Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000001.1 Hibiscus syriacus cultivar Beakdansim tig00000002_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: 2159989
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 8
Found at i:745099 original size:24 final size:24
Alignment explanation
Indices: 745066--745181 Score: 148
Period size: 24 Copynumber: 4.7 Consensus size: 24
745056 ATCAGTTTTT
745066 TAAAAAAACCGGTATTTTATCCGGA
1 TAAAAAAACCGGT-TTTTATCCGGA
745091 T-AAAAAACCGGTTTTTTATCCGGA
1 TAAAAAAACCGG-TTTTTATCCGGA
*
745115 T-AAAAAACCGGTTTTTTATCCGGTT
1 TAAAAAAACCGG-TTTTTATCCGG-A
745140 TCAAAAAAACCGGTTTTTAATCCGG-
1 T-AAAAAAACCGGTTTTT-ATCCGGA
745165 TAAAAAAACCGGTTTTT
1 TAAAAAAACCGGTTTTT
745182 CCAAAATCCG
Statistics
Matches: 85, Mismatches: 1, Indels: 11
0.88 0.01 0.11
Matches are distributed among these distances:
24 60 0.71
25 4 0.05
26 5 0.06
27 16 0.19
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (24 bp):
TAAAAAAACCGGTTTTTATCCGGA
Found at i:745164 original size:51 final size:48
Alignment explanation
Indices: 745066--745181 Score: 162
Period size: 51 Copynumber: 2.4 Consensus size: 48
745056 ATCAGTTTTT
* *
745066 TAAAAAAACCGGTATTTTATCCGGATAAAAAACCGGTTTTTTATCCGG
1 TAAAAAAACCGGTTTTTTATCCGGATAAAAAACCGGTTTTTAATCCGG
*
745114 -ATAAAAAACCGGTTTTTTATCCGGTTTCAAAAAAACCGGTTTTTAATCCGG
1 TA-AAAAAACCGGTTTTTTATCCGG-AT--AAAAAACCGGTTTTTAATCCGG
745165 TAAAAAAACCGGTTTTT
1 TAAAAAAACCGGTTTTT
745182 CCAAAATCCG
Statistics
Matches: 60, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
47 1 0.02
48 21 0.35
49 1 0.02
51 36 0.60
52 1 0.02
ACGTcount: A:0.35, C:0.16, G:0.16, T:0.33
Consensus pattern (48 bp):
TAAAAAAACCGGTTTTTTATCCGGATAAAAAACCGGTTTTTAATCCGG
Found at i:747702 original size:26 final size:27
Alignment explanation
Indices: 747648--747707 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
747638 TTCACTTATT
*
747648 AAATATAAATCCATAATTTAAT-AAAA
1 AAATATAAATCCATAATATAATAAAAA
747674 AAATATAAATCCATAA-AT-ATGAAACAA
1 AAATATAAATCCATAATATAAT-AAA-AA
747701 AAATATA
1 AAATATA
747708 CTAATTGCAA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
24 2 0.07
25 1 0.03
26 18 0.60
27 9 0.30
ACGTcount: A:0.63, C:0.08, G:0.02, T:0.27
Consensus pattern (27 bp):
AAATATAAATCCATAATATAATAAAAA
Found at i:754234 original size:21 final size:21
Alignment explanation
Indices: 754208--754258 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
754198 ATTTTGGTAG
* *
754208 GTGTTCGTGTTCGATCATTTA
1 GTGTTCATGTTCGATCATATA
*
754229 GTGTTCATGTTTGATCATATA
1 GTGTTCATGTTCGATCATATA
*
754250 ATGTTCATG
1 GTGTTCATG
754259 AACATGTTCG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.20, C:0.12, G:0.22, T:0.47
Consensus pattern (21 bp):
GTGTTCATGTTCGATCATATA
Found at i:760123 original size:21 final size:19
Alignment explanation
Indices: 760090--760130 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
760080 AAAATATAGG
760090 ATAAATATAAAATAGATAA
1 ATAAATATAAAATAGATAA
*
760109 ATAAATGAGTAAAATATATAA
1 ATAAAT-A-TAAAATAGATAA
760130 A
1 A
760131 AAGTAAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 6 0.32
20 1 0.05
21 12 0.63
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
ATAAATATAAAATAGATAA
Found at i:760750 original size:34 final size:34
Alignment explanation
Indices: 760707--760775 Score: 120
Period size: 34 Copynumber: 2.0 Consensus size: 34
760697 GAATCCTAGC
760707 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
* *
760741 AAAATTCTATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
760775 A
1 A
760776 GTAGGACGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.32, C:0.14, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
Found at i:761623 original size:105 final size:101
Alignment explanation
Indices: 761371--761760 Score: 326
Period size: 98 Copynumber: 3.8 Consensus size: 101
761361 TGGAACCGGA
* *
761371 AAATTGTTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
* * ** * ** ** **
761435 A-ATATCCTTCGTTGTGAAGTTGAG-ATTG-GCTCCG
65 AGATATCCTCCGTCGTGAAAATCAGCCCTGAAATGGG
** * * * *
761469 AAATTGTTTGTTGACAGTCAGCCGCCCCTTCGCTGTGAAGTTGAGCTTGTGCTGTCTTGGGT-CC
1 AAATTG-TTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACC
**
761533 A-ATATCCTCCG-CTGTGAAGTTGAAATTGGCCCTGAAACTGGG
65 AGATATCCTCCGTC-GTG-A----AAATCAGCCCTGAAA-TGGG
* * *
761575 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCATAGGTAGCA
1 AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
** *
761640 TGATATCCTCCGTCGTGAAAATCAGCTTTGAAATTGG
66 -GATATCCTCCGTCGTGAAAATCAGCCCTGAAATGGG
* * **
761677 AAAGTTGTTCGTTGACAACCAGTCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGAGTGG
1 AAA-TTGTT-GTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTAC
*
761742 CACGATATCCTCCATCGTG
64 CA-GATATCCTCCGTCGTG
761761 GAGTTGAAAT
Statistics
Matches: 236, Mismatches: 41, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
98 69 0.29
99 1 0.00
102 6 0.03
103 19 0.08
104 69 0.29
105 47 0.20
106 10 0.04
107 1 0.00
108 13 0.06
109 1 0.00
ACGTcount: A:0.21, C:0.21, G:0.25, T:0.34
Consensus pattern (101 bp):
AAATTGTTGTTGACAACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTTGGGTACCA
GATATCCTCCGTCGTGAAAATCAGCCCTGAAATGGG
Found at i:762466 original size:31 final size:31
Alignment explanation
Indices: 762431--762558 Score: 82
Period size: 31 Copynumber: 3.9 Consensus size: 31
762421 AGGAAATAAA
762431 CTCAAAG-ATTTTGTGTTTCAAGAGAAACTGT
1 CTCAAAGAATTTTGTGTTTCAAGAGAAACT-T
** * *
762462 CTCAAGGGAGACAAAATT-TGTTTCAAGGGAAACAAT
1 CTCAA---AG--AATTTTGTGTTTCAAGAGAAAC-TT
*
762498 CTCAAAG-GTTTTGTGTTTCAAGAGAAACATT
1 CTCAAAGAATTTTGTGTTTCAAGAGAAAC-TT
* **
762529 TTCAAAGGTTTTTTGTGTTTCAAGAGAAAC
1 CTCAAA-GAATTTTGTGTTTCAAGAGAAAC
762559 AATTTCAAAG
Statistics
Matches: 76, Mismatches: 11, Indels: 18
0.72 0.10 0.17
Matches are distributed among these distances:
30 2 0.03
31 26 0.34
32 1 0.01
33 22 0.29
34 2 0.03
36 20 0.26
37 3 0.04
ACGTcount: A:0.34, C:0.12, G:0.20, T:0.33
Consensus pattern (31 bp):
CTCAAAGAATTTTGTGTTTCAAGAGAAACTT
Found at i:762484 original size:67 final size:68
Alignment explanation
Indices: 762334--762525 Score: 219
Period size: 67 Copynumber: 2.8 Consensus size: 68
762324 GTCTTAAAAA
* * * * * * *
762334 AGACAAAA-TTCGTTTCAAGGGAAACGATCTTAAAGATATATGTTGTTTCATGAG-AACGGCCTC
1 AGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGAT-TTTG-TGTTTCAAGAGAAACGGCCTC
762397 AAGGG
64 AAGGG
* * * *
762402 AGACAAAATTTTGTTTTAAAGGAAATAAACTCAAAGATTTTGTGTTTCAAGAGAAACTGTCTCAA
1 AGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
762467 GGG
66 GGG
* * *
762470 AGACAAAA-TTTGTTTCAAGGGAAACAATCTCAAAGGTTTTGTGTTTCAAGAGAAAC
1 AGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTGTGTTTCAAGAGAAAC
762526 ATTTTCAAAG
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
67 53 0.50
68 31 0.29
69 22 0.21
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (68 bp):
AGACAAAATTTTGTTTCAAAGGAAACAAACTCAAAGATTTTGTGTTTCAAGAGAAACGGCCTCAA
GGG
Found at i:762585 original size:36 final size:33
Alignment explanation
Indices: 762480--762593 Score: 160
Period size: 33 Copynumber: 3.4 Consensus size: 33
762470 AGACAAAATT
* *
762480 TGTTTCAAGGGAAACAATCTCAAAGG--TTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
*
762511 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
762544 TGTTTCAAGAGAAACAATTTCAAAGGTTTCTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGG--T-TTTTTG
762580 TGTTTCAAGAGAAA
1 TGTTTCAAGAGAAA
762594 TTGTATCAAG
Statistics
Matches: 74, Mismatches: 4, Indels: 5
0.89 0.05 0.06
Matches are distributed among these distances:
31 23 0.31
33 30 0.41
35 1 0.01
36 20 0.27
ACGTcount: A:0.32, C:0.11, G:0.19, T:0.38
Consensus pattern (33 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTG
Found at i:762745 original size:36 final size:36
Alignment explanation
Indices: 762636--763074 Score: 173
Period size: 37 Copynumber: 12.9 Consensus size: 36
762626 CAAGGATTGA
*
762636 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* * * *
762673 TGTTTTAAGAAAAACATGTCTTAAGATAGACAAAATT
1 TGTTTCAAGAGAAAC-TGTCTCAAGAGAGACAAAATT
*
762710 TGTTTCAAGAGAAACTGTCTCAAGAGAGACGAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * *
762746 TGTTT-AATGTA-AAACATAT-TC-----A-A-ATATTT
1 TGTTTCAA-G-AGAAAC-TGTCTCAAGAGAGACAAAATT
* * *
762775 TGTTTCAAGGGAAACTGTTTTC-A-A-AG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
*
762804 ATGTTTCAATAGAAACTGTCTCAA-AGGAGACAAAATT
1 -TGTTTCAAGAGAAACTGTCTCAAGA-GAGACAAAATT
* *
762841 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
** * * * *
762877 CATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* *
762905 ATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
* *
762943 TGTTTCAAGGGAAACTATCTCAAGAGAGAC--AATT
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
* * * * *
762977 TATTTCAAGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGAGAAACTG-TCTCAAGAGAGACAAAATT
* * *
763005 ATGTTGCAAGAGAAACTGTCTCAAGGGAGAAAAAATTT
1 -TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAA-TT
*
763043 TGTTTCAAGGGAAACTGTCTCAAGAGAGACAA
1 TGTTTCAAGAGAAACTGTCTCAAGAGAGACAA
763075 TGGTGAGCAC
Statistics
Matches: 301, Mismatches: 56, Indels: 90
0.67 0.13 0.20
Matches are distributed among these distances:
28 5 0.02
29 48 0.16
30 28 0.09
31 2 0.01
32 6 0.02
33 3 0.01
34 19 0.06
35 6 0.02
36 76 0.25
37 88 0.29
38 20 0.07
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGAGAAACTGTCTCAAGAGAGACAAAATT
Found at i:762925 original size:101 final size:102
Alignment explanation
Indices: 762777--763074 Score: 494
Period size: 100 Copynumber: 2.9 Consensus size: 102
762767 AAATATTTTG
* * *
762777 TTTCAAGGGAAACTGTTTTCAAAGTTTATGTTTCAATAGAAACTGTCTCAAAGGAGACAAAA-TT
1 TTTCAAGGGAAA-TGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTT
762841 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
65 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
*
762879 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
762944 GTTTCAAGGGAAACTATCTCAAGAGAGAC--AATTTA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
* *
762979 TTTCAAGGGAAATGTTTTCAATGTTTATGTTGCAAGAGAAACTGTCTCAAGGGAGAAAAAATTTT
1 TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
*
763044 GTTTCAAGGGAAACTGTCTCAAGAGAGACAA
66 GTTTCAAGGGAAACTATCTCAAGAGAGACAA
763075 TGGTGAGCAC
Statistics
Matches: 184, Mismatches: 9, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
100 95 0.52
101 45 0.24
102 44 0.24
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (102 bp):
TTTCAAGGGAAATGTTTTCAATGTTTATGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTT
GTTTCAAGGGAAACTATCTCAAGAGAGACAAAATTCA
Found at i:763959 original size:22 final size:22
Alignment explanation
Indices: 763934--763989 Score: 85
Period size: 22 Copynumber: 2.5 Consensus size: 22
763924 TTGTGTTTGG
*
763934 TCAAAGGTTTGGCATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
763956 TCAAAGGTTTGATATTTGATGC
1 TCAAAGGTTTGACATTTGATGC
*
763978 TCAAAGGATTGA
1 TCAAAGGTTTGA
763990 TGGGGTAGCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.29, C:0.11, G:0.25, T:0.36
Consensus pattern (22 bp):
TCAAAGGTTTGACATTTGATGC
Found at i:764621 original size:23 final size:22
Alignment explanation
Indices: 764594--764660 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 22
764584 TTTTTGTCCC
*
764594 TTTTTCTTTTTGATTTTTGCTCT
1 TTTTTCTTTTTGTTTTTTGCT-T
* *
764617 TTTTTCCTTTTG-TTCTTG-TT
1 TTTTTCTTTTTGTTTTTTGCTT
*
764637 TCTTT-TTTTT-TTTTTTGCTT
1 TTTTTCTTTTTGTTTTTTGCTT
764657 TTTT
1 TTTT
764661 GCTTCTTTTC
Statistics
Matches: 36, Mismatches: 6, Indels: 7
0.73 0.12 0.14
Matches are distributed among these distances:
19 9 0.25
20 10 0.28
21 1 0.03
22 5 0.14
23 11 0.31
ACGTcount: A:0.01, C:0.12, G:0.07, T:0.79
Consensus pattern (22 bp):
TTTTTCTTTTTGTTTTTTGCTT
Found at i:764626 original size:8 final size:7
Alignment explanation
Indices: 764614--764676 Score: 54
Period size: 8 Copynumber: 8.1 Consensus size: 7
764604 TGATTTTTGC
764614 TCTTTTT
1 TCTTTTT
764621 TCCTTTTGT
1 T-CTTTT-T
*
764630 TCTTGTT
1 TCTTTTT
764637 TCTTTTTT
1 TC-TTTTT
*
764645 TTTTTTT
1 TCTTTTT
764652 TGCTTTTT
1 T-CTTTTT
764660 TGCTTCTTT
1 T-CTT-TTT
764669 TCTTTTT
1 TCTTTTT
764676 T
1 T
764677 GTTCTTGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 10
0.77 0.07 0.16
Matches are distributed among these distances:
7 14 0.30
8 27 0.57
9 6 0.13
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.79
Consensus pattern (7 bp):
TCTTTTT
Found at i:764643 original size:16 final size:17
Alignment explanation
Indices: 764624--764683 Score: 65
Period size: 16 Copynumber: 3.6 Consensus size: 17
764614 TCTTTTTTCC
764624 TTTTGTTCTTGTTTCTT
1 TTTTGTTCTTGTTTCTT
*
764641 TTTT-TT-TTTTTTGCTT
1 TTTTGTTCTTGTTT-CTT
764657 TTTTGCTTC-T-TTTCTT
1 TTTTG-TTCTTGTTTCTT
764673 TTTTGTTCTTG
1 TTTTGTTCTTG
764684 ATTGGATCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 12
0.73 0.02 0.24
Matches are distributed among these distances:
15 8 0.22
16 18 0.50
17 7 0.19
18 3 0.08
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (17 bp):
TTTTGTTCTTGTTTCTT
Found at i:767851 original size:16 final size:18
Alignment explanation
Indices: 767819--767853 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
767809 ATATAAAAAC
767819 ATAAAATATAGGATAAAT
1 ATAAAATATAGGATAAAT
767837 ATAAAA-ATA-GATAAAT
1 ATAAAATATAGGATAAAT
767853 A
1 A
767854 AATGAGTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 3 0.18
18 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
ATAAAATATAGGATAAAT
Found at i:767889 original size:2 final size:2
Alignment explanation
Indices: 767884--767912 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
767874 AAGTAAAAGC
767884 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
767913 AGTAAATAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:768502 original size:34 final size:34
Alignment explanation
Indices: 768448--768516 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
768438 GAATCCTAGC
*
768448 AAAATTCTATCATATCTTTAGGAGTTTGAATCCT
1 AAAATTATATCATATCTTTAGGAGTTTGAATCCT
* *
768482 AAAATTATATCCTATTTTTAGGAGTTTGAATCCT
1 AAAATTATATCATATCTTTAGGAGTTTGAATCCT
768516 A
1 A
768517 GTAGGACGAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.12, T:0.42
Consensus pattern (34 bp):
AAAATTATATCATATCTTTAGGAGTTTGAATCCT
Found at i:770903 original size:19 final size:19
Alignment explanation
Indices: 770873--770928 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
770863 AAAAGAAGAA
*
770873 AATATAATAAAATATAAAT
1 AATAAAATAAAATATAAAT
* * *
770892 GGATAAAA-AAAATACACAT
1 -AATAAAATAAAATATAAAT
770911 AATAAAATAAAATATAAA
1 AATAAAATAAAATATAAA
770929 ACAATGAAAA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
18 6 0.21
19 17 0.61
20 5 0.18
ACGTcount: A:0.70, C:0.04, G:0.04, T:0.23
Consensus pattern (19 bp):
AATAAAATAAAATATAAAT
Found at i:771148 original size:20 final size:19
Alignment explanation
Indices: 771117--771166 Score: 68
Period size: 18 Copynumber: 2.6 Consensus size: 19
771107 TAATATACGT
771117 ATATAATAATAAA-AAATA
1 ATATAATAATAAATAAATA
771135 ATATAATAGCATAAATAAATA
1 ATATAATA--ATAAATAAATA
771156 A-ATAATAATAA
1 ATATAATAATAA
771167 TAGTAAAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
18 12 0.41
20 11 0.38
21 6 0.21
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.28
Consensus pattern (19 bp):
ATATAATAATAAATAAATA
Found at i:771294 original size:2 final size:2
Alignment explanation
Indices: 771287--771319 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
771277 GGTAAAATGA
*
771287 AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
771320 CATACATAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:771601 original size:18 final size:18
Alignment explanation
Indices: 771561--771603 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
771551 AAAAAATAGC
*
771561 AATAATAGAAATAATAAG
1 AATAATAGAAAGAATAAG
* * *
771579 GATAATATAAAGAATAAT
1 AATAATAGAAAGAATAAG
771597 AATAATA
1 AATAATA
771604 AAGATAAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
AATAATAGAAAGAATAAG
Found at i:771678 original size:9 final size:10
Alignment explanation
Indices: 771662--771710 Score: 57
Period size: 9 Copynumber: 4.9 Consensus size: 10
771652 ATATATATAC
771662 ATATAATAAT
1 ATATAATAAT
771672 A-ATAATAAT
1 ATATAATAAT
*
771681 A-ACAATAAT
1 ATATAATAAT
771690 ATATATATATAT
1 ATATA-ATA-AT
771702 ATATAATAA
1 ATATAATAA
771711 AACGTAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 17 0.50
10 4 0.12
11 6 0.18
12 7 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATAATAAT
Found at i:773570 original size:105 final size:105
Alignment explanation
Indices: 773368--774041 Score: 1150
Period size: 105 Copynumber: 6.4 Consensus size: 105
773358 GTATTGTTCC
* * ***
773368 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTTGAAATTGAGAAGTTGTCGGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC-TGAAATTGAGAA-ATGTTTATTGACA
** *** *
773433 GTCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTT
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
773475 GAGTCCAATATCCTTCGTTGTGAAGTCGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
*
773540 CAGCGGTCCCTTCGTCATGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
773580 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
*
773645 CAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
*
773685 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
773750 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
* *
773790 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA-ATGTTTATTGACAA
773855 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
65 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
773896 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
773961 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
774001 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
774042 GTAAAACCTG
Statistics
Matches: 541, Mismatches: 25, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
105 390 0.72
106 115 0.21
107 36 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTTATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:773949 original size:316 final size:315
Alignment explanation
Indices: 773368--774041 Score: 1172
Period size: 316 Copynumber: 2.1 Consensus size: 315
773358 GTATTGTTCC
* *
773368 GAGTCCAATATCTTTCGTTGTGAAGTTGAAATTGGCTCTTGAAATTGAGAAGTTGTCGGTTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTC-TGAAATTGAGAAGTTGTC-ATTGACA
** * *
773433 GTCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTACTGTCTTGAGTCCAATATCCTTCGTTGTGA
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCACTGTCTGGAGTCCAATATCCTTCGTTGTGA
773498 AGTCGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGT
129 AGTCGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGT
*
773563 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGG
194 TGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAG
773628 AAATGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
259 AAATGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
773685 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGGAATGTT-T-ATTGACA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA-GAA-GTTGTCATTGACA
**
773748 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGA
64 ACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCACTGTCTGGAGTCCAATATCCTTCGTTGTGA
* * *
773813 AGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAG
129 AGTCGAAATTGGCTCTGAAATTGAGAA-ATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAG
773878 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
193 TTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGA
*
773943 GAAATGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
258 GAAATGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
774001 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA
774042 GTAAAACCTG
Statistics
Matches: 341, Mismatches: 13, Indels: 7
0.94 0.04 0.02
Matches are distributed among these distances:
315 91 0.27
316 206 0.60
317 41 0.12
318 3 0.01
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.34
Consensus pattern (315 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTCATTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCACTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
TCGAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAACCAGCGGTCCCTTCGTCATGAAGTTG
AACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
ATGTTTATTGACAACCAGCAGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
Found at i:785347 original size:19 final size:19
Alignment explanation
Indices: 785317--785387 Score: 63
Period size: 19 Copynumber: 3.6 Consensus size: 19
785307 AAAAGAAGAA
*
785317 AATATAATAAAATATAAAT
1 AATAAAATAAAATATAAAT
* * *
785336 GGATAAAA-AAAATACACAT
1 -AATAAAATAAAATATAAAT
*
785355 AATAAAATAAAATATAAAC
1 AATAAAATAAAATATAAAT
785374 AATGAAAATGAAAA
1 AAT-AAAAT-AAAA
785388 AAAAAAGAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
18 6 0.15
19 20 0.50
20 10 0.25
21 4 0.10
ACGTcount: A:0.69, C:0.04, G:0.06, T:0.21
Consensus pattern (19 bp):
AATAAAATAAAATATAAAT
Found at i:785489 original size:2 final size:2
Alignment explanation
Indices: 785482--785511 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
785472 AATAAATAAA
785482 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
785512 GTAGAATATA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:786051 original size:18 final size:18
Alignment explanation
Indices: 786011--786053 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
786001 AAAAAATAGC
*
786011 AATAATAGAAATAATAAG
1 AATAATAGAAAGAATAAG
* * *
786029 GATAATATAAAGAATAAT
1 AATAATAGAAAGAATAAG
786047 AATAATA
1 AATAATA
786054 AAGATAAAAA
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (18 bp):
AATAATAGAAAGAATAAG
Found at i:786128 original size:9 final size:10
Alignment explanation
Indices: 786112--786160 Score: 57
Period size: 9 Copynumber: 4.9 Consensus size: 10
786102 ATATATATAC
786112 ATATAATAAT
1 ATATAATAAT
786122 A-ATAATAAT
1 ATATAATAAT
*
786131 A-ACAATAAT
1 ATATAATAAT
786140 ATATATATATAT
1 ATATA-ATA-AT
786152 ATATAATAA
1 ATATAATAA
786161 AACGTAATAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 17 0.50
10 4 0.12
11 6 0.18
12 7 0.21
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (10 bp):
ATATAATAAT
Found at i:791245 original size:2 final size:2
Alignment explanation
Indices: 791238--791266 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
791228 TTATTTCTGC
791238 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
791267 CACGAGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:801062 original size:15 final size:15
Alignment explanation
Indices: 801044--801119 Score: 74
Period size: 15 Copynumber: 5.5 Consensus size: 15
801034 TTTAAAAATT
801044 ATATTATAATTATTA
1 ATATTATAATTATTA
801059 ATATTAT--TT-TTA
1 ATATTATAATTATTA
**
801071 ATAAAATAATTATTA
1 ATATTATAATTATTA
801086 ATATTAT--TT-TTA
1 ATATTATAATTATTA
**
801098 ATAAAATAATTATTA
1 ATATTATAATTATTA
801113 ATATTAT
1 ATATTAT
801120 TGATTTATGA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
12 16 0.34
13 4 0.09
14 4 0.09
15 23 0.49
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATATTATAATTATTA
Found at i:801083 original size:27 final size:27
Alignment explanation
Indices: 801049--801120 Score: 144
Period size: 27 Copynumber: 2.7 Consensus size: 27
801039 AAATTATATT
801049 ATAATTATTAATATTATTTTTAATAAA
1 ATAATTATTAATATTATTTTTAATAAA
801076 ATAATTATTAATATTATTTTTAATAAA
1 ATAATTATTAATATTATTTTTAATAAA
801103 ATAATTATTAATATTATT
1 ATAATTATTAATATTATT
801121 GATTTATGAT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 45 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (27 bp):
ATAATTATTAATATTATTTTTAATAAA
Found at i:801331 original size:26 final size:26
Alignment explanation
Indices: 801302--801366 Score: 112
Period size: 26 Copynumber: 2.5 Consensus size: 26
801292 TATTAAAAAA
* *
801302 TATTAATTTATTATGAATGTCGTGTT
1 TATTAATTTAATAAGAATGTCGTGTT
801328 TATTAATTTAATAAGAATGTCGTGTT
1 TATTAATTTAATAAGAATGTCGTGTT
801354 TATTAATTTAATA
1 TATTAATTTAATA
801367 TCTCACTTCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.34, C:0.03, G:0.12, T:0.51
Consensus pattern (26 bp):
TATTAATTTAATAAGAATGTCGTGTT
Found at i:802407 original size:16 final size:16
Alignment explanation
Indices: 802386--802453 Score: 55
Period size: 16 Copynumber: 4.2 Consensus size: 16
802376 ATCTAAACTG
802386 AAAATAACTCAAATAA
1 AAAATAACTCAAATAA
** **
802402 AAAATAACTTGAATCG
1 AAAATAACTCAAATAA
* * *
802418 AAAGTAACCCAAATTA
1 AAAATAACTCAAATAA
* *
802434 AAAATAACTCGAACAA
1 AAAATAACTCAAATAA
802450 AAAA
1 AAAA
802454 CGGCCTAGAA
Statistics
Matches: 37, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
16 37 1.00
ACGTcount: A:0.62, C:0.15, G:0.06, T:0.18
Consensus pattern (16 bp):
AAAATAACTCAAATAA
Found at i:804017 original size:15 final size:14
Alignment explanation
Indices: 803983--804019 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
803973 GTTAAAAAAT
803983 AAAAAAT-TAATTA
1 AAAAAATATAATTA
*
803996 AAAAAATATTATTA
1 AAAAAATATAATTA
804010 AAAAAA-ATAA
1 AAAAAATATAA
804020 AAAGTTATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 10 0.48
14 11 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAAATATAATTA
Found at i:804031 original size:18 final size:17
Alignment explanation
Indices: 803976--804040 Score: 53
Period size: 18 Copynumber: 3.7 Consensus size: 17
803966 ATGTCATGTT
803976 AAAAAATAAAAAATTAATTA
1 AAAAAAT-AAAAATT-A-TA
**
803996 AAAAAAT-ATTATTA-A
1 AAAAAATAAAAATTATA
804011 AAAAAATAAAAAGTTATA
1 AAAAAATAAAAA-TTATA
*
804029 AAAACATAAAAA
1 AAAAAATAAAAA
804041 ACTGGTTTCT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
15 8 0.22
16 2 0.05
17 4 0.11
18 16 0.43
20 7 0.19
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.23
Consensus pattern (17 bp):
AAAAAATAAAAATTATA
Found at i:811027 original size:50 final size:49
Alignment explanation
Indices: 810960--811062 Score: 125
Period size: 50 Copynumber: 2.1 Consensus size: 49
810950 TTTATAAAAT
* *
810960 ATAATCAAAACCTTTGTAAAAATAATTCCATAAAAATATTGATAAATGA
1 ATAATCAAAACCTTTGTAAAAATAATTCCAGAAAAATATTAATAAATGA
** * * * *
811009 ATAATCAAAATTTGTTGTAAAATTAGTTTCAGAAAAATGTTAATAAATGA
1 ATAATCAAAACCT-TTGTAAAAATAATTCCAGAAAAATATTAATAAATGA
811059 ATAA
1 ATAA
811063 ATATACATCT
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
49 11 0.24
50 34 0.76
ACGTcount: A:0.51, C:0.07, G:0.09, T:0.33
Consensus pattern (49 bp):
ATAATCAAAACCTTTGTAAAAATAATTCCAGAAAAATATTAATAAATGA
Found at i:813559 original size:16 final size:16
Alignment explanation
Indices: 813538--813568 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
813528 GTTCAAATAG
813538 TAGTATTTGGTTTTAT
1 TAGTATTTGGTTTTAT
813554 TAGTATTTGGTTTTA
1 TAGTATTTGGTTTTA
813569 GGTGCATCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.19, C:0.00, G:0.19, T:0.61
Consensus pattern (16 bp):
TAGTATTTGGTTTTAT
Found at i:822162 original size:6 final size:6
Alignment explanation
Indices: 822151--822214 Score: 128
Period size: 6 Copynumber: 10.7 Consensus size: 6
822141 TTTCACCATT
822151 CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG
1 CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG CACAGG
822199 CACAGG CACAGG CACA
1 CACAGG CACAGG CACA
822215 CCTAGCAAAG
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.34, C:0.34, G:0.31, T:0.00
Consensus pattern (6 bp):
CACAGG
Found at i:830576 original size:12 final size:13
Alignment explanation
Indices: 830559--830587 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
830549 ATATATATAA
830559 TATAAGTATAC-T
1 TATAAGTATACAT
830571 TATAAGTATACAT
1 TATAAGTATACAT
830584 TATA
1 TATA
830588 CATTATAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.45, C:0.07, G:0.07, T:0.41
Consensus pattern (13 bp):
TATAAGTATACAT
Found at i:830607 original size:32 final size:28
Alignment explanation
Indices: 830527--830627 Score: 91
Period size: 30 Copynumber: 3.5 Consensus size: 28
830517 AAAACAATTT
* *
830527 TAATAT-ATTATATATATATAGTATATATA
1 TAATATAAGTATAT-TATA-AGTATACATA
830556 TAATATAAGTATACTTATAAGTATACATTA
1 TAATATAAGTATA-TTATAAGTATACA-TA
*
830586 TACATTATAAGTATATGTATAA-TATATATA
1 TA-A-TATAAGTATAT-TATAAGTATACATA
830616 TAA-ATAAGTATA
1 TAATATAAGTATA
830628 CATTATATTT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
27 9 0.14
29 14 0.22
30 17 0.27
31 8 0.13
32 15 0.24
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (28 bp):
TAATATAAGTATATTATAAGTATACATA
Found at i:830617 original size:11 final size:11
Alignment explanation
Indices: 830529--830618 Score: 58
Period size: 11 Copynumber: 7.7 Consensus size: 11
830519 AACAATTTTA
*
830529 ATATATTATAT
1 ATATATAATAT
*
830540 ATATATAGTAT
1 ATATATAATAT
830551 ATATATAATAT
1 ATATATAATAT
*
830562 A-AGTATACT-T
1 ATA-TATAATAT
830572 ATAAGTATACATTAT
1 AT-A-TATA-A-TAT
*
830587 ACATTATAAGTAT
1 ATA-TATAA-TAT
*
830600 ATGTATAATAT
1 ATATATAATAT
830611 ATATATAA
1 ATATATAA
830619 ATAAGTATAC
Statistics
Matches: 62, Mismatches: 11, Indels: 12
0.73 0.13 0.14
Matches are distributed among these distances:
10 3 0.05
11 35 0.56
12 11 0.18
13 5 0.08
14 6 0.10
15 2 0.03
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (11 bp):
ATATATAATAT
Found at i:830727 original size:60 final size:61
Alignment explanation
Indices: 830539--830730 Score: 176
Period size: 60 Copynumber: 3.1 Consensus size: 61
830529 ATATATTATA
* * * *
830539 TATATATAGTATATATATAATATAAGTATAC-TTATAAGTATACATTATACATTATAAGTATATG
1 TATATATA-TATATATAT-A-ATAAGTATACATTATAATTATA-AATATACATTATAAGTAAAAG
* * ** * ** *
830603 TATA-ATATATATATA-AATAAGTATACATTATATTTTTGATGTCTACATTATACTTAATGAG
1 TATATATATATATATATAATAAGTATACATTATAATTAT-AAATATACATTATAAGTAA-AAG
* *
830664 TATATATATATATATATAATAAGTATACATTATACTTATAAATATA-AGTATAAGTAAAAG
1 TATATATATATATATATAATAAGTATACATTATAATTATAAATATACATTATAAGTAAAAG
830724 TATATAT
1 TATATAT
830731 GTATGATGTA
Statistics
Matches: 103, Mismatches: 20, Indels: 14
0.75 0.15 0.10
Matches are distributed among these distances:
59 10 0.10
60 29 0.28
61 14 0.14
62 23 0.22
63 23 0.22
64 4 0.04
ACGTcount: A:0.46, C:0.05, G:0.07, T:0.42
Consensus pattern (61 bp):
TATATATATATATATATAATAAGTATACATTATAATTATAAATATACATTATAAGTAAAAG
Found at i:830771 original size:2 final size:2
Alignment explanation
Indices: 830766--830828 Score: 126
Period size: 2 Copynumber: 31.5 Consensus size: 2
830756 ACACACACAC
830766 AT 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 AT
830808 AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT A
830829 AAATTAAACA
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 61 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:831841 original size:17 final size:17
Alignment explanation
Indices: 831819--831855 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
831809 TTAAAGGTTA
831819 ATATCGGGTTTGATTTC
1 ATATCGGGTTTGATTTC
831836 ATATCGGGTTTGATTTC
1 ATATCGGGTTTGATTTC
831853 ATA
1 ATA
831856 CCAGGTCAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.22, T:0.46
Consensus pattern (17 bp):
ATATCGGGTTTGATTTC
Found at i:835036 original size:2 final size:2
Alignment explanation
Indices: 835031--835055 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
835021 GAGAGAAGCG
835031 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
835056 GGCTAAGGGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:835399 original size:49 final size:50
Alignment explanation
Indices: 835302--835400 Score: 114
Period size: 49 Copynumber: 2.0 Consensus size: 50
835292 TACAAATATT
*
835302 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATTATTTTA
1 AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
* * * *
835352 AAATATTA-AAATAAT-TTATTTATTATTAAATA-TTATTTTTATAATTTTA
1 AAATATAATAAATAATATTATTTATCA-TAAA-ACTTAATATTATAATTTTA
835401 TTAAAAAAAT
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
48 9 0.21
49 25 0.60
50 8 0.19
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (50 bp):
AAATATAATAAATAATATTATTTATCATAAAACTTAATATTATAATTTTA
Found at i:835543 original size:11 final size:11
Alignment explanation
Indices: 835527--835564 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
835517 TTAAATATCT
835527 TTATTAAAATA
1 TTATTAAAATA
835538 TTATTAAAATA
1 TTATTAAAATA
*
835549 -TATAAATAATA
1 TTATTAA-AATA
835560 TTATT
1 TTATT
835565 CATTATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
10 5 0.22
11 15 0.65
12 3 0.13
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TTATTAAAATA
Found at i:835564 original size:33 final size:31
Alignment explanation
Indices: 835535--835717 Score: 137
Period size: 33 Copynumber: 5.8 Consensus size: 31
835525 CTTTATTAAA
835535 ATATTATTAAAATATATAAATAATATTA-T-T
1 ATATTATT-AAATATATAAATAATATTATTAT
* * *
835565 -CATTATTAAATATATAAAAAATTTTATTAT
1 ATATTATTAAATATATAAATAATATTATTAT
835595 ATATTATTAAA-ATATAATATAATATCT-TATATT
1 ATATTATTAAATATATAA-ATAATAT-TAT-TA-T
* * *
835628 ATATTATTATA-ATATAATTGATTATT-TTAT
1 ATATTATTAAATATATAAAT-AATATTATTAT
* * *
835658 ATAATATTAAAAATATAATATTATATTATTAT
1 ATATTATTAAATATATAA-ATAATATTATTAT
* *
835690 AAATATTAATAAATAAATAAATAATATT
1 --ATATTATTAAATATATAAATAATATT
835718 TTGATAAAAA
Statistics
Matches: 121, Mismatches: 19, Indels: 23
0.74 0.12 0.14
Matches are distributed among these distances:
28 17 0.14
29 7 0.06
30 17 0.14
31 27 0.22
32 11 0.09
33 28 0.23
34 14 0.12
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (31 bp):
ATATTATTAAATATATAAATAATATTATTAT
Found at i:835579 original size:19 final size:20
Alignment explanation
Indices: 835527--835605 Score: 58
Period size: 19 Copynumber: 4.0 Consensus size: 20
835517 TTAAATATCT
835527 TTATTAAA-ATATTATTAAA
1 TTATTAAATATATTATTAAA
* *
835546 ATATATAAATAATATTATT-CA
1 TTAT-TAAAT-ATATTATTAAA
**
835567 TTATTAAATATA-TAAAAAA
1 TTATTAAATATATTATTAAA
*
835586 TT-TTATTATATATTATTAAA
1 TTATTA-AATATATTATTAAA
835606 ATATAATATA
Statistics
Matches: 45, Mismatches: 9, Indels: 11
0.69 0.14 0.17
Matches are distributed among these distances:
18 5 0.11
19 14 0.31
20 14 0.31
21 4 0.09
22 8 0.18
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (20 bp):
TTATTAAATATATTATTAAA
Found at i:835580 original size:28 final size:28
Alignment explanation
Indices: 835535--835629 Score: 97
Period size: 28 Copynumber: 3.2 Consensus size: 28
835525 CTTTATTAAA
835535 ATATTATTAAAATATATAAATAATATTAT
1 ATATTATT-AAATATATAAATAATATTAT
*
835564 -TCATTATTAAATATATAAAAAATTTTATTAT
1 AT-ATTATTAAATATATAAATAA---TATTAT
835595 ATATTATTAAA-ATATAATATAATATCT-T
1 ATATTATTAAATATATAA-ATAATAT-TAT
835623 ATATTAT
1 ATATTAT
835630 ATTATTATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
28 25 0.44
29 7 0.12
30 6 0.11
31 18 0.32
32 1 0.02
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (28 bp):
ATATTATTAAATATATAAATAATATTAT
Found at i:835652 original size:28 final size:28
Alignment explanation
Indices: 835590--835690 Score: 86
Period size: 28 Copynumber: 3.6 Consensus size: 28
835580 AAAAAATTTT
* *
835590 ATTA-TATATTAT-TAAAATATAATATA
1 ATTATTATATTATATATATTATAATATA
*
835616 ATATCTTATATTATAT-TATTATAATATA
1 AT-TATTATATTATATATATTATAATATA
* *
835644 ATTGATTATTTTATATAATATTAAAAATATA
1 ATT-ATTATATTATAT-ATATT-ATAATATA
835675 A-TATTATATTAT-TATA
1 ATTATTATATTATATATA
835691 AATATTAATA
Statistics
Matches: 61, Mismatches: 7, Indels: 13
0.75 0.09 0.16
Matches are distributed among these distances:
26 2 0.03
27 5 0.08
28 31 0.51
29 10 0.16
30 5 0.08
31 8 0.13
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.50
Consensus pattern (28 bp):
ATTATTATATTATATATATTATAATATA
Found at i:835682 original size:22 final size:23
Alignment explanation
Indices: 835657--835700 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
835647 GATTATTTTA
835657 TATAATATTAAAAATA-TAATAT
1 TATAATATTAAAAATATTAATAT
* *
835679 TATATTATTATAAATATTAATA
1 TATAATATTAAAAATATTAATA
835701 AATAAATAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
TATAATATTAAAAATATTAATAT
Found at i:838133 original size:2 final size:2
Alignment explanation
Indices: 838126--838186 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
838116 GTATTTCAGT
838126 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
838168 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
838187 TATTTTAGAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:839166 original size:31 final size:32
Alignment explanation
Indices: 839111--839178 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 32
839101 CTTTTAAAAA
* *
839111 TTATAAAATAATCATTTAATTTTATTAAAATG
1 TTATAAAATAATCATTTAAATTTATCAAAATG
* * *
839143 TTATGAAATAATTA-TTAAATTTATCAAAATT
1 TTATAAAATAATCATTTAAATTTATCAAAATG
839174 TTATA
1 TTATA
839179 TTTATTATAA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
31 18 0.60
32 12 0.40
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (32 bp):
TTATAAAATAATCATTTAAATTTATCAAAATG
Found at i:844397 original size:12 final size:12
Alignment explanation
Indices: 844376--844432 Score: 60
Period size: 12 Copynumber: 4.8 Consensus size: 12
844366 TGTGGGTAAG
*
844376 AAAAATATTTTT
1 AAAAATATTTAT
*
844388 AAATATATTTAT
1 AAAAATATTTAT
* * *
844400 AAAAAAATATGT
1 AAAAATATTTAT
*
844412 AAATATATTTAT
1 AAAAATATTTAT
844424 AAAAATATT
1 AAAAATATT
844433 ATTTAACAAA
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (12 bp):
AAAAATATTTAT
Found at i:847815 original size:35 final size:34
Alignment explanation
Indices: 847774--847846 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 34
847764 CTTGATATTT
* *
847774 TTTA-TTTATTAACGA-GTTATATTTAGAATTTATGA
1 TTTATTTTA-TAACGATGTAAT-TTTAAAATTT-TGA
847809 TTTATTTTATAACGATGTAATTTTAAAATTTTGA
1 TTTATTTTATAACGATGTAATTTTAAAATTTTGA
847843 TTTA
1 TTTA
847847 GATACTATTA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
34 7 0.21
35 19 0.56
36 8 0.24
ACGTcount: A:0.34, C:0.03, G:0.10, T:0.53
Consensus pattern (34 bp):
TTTATTTTATAACGATGTAATTTTAAAATTTTGA
Found at i:851093 original size:23 final size:23
Alignment explanation
Indices: 851063--851107 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
851053 TTCGTTAATA
*
851063 TATTTGCCATCATGTTCATTTAG
1 TATTTGCCAACATGTTCATTTAG
*
851086 TATTTGCCAACATGTTCCTTTA
1 TATTTGCCAACATGTTCATTTA
851108 TTGATCATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (23 bp):
TATTTGCCAACATGTTCATTTAG
Found at i:864478 original size:17 final size:16
Alignment explanation
Indices: 864450--864498 Score: 62
Period size: 17 Copynumber: 3.0 Consensus size: 16
864440 TATATATATA
*
864450 TTTATTTAAATGTTAT
1 TTTATATAAATGTTAT
864466 TTTATAGTAAATGTTAT
1 TTTATA-TAAATGTTAT
* *
864483 TTTTTAAAAATGTTAT
1 TTTATATAAATGTTAT
864499 ATATATATAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 14 0.48
17 15 0.52
ACGTcount: A:0.35, C:0.00, G:0.08, T:0.57
Consensus pattern (16 bp):
TTTATATAAATGTTAT
Found at i:865602 original size:2 final size:2
Alignment explanation
Indices: 865595--865637 Score: 68
Period size: 2 Copynumber: 21.5 Consensus size: 2
865585 AATTGGATTG
* *
865595 AT AT AT AT AT AT AT AT AT AT AT AT AT AT CT CT 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
865637 A
1 A
865638 CTGTGATTGT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.47, C:0.05, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:867647 original size:35 final size:36
Alignment explanation
Indices: 867583--867653 Score: 135
Period size: 35 Copynumber: 2.0 Consensus size: 36
867573 ATTGTGTAGG
867583 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
867619 GGGAACAGATTCCCCCT-GGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
867654 CTAAATGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
35 18 0.51
36 17 0.49
ACGTcount: A:0.17, C:0.31, G:0.32, T:0.20
Consensus pattern (36 bp):
GGGAACAGATTCCCCCTGGGGGGGTATCGATTCCCC
Found at i:869960 original size:23 final size:23
Alignment explanation
Indices: 869930--869973 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
869920 TTCTGGGCTA
*
869930 GGGGAATCGGTACCCATTCAAGT
1 GGGGAATCGATACCCATTCAAGT
*
869953 GGGGAATCGATACCCCTTCAA
1 GGGGAATCGATACCCATTCAA
869974 ACGAACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.25, G:0.27, T:0.20
Consensus pattern (23 bp):
GGGGAATCGATACCCATTCAAGT
Found at i:870047 original size:21 final size:22
Alignment explanation
Indices: 870001--870049 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
869991 GAATGTCATG
*
870001 AGGGAACCGATACCCCCATAGT
1 AGGGAACCGATACCCCCATAGA
* *
870023 AGGGAACCGATTCCCCCCTA-A
1 AGGGAACCGATACCCCCATAGA
870044 AGGGAA
1 AGGGAA
870050 ATTATAATGC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 6 0.25
22 18 0.75
ACGTcount: A:0.33, C:0.31, G:0.24, T:0.12
Consensus pattern (22 bp):
AGGGAACCGATACCCCCATAGA
Found at i:873833 original size:38 final size:37
Alignment explanation
Indices: 873764--873838 Score: 125
Period size: 38 Copynumber: 2.0 Consensus size: 37
873754 ATTGTGTAGG
873764 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
873801 GGGAACAGATT-CCCCCTGGGGGGGGGTATCGATTCCCC
1 GGGAACAGATTCCCCCCT--GGGGGGGTATCGATTCCCC
873839 CTAAATGAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
36 6 0.17
37 11 0.31
38 19 0.53
ACGTcount: A:0.16, C:0.31, G:0.35, T:0.19
Consensus pattern (37 bp):
GGGAACAGATTCCCCCCTGGGGGGGTATCGATTCCCC
Found at i:876013 original size:31 final size:32
Alignment explanation
Indices: 875970--876029 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
875960 TTACCCTAAA
*
875970 TTTTAATAAATTTAATGA-CTATTTTATAACTG
1 TTTTAATAAATTTAATAATC-ATTTTATAACTG
876002 TTTTAA-AAATTTAATAATCATTTTATAA
1 TTTTAATAAATTTAATAATCATTTTATAA
876030 TATTTAAAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 19 0.73
32 7 0.27
ACGTcount: A:0.42, C:0.05, G:0.03, T:0.50
Consensus pattern (32 bp):
TTTTAATAAATTTAATAATCATTTTATAACTG
Found at i:879808 original size:18 final size:18
Alignment explanation
Indices: 879785--879820 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
879775 CCAAAACAAT
879785 ATAATATTATTTTATTAA
1 ATAATATTATTTTATTAA
*
879803 ATAATATTATTTTGTTAA
1 ATAATATTATTTTATTAA
879821 TGATATTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATAATATTATTTTATTAA
Found at i:880019 original size:18 final size:18
Alignment explanation
Indices: 879974--880020 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
879964 TCACGGAATG
* *
879974 TAAGATTACCGGCGGGAA
1 TAAGATTACTGGCGAGAA
*
879992 TAGGATTACTGGCGAGAA
1 TAAGATTACTGGCGAGAA
880010 TAAGATTACTG
1 TAAGATTACTG
880021 AGAATGTTGC
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (18 bp):
TAAGATTACTGGCGAGAA
Found at i:897156 original size:15 final size:15
Alignment explanation
Indices: 897136--897167 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
897126 CCGTCGTCTA
897136 CGAGGATGACTACGC
1 CGAGGATGACTACGC
897151 CGAGGATGACTACGC
1 CGAGGATGACTACGC
897166 CG
1 CG
897168 TTTAACAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.34, T:0.12
Consensus pattern (15 bp):
CGAGGATGACTACGC
Found at i:906587 original size:19 final size:19
Alignment explanation
Indices: 906553--906614 Score: 74
Period size: 19 Copynumber: 3.3 Consensus size: 19
906543 ATAAATATTT
*
906553 AAAAATAATTATTTATTTGA
1 AAAAATAA-TAATTATTTGA
906573 AAAAATAATAATTA-TTGA
1 AAAAATAATAATTATTTGA
*
906591 TAAAAATAAAAATTATTT-A
1 -AAAAATAATAATTATTTGA
906610 AAAAA
1 AAAAA
906615 GTTACTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 9 0.24
19 19 0.50
20 10 0.26
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (19 bp):
AAAAATAATAATTATTTGA
Found at i:907879 original size:21 final size:23
Alignment explanation
Indices: 907855--907901 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
907845 ATATTAAGTA
907855 AATCTTT-TGATTAAT-ATAATT
1 AATCTTTATGATTAATAATAATT
*
907876 AATCTTTAATTATTAATAATAATT
1 AATCTTT-ATGATTAATAATAATT
907900 AA
1 AA
907902 CGTATATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
23 7 0.32
24 8 0.36
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (23 bp):
AATCTTTATGATTAATAATAATT
Found at i:918802 original size:18 final size:18
Alignment explanation
Indices: 918775--918822 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
918765 AAAATCACAC
*
918775 ATAT-TTATATGTTATAT
1 ATATATTATATATTATAT
*
918792 ATATATTATATATTGTAT
1 ATATATTATATATTATAT
*
918810 AAATATTAT-TATT
1 ATATATTATATATT
918823 TTAGTAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATATATTATATATTATAT
Found at i:919088 original size:106 final size:106
Alignment explanation
Indices: 918952--919165 Score: 419
Period size: 106 Copynumber: 2.0 Consensus size: 106
918942 CCTCTTATCC
918952 TTCACGTCTCCATGCTTCTCGGCAACAAACCAACAACGTGCATGTGGAAAACAACAAAGCATTAG
1 TTCACGTCTCCATGCTTCTCGGCAACAAACCAACAACGTGCATGTGGAAAACAACAAAGCATTAG
919017 AGTTCCATTAGGACTCAAACATGTAGTCTAAAATTAGGTTT
66 AGTTCCATTAGGACTCAAACATGTAGTCTAAAATTAGGTTT
*
919058 TTCACGTCTCCATGCTTCTCGGCAACAAACCAACAACGTGCATGTGGAAAACCACAAAGCATTAG
1 TTCACGTCTCCATGCTTCTCGGCAACAAACCAACAACGTGCATGTGGAAAACAACAAAGCATTAG
919123 AGTTCCATTAGGACTCAAACATGTAGTCTAAAATTAGGTTT
66 AGTTCCATTAGGACTCAAACATGTAGTCTAAAATTAGGTTT
919164 TT
1 TT
919166 ATTTTAGTAT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
106 107 1.00
ACGTcount: A:0.34, C:0.23, G:0.17, T:0.26
Consensus pattern (106 bp):
TTCACGTCTCCATGCTTCTCGGCAACAAACCAACAACGTGCATGTGGAAAACAACAAAGCATTAG
AGTTCCATTAGGACTCAAACATGTAGTCTAAAATTAGGTTT
Found at i:919375 original size:18 final size:18
Alignment explanation
Indices: 919348--919393 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
919338 AAAATCACAC
*
919348 ATAT-TTATATGTTATAT
1 ATATATTATATATTATAT
*
919365 ATATATTATATATTGTAT
1 ATATATTATATATTATAT
*
919383 AAATATTATAT
1 ATATATTATAT
919394 TTAGTAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 4 0.16
18 21 0.84
ACGTcount: A:0.41, C:0.00, G:0.04, T:0.54
Consensus pattern (18 bp):
ATATATTATATATTATAT
Found at i:919833 original size:213 final size:212
Alignment explanation
Indices: 919432--919858 Score: 779
Period size: 213 Copynumber: 2.0 Consensus size: 212
919422 TGTTTCTATG
919432 TCAGACCCAACACGCGCAACCCTAGCAGTTTCCCCCATCCAGCGCCGCATGCTTCGCTCAGGACT
1 TCAGACCCAACACGCGCAACCCTAGCAGTTTCCCCCATCCAGCGCCGCATGCTTCGCTCAGGACT
*
919497 CTCCACACCGAAGGCCTCTATCCTTCACGTCTCCATGCTTCTGCAACAAACCAACAACGGCATGT
66 CCCCACACCGAAGGCCTCTATCCTTCACGTCTCCATGCTTCTGCAACAAACCAACAACGGCATGT
919562 GGAAAACAACAAGCATTAGAGTTCCATTGGACTCAACATGTAGTTCTAAATTAGGTTTTTATTTT
131 GGAAAACAACAAGCATTAGAGTTCCATTGGACTCAACATGTAGTTCTAAA-TAGGTTTTTATTTT
919627 AGTATAAATAGGCTTGTA
195 AGTATAAATAGGCTTGTA
919645 TCAGACCCAACACGCGCAACCCTAGCAGTTTCCCCCATCCAGCGCCGCATGCTTCGCTCAAGGAC
1 TCAGACCCAACACGCGCAACCCTAGCAGTTTCCCCCATCCAGCGCCGCATGCTTCGCTC-AGGAC
919710 TCCCCACACCGAAGGCCTCTTATCCTTCACGTCTCCATGC-TCTCGCAAC-AACCAACAACGGCA
65 TCCCCACACCGAAGGCCTC-TATCCTTCACGTCTCCATGCTTCT-GCAACAAACCAACAACGGCA
919773 TGTGGAAAACAACAAGCATTAGAGTTCCATTAGGACTCAACATGTAGTTCTAAA-AGGTTTTTAT
128 TGTGGAAAACAACAAGCATTAGAGTTCCATT-GGACTCAACATGTAGTTCTAAATAGGTTTTTAT
919837 TTTAGTATAAATAGGCTTGTA
192 TTTAGTATAAATAGGCTTGTA
919858 T
1 T
919859 TAACACAAAG
Statistics
Matches: 209, Mismatches: 1, Indels: 8
0.96 0.00 0.04
Matches are distributed among these distances:
213 91 0.44
214 71 0.34
215 47 0.22
ACGTcount: A:0.28, C:0.30, G:0.17, T:0.25
Consensus pattern (212 bp):
TCAGACCCAACACGCGCAACCCTAGCAGTTTCCCCCATCCAGCGCCGCATGCTTCGCTCAGGACT
CCCCACACCGAAGGCCTCTATCCTTCACGTCTCCATGCTTCTGCAACAAACCAACAACGGCATGT
GGAAAACAACAAGCATTAGAGTTCCATTGGACTCAACATGTAGTTCTAAATAGGTTTTTATTTTA
GTATAAATAGGCTTGTA
Found at i:931255 original size:50 final size:50
Alignment explanation
Indices: 931176--931272 Score: 133
Period size: 50 Copynumber: 1.9 Consensus size: 50
931166 AATACTTCGC
* * *
931176 TTAGGATGAAAACCCGAGAGGGCGTCCT-AAGTTGAAAAAAAAAAAAACGT
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAAATT-AAAAAAAAAAAAACGT
* *
931226 TTAGGGTGAAAACCCGAAAGGGCGCCCTAAAATTAAAAAAAGAAAAA
1 TTAGGATGAAAACCCGAAAGGGCGCCCTAAAATTAAAAAAAAAAAAA
931273 GAAAAAAGAA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 37 0.90
51 4 0.10
ACGTcount: A:0.48, C:0.14, G:0.23, T:0.14
Consensus pattern (50 bp):
TTAGGATGAAAACCCGAAAGGGCGCCCTAAAATTAAAAAAAAAAAAACGT
Found at i:932196 original size:105 final size:105
Alignment explanation
Indices: 932014--932579 Score: 952
Period size: 105 Copynumber: 5.4 Consensus size: 105
932004 AGGTTTTACC
* * * *
932014 CAGAGCTAATTTCAGCTTCACAACGAAGGATATTGGACTCCGGACAACGCAAGTTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
932079 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
932119 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
932184 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
932224 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
932289 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
932329 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
*
932394 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAAATT
66 ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
* * *
932434 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACACAAGCTCAACTTCACA
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
* * ** * * *
932499 ACGAAGGGGCGGCTGACTGTCAACAAACAATTTCCCAGTTC
66 ACGAAGGGACCGCTGGTTGTCAACAAAC-ATTTCTCAATTT
* ** *
932540 CAGAACCAATTTCAACTTCACGGCGGAGGATATTGGACTC
1 CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
932580 GGAACAATGC
Statistics
Matches: 440, Mismatches: 20, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
105 396 0.90
106 44 0.10
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (105 bp):
CAGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACG
ACGAAGGGACCGCTGGTTGTCAACAAACATTTCTCAATTT
Found at i:933112 original size:18 final size:18
Alignment explanation
Indices: 933085--933132 Score: 55
Period size: 18 Copynumber: 2.8 Consensus size: 18
933075 AAAATCACAC
*
933085 ATAT-TTATATGTTATAT
1 ATATATTATATATTATAT
*
933102 ATATATTATATATTGTAT
1 ATATATTATATATTATAT
*
933120 AAATATTAT-TATT
1 ATATATTATATATT
933133 TTAGTAAACT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
17 8 0.30
18 19 0.70
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
ATATATTATATATTATAT
Found at i:939285 original size:21 final size:21
Alignment explanation
Indices: 939246--939285 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
939236 TTAGCGGCAC
*
939246 TTAAAAACACGCTATAAAACT
1 TTAAAAACACGCTAAAAAACT
939267 TTAAAAACACTGC-AAAAAA
1 TTAAAAACAC-GCTAAAAAA
939286 TCTATTTTGG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.57, C:0.17, G:0.05, T:0.20
Consensus pattern (21 bp):
TTAAAAACACGCTAAAAAACT
Found at i:947176 original size:12 final size:13
Alignment explanation
Indices: 947153--947177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
947143 TTGAAAGGGT
947153 AAAACTTAAAAAA
1 AAAACTTAAAAAA
947166 AAAACTTAAAAA
1 AAAACTTAAAAA
947178 TGAATGATAT
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:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAACTTAAAAAA
Found at i:947604 original size:15 final size:15
Alignment explanation
Indices: 947584--947612 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
947574 GTTGTGATAG
947584 TCTAGGTAATTAAAA
1 TCTAGGTAATTAAAA
947599 TCTAGGTAATTAAA
1 TCTAGGTAATTAAA
947613 TTATATAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (15 bp):
TCTAGGTAATTAAAA
Found at i:948143 original size:23 final size:23
Alignment explanation
Indices: 948097--948147 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
948087 TTTAAAGATA
* *
948097 TTTACGAATATTAAATAAATATG
1 TTTACGAAAATTAAATAAACATG
**
948120 TTTACGAAAATTAAATTGACATG
1 TTTACGAAAATTAAATAAACATG
948143 TTTAC
1 TTTAC
948148 TGAACGAATG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.10, T:0.39
Consensus pattern (23 bp):
TTTACGAAAATTAAATAAACATG
Found at i:948225 original size:23 final size:22
Alignment explanation
Indices: 948185--948237 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
948175 ATACTCTTGA
*
948185 AAATAT-TTACAAATATTAAAT
1 AAATATGTTACAAAAATTAAAT
948206 AAATATGTTCACAAAAATTAAAT
1 AAATATGTT-ACAAAAATTAAAT
*
948229 AGATATGTT
1 AAATATGTT
948238 TACTATTTGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 6 0.21
22 2 0.07
23 20 0.71
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.36
Consensus pattern (22 bp):
AAATATGTTACAAAAATTAAAT
Found at i:948274 original size:89 final size:91
Alignment explanation
Indices: 948094--948278 Score: 250
Period size: 93 Copynumber: 2.0 Consensus size: 91
948084 ATATTTAAAG
* * * *
948094 ATATTTACGAATATTAAATAAATATGTTTACGAAAATTAAATTGACATGTTTACTGAACGAATGA
1 ATATTTACAAATATTAAATAAATATGTTCACAAAAATTAAATAGACATGTTTACT-AAC-AATGA
*
948159 ATGTAAACCTATATAAATACTCTTGAAA
64 ATATAAACCTATATAAATACTCTTGAAA
* **
948187 ATATTTACAAATATTAAATAAATATGTTCACAAAAATTAAATAGATATGTTTACT-A-TTTGAAT
1 ATATTTACAAATATTAAATAAATATGTTCACAAAAATTAAATAGACATGTTTACTAACAATGAAT
948250 ATAAA-CTCATATAAATACTCTTGAAA
66 ATAAACCT-ATATAAATACTCTTGAAA
948276 ATA
1 ATA
948279 AACAAACAAA
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
88 2 0.02
89 30 0.36
91 1 0.01
93 50 0.60
ACGTcount: A:0.47, C:0.09, G:0.08, T:0.36
Consensus pattern (91 bp):
ATATTTACAAATATTAAATAAATATGTTCACAAAAATTAAATAGACATGTTTACTAACAATGAAT
ATAAACCTATATAAATACTCTTGAAA
Found at i:964851 original size:23 final size:23
Alignment explanation
Indices: 964807--964855 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
964797 ATAAAGAACC
*
964807 AAAATAAACTTAAATATACCATT
1 AAAATAAACTTAAACATACCATT
*
964830 AAAATAAAGTTAAAACAT-CCATT
1 AAAATAAACTT-AAACATACCATT
964853 AAA
1 AAA
964856 CCAACACCAC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.59, C:0.12, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTTAAACATACCATT
Found at i:966273 original size:7 final size:7
Alignment explanation
Indices: 966255--966339 Score: 145
Period size: 7 Copynumber: 12.3 Consensus size: 7
966245 ATGTGTTGTG
966255 TAGTAT-
1 TAGTATA
*
966261 TATTATA
1 TAGTATA
*
966268 TATTATA
1 TAGTATA
966275 TAGTATA
1 TAGTATA
966282 TAGTATA
1 TAGTATA
966289 TAGTATA
1 TAGTATA
966296 TAGTATA
1 TAGTATA
966303 TAGTATA
1 TAGTATA
966310 TAGTATA
1 TAGTATA
966317 TAGTATA
1 TAGTATA
966324 TAGTATA
1 TAGTATA
966331 TAGTATA
1 TAGTATA
966338 TA
1 TA
966340 CCGTATAGTA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
6 5 0.07
7 71 0.93
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.46
Consensus pattern (7 bp):
TAGTATA
Found at i:967179 original size:23 final size:23
Alignment explanation
Indices: 967153--967221 Score: 93
Period size: 23 Copynumber: 3.0 Consensus size: 23
967143 CACCACAGCT
*
967153 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
967176 CGTAGAATTGCACCGTAGTGCCT
1 CGTAGAAATGCACCGAAGTGCCA
*
967199 CATAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
967222 TATAAGGTTG
Statistics
Matches: 38, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.32, C:0.26, G:0.23, T:0.19
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:968347 original size:64 final size:63
Alignment explanation
Indices: 968279--968459 Score: 218
Period size: 64 Copynumber: 2.8 Consensus size: 63
968269 TTGGAACACT
* ***
968279 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCAATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCAATGTTTG-AAAATAGCC
* * * **
968343 TGATGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCAATG-TTTGAAAATAGCC
* * * *
968407 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCAATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCAATGTT
968460 CAATTAATTC
Statistics
Matches: 99, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
64 54 0.55
65 45 0.45
ACGTcount: A:0.29, C:0.17, G:0.25, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCAATGTTTGAAAATAGCC
Found at i:968431 original size:19 final size:19
Alignment explanation
Indices: 968407--968445 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
968397 GAAAATATTC
968407 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
968426 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
968445 A
1 A
968446 ATGCATTCAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.38, T:0.21
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:968433 original size:65 final size:65
Alignment explanation
Indices: 968300--968459 Score: 216
Period size: 65 Copynumber: 2.5 Consensus size: 65
968290 TGCACCAAGT
* **
968300 GTGCATCGATGCATGAAATGCATTCAATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCAATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* * **
968364 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCAATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
968428 A
65 A
* *
968429 GTGCATCGGTGCATGGAATGCATTCAATGTT
1 GTGCATCGATGCATGAAATGCATTCAATGTT
968460 CAATTAATTC
Statistics
Matches: 83, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 47 0.57
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCAATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:974933 original size:22 final size:21
Alignment explanation
Indices: 974891--974930 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
974881 GAGTTTGTTT
*
974891 TCATTTTTCAATTTTGAAACA
1 TCATTTTTCAATTTTAAAACA
974912 TCATTTTT-ATATTTTAAAA
1 TCATTTTTCA-ATTTTAAAA
974931 ACAATTTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 16 0.94
ACGTcount: A:0.35, C:0.10, G:0.03, T:0.53
Consensus pattern (21 bp):
TCATTTTTCAATTTTAAAACA
Found at i:976924 original size:64 final size:63
Alignment explanation
Indices: 976856--977036 Score: 227
Period size: 64 Copynumber: 2.8 Consensus size: 63
976846 TTGGAACACT
* ***
976856 TGATGCATCGGTGCACCAAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAAATAGCC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTG-AAAATAGCC
* * **
976920 TGATGCATCGATGCATGGATTGTGCATCGATGCATCAAATGCATTCGATGTTTTGAAAATATTC
1 TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAATAGCC
* * * *
976984 AGAGTGCATCGATGCATGGAGAGTGCATCGGTGCATGGAATGCATTCGATGTT
1 TGA-TGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTT
977037 CAATTAATTC
Statistics
Matches: 101, Mismatches: 14, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
64 55 0.54
65 46 0.46
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.29
Consensus pattern (63 bp):
TGATGCATCGATGCATGGAGTGTGCATCGATGCATGAAATGCATTCGATGTTTGAAAATAGCC
Found at i:977008 original size:19 final size:19
Alignment explanation
Indices: 976984--977034 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
976974 GAAAATATTC
976984 AGAGTGCATCGATGCATGG
1 AGAGTGCATCGATGCATGG
*
977003 AGAGTGCATCGGTGCATGG
1 AGAGTGCATCGATGCATGG
977022 A-A-TGCATTCGATG
1 AGAGTGCA-TCGATG
977035 TTCAATTAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
17 4 0.14
18 6 0.21
19 19 0.66
ACGTcount: A:0.25, C:0.16, G:0.35, T:0.24
Consensus pattern (19 bp):
AGAGTGCATCGATGCATGG
Found at i:977010 original size:65 final size:65
Alignment explanation
Indices: 976877--977036 Score: 225
Period size: 65 Copynumber: 2.5 Consensus size: 65
976867 TGCACCAAGT
* **
976877 GTGCATCGATGCATGAAATGCATTCGATG-TTTGAAAAATAGCCTGATGCATCGATGCATGGATT
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
* **
976941 GTGCATCGATGCATCAAATGCATTCGATGTTTTG-AAAATATTCAGAGTGCATCGATGCATGGAG
1 GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGA-TGCATCGATGCATGGAG
977005 A
65 A
* *
977006 GTGCATCGGTGCATGGAATGCATTCGATGTT
1 GTGCATCGATGCATGAAATGCATTCGATGTT
977037 CAATTAATTC
Statistics
Matches: 85, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
64 37 0.44
65 48 0.56
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (65 bp):
GTGCATCGATGCATGAAATGCATTCGATGTTTTGAAAAATAGCCAGATGCATCGATGCATGGAGA
Found at i:977477 original size:2 final size:2
Alignment explanation
Indices: 977470--977497 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
977460 ACTCATAGTC
977470 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
977498 CATTTTACCT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:978554 original size:24 final size:20
Alignment explanation
Indices: 978497--978574 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
978487 TTTCCCTTGA
*
978497 AGTGCATCGATGCATTCTAC
1 AGTGCATCGATGCATCCTAC
*
978517 AGTGTATCGATGCATCCCTTAAC
1 AGTGCATCGATGCAT-CC-T-AC
*
978540 ATGTGCATCGATGCACTCCT-T
1 A-GTGCATCGATGCA-TCCTAC
978561 A-TGCATCGATGCAT
1 AGTGCATCGATGCAT
978575 TAATTGCATT
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
18 1 0.02
19 12 0.24
20 14 0.29
21 2 0.04
22 1 0.02
23 4 0.08
24 14 0.29
25 1 0.02
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATCCTAC
Found at i:982054 original size:23 final size:23
Alignment explanation
Indices: 982020--982088 Score: 102
Period size: 23 Copynumber: 3.0 Consensus size: 23
982010 CACCACAACT
*
982020 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
982043 CGTAGAATTGCACCGTAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
982066 CGTAGAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
982089 TATAAGGTTG
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.30, C:0.26, G:0.26, T:0.17
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:984485 original size:2 final size:2
Alignment explanation
Indices: 984466--984644 Score: 75
Period size: 2 Copynumber: 94.5 Consensus size: 2
984456 ATGTTACAAT
* *
984466 TA TA TA T- TA TA CA GTA TA TA TA T- TA TA TA -A TA TA TG TA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
984506 GTA T- TT TA T- TA TA T- TCA TA TA TA CA TA TA -A TA TA TT TA -A
1 -TA TA TA TA TA TA TA TA T-A TA TA TA TA TA TA TA TA TA TA TA TA
* * * * * * *
984545 TA TT TA TA TT TA TA TG TG TA GTA TA CA CA CA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
*
984588 TA TA TA -A TA TA -A TA TA -A TA TA -A TA TT TA TA GTA T- TCA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA T-A TA
984627 TA -A TA TA TA T- TA TA -A TA T
1 TA TA TA TA TA TA TA TA TA TA T
984645 TATTAATGTT
Statistics
Matches: 136, Mismatches: 19, Indels: 44
0.68 0.10 0.22
Matches are distributed among these distances:
1 16 0.12
2 111 0.82
3 9 0.07
ACGTcount: A:0.44, C:0.04, G:0.04, T:0.48
Consensus pattern (2 bp):
TA
Found at i:984558 original size:40 final size:41
Alignment explanation
Indices: 984481--984559 Score: 101
Period size: 40 Copynumber: 2.0 Consensus size: 41
984471 ATTATACAGT
* *
984481 ATATATATTATATAATATATGTATAGTATTTTATTATATTC
1 ATATATATCATATAATATATGTATAATATTTTATTATATTC
984522 ATATATA-CATATAATATAT-T-TAATATTTATATTTATAT
1 ATATATATCATATAATATATGTATAATATTT-TA-TTATAT
984560 GTGTAGTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
38 7 0.21
39 3 0.09
40 17 0.50
41 7 0.21
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (41 bp):
ATATATATCATATAATATATGTATAATATTTTATTATATTC
Found at i:984599 original size:5 final size:5
Alignment explanation
Indices: 984577--984644 Score: 57
Period size: 5 Copynumber: 12.8 Consensus size: 5
984567 ATACACACAT
* * *
984577 ATATA TATATA TATATA ATATA ATATA ATATA ATAT- TTATA GTATTC
1 ATATA -ATATA -ATATA ATATA ATATA ATATA ATATA ATATA ATA-TA
984624 ATATA ATATA TATTATA ATAT
1 ATATA ATATA -A-TATA ATAT
984645 TATTAATGTT
Statistics
Matches: 53, Mismatches: 5, Indels: 9
0.79 0.07 0.13
Matches are distributed among these distances:
4 3 0.06
5 30 0.57
6 16 0.30
7 4 0.08
ACGTcount: A:0.50, C:0.01, G:0.01, T:0.47
Consensus pattern (5 bp):
ATATA
Found at i:986986 original size:2 final size:2
Alignment explanation
Indices: 986979--987029 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
986969 AAAGAGACAT
986979 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
987021 AG AG AG AG A
1 AG AG AG AG A
987030 CCAAGCAACT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:987966 original size:4 final size:4
Alignment explanation
Indices: 987957--987981 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
987947 CGGAACGAAG
987957 ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA A
987982 CAAAAATCTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:990806 original size:142 final size:142
Alignment explanation
Indices: 990550--990829 Score: 533
Period size: 142 Copynumber: 2.0 Consensus size: 142
990540 GTGGCCGATC
* *
990550 AAATTAATCGAACTAATTTAATTTGATCGATTAAATCAGTTAAAACCAAAAAATGAACATCCCTA
1 AAATTAACCGAACTAATTTAATTTGATCGATTAAATCAGTTAAAACCAAAAAATGAACACCCCTA
990615 ATTCTTACCTTCAACTTGACCGGCTAGTGTTGTAATACAAGACCCACTTTTCTTTTCAAAATTAA
66 ATTCTTACCTTCAACTTGACCGGCTAGTGTTGTAATACAAGACCCACTTTTCTTTTCAAAATTAA
990680 ATTATTACCATA
131 ATTATTACCATA
*
990692 AAATTAACCGAACTAATTTGATTTGATCGATTAAATCAGTTAAAACCAAAAAATGAACACCCCTA
1 AAATTAACCGAACTAATTTAATTTGATCGATTAAATCAGTTAAAACCAAAAAATGAACACCCCTA
990757 ATTCTTACCTTCAACTTGACCGGCTAGTGTTGTAATACAAGACCCACTTTTCTTTTCAAAATTAA
66 ATTCTTACCTTCAACTTGACCGGCTAGTGTTGTAATACAAGACCCACTTTTCTTTTCAAAATTAA
990822 ATTATTAC
131 ATTATTAC
990830 TATTATCAAA
Statistics
Matches: 135, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
142 135 1.00
ACGTcount: A:0.38, C:0.20, G:0.09, T:0.33
Consensus pattern (142 bp):
AAATTAACCGAACTAATTTAATTTGATCGATTAAATCAGTTAAAACCAAAAAATGAACACCCCTA
ATTCTTACCTTCAACTTGACCGGCTAGTGTTGTAATACAAGACCCACTTTTCTTTTCAAAATTAA
ATTATTACCATA
Found at i:990877 original size:142 final size:141
Alignment explanation
Indices: 990581--990870 Score: 429
Period size: 142 Copynumber: 2.0 Consensus size: 141
990571 TTTGATCGAT
*
990581 TAAATCAGTTAAAACCAAAAAATGAACATCCCTAATTCTTACCTTCAACTTGACCGGCTAGTGTT
1 TAAATCAGTTAAAACCAAAAAATGAACACCCCTAATTCTTACCTTCAACTTGACCGGCTAGTGTT
* *
990646 GTAATACAAGACCCACTTTTCTTTTCAAAATTAAATTATTACCATAAAATTAACCGAACTAATTT
66 GTAATACAAGACCCACTTTTCTTTTCAAAATTAAATTATTACCATAAAATTAACCAAAC-AATGT
* ** * * *
990711 GATTTGATCGAT
130 AAAATAATAGAA
990723 TAAATCAGTTAAAACCAAAAAATGAACACCCCTAATTCTTACCTTCAACTTGACCGGCTAGTGTT
1 TAAATCAGTTAAAACCAAAAAATGAACACCCCTAATTCTTACCTTCAACTTGACCGGCTAGTGTT
*
990788 GTAATACAAGACCCACTTTTCTTTTCAAAATTAAATTATTACTATTATCAAATTAATCCAAAC-A
66 GTAATACAAGACCCACTTTTCTTTTCAAAATTAAATTATTACCA-TA--AAATTAA-CCAAACAA
990852 TGTAAAATAATAAGAA
127 TGTAAAATAAT-AGAA
990868 TAA
1 TAA
990871 CTTTAAATTA
Statistics
Matches: 133, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
142 107 0.80
143 2 0.02
144 7 0.05
145 12 0.09
146 5 0.04
ACGTcount: A:0.40, C:0.19, G:0.08, T:0.32
Consensus pattern (141 bp):
TAAATCAGTTAAAACCAAAAAATGAACACCCCTAATTCTTACCTTCAACTTGACCGGCTAGTGTT
GTAATACAAGACCCACTTTTCTTTTCAAAATTAAATTATTACCATAAAATTAACCAAACAATGTA
AAATAATAGAA
Found at i:991857 original size:32 final size:32
Alignment explanation
Indices: 991799--991861 Score: 92
Period size: 32 Copynumber: 2.0 Consensus size: 32
991789 ACGCAAATCA
**
991799 TCATGTCAATAAATTAAGGTCATGTTACATCG
1 TCATGTCAATAAATTAAAATCATGTTACATCG
991831 TCATGTCAATAAATTAAAAT-ACTGTTACATC
1 TCATGTCAATAAATTAAAATCA-TGTTACATC
991862 AACGTGAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
31 1 0.04
32 27 0.96
ACGTcount: A:0.38, C:0.16, G:0.11, T:0.35
Consensus pattern (32 bp):
TCATGTCAATAAATTAAAATCATGTTACATCG
Found at i:995668 original size:309 final size:309
Alignment explanation
Indices: 995109--995730 Score: 1183
Period size: 309 Copynumber: 2.0 Consensus size: 309
995099 ATCCTATAAA
*
995109 ATTACACAATGTAACATTCTTTAATTTTACACGGATTTAGAATCGTCAGATAAGTGAAAATAGAT
1 ATTACACAATGTAACATTATTTAATTTTACACGGATTTAGAATCGTCAGATAAGTGAAAATAGAT
*
995174 GGTTGCGATTGATTCCTTATTCATTTTTAGTGAATATCTTCTCATTTCCTATTGTTAATCTCATC
66 GGTTGAGATTGATTCCTTATTCATTTTTAGTGAATATCTTCTCATTTCCTATTGTTAATCTCATC
995239 CATATATTTTCACTCATCCAATGATCATAAATTTTTGTAAAACTAAAAAGATCAAATTTCAGGTC
131 CATATATTTTCACTCATCCAATGATCATAAATTTTTGTAAAACTAAAAAGATCAAATTTCAGGTC
995304 AAATGAGACCCTCCTAAACTCATATCTAGTCAGATGCAAGTGTAAAAGTTTAATTTTTAGGTCAA
196 AAATGAGACCCTCCTAAACTCATATCTAGTCAGATGCAAGTGTAAAAGTTTAATTTTTAGGTCAA
995369 ATTCAAGTGAATCAAACACCTGACCCAACTCATGTTATCCCTAATATCG
261 ATTCAAGTGAATCAAACACCTGACCCAACTCATGTTATCCCTAATATCG
995418 ATTACACAATGTAACATTATTTAATTTTACACGGATTTAGAATCGTCAGATAAGTGAAAATAGAT
1 ATTACACAATGTAACATTATTTAATTTTACACGGATTTAGAATCGTCAGATAAGTGAAAATAGAT
995483 GGTTGAGATTGATTCCTTATTCATTTTTAGTGAATATCTTCTCATTTCCTATTGTTAATCTCATC
66 GGTTGAGATTGATTCCTTATTCATTTTTAGTGAATATCTTCTCATTTCCTATTGTTAATCTCATC
* *
995548 CATATATTTTCACTCATCCAATGGTCATAAATTTTTGTAAAGCTAAAAAGATCAAATTTCAGGTC
131 CATATATTTTCACTCATCCAATGATCATAAATTTTTGTAAAACTAAAAAGATCAAATTTCAGGTC
995613 AAATGAGACCCTCCTAAACTCATATC-AGGTCAGATGCAAGTGTAAAAGTTTAATTTTTAGGTCA
196 AAATGAGACCCTCCTAAACTCATATCTA-GTCAGATGCAAGTGTAAAAGTTTAATTTTTAGGTCA
*
995677 AATTCAAGTGAGTCAAACACCTGACCCAACTCATGTTATCCCTAATATCG
260 AATTCAAGTGAATCAAACACCTGACCCAACTCATGTTATCCCTAATATCG
995727 ATTA
1 ATTA
995731 TCTTTCAATT
Statistics
Matches: 307, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
308 1 0.00
309 306 1.00
ACGTcount: A:0.34, C:0.18, G:0.13, T:0.36
Consensus pattern (309 bp):
ATTACACAATGTAACATTATTTAATTTTACACGGATTTAGAATCGTCAGATAAGTGAAAATAGAT
GGTTGAGATTGATTCCTTATTCATTTTTAGTGAATATCTTCTCATTTCCTATTGTTAATCTCATC
CATATATTTTCACTCATCCAATGATCATAAATTTTTGTAAAACTAAAAAGATCAAATTTCAGGTC
AAATGAGACCCTCCTAAACTCATATCTAGTCAGATGCAAGTGTAAAAGTTTAATTTTTAGGTCAA
ATTCAAGTGAATCAAACACCTGACCCAACTCATGTTATCCCTAATATCG
Found at i:1000727 original size:538 final size:538
Alignment explanation
Indices: 999710--1000778 Score: 2084
Period size: 538 Copynumber: 2.0 Consensus size: 538
999700 AAAATTAGTA
999710 TCAAAACGTTCAAATTTCACTCCAATTTTTTCTCATAATATTGATTTTCTATGAAATCCTTTCAA
1 TCAAAACGTTCAAATTTCACTCCAATTTTTTCTCATAATATTGATTTTCTATGAAATCCTTTCAA
999775 AAATGACAAAAATTTATTTAAAAATTCAACGTATTAATACTTCGATCTCTTTCAAAGATTGTTTG
66 AAATGACAAAAATTTATTTAAAAATTCAACGTATTAATACTTCGATCTCTTTCAAAGATTGTTTG
999840 ATGAGGCTAGTTTTGCGGTATGTTATTCGTATTCTCGAAATAATGCTTTTTATCGTTCAGATTTT
131 ATGAGGCTAGTTTTGCGGTATGTTATTCGTATTCTCGAAATAATGCTTTTTATCGTTCAGATTTT
999905 AGAATGTACACCCCAAATCCTATAAATCTAAGAAAGTCTCTAAAGATTTAAAAATGGTAGATTTT
196 AGAATGTACACCCCAAATCCTATAAATCTAAGAAAGTCTCTAAAGATTTAAAAATGGTAGATTTT
*
999970 TTATTTAATTTTGTTGATTTTGAGTTGATTTTGTGGATAACTATTCATATGAGAAGAATGAGGAG
261 TTATTTAATTTTGTTGATTTTGAGTTGATTTTGTGGATAACTATTCATAGGAGAAGAATGAGGAG
1000035 TGAAATACGAGCATTTTGGTATTGATTTACCGCATATTATGAACAGTGACGGGCATGATTAACTA
326 TGAAATACGAGCATTTTGGTATTGATTTACCGCATATTATGAACAGTGACGGGCATGATTAACTA
1000100 CTGATAGTGGCTGAAAAGTGCAGTGCCAAAAAAATAATTTGTATAAAAGTTTAATAACAAAATTA
391 CTGATAGTGGCTGAAAAGTGCAGTGCCAAAAAAATAATTTGTATAAAAGTTTAATAACAAAATTA
*
1000165 ATACCCCTAAAGTTTAGTGTCTAAAATGATGTTATTTTAGGCATTATAATAGCTGCAAAAAACGT
456 ATACCCCTAAAGTTTAGTGTCTAAAATGATGTTATTTTAGGCATTAGAATAGCTGCAAAAAACGT
1000230 CTTTTTGTTGTTAAACTT
521 CTTTTTGTTGTTAAACTT
*
1000248 TCAAAACGTTCAAATTTTACTCCAATTTTTTCTCATAATATTGATTTTCTATGAAATCCTTTCAA
1 TCAAAACGTTCAAATTTCACTCCAATTTTTTCTCATAATATTGATTTTCTATGAAATCCTTTCAA
1000313 AAATGACAAAAATTTATTTAAAAATTCAACGTATTAATACTTCGATCTCTTTCAAAGATTGTTTG
66 AAATGACAAAAATTTATTTAAAAATTCAACGTATTAATACTTCGATCTCTTTCAAAGATTGTTTG
*
1000378 ATGAGGCTAGTTTTGCGGTATGTTATTCTTATTCTCGAAATAATGCTTTTTATCGTTCAGATTTT
131 ATGAGGCTAGTTTTGCGGTATGTTATTCGTATTCTCGAAATAATGCTTTTTATCGTTCAGATTTT
1000443 AGAATGTACACCCCAAATCCTATAAATCTAAGAAAGTCTCTAAAGATTTAAAAATGGTAGATTTT
196 AGAATGTACACCCCAAATCCTATAAATCTAAGAAAGTCTCTAAAGATTTAAAAATGGTAGATTTT
*
1000508 TTATTTAATTTTGTTGATTTTGAGTTGATTTTGTGGATAACTATTCATAGGAGAAGAATGATGAG
261 TTATTTAATTTTGTTGATTTTGAGTTGATTTTGTGGATAACTATTCATAGGAGAAGAATGAGGAG
1000573 TGAAATACGAGCATTTTGGTATTGATTTACCGCATATTATGAACAGTGACGGGCATGATTAACTA
326 TGAAATACGAGCATTTTGGTATTGATTTACCGCATATTATGAACAGTGACGGGCATGATTAACTA
*
1000638 CTGATAGTGGCTGTAAAGTGCAGTGCCAAAAAAATAATTTGTATAAAAGTTTAATAACAAAATTA
391 CTGATAGTGGCTGAAAAGTGCAGTGCCAAAAAAATAATTTGTATAAAAGTTTAATAACAAAATTA
1000703 ATACCCCTAAAGTTTAGTGTCTAAAATGATGTTATTTTAGGCATTAGAATAGCTGCAAAAAACGT
456 ATACCCCTAAAGTTTAGTGTCTAAAATGATGTTATTTTAGGCATTAGAATAGCTGCAAAAAACGT
1000768 CTTTTTGTTGT
521 CTTTTTGTTGT
1000779 GGCATGTAAC
Statistics
Matches: 525, Mismatches: 6, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
538 525 1.00
ACGTcount: A:0.34, C:0.12, G:0.15, T:0.38
Consensus pattern (538 bp):
TCAAAACGTTCAAATTTCACTCCAATTTTTTCTCATAATATTGATTTTCTATGAAATCCTTTCAA
AAATGACAAAAATTTATTTAAAAATTCAACGTATTAATACTTCGATCTCTTTCAAAGATTGTTTG
ATGAGGCTAGTTTTGCGGTATGTTATTCGTATTCTCGAAATAATGCTTTTTATCGTTCAGATTTT
AGAATGTACACCCCAAATCCTATAAATCTAAGAAAGTCTCTAAAGATTTAAAAATGGTAGATTTT
TTATTTAATTTTGTTGATTTTGAGTTGATTTTGTGGATAACTATTCATAGGAGAAGAATGAGGAG
TGAAATACGAGCATTTTGGTATTGATTTACCGCATATTATGAACAGTGACGGGCATGATTAACTA
CTGATAGTGGCTGAAAAGTGCAGTGCCAAAAAAATAATTTGTATAAAAGTTTAATAACAAAATTA
ATACCCCTAAAGTTTAGTGTCTAAAATGATGTTATTTTAGGCATTAGAATAGCTGCAAAAAACGT
CTTTTTGTTGTTAAACTT
Found at i:1001543 original size:52 final size:52
Alignment explanation
Indices: 1001477--1001625 Score: 183
Period size: 52 Copynumber: 2.8 Consensus size: 52
1001467 ATTGTCACCA
* *
1001477 TTACTTGGTAGTTGTGCATATTTTCATATTTATTATTATTATTGTTTCTTAT
1 TTACTTGGTAGTTGTGCATATTTTCATATTTATTATTATTATTCTTCCTTAT
* * * * *
1001529 TTACTTGGTAGTTGTTCATATTTTCATCCTTT-CTATTATCATCCTTCCTTAT
1 TTACTTGGTAGTTGTGCATATTTTCAT-ATTTATTATTATTATTCTTCCTTAT
* *
1001581 TTACTCGGTTGTTGTGCATATATATTCATATTTATTATTATTATT
1 TTACTTGGTAGTTGTGCATAT-T-TTCATATTTATTATTATTATT
1001626 ATTATGATTT
Statistics
Matches: 79, Mismatches: 14, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
52 59 0.75
53 7 0.09
54 13 0.16
ACGTcount: A:0.21, C:0.13, G:0.10, T:0.56
Consensus pattern (52 bp):
TTACTTGGTAGTTGTGCATATTTTCATATTTATTATTATTATTCTTCCTTAT
Found at i:1005186 original size:19 final size:19
Alignment explanation
Indices: 1005162--1005210 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
1005152 ATGTTTTATG
1005162 TTAATTTTTTTAAAATTAA
1 TTAATTTTTTTAAAATTAA
*
1005181 TTAATTTTTTTAAATTTAA
1 TTAATTTTTTTAAAATTAA
1005200 TTAATTTTTTT
1 TTAATTTTTTT
1005211 TTTAAAATGG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TTAATTTTTTTAAAATTAA
Found at i:1006801 original size:30 final size:30
Alignment explanation
Indices: 1006758--1006822 Score: 103
Period size: 30 Copynumber: 2.2 Consensus size: 30
1006748 AGTGCTCAAT
* *
1006758 AGGTTGTCGTGTGCTCCTGGAGACCTATGG
1 AGGTCGTCATGTGCTCCTGGAGACCTATGG
1006788 AGGTCGTCATGTGCTCCTGGAGACCTATGG
1 AGGTCGTCATGTGCTCCTGGAGACCTATGG
*
1006818 TGGTC
1 AGGTC
1006823 ACTGTAGCAA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.14, C:0.22, G:0.35, T:0.29
Consensus pattern (30 bp):
AGGTCGTCATGTGCTCCTGGAGACCTATGG
Found at i:1012853 original size:32 final size:32
Alignment explanation
Indices: 1012812--1012897 Score: 154
Period size: 32 Copynumber: 2.7 Consensus size: 32
1012802 TCTATAACAT
1012812 GGTTGAGGGACTAAAATTGAACTGTAGTTAAC
1 GGTTGAGGGACTAAAATTGAACTGTAGTTAAC
1012844 GGTTGAGGGACTAAAATTGAACTGTAGTTAAC
1 GGTTGAGGGACTAAAATTGAACTGTAGTTAAC
* *
1012876 GGTTGAGAGACTAAAATCGAAC
1 GGTTGAGGGACTAAAATTGAAC
1012898 GGATCAATAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 52 1.00
ACGTcount: A:0.36, C:0.10, G:0.28, T:0.26
Consensus pattern (32 bp):
GGTTGAGGGACTAAAATTGAACTGTAGTTAAC
Found at i:1012923 original size:31 final size:31
Alignment explanation
Indices: 1012885--1012945 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
1012875 CGGTTGAGAG
1012885 ACTAAAATCGAACGGATCA-ATAACATTAGGT
1 ACTAAAATCGAACGGAT-AGATAACATTAGGT
*
1012916 ACTAAAATCGAATGGATAGATAACATTAGG
1 ACTAAAATCGAACGGATAGATAACATTAGG
1012946 GACCATTTCC
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.46, C:0.13, G:0.18, T:0.23
Consensus pattern (31 bp):
ACTAAAATCGAACGGATAGATAACATTAGGT
Found at i:1020683 original size:78 final size:78
Alignment explanation
Indices: 1020554--1020711 Score: 280
Period size: 78 Copynumber: 2.0 Consensus size: 78
1020544 TCGCGGCTTG
* * *
1020554 GGCTTTGGCCTACTACTCAACTATATATCTTAGCTTAGTGATCTTGCAGGCTGGGATCCTGCTGG
1 GGCTTCGGCCTACTACTCAACTATATATCTTAGCATAGTGATCTTGCAGGCTGGGATCCAGCTGG
*
1020619 AGTTGGCCAGTTC
66 AGTTAGCCAGTTC
1020632 GGCTTCGGCCTACTACTCAACTATATATCTTAGCATAGTGATCTTGCAGGCTGGGATCCAGCTGG
1 GGCTTCGGCCTACTACTCAACTATATATCTTAGCATAGTGATCTTGCAGGCTGGGATCCAGCTGG
1020697 AGTTAGCCAGTTC
66 AGTTAGCCAGTTC
1020710 GG
1 GG
1020712 ATTGACAATG
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
78 76 1.00
ACGTcount: A:0.20, C:0.23, G:0.26, T:0.31
Consensus pattern (78 bp):
GGCTTCGGCCTACTACTCAACTATATATCTTAGCATAGTGATCTTGCAGGCTGGGATCCAGCTGG
AGTTAGCCAGTTC
Found at i:1021348 original size:2 final size:2
Alignment explanation
Indices: 1021341--1021366 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1021331 AAACCTAATC
1021341 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
1021367 TAAAAAATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1022417 original size:19 final size:19
Alignment explanation
Indices: 1022365--1022421 Score: 53
Period size: 19 Copynumber: 3.0 Consensus size: 19
1022355 ACTCGAACTC
*
1022365 ACTTTAATTAAAATGATTAA
1 ACTTTAA-TAAAATTATTAA
** **
1022385 TTTTTAATTTAATTATTAA
1 ACTTTAATAAAATTATTAA
1022404 ACTTTAATAAAATT-TTAA
1 ACTTTAATAAAATTATTAA
1022422 TTTAACCCTT
Statistics
Matches: 28, Mismatches: 9, Indels: 2
0.72 0.23 0.05
Matches are distributed among these distances:
18 4 0.14
19 19 0.68
20 5 0.18
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (19 bp):
ACTTTAATAAAATTATTAA
Found at i:1022421 original size:30 final size:31
Alignment explanation
Indices: 1022386--1022447 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
1022376 AATGATTAAT
**
1022386 TTTTAATTTAATTATTAAACTTT-AATAAAA
1 TTTTAATTTAACCATTAAACTTTAAATAAAA
*
1022416 TTTTAATTTAACCCTTAAACTTTAAATAAAA
1 TTTTAATTTAACCATTAAACTTTAAATAAAA
1022447 T
1 T
1022448 ATAAATCAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 20 0.71
31 8 0.29
ACGTcount: A:0.45, C:0.08, G:0.00, T:0.47
Consensus pattern (31 bp):
TTTTAATTTAACCATTAAACTTTAAATAAAA
Found at i:1033373 original size:24 final size:24
Alignment explanation
Indices: 1033346--1033391 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
1033336 AACTCTTCAA
*
1033346 GTCATTAATCAAACAA-TCATCATT
1 GTCAGTAATC-AACAAGTCATCATT
*
1033370 GTCAGTGATCAACAAGTCATCA
1 GTCAGTAATCAACAAGTCATCA
1033392 ACATAAATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.39, C:0.22, G:0.11, T:0.28
Consensus pattern (24 bp):
GTCAGTAATCAACAAGTCATCATT
Found at i:1048646 original size:18 final size:18
Alignment explanation
Indices: 1048623--1048660 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
1048613 TACTTGATCC
1048623 GTGTGCTTGATATTCATA
1 GTGTGCTTGATATTCATA
1048641 GTGTGCTTGATATTCATA
1 GTGTGCTTGATATTCATA
1048659 GT
1 GT
1048661 TATGACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.11, G:0.24, T:0.45
Consensus pattern (18 bp):
GTGTGCTTGATATTCATA
Found at i:1049239 original size:2 final size:2
Alignment explanation
Indices: 1049232--1049256 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1049222 TTCAATTAAC
1049232 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
1049257 AACTCACCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1052284 original size:22 final size:22
Alignment explanation
Indices: 1052253--1052294 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1052243 ATTAAAGATT
*
1052253 AATATATAAATGTAATTTTAGA
1 AATATATAAATATAATTTTAGA
* *
1052275 AATATTTAAATATGATTTTA
1 AATATATAAATATAATTTTA
1052295 TCCTTGTAAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
AATATATAAATATAATTTTAGA
Done.