TA
* * * ** *
83174 AAA-ACTTTGAGATTATTTCTCTTGAAACAAATTTTGTCTCTCTTGAGAAAATTAATCTTTAAAC
1 AAACA-TTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAAC
83238 ATA
65 ATA
* * * * * *
83241 AAACATTTGAGATTGTTTCCATTGAAATAAATTTTGTCTCTCTTGAGAAAATTTATCTTTAAATA
1 AAACATTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
83306 TA
66 TA
* * *
83308 AAACATTTGAGATTGTTTCCATTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCTCTTGAAACA
1 AAACATTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
83373 -A
66 TA
* * * *
83374 AAATA-TTGAGATTGTTTCCCTTGAAACAAGTTTTGTCTCACTTGAGACAATTTCCCTTGAAACA
1 AAACATTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
83438 AATTATGCCT
Statistics
Matches: 236, Mismatches: 26, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
65 55 0.23
66 5 0.02
67 175 0.74
68 1 0.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.40
Consensus pattern (67 bp):
AAACATTTGAGATTGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAATTTCTCTTGAAACA
TA
Found at i:85654 original size:2 final size:2
Alignment explanation
Indices: 85647--85686 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
85637 TTATTATGTC
85647 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
85687 TACTTAATAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:86703 original size:19 final size:20
Alignment explanation
Indices: 86664--86703 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
86654 TGATTAGAAA
* *
86664 TAGAAGAGTTTAATTATTTT
1 TAGAAGAGTTTAAATACTTT
86684 TAGAA-AGTTTAAATACTTT
1 TAGAAGAGTTTAAATACTTT
86703 T
1 T
86704 TCTATAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.38, C:0.03, G:0.12, T:0.47
Consensus pattern (20 bp):
TAGAAGAGTTTAAATACTTT
Found at i:86703 original size:20 final size:20
Alignment explanation
Indices: 86664--86704 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
86654 TGATTAGAAA
*
86664 TAGAAGAGTTTAATTATTTT
1 TAGAAGAGTTTAAATATTTT
86684 TAGAA-AGTTTAAATACTTTT
1 TAGAAGAGTTTAAATA-TTTT
86704 T
1 T
86705 CTATAAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.37, C:0.02, G:0.12, T:0.49
Consensus pattern (20 bp):
TAGAAGAGTTTAAATATTTT
Found at i:88348 original size:24 final size:24
Alignment explanation
Indices: 88321--88369 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
88311 GGATTGTACC
*
88321 GGTGAAGGTG-TGTTATTCGTCGAG
1 GGTGAAGCTGATGTTATTC-TCGAG
*
88345 GGTGATGCTGATGTTATTCTCGAG
1 GGTGAAGCTGATGTTATTCTCGAG
88369 G
1 G
88370 AATTAGATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.16, C:0.10, G:0.39, T:0.35
Consensus pattern (24 bp):
GGTGAAGCTGATGTTATTCTCGAG
Found at i:90622 original size:20 final size:20
Alignment explanation
Indices: 90597--90650 Score: 90
Period size: 20 Copynumber: 2.7 Consensus size: 20
90587 TATTCCCTGG
*
90597 TAATCTTACATTCCCACTGA
1 TAATCTTACATTCCCACTAA
*
90617 TAATCTTATATTCCCACTAA
1 TAATCTTACATTCCCACTAA
90637 TAATCTTACATTCC
1 TAATCTTACATTCC
90651 GTGAATCAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.31, C:0.28, G:0.02, T:0.39
Consensus pattern (20 bp):
TAATCTTACATTCCCACTAA
Found at i:95020 original size:18 final size:18
Alignment explanation
Indices: 94997--95033 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
94987 GCAGTTATAT
*
94997 AAGTCAATATTTGTTATC
1 AAGTCAAGATTTGTTATC
*
95015 AAGTCAAGGTTTGTTATC
1 AAGTCAAGATTTGTTATC
95033 A
1 A
95034 GTTTAAAGGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.11, G:0.16, T:0.41
Consensus pattern (18 bp):
AAGTCAAGATTTGTTATC
Found at i:96827 original size:20 final size:20
Alignment explanation
Indices: 96804--96868 Score: 69
Period size: 20 Copynumber: 3.2 Consensus size: 20
96794 ATGTAAATCA
96804 CAACGCGATTCTGACTATCG
1 CAACGCGATTCTGACTATCG
**
96824 CAACGCGATAAT-ACATAATCG
1 CAACGCGATTCTGAC-T-ATCG
* *
96845 CAACTCGATTCTGACTGTCG
1 CAACGCGATTCTGACTATCG
96865 CAAC
1 CAAC
96869 ACTGAATTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
19 2 0.06
20 18 0.50
21 14 0.39
22 2 0.06
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (20 bp):
CAACGCGATTCTGACTATCG
Found at i:97716 original size:24 final size:24
Alignment explanation
Indices: 97689--97742 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
97679 GTATTCAAAA
97689 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
97713 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
97737 TTTGAT
1 TTTGAT
97743 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:97961 original size:14 final size:14
Alignment explanation
Indices: 97932--97968 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
97922 AGAAAAAGAA
97932 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
97947 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
97961 GAAGAAAA
1 GAAGAAAA
97969 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:100021 original size:12 final size:12
Alignment explanation
Indices: 100004--100042 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
99994 AAGCAAAAGG
100004 CAATCAAAATCA
1 CAATCAAAATCA
100016 CAATCAAAATCA
1 CAATCAAAATCA
* **
100028 AAATCTCAATCA
1 CAATCAAAATCA
100040 CAA
1 CAA
100043 CCGGCTTCAC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (12 bp):
CAATCAAAATCA
Found at i:100028 original size:18 final size:18
Alignment explanation
Indices: 100005--100039 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
99995 AGCAAAAGGC
100005 AATCAAAATCACAATCAA
1 AATCAAAATCACAATCAA
*
100023 AATCAAAATCTCAATCA
1 AATCAAAATCACAATCA
100040 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.23, G:0.00, T:0.20
Consensus pattern (18 bp):
AATCAAAATCACAATCAA
Found at i:100349 original size:140 final size:140
Alignment explanation
Indices: 100097--100379 Score: 512
Period size: 140 Copynumber: 2.0 Consensus size: 140
100087 GCAAACGTTG
* *
100097 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTTAGTTAGGCATGTATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTGAGTTAGGCATATATTAGTAACTTGAGT
*
100162 TTTAAAATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAAAATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
100227 CGAATTTGAC
131 CGAATTTGAC
100237 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTGAGTTAGGCATATATTAGTAACTTGAGT
1 TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTGAGTTAGGCATATATTAGTAACTTGAGT
* * *
100302 TTGAATATTGCTATGATTTGTTTAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
66 TTGAAAATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
100367 CGAATTTGAC
131 CGAATTTGAC
100377 TAT
1 TAT
100380 CGCAACGTGA
Statistics
Matches: 137, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
140 137 1.00
ACGTcount: A:0.29, C:0.11, G:0.15, T:0.45
Consensus pattern (140 bp):
TATTATGTGTATTTTATGTGTAAACTTTTAACATTTTGAGTTAGGCATATATTAGTAACTTGAGT
TTGAAAATTGCTATGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACG
CGAATTTGAC
Found at i:100375 original size:20 final size:20
Alignment explanation
Indices: 100350--100486 Score: 220
Period size: 20 Copynumber: 6.8 Consensus size: 20
100340 TTACACATTC
*
100350 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
100370 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
100390 ATTTGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
100410 ATTTGACAATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
100430 ATTTGACTATCGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
100450 ATTTGATTATCGCAACGGGA
1 ATTTGACTATCGCAACGCGA
100470 ATTTGACTATCGCAACG
1 ATTTGACTATCGCAACG
100487 AAAAAATCGC
Statistics
Matches: 108, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 108 1.00
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.27
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:100554 original size:20 final size:21
Alignment explanation
Indices: 100525--100582 Score: 77
Period size: 20 Copynumber: 2.9 Consensus size: 21
100515 GCAACGCGAA
100525 TTGA-CTTTCGCGTTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
100545 TTG-GCTTTCGCATTGCGATT
1 TTGAGCTTTCGCGTTGCGATT
*
100565 TTGAG-TTTAGCGTTGCGA
1 TTGAGCTTTCGCGTTGCGA
100583 AAGTGTACCT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 32 0.97
21 1 0.03
ACGTcount: A:0.12, C:0.17, G:0.28, T:0.43
Consensus pattern (21 bp):
TTGAGCTTTCGCGTTGCGATT
Found at i:100721 original size:14 final size:14
Alignment explanation
Indices: 100702--100738 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
100692 CATCAATTAA
100702 ACAAATCAACTTTT
1 ACAAATCAACTTTT
100716 ACAAATCAACTTTT
1 ACAAATCAACTTTT
100730 ACAAATCAA
1 ACAAATCAA
100739 TTAAACAAGC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:102176 original size:42 final size:42
Alignment explanation
Indices: 102109--102229 Score: 136
Period size: 42 Copynumber: 2.9 Consensus size: 42
102099 GTGAATCGGG
* *
102109 CTCTTGAATGGTGGGAG-GGACCTCTTCAACGATGACAAGGGC
1 CTCTTGAACGGTGGGAGAGGA-CTCTTGAACGATGACAAGGGC
** * *
102151 CTCTTGAACGGTGGGAGAGGACTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGAGGACTCTTGAACGATGACAAGGGC
* * * *
102193 CTCTTGAACGATAGGAGAGGCCTCTTGAATGATGACA
1 CTCTTGAACGGTGGGAGAGGACTCTTGAACGATGACA
102230 GGTGAGTCGG
Statistics
Matches: 66, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
42 63 0.95
43 3 0.05
ACGTcount: A:0.25, C:0.18, G:0.35, T:0.22
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGGACTCTTGAACGATGACAAGGGC
Found at i:102207 original size:18 final size:21
Alignment explanation
Indices: 102148--102221 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 21
102138 CGATGACAAG
* *
102148 GGCCTCTTGAACGGTGGGAGA
1 GGCCTCTTGAACGATAGGAGA
* ** * *
102169 GGACTCTTGAGGGAT-GATAGG
1 GGCCTCTTGAACGATAG-GAGA
102190 GGCCTCTTGAACGATAGGAGA
1 GGCCTCTTGAACGATAGGAGA
102211 GGCCTCTTGAA
1 GGCCTCTTGAA
102222 TGATGACAGG
Statistics
Matches: 40, Mismatches: 11, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.03
21 38 0.95
22 1 0.03
ACGTcount: A:0.23, C:0.18, G:0.38, T:0.22
Consensus pattern (21 bp):
GGCCTCTTGAACGATAGGAGA
Found at i:102732 original size:20 final size:20
Alignment explanation
Indices: 102707--102750 Score: 79
Period size: 20 Copynumber: 2.2 Consensus size: 20
102697 AATAGTTTCT
102707 GAAACTTAAAATCGCAACAC
1 GAAACTTAAAATCGCAACAC
*
102727 GAAACTTAAAATCGCAACGC
1 GAAACTTAAAATCGCAACAC
102747 GAAA
1 GAAA
102751 ATGACTATCG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.50, C:0.23, G:0.14, T:0.14
Consensus pattern (20 bp):
GAAACTTAAAATCGCAACAC
Found at i:102760 original size:20 final size:20
Alignment explanation
Indices: 102737--102804 Score: 109
Period size: 20 Copynumber: 3.4 Consensus size: 20
102727 GAAACTTAAA
102737 ATCGCAACGCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
*
102757 ATCGCAACTCGAAAATGACT
1 ATCGCAACGCGAAAATGACT
**
102777 ATCGCAACGCGAATGTGACT
1 ATCGCAACGCGAAAATGACT
102797 ATCGCAAC
1 ATCGCAAC
102805 AAGATAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.37, C:0.26, G:0.19, T:0.18
Consensus pattern (20 bp):
ATCGCAACGCGAAAATGACT
Found at i:102879 original size:19 final size:19
Alignment explanation
Indices: 102835--102879 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
102825 TGCAACGAGA
*
102835 AAATT-GCAATGCGAAACC
1 AAATTCGCAACGCGAAACC
* *
102853 AAAATCGCAACGCGAAACT
1 AAATTCGCAACGCGAAACC
102872 AAATTCGC
1 AAATTCGC
102880 GTTGCGCTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
18 4 0.18
19 18 0.82
ACGTcount: A:0.44, C:0.24, G:0.16, T:0.16
Consensus pattern (19 bp):
AAATTCGCAACGCGAAACC
Found at i:102904 original size:20 final size:20
Alignment explanation
Indices: 102875--102912 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
102865 CGAAACTAAA
* *
102875 TTCGCGTTGCGCTTTTCATT
1 TTCGCATTGCGATTTTCATT
102895 TTCGCATTGCGATTTTCA
1 TTCGCATTGCGATTTTCA
102913 CGTTGCGCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.11, C:0.24, G:0.18, T:0.47
Consensus pattern (20 bp):
TTCGCATTGCGATTTTCATT
Found at i:102936 original size:33 final size:34
Alignment explanation
Indices: 102879--102952 Score: 114
Period size: 33 Copynumber: 2.2 Consensus size: 34
102869 ACTAAATTCG
*
102879 CGTTGCGCTTTTCATTTTCGCATTGCGATTTTCA
1 CGTTGCGCTTTTCATTTTCGCATTGCGATTATCA
* *
102913 CGTTGCGCTTTTTA-TTTCGCATTGCGATTATCC
1 CGTTGCGCTTTTCATTTTCGCATTGCGATTATCA
102946 CGTTGCG
1 CGTTGCG
102953 ATAGTCAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
33 24 0.65
34 13 0.35
ACGTcount: A:0.11, C:0.24, G:0.20, T:0.45
Consensus pattern (34 bp):
CGTTGCGCTTTTCATTTTCGCATTGCGATTATCA
Found at i:102971 original size:20 final size:20
Alignment explanation
Indices: 102946--102994 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 20
102936 GCGATTATCC
102946 CGTTGCGATAGTCAAATTCA
1 CGTTGCGATAGTCAAATTCA
** *
102966 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCAAATTCA
102986 CGTTGCGAT
1 CGTTGCGAT
102995 TTTAAGTTTC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCAAATTCA
Found at i:104210 original size:178 final size:177
Alignment explanation
Indices: 103891--104246 Score: 667
Period size: 178 Copynumber: 2.0 Consensus size: 177
103881 TCAATTGAGC
*
103891 CGAAAAAAAGTTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACACTCTGAA
1 CGAAAAAAAGTTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACAATCTGAA
*
103956 GATATACCAAAAACAATAATAAACATAAAGAGTAGTAGTAGTTTATTCTTCAAACTTAAATTTGC
66 GATATACAAAAAACAATAATAAACATAAAGAGTAGTAGTAGTTTATTCTTCAAACTTAAATTTGC
*
104021 AATACTGTGAATTTTGTATTTTTCTTTGTTTTTTGGTTGAAGTAATG
131 AATACTGTGAATTTTGTATTTGTCTTTGTTTTTTGGTTGAAGTAATG
*
104068 CGAAAAAAAGTTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACAATGTGAA
1 CGAAAAAAAGTTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACAATCTGAA
104133 GATATACAAAAAAACAATAATAAACATAAAGAGTAGTAGTAGTTTATTCTTCAAACTTAAATTTG
66 GATATAC-AAAAAACAATAATAAACATAAAGAGTAGTAGTAGTTTATTCTTCAAACTTAAATTTG
104198 CAATACTGTGAATTTTGTATTTGTCTTTGTTTTTTGGTTGAAGTAATG
130 CAATACTGTGAATTTTGTATTTGTCTTTGTTTTTTGGTTGAAGTAATG
104246 C
1 C
104247 AATTCATTCA
Statistics
Matches: 174, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
177 70 0.40
178 104 0.60
ACGTcount: A:0.43, C:0.12, G:0.12, T:0.32
Consensus pattern (177 bp):
CGAAAAAAAGTTCTACAAAAACAATAAACATACCAAGTTAGATATACCAAAAACTACAATCTGAA
GATATACAAAAAACAATAATAAACATAAAGAGTAGTAGTAGTTTATTCTTCAAACTTAAATTTGC
AATACTGTGAATTTTGTATTTGTCTTTGTTTTTTGGTTGAAGTAATG
Found at i:104318 original size:20 final size:20
Alignment explanation
Indices: 104295--104380 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
104285 TCTGAAACTT
104295 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
* *
104315 AAAATTGTAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** *
104335 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
104354 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
104373 AAAATCGC
1 AAAATCGC
104381 GTTGCGATTT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
19 25 0.45
20 30 0.55
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:104354 original size:19 final size:19
Alignment explanation
Indices: 104295--104380 Score: 84
Period size: 19 Copynumber: 4.4 Consensus size: 19
104285 TCTGAAACTT
*
104295 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
* * *
104315 AAAATTGTAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
**
104335 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
104354 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
104373 AAAATCGC
1 AAAATCGC
104381 GTTGCGATTT
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
19 28 0.50
20 28 0.50
ACGTcount: A:0.49, C:0.21, G:0.16, T:0.14
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:104782 original size:22 final size:22
Alignment explanation
Indices: 104755--104800 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
104745 GAGATAGATT
*
104755 GATTTCGCCGGAGATGGAGACG
1 GATTTCGCCAGAGATGGAGACG
* *
104777 GATTTCGTCAGAGATGGGGACG
1 GATTTCGCCAGAGATGGAGACG
104799 GA
1 GA
104801 GAGAGTGAGA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.24, C:0.15, G:0.41, T:0.20
Consensus pattern (22 bp):
GATTTCGCCAGAGATGGAGACG
Found at i:104989 original size:20 final size:20
Alignment explanation
Indices: 104966--105031 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
104956 TTATCGCAAC
*
104966 GCGATAGTCAGAATCGCGTT
1 GCGATAGTCAAAATCGCGTT
**
104986 GCGATTATGT-ATTATCGCGTT
1 GCGA-TA-GTCAAAATCGCGTT
*
105007 GCGATAGGCAAAATCGCGTT
1 GCGATAGTCAAAATCGCGTT
105027 GCGAT
1 GCGAT
105032 TTTCTAAAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
19 1 0.03
20 20 0.53
21 15 0.39
22 2 0.05
ACGTcount: A:0.24, C:0.18, G:0.29, T:0.29
Consensus pattern (20 bp):
GCGATAGTCAAAATCGCGTT
Found at i:105000 original size:41 final size:41
Alignment explanation
Indices: 104934--105051 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 41
104924 TGGCGGTTTG
* * *
104934 AAAATTGCATTGCGATTTTGTATTATCGCAACGCGATAGTC
1 AAAATCGCGTTGCGATTTTGTATTATCGCAACGCGATAGGC
* * ***
104975 AGAATCGCGTTGCGATTATGTATTATCGCGTTGCGATAGGC
1 AAAATCGCGTTGCGATTTTGTATTATCGCAACGCGATAGGC
* **
105016 AAAATCGCGTTGCGATTTTCTAAAATCGCAACGCGA
1 AAAATCGCGTTGCGATTTTGTATTATCGCAACGCGA
105052 ATTTGGAAAA
Statistics
Matches: 61, Mismatches: 16, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
41 61 1.00
ACGTcount: A:0.28, C:0.19, G:0.23, T:0.31
Consensus pattern (41 bp):
AAAATCGCGTTGCGATTTTGTATTATCGCAACGCGATAGGC
Found at i:105042 original size:21 final size:21
Alignment explanation
Indices: 104977--105044 Score: 68
Period size: 21 Copynumber: 3.3 Consensus size: 21
104967 CGATAGTCAG
* *
104977 AATCGCGTTGCGATTATGTAT
1 AATCGCGTTGCGATTATCTAA
* *
104998 TATCGCGTTGCGA-TAGGC-AA
1 AATCGCGTTGCGATTA-TCTAA
*
105018 AATCGCGTTGCGATTTTCTAA
1 AATCGCGTTGCGATTATCTAA
105039 AATCGC
1 AATCGC
105045 AACGCGAATT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 16 0.43
21 21 0.57
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (21 bp):
AATCGCGTTGCGATTATCTAA
Found at i:108807 original size:15 final size:16
Alignment explanation
Indices: 108789--108818 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
108779 ATTTAAATTT
108789 AATA-TTTTTATTTTG
1 AATATTTTTTATTTTG
108804 AATATTTTTTATTTT
1 AATATTTTTTATTTT
108819 CATCGTCATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.27, C:0.00, G:0.03, T:0.70
Consensus pattern (16 bp):
AATATTTTTTATTTTG
Found at i:117991 original size:18 final size:18
Alignment explanation
Indices: 117970--118020 Score: 75
Period size: 18 Copynumber: 2.8 Consensus size: 18
117960 AAGTTGACTT
* *
117970 TTTGGTCAAAGTCATCAG
1 TTTGGTCAAAGTCAACAA
117988 TTTGGTCAAAGTCAACAA
1 TTTGGTCAAAGTCAACAA
*
118006 TTTAGTCAAAGTCAA
1 TTTGGTCAAAGTCAA
118021 TAAGTTAGAC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.35, C:0.16, G:0.18, T:0.31
Consensus pattern (18 bp):
TTTGGTCAAAGTCAACAA
Found at i:118028 original size:18 final size:18
Alignment explanation
Indices: 117974--118028 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
117964 TGACTTTTTG
* *
117974 GTCAAAGTC-ATCAGTTTG
1 GTCAAAGTCAATAAG-TTA
* *
117992 GTCAAAGTCAACAATTTA
1 GTCAAAGTCAATAAGTTA
118010 GTCAAAGTCAATAAGTTA
1 GTCAAAGTCAATAAGTTA
118028 G
1 G
118029 ACAGGTTCAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 28 0.93
19 2 0.07
ACGTcount: A:0.38, C:0.15, G:0.18, T:0.29
Consensus pattern (18 bp):
GTCAAAGTCAATAAGTTA
Found at i:119523 original size:2 final size:2
Alignment explanation
Indices: 119518--119561 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
119508 AAGGAATTTC
119518 AT AT AT AT AT AT AT AT AT AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119559 AT A
1 AT A
119562 GAAAGAAAAA
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.02
2 40 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:120323 original size:20 final size:20
Alignment explanation
Indices: 120298--120347 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
120288 TTCTCCTTAA
*
120298 TATTTAAATT-ATTTTAAAAT
1 TATTTAAATTAATCTT-AAAT
**
120318 TATTTATTTTAATCTTAAAT
1 TATTTAAATTAATCTTAAAT
120338 TATTTAAATT
1 TATTTAAATT
120348 TAGTTGTAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTTAAATTAATCTTAAAT
Found at i:120405 original size:21 final size:22
Alignment explanation
Indices: 120376--120416 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
120366 TCATTTCATT
*
120376 TTTATATTTTAGA-TTATATAA
1 TTTAGATTTTAGATTTATATAA
*
120397 TTTAGATTTTATATTTATAT
1 TTTAGATTTTAGATTTATAT
120417 CTATGTTATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (22 bp):
TTTAGATTTTAGATTTATATAA
Done.