Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_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: 6938204
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 4 of 25
Found at i:943539 original size:16 final size:16
Alignment explanation
Indices: 943508--943554 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 16
943498 TGATAATGAA
943508 ATAAGAAAAGATGAAA-G
1 ATAA-AAAA-ATGAAATG
*
943525 AATAAAGAAATGAAATG
1 -ATAAAAAAATGAAATG
943542 ATAAAAAAATGAA
1 ATAAAAAAATGAA
943555 GATAACTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
16 18 0.69
17 4 0.15
18 4 0.15
ACGTcount: A:0.68, C:0.00, G:0.17, T:0.15
Consensus pattern (16 bp):
ATAAAAAAATGAAATG
Found at i:954109 original size:15 final size:17
Alignment explanation
Indices: 954084--954117 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
954074 TAAAGGTCCT
954084 AAATAACTAATAAA-TA
1 AAATAACTAATAAACTA
954100 AAATAA-TAATAAACTA
1 AAATAACTAATAAACTA
954116 AA
1 AA
954118 CATATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAACTAATAAACTA
Found at i:954205 original size:25 final size:22
Alignment explanation
Indices: 954176--954221 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
954166 ATTTTAACCC
954176 AACCTTAATTCCTAATAAAATAATA
1 AACC-TAA-TCCTAA-AAAATAATA
*
954201 AACCTAATCCTAAAAGATAAT
1 AACCTAATCCTAAAAAATAAT
954222 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.17, G:0.02, T:0.28
Consensus pattern (22 bp):
AACCTAATCCTAAAAAATAATA
Found at i:958008 original size:14 final size:12
Alignment explanation
Indices: 957998--958033 Score: 54
Period size: 14 Copynumber: 2.8 Consensus size: 12
957988 CTTTTTTGGC
957998 CCTTTTTTTTTG
1 CCTTTTTTTTTG
958010 CCTTTGTTTTTTTG
1 CC-TT-TTTTTTTG
958024 CCTTTTTTTT
1 CCTTTTTTTT
958034 GTTTTTTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 8 0.36
13 4 0.18
14 10 0.45
ACGTcount: A:0.00, C:0.17, G:0.08, T:0.75
Consensus pattern (12 bp):
CCTTTTTTTTTG
Found at i:961058 original size:15 final size:17
Alignment explanation
Indices: 961033--961066 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
961023 TAAAGGTCCT
961033 AAATAACTAATAAA-TA
1 AAATAACTAATAAACTA
961049 AAATAA-TAATAAACTA
1 AAATAACTAATAAACTA
961065 AA
1 AA
961067 CATATATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAACTAATAAACTA
Found at i:964984 original size:13 final size:13
Alignment explanation
Indices: 964968--964992 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
964958 TTTTTTGCCT
964968 TTTTTTTGTTTTG
1 TTTTTTTGTTTTG
964981 TTTTTTTGTTTT
1 TTTTTTTGTTTT
964993 TTTGGAAAAA
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:0.00, C:0.00, G:0.12, T:0.88
Consensus pattern (13 bp):
TTTTTTTGTTTTG
Found at i:964995 original size:11 final size:11
Alignment explanation
Indices: 964945--964975 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
964935 GAAATTTTGG
964945 TTTTTTTTGCC
1 TTTTTTTTGCC
964956 TTTTTTTTGCC
1 TTTTTTTTGCC
964967 TTTTTTTTG
1 TTTTTTTTG
964976 TTTTGTTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.13, G:0.10, T:0.77
Consensus pattern (11 bp):
TTTTTTTTGCC
Found at i:973021 original size:18 final size:17
Alignment explanation
Indices: 972990--973024 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
972980 AGTGCTTCAA
*
972990 CTTTCTTTTTTTCTTTT
1 CTTTCTTTTCTTCTTTT
973007 CTTTGCTTTTCTTCTTTT
1 CTTT-CTTTTCTTCTTTT
973025 TGAGTGCTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.00, C:0.20, G:0.03, T:0.77
Consensus pattern (17 bp):
CTTTCTTTTCTTCTTTT
Found at i:980351 original size:11 final size:10
Alignment explanation
Indices: 980335--980400 Score: 66
Period size: 10 Copynumber: 6.8 Consensus size: 10
980325 AAATTTTAGC
*
980335 TTTTTTGGCT
1 TTTTTTTGCT
980345 TTTTTTTG--
1 TTTTTTTGCT
*
980353 TTTTTTTGCC
1 TTTTTTTGCT
*
980363 TTTTTTTGCC
1 TTTTTTTGCT
*
980373 TTTTTTTGTTT
1 TTTTTTTG-CT
980384 TTTTTTTG-T
1 TTTTTTTGCT
980393 TTTTTTTG
1 TTTTTTTG
980401 AAAAAAATAG
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
8 8 0.16
9 9 0.18
10 25 0.50
11 8 0.16
ACGTcount: A:0.00, C:0.08, G:0.12, T:0.80
Consensus pattern (10 bp):
TTTTTTTGCT
Found at i:980359 original size:28 final size:28
Alignment explanation
Indices: 980334--980387 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
980324 GAAATTTTAG
*
980334 CTTTTTTGGCTTTTTTTTGTTTTTTTGC
1 CTTTTTTGGCCTTTTTTTGTTTTTTTGC
*
980362 CTTTTTTTGCCTTTTTTTGTTTTTTT
1 CTTTTTTGGCCTTTTTTTGTTTTTTT
980388 TTTGTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.00, C:0.11, G:0.11, T:0.78
Consensus pattern (28 bp):
CTTTTTTGGCCTTTTTTTGTTTTTTTGC
Found at i:981803 original size:26 final size:26
Alignment explanation
Indices: 981763--981833 Score: 133
Period size: 26 Copynumber: 2.7 Consensus size: 26
981753 CTAAATGATC
*
981763 CATATGCAAGTCACATGGGGGCTGGT
1 CATATGCAAGGCACATGGGGGCTGGT
981789 CATATGCAAGGCACATGGGGGCTGGT
1 CATATGCAAGGCACATGGGGGCTGGT
981815 CATATGCAAGGCACATGGG
1 CATATGCAAGGCACATGGG
981834 TGTTCTAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.20
Consensus pattern (26 bp):
CATATGCAAGGCACATGGGGGCTGGT
Found at i:982594 original size:24 final size:22
Alignment explanation
Indices: 982557--982608 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 22
982547 ATTTAGAAGT
982557 TGGTGATAATATAGGTG-TGATA
1 TGGTGATAATATA-GTGATGATA
982579 TGGTGATGGAATATAGTGATGATA
1 TGGTGAT--AATATAGTGATGATA
982603 TAGGTG
1 T-GGTG
982609 TGATAATGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 7 0.27
23 3 0.12
24 12 0.46
25 4 0.15
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.35
Consensus pattern (22 bp):
TGGTGATAATATAGTGATGATA
Found at i:982612 original size:11 final size:12
Alignment explanation
Indices: 982558--982622 Score: 59
Period size: 11 Copynumber: 5.6 Consensus size: 12
982548 TTTAGAAGTT
*
982558 GGTGATAATATA
1 GGTGATGATATA
982570 GGTG-TGATAT-
1 GGTGATGATATA
982580 GGTGATGGAATATA
1 GGTGAT-G-ATATA
982594 -GTGATGATATA
1 GGTGATGATATA
982605 GGTG-TGATA-A
1 GGTGATGATATA
982615 TGGTGATG
1 -GGTGATG
982623 GACAGATTGT
Statistics
Matches: 45, Mismatches: 1, Indels: 14
0.75 0.02 0.23
Matches are distributed among these distances:
10 5 0.11
11 20 0.44
12 11 0.24
13 9 0.20
ACGTcount: A:0.31, C:0.00, G:0.35, T:0.34
Consensus pattern (12 bp):
GGTGATGATATA
Found at i:983718 original size:8 final size:8
Alignment explanation
Indices: 983698--983732 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
983688 AAGCTAAGTA
983698 ATATAAA-
1 ATATAAAT
983705 ATATAAAT
1 ATATAAAT
983713 ATATAAAT
1 ATATAAAT
983721 ATATAAAT
1 ATATAAAT
983729 ATAT
1 ATAT
983733 GGTTCATAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
7 7 0.26
8 20 0.74
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (8 bp):
ATATAAAT
Found at i:987008 original size:22 final size:23
Alignment explanation
Indices: 986980--987026 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
986970 ATTTAGAAGT
*
986980 TGGTGAT-AATATAGGGGTGATA
1 TGGTGATGAATATAGGGATGATA
*
987002 TGGTGATGGAATATAGTGATGATA
1 TGGTGAT-GAATATAGGGATGATA
987026 T
1 T
987027 AGGCGTGATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
24 14 0.67
ACGTcount: A:0.32, C:0.00, G:0.34, T:0.34
Consensus pattern (23 bp):
TGGTGATGAATATAGGGATGATA
Found at i:995220 original size:11 final size:10
Alignment explanation
Indices: 995206--995239 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
995196 GGAAAAGACA
995206 AAAAGAAGAAG
1 AAAAGAA-AAG
995217 AAAAGAAAAAG
1 AAAAG-AAAAG
995228 AAAAGAAAAG
1 AAAAGAAAAG
995238 AA
1 AA
995240 TTCAAAAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 7 0.32
11 13 0.59
12 2 0.09
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAG
Found at i:995224 original size:5 final size:5
Alignment explanation
Indices: 995206--995239 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
995196 GGAAAAGACA
995206 AAAAG AAGAAG AAAAG AAAAAG AAAAG AAAAG AA
1 AAAAG AA-AAG AAAAG -AAAAG AAAAG AAAAG AA
995240 TTCAAAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 17 0.63
6 10 0.37
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:1010516 original size:45 final size:44
Alignment explanation
Indices: 1010449--1010549 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 44
1010439 TGGGAATCCA
* * * * *
1010449 AAAGACGTATCCATTGAGCAACAAAAGGACAGAATTTTTTATTC
1 AAAGACGTGTCCATCGAACAACAAAAGGACACAATTTTTCATTC
*
1010493 AAATGACGTGTCCATCGAACAACAAAAGGACACCATTTTTCATTC
1 AAA-GACGTGTCCATCGAACAACAAAAGGACACAATTTTTCATTC
1010538 AAAGAACGTGTC
1 AAAG-ACGTGTC
1010550 TTTGGAAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 3
0.84 0.10 0.05
Matches are distributed among these distances:
44 4 0.08
45 45 0.92
ACGTcount: A:0.40, C:0.20, G:0.16, T:0.25
Consensus pattern (44 bp):
AAAGACGTGTCCATCGAACAACAAAAGGACACAATTTTTCATTC
Found at i:1013821 original size:365 final size:365
Alignment explanation
Indices: 1013049--1014143 Score: 2048
Period size: 365 Copynumber: 3.0 Consensus size: 365
1013039 ACAAAATGTA
* *
1013049 TATAAGTTACAATGCTCAAGGTAATGAATAAGTAATAAGAAACATTATAATGTAACACATGATGC
1 TATAAGTTACAATGCTCAAGGTAATGAATAAGTAATAAGCAACATTCTAATGTAACACATGATGC
*
1013114 CATGTCTAATATAATAATGCAATTTATATGATAACATAAGTAAGGAATGTGTAACATATGCATGA
66 CATGGCTAATATAATAATGCAATTTATATGATAACATAAGTAAGGAATGTGTAACATATGCATGA
*
1013179 AACAAGCTAATTAAAGATGTGACATGCATGAATATCATATAGGATGCAAAGATAGGACAATATAT
131 AACAAGCTAATTAAAGATGTGACATGCATGAATATCATATAGGATGAAAAGATAGGACAATATAT
* *
1013244 GAATATTCAAGCATAGTATAGAATGTAAAAA-ATTCTTATAACACATATAAAGCATAAATGAGTA
196 GAATATTCAAGCATAGTTTAGAATGTAAAAACATGCTTATAACACATATAAAGCATAAATGAGTA
* *
1013308 AATAAATAATAAAATATGGAAGAACTCCCTTAGAATCATCTTAGAAGAACTTCAAAGTTGTGAGC
261 AATAAATAATAAAATATAGAAGAACTCCCTTAGAATCATCTTGGAAGAACTTCAAAGTTGTGAGC
1013373 ATGTTTTGTTTGAACTTGGTGGTCGGTAGGATCACATCAT
326 ATGTTTTGTTTGAACTTGGTGGTCGGTAGGATCACATCAT
* *
1013413 TATAAGTTACAATGCTCATGGTAATGAATAATTAATAAGCAACATTCTAATGTAACACATGATGC
1 TATAAGTTACAATGCTCAAGGTAATGAATAAGTAATAAGCAACATTCTAATGTAACACATGATGC
1013478 CATGGCTAATATAATAATGCAATTTATATGATAACATAAGTAAGGAATGTGTAACATATGCATGA
66 CATGGCTAATATAATAATGCAATTTATATGATAACATAAGTAAGGAATGTGTAACATATGCATGA
*
1013543 AACAAGCTAATTAAAGATGTGACATGCATGAATATCATATAGGATGAAAAGATAGGACAATATAA
131 AACAAGCTAATTAAAGATGTGACATGCATGAATATCATATAGGATGAAAAGATAGGACAATATAT
1013608 GAATATTCAAGCATAGTTTAGAATGTAAAAACATGCTTATAACACATATAAAGCATAAATGAGTA
196 GAATATTCAAGCATAGTTTAGAATGTAAAAACATGCTTATAACACATATAAAGCATAAATGAGTA
1013673 AATAAATAATAAAATATAGAAGAACTCCCTTAGAATCATCTTGGAAGAACTTCAAAGTTGTGAGC
261 AATAAATAATAAAATATAGAAGAACTCCCTTAGAATCATCTTGGAAGAACTTCAAAGTTGTGAGC
1013738 ATGTTTTGTTTGAACTTGGTGGTCGGTAGGATCACATCAT
326 ATGTTTTGTTTGAACTTGGTGGTCGGTAGGATCACATCAT
1013778 TATAAGTTACAATGCTCAAGGTAATGAATAAGTAATAAGCAACATTCTAATGTAACACATGATGC
1 TATAAGTTACAATGCTCAAGGTAATGAATAAGTAATAAGCAACATTCTAATGTAACACATGATGC
*
1013843 CATGGCTAATATAATAATGCAATTTATATGATAAAATAAGTAAGGAATGTGTAACATATGCATGA
66 CATGGCTAATATAATAATGCAATTTATATGATAACATAAGTAAGGAATGTGTAACATATGCATGA
*
1013908 AACAAGCTAATTAAAGATGTGTCATGCATGAATATCATATAGGATGAAAAGATAGGACAATATAT
131 AACAAGCTAATTAAAGATGTGACATGCATGAATATCATATAGGATGAAAAGATAGGACAATATAT
1013973 GAATATTCAAGCATAGTTTAGAATGTAAAAACATGCTTATAACACATATAAAGCATAAATGAGTA
196 GAATATTCAAGCATAGTTTAGAATGTAAAAACATGCTTATAACACATATAAAGCATAAATGAGTA
1014038 AATAAATAATAAAATATAGAAGAACTCCCTTAGAATCATCTTGGAAGAACTTCAAAGTTGTGAGC
261 AATAAATAATAAAATATAGAAGAACTCCCTTAGAATCATCTTGGAAGAACTTCAAAGTTGTGAGC
**
1014103 ATGTTTTGTTTGAACTTGGTGGTTTGTAGGATCACATCAT
326 ATGTTTTGTTTGAACTTGGTGGTCGGTAGGATCACATCAT
1014143 T
1 T
1014144 CCCCCCTTCT
Statistics
Matches: 712, Mismatches: 18, Indels: 1
0.97 0.02 0.00
Matches are distributed among these distances:
364 218 0.31
365 494 0.69
ACGTcount: A:0.43, C:0.11, G:0.17, T:0.29
Consensus pattern (365 bp):
TATAAGTTACAATGCTCAAGGTAATGAATAAGTAATAAGCAACATTCTAATGTAACACATGATGC
CATGGCTAATATAATAATGCAATTTATATGATAACATAAGTAAGGAATGTGTAACATATGCATGA
AACAAGCTAATTAAAGATGTGACATGCATGAATATCATATAGGATGAAAAGATAGGACAATATAT
GAATATTCAAGCATAGTTTAGAATGTAAAAACATGCTTATAACACATATAAAGCATAAATGAGTA
AATAAATAATAAAATATAGAAGAACTCCCTTAGAATCATCTTGGAAGAACTTCAAAGTTGTGAGC
ATGTTTTGTTTGAACTTGGTGGTCGGTAGGATCACATCAT
Found at i:1018815 original size:18 final size:19
Alignment explanation
Indices: 1018787--1018855 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 19
1018777 ATTAGAGTAC
1018787 AAAAAGAAAGAAAAGACAA
1 AAAAAGAAAGAAAAGACAA
** *
1018806 AAAAAG-AAGAAAATTCAG
1 AAAAAGAAAGAAAAGACAA
* *
1018824 AAAAAGAAA-AGAAGAAAA
1 AAAAAGAAAGAAAAGACAA
1018842 GAAAAAGAAAGAAA
1 -AAAAAGAAAGAAA
1018856 GCCAAGGAAA
Statistics
Matches: 38, Mismatches: 9, Indels: 5
0.73 0.17 0.10
Matches are distributed among these distances:
18 19 0.50
19 17 0.45
20 2 0.05
ACGTcount: A:0.77, C:0.03, G:0.17, T:0.03
Consensus pattern (19 bp):
AAAAAGAAAGAAAAGACAA
Found at i:1018847 original size:14 final size:14
Alignment explanation
Indices: 1018788--1018855 Score: 52
Period size: 15 Copynumber: 4.9 Consensus size: 14
1018778 TTAGAGTACA
1018788 AAAAGAAAGAAAAG
1 AAAAGAAAGAAAAG
*
1018802 ACAAA-AAA-AGAAG
1 A-AAAGAAAGAAAAG
***
1018815 AAAATTCAGAAAAAG
1 AAAAGAAAG-AAAAG
1018830 AAAAG-AAGAAAAG
1 AAAAGAAAGAAAAG
1018843 AAAAAGAAAGAAA
1 -AAAAGAAAGAAA
1018856 GCCAAGGAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 11
0.71 0.10 0.19
Matches are distributed among these distances:
12 3 0.07
13 11 0.26
14 11 0.26
15 17 0.40
ACGTcount: A:0.76, C:0.03, G:0.18, T:0.03
Consensus pattern (14 bp):
AAAAGAAAGAAAAG
Found at i:1027471 original size:33 final size:33
Alignment explanation
Indices: 1027427--1027495 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1027417 CATCACCATA
*
1027427 TTCCATCACCATATCAT-GCCAATAACATCATCC
1 TTCCATCACCATATCATCACCAATAA-ATCATCC
* * *
1027460 TTCCATTACCATTTCATCACCATTAAATCATCC
1 TTCCATCACCATATCATCACCAATAAATCATCC
1027493 TTC
1 TTC
1027496 ATTCATCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 25 0.81
34 6 0.19
ACGTcount: A:0.30, C:0.35, G:0.01, T:0.33
Consensus pattern (33 bp):
TTCCATCACCATATCATCACCAATAAATCATCC
Found at i:1027865 original size:12 final size:12
Alignment explanation
Indices: 1027851--1027880 Score: 51
Period size: 12 Copynumber: 2.4 Consensus size: 12
1027841 AAGCAACAAG
1027851 AAAGAAGAAAAGA
1 AAAG-AGAAAAGA
1027864 AAAGAGAAAAGA
1 AAAGAGAAAAGA
1027876 AAAGA
1 AAAGA
1027881 CTCCTACAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 13 0.76
13 4 0.24
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (12 bp):
AAAGAGAAAAGA
Found at i:1031941 original size:33 final size:33
Alignment explanation
Indices: 1031862--1031965 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
1031852 ATACAATCTG
* *
1031862 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
1031898 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
1031931 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
1031964 TC
1 TC
1031966 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:1038919 original size:31 final size:31
Alignment explanation
Indices: 1038874--1038945 Score: 101
Period size: 31 Copynumber: 2.4 Consensus size: 31
1038864 TTACAATACA
*
1038874 GTCCCCCAACATTTAATCTGTTTGTAATATG
1 GTCCCCCAACATTTAATCTGTTTGCAATATG
* * *
1038905 GTCCCTCAATATTTAGTCTGTTTGCAATATG
1 GTCCCCCAACATTTAATCTGTTTGCAATATG
1038936 GT-CCCCAACA
1 GTCCCCCAACA
1038946 ATATGTCCCA
Statistics
Matches: 35, Mismatches: 6, Indels: 1
0.83 0.14 0.02
Matches are distributed among these distances:
30 6 0.17
31 29 0.83
ACGTcount: A:0.25, C:0.25, G:0.14, T:0.36
Consensus pattern (31 bp):
GTCCCCCAACATTTAATCTGTTTGCAATATG
Found at i:1040790 original size:23 final size:23
Alignment explanation
Indices: 1040745--1040790 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1040735 TTATACCTAT
*
1040745 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
1040768 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
1040791 TATATTATAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:1042422 original size:17 final size:16
Alignment explanation
Indices: 1042400--1042449 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
1042390 AATTGGAGTG
1042400 CAAAAAGAAAGAAAAGA
1 CAAAAAG-AAGAAAAGA
**
1042417 CAAAAAGAAGAAAATT
1 CAAAAAGAAGAAAAGA
1042433 CAGAAAAGAAGAAAAGA
1 CA-AAAAGAAGAAAAGA
1042450 AAAGAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 9 0.32
17 19 0.68
ACGTcount: A:0.72, C:0.06, G:0.18, T:0.04
Consensus pattern (16 bp):
CAAAAAGAAGAAAAGA
Found at i:1045387 original size:23 final size:23
Alignment explanation
Indices: 1045342--1045387 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
1045332 TTATACCTAT
*
1045342 AGATACTTATTTCATATGTTATA
1 AGATACTTATTTCATATGATATA
*
1045365 AGATAGTTATTTTCATAT-ATATA
1 AGATACTTA-TTTCATATGATATA
1045388 TATATATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.37, C:0.07, G:0.09, T:0.48
Consensus pattern (23 bp):
AGATACTTATTTCATATGATATA
Found at i:1046930 original size:31 final size:31
Alignment explanation
Indices: 1046892--1046950 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
1046882 TTACGTCGAG
*
1046892 GACCATATTGCAAACGGACTAAATGTTGAGT
1 GACCATATTGCAAACAGACTAAATGTTGAGT
*
1046923 GACCATATTGCAAATAGACTAAATGTTG
1 GACCATATTGCAAACAGACTAAATGTTG
1046951 GGGGACTGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (31 bp):
GACCATATTGCAAACAGACTAAATGTTGAGT
Found at i:1046963 original size:31 final size:31
Alignment explanation
Indices: 1046891--1046956 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
1046881 ATTACGTCGA
*
1046891 GGACCATATTGCAAACGGACTAAATGTTGAG
1 GGACCATATTGCAAACAGACTAAATGTTGAG
* * *
1046922 TGACCATATTGCAAATAGACTAAATGTTGGG
1 GGACCATATTGCAAACAGACTAAATGTTGAG
1046953 GGAC
1 GGAC
1046957 TGTATTGTAG
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.35, C:0.15, G:0.26, T:0.24
Consensus pattern (31 bp):
GGACCATATTGCAAACAGACTAAATGTTGAG
Found at i:1054357 original size:10 final size:12
Alignment explanation
Indices: 1054324--1054362 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1054314 GGTCTTCTCA
1054324 ACTC-CTCAGCT
1 ACTCTCTCAGCT
1054335 ACTCTCTCAGCT
1 ACTCTCTCAGCT
1054347 ACT-TC-CAGCT
1 ACTCTCTCAGCT
1054357 AC-CTCT
1 ACTCTCT
1054363 AGTCCACTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 10 0.40
ACGTcount: A:0.18, C:0.44, G:0.08, T:0.31
Consensus pattern (12 bp):
ACTCTCTCAGCT
Found at i:1055287 original size:24 final size:24
Alignment explanation
Indices: 1055260--1055305 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1055250 AATGTCAACA
*
1055260 GACACAACTCTTGGCACTTCAAGT
1 GACACAACTCTTGGAACTTCAAGT
***
1055284 GACATTTCTCTTGGAACTTCAA
1 GACACAACTCTTGGAACTTCAA
1055306 ATATGTTTCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.28, C:0.26, G:0.15, T:0.30
Consensus pattern (24 bp):
GACACAACTCTTGGAACTTCAAGT
Found at i:1060039 original size:20 final size:20
Alignment explanation
Indices: 1060010--1060060 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
1060000 CATCATTTTT
1060010 TTTG-GAGTGATCGTGAGGA
1 TTTGTGAGTGATCGTGAGGA
1060029 TTTGTGAGTGATCGTGAGGA
1 TTTGTGAGTGATCGTGAGGA
1060049 TTTGTGAGTGAT
1 TTTGTGAGTGAT
1060061 TATTGGTAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
19 4 0.13
20 27 0.87
ACGTcount: A:0.20, C:0.04, G:0.39, T:0.37
Consensus pattern (20 bp):
TTTGTGAGTGATCGTGAGGA
Found at i:1070836 original size:24 final size:24
Alignment explanation
Indices: 1070778--1070837 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
1070768 AAAATCAGCC
*
1070778 AAGAAAATA-AAATCACTCAAAAG
1 AAGAAAATAGAAAGCACTCAAAAG
*
1070801 AA-AAAATTGAAAGCACTCGAAAAG
1 AAGAAAATAGAAAGCACTC-AAAAG
1070825 AAGAAAA-AGAAAG
1 AAGAAAATAGAAAG
1070838 AAAGAAAAGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 5 0.16
23 10 0.32
24 12 0.39
25 4 0.13
ACGTcount: A:0.65, C:0.10, G:0.15, T:0.10
Consensus pattern (24 bp):
AAGAAAATAGAAAGCACTCAAAAG
Found at i:1079006 original size:14 final size:15
Alignment explanation
Indices: 1078967--1079023 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
1078957 GAGTTGTAAG
1078967 TTATCTTCATTTTCTTAC
1 TTAT-TTCATTTT-TT-C
1078985 -TATTTCATTTTTT-
1 TTATTTCATTTTTTC
*
1078998 TTCTTTCATCTTTTTC
1 TTATTTCAT-TTTTTC
1079014 TTATTTCATT
1 TTATTTCATT
1079024 ACCTTATCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 16 0.47
17 3 0.09
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTCATTTTTTC
Found at i:1082252 original size:36 final size:35
Alignment explanation
Indices: 1082208--1082304 Score: 113
Period size: 36 Copynumber: 2.7 Consensus size: 35
1082198 GATACAATCT
* **
1082208 GTCCATCACCATCATCACGCTTATATCATTGCCATA
1 GTCCATCACCAT-ATCACGCCTATATCATCACCATA
* *
1082244 GTCTATCACCATTATCACGCCTATAACATCACCATA
1 GTCCATCACCA-TATCACGCCTATATCATCACCATA
* *
1082280 TTCCATTACCATATCACGCCTATAT
1 GTCCATCACCATATCACGCCTATAT
1082305 TATCCCCAAC
Statistics
Matches: 51, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
35 13 0.25
36 37 0.73
37 1 0.02
ACGTcount: A:0.30, C:0.33, G:0.06, T:0.31
Consensus pattern (35 bp):
GTCCATCACCATATCACGCCTATATCATCACCATA
Found at i:1086184 original size:24 final size:21
Alignment explanation
Indices: 1086149--1086191 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1086139 GGCTCATTCT
*
1086149 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1086172 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1086192 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1092748 original size:5 final size:5
Alignment explanation
Indices: 1092738--1092767 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
1092728 CTCAAAAAAG
1092738 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
1092768 GTTAAAGCAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAGAA
Found at i:1097088 original size:6 final size:6
Alignment explanation
Indices: 1097079--1097124 Score: 53
Period size: 6 Copynumber: 8.2 Consensus size: 6
1097069 TTTGAACTTC
* *
1097079 TCTTTT TCTTTT T-TTTT TCTTCT T-TTTA TCTTTT TC-TTT TCTTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT
1097124 T
1 T
1097125 TTTGCTTTGC
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
5 13 0.39
6 20 0.61
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TCTTTT
Found at i:1097097 original size:11 final size:11
Alignment explanation
Indices: 1097081--1097127 Score: 67
Period size: 11 Copynumber: 4.3 Consensus size: 11
1097071 TGAACTTCTC
1097081 TTTTTCTTTTT
1 TTTTTCTTTTT
*
1097092 TTTTTCTTCTT
1 TTTTTCTTTTT
*
1097103 TTTATCTTTTT
1 TTTTTCTTTTT
*
1097114 CTTTTCTTTTT
1 TTTTTCTTTTT
1097125 TTT
1 TTT
1097128 GCTTTGCACG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 30 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTCTTTTT
Found at i:1097098 original size:33 final size:33
Alignment explanation
Indices: 1097061--1097127 Score: 84
Period size: 33 Copynumber: 2.0 Consensus size: 33
1097051 CTTGGCTTGC
1097061 TTTC-TCTTTTTGAAC-TTCTCTTTTTCTTTTTTT
1 TTTCTTCTTTTT-AACTTTCTC-TTTTCTTTTTTT
* *
1097094 TTTCTTCTTTTTATCTTTTTCTTTTCTTTTTTT
1 TTTCTTCTTTTTAACTTTCTCTTTTCTTTTTTT
1097127 T
1 T
1097128 GCTTTGCACG
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
33 19 0.63
34 11 0.37
ACGTcount: A:0.04, C:0.16, G:0.01, T:0.78
Consensus pattern (33 bp):
TTTCTTCTTTTTAACTTTCTCTTTTCTTTTTTT
Found at i:1097100 original size:22 final size:22
Alignment explanation
Indices: 1097075--1097127 Score: 72
Period size: 22 Copynumber: 2.4 Consensus size: 22
1097065 TCTTTTTGAA
*
1097075 CTTCTCTTTT-TCTTTTTTTTTT
1 CTTCT-TTTTATCTTTTTCTTTT
1097097 CTTCTTTTTATCTTTTTCTTTT
1 CTTCTTTTTATCTTTTTCTTTT
*
1097119 CTTTTTTTT
1 CTTCTTTTT
1097128 GCTTTGCACG
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 4 0.14
22 24 0.86
ACGTcount: A:0.02, C:0.17, G:0.00, T:0.81
Consensus pattern (22 bp):
CTTCTTTTTATCTTTTTCTTTT
Found at i:1097101 original size:14 final size:13
Alignment explanation
Indices: 1097081--1097132 Score: 59
Period size: 14 Copynumber: 3.7 Consensus size: 13
1097071 TGAACTTCTC
1097081 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
*
1097094 TTTCTTCTTTTTATC
1 TTT-TTCTTTTT-TT
1097109 TTTTTCTTTTCTTT
1 TTTTTCTTTT-TTT
1097123 TTTTTGCTTT
1 TTTTT-CTTT
1097133 GCACGCCAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
13 3 0.09
14 21 0.64
15 9 0.27
ACGTcount: A:0.02, C:0.13, G:0.02, T:0.83
Consensus pattern (13 bp):
TTTTTCTTTTTTT
Found at i:1097321 original size:19 final size:20
Alignment explanation
Indices: 1097293--1097332 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1097283 GGGTAATAAT
1097293 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
1097313 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
1097332 A
1 A
1097333 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:1117594 original size:19 final size:20
Alignment explanation
Indices: 1117553--1117603 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
1117543 GAAACCCCTT
*
1117553 TGAAAATACATGATTTTTTA
1 TGAAAATACATGATTTTTAA
*
1117573 TGAAAATGCATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
1117592 TGAAGATACATG
1 TGAAAATACATG
1117604 CTCTTGGCCG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 15 0.56
20 12 0.44
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.37
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:1122775 original size:590 final size:586
Alignment explanation
Indices: 1121643--1122819 Score: 2185
Period size: 590 Copynumber: 2.0 Consensus size: 586
1121633 ATCAGCTGAC
1121643 CCCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACCACATTTCAGCTGGAG
1 CCCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACCACATTTCAGCTGGAG
1121708 AGTTGCACCATCATCACCACCACACAGAGTACTTCAAATATGGTCTAAGATAATTTTTGTGGATT
66 AGTTGCACCATCATCACCACCACACAGAGTACTTCAAATATGGTCTAAGATAATTTTTGTGGATT
* *
1121773 CGTACCTTTTCGCGAAGAGTTGTCATTCCAAGAGGTGCCTTTTCACAAGGAGTTGGCCAAAGATT
131 CGTACCTTTTCGCGAAGAGTTGCCATTCCAAGAGGTGCCTTTTCACAAGGAGCTGGCCAAAGATT
1121838 CATCTTCATGTAATTCACCTATGACCAGCTCATCTTCAGCTCATACACATGGGAAGTAGCTCAAA
196 CATCTTCATGTAATTCACCTATGACCAGCTCATCTTCAGCTCATACACATGGGAAGTAGCTCAAA
*
1121903 TGATGAAAGGTTACCTTCCACAAATGTGACCTTTCATGACAAGTTGCTGCCCATTGAAGACCATG
261 TGATGAAAGGTTACCTTCCACAAATGTGA-CTTTCACGACAAGTTGCTGCCCATTGAAGACCATG
1121968 ACACCTAGATGCATGTTGGAAGCCAAGTCACGCCTAGTTGCTACCATCGTCATTCCATGGACTTC
325 ACACCTAGATGCATGTTGGAAGCCAAGTCACGCCTAGTTGCTACCATCGTCATTCCATGGACTTC
1122033 AAGACATTATCCTATGGTTGCAACCTCACCAAAGCCTTGCAAAAAGACCCATGTGCGTTCAAGTA
390 AAGACATTATCCTATGGTTGCAACCTCACCAAAGCCTTGCAAAAAGACCCATGTGCGTTCAAGTA
1122098 GGCTGCCATGTGCATCATTCAAGCATGTGCACTCCATGTGACATCAAATAGGTACCAAAACACCA
455 GGCTGCCATGTGCATCATTCAAGCATGTGCACTCCATGTGACATCAAATAGGTACCAAAACACCA
1122163 AGGGATGCTTCCTATTGCCAAAGACTTATTCCTCTCCATTTTGGCGCCCAAATGACTTCCAAAAG
520 AGGGATGCTTCCTATTGCCAAAGAC---TTCCTCTCCATTTTGGCGCCCAAATGACTTCCAAAAG
1122228 CATTT
582 CATTT
*
1122233 CCCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACCTCATTTCAGCTGGAG
1 CCCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACCACATTTCAGCTGGAG
1122298 AGTTGCACCATCATCACCACCACACAGAGTACTTCAAATATGGTCTAAGATAATTTTTGTGGATT
66 AGTTGCACCATCATCACCACCACACAGAGTACTTCAAATATGGTCTAAGATAATTTTTGTGGATT
*
1122363 CGTACCTTTTCGCGAAGAGTTGCCATTCCAAGAGGTGCCTTTTCACAAGGAGCTGGTCAAAGATT
131 CGTACCTTTTCGCGAAGAGTTGCCATTCCAAGAGGTGCCTTTTCACAAGGAGCTGGCCAAAGATT
*
1122428 CATCTTCATGTAATTCACCTATGACCAGCTCATCTTCATCTCATACACATGGGAAGTAGCTCAAA
196 CATCTTCATGTAATTCACCTATGACCAGCTCATCTTCAGCTCATACACATGGGAAGTAGCTCAAA
1122493 TGATGAAAGGTTACCTTCCACAAATGTGA-TTTCACGACAAGTTGCTGCCCATTGAAGACCATGA
261 TGATGAAAGGTTACCTTCCACAAATGTGACTTTCACGACAAGTTGCTGCCCATTGAAGACCATGA
** *
1122557 CACCTAGATGCATGTTGGAAGCCAAGTCACGCCTAGTTGCTGTCATCTTCATTCCATGGACTTCA
326 CACCTAGATGCATGTTGGAAGCCAAGTCACGCCTAGTTGCTACCATCGTCATTCCATGGACTTCA
*
1122622 AGACATTATCCTATGGTTGCAACCTCACCAAAGCCTTGCAAGAAGACCCATGTGCGTTCAAGTAG
391 AGACATTATCCTATGGTTGCAACCTCACCAAAGCCTTGCAAAAAGACCCATGTGCGTTCAAGTAG
*
1122687 GCTGCCATGTGCATCATTCAAGCATGTGCACTCCATGTGACATCAAATAGGTGCCAAAACACCAA
456 GCTGCCATGTGCATCATTCAAGCATGTGCACTCCATGTGACATCAAATAGGTACCAAAACACCAA
*
1122752 GGGATGCTTCCTATTTGGCCAAAGACTTCCTCTCCATTTTGGTGCCCAAATGACTTCCAAAAGCA
521 GGGATGCTTCCTA-TT-GCCAAAGACTTCCTCTCCATTTTGGCGCCCAAATGACTTCCAAAAGCA
1122817 TTT
584 TTT
1122820 AAAACATCCA
Statistics
Matches: 573, Mismatches: 12, Indels: 7
0.97 0.02 0.01
Matches are distributed among these distances:
587 41 0.07
588 237 0.41
589 2 0.00
590 293 0.51
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (586 bp):
CCCCGAGCTCATAGCTCACTTGAGCTGGACTTTTGAGCTAGCTAGAGACCACATTTCAGCTGGAG
AGTTGCACCATCATCACCACCACACAGAGTACTTCAAATATGGTCTAAGATAATTTTTGTGGATT
CGTACCTTTTCGCGAAGAGTTGCCATTCCAAGAGGTGCCTTTTCACAAGGAGCTGGCCAAAGATT
CATCTTCATGTAATTCACCTATGACCAGCTCATCTTCAGCTCATACACATGGGAAGTAGCTCAAA
TGATGAAAGGTTACCTTCCACAAATGTGACTTTCACGACAAGTTGCTGCCCATTGAAGACCATGA
CACCTAGATGCATGTTGGAAGCCAAGTCACGCCTAGTTGCTACCATCGTCATTCCATGGACTTCA
AGACATTATCCTATGGTTGCAACCTCACCAAAGCCTTGCAAAAAGACCCATGTGCGTTCAAGTAG
GCTGCCATGTGCATCATTCAAGCATGTGCACTCCATGTGACATCAAATAGGTACCAAAACACCAA
GGGATGCTTCCTATTGCCAAAGACTTCCTCTCCATTTTGGCGCCCAAATGACTTCCAAAAGCATT
T
Found at i:1122889 original size:19 final size:21
Alignment explanation
Indices: 1122865--1122916 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1122855 CGGCCAAGAG
*
1122865 CATGTATCTTCA-TT-AAAAT
1 CATGTATTTTCATTTAAAAAT
1122884 CATGTATTTTCATTTAAAAAT
1 CATGTATTTTCATTTAAAAAT
1122905 CATGTATTTTCA
1 CATGTATTTTCA
1122917 AAGGGGTTTC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 11 0.37
20 2 0.07
21 17 0.57
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.46
Consensus pattern (21 bp):
CATGTATTTTCATTTAAAAAT
Found at i:1123589 original size:10 final size:10
Alignment explanation
Indices: 1123574--1123631 Score: 57
Period size: 10 Copynumber: 5.9 Consensus size: 10
1123564 CATGCAAAGC
1123574 AAAAAAAGAA
1 AAAAAAAGAA
1123584 AAAAAAAG--
1 AAAAAAAGAA
* *
1123592 ACAAAAATAA
1 AAAAAAAGAA
**
1123602 AAAATCAGAA
1 AAAAAAAGAA
1123612 AAAAAAAGAA
1 AAAAAAAGAA
1123622 AAGAAAAAGA
1 AA-AAAAAGA
1123632 GAAGTTCAAA
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
8 6 0.16
10 24 0.65
11 7 0.19
ACGTcount: A:0.83, C:0.03, G:0.10, T:0.03
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:1123615 original size:18 final size:18
Alignment explanation
Indices: 1123569--1123631 Score: 56
Period size: 18 Copynumber: 3.3 Consensus size: 18
1123559 ATTGGCATGC
1123569 AAAGCAAAAAAAGAAAAAA
1 AAAG-AAAAAAAGAAAAAA
* *
1123588 AAAGACAAAAATAAAAAA
1 AAAGAAAAAAAGAAAAAA
1123606 TCAGAA-AAAAAAAGAAAAGAA
1 --A-AAGAAAAAAAGAAAA-AA
1123627 AAAGA
1 AAAGA
1123632 GAAGTTCAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
18 14 0.40
19 6 0.17
20 11 0.31
21 4 0.11
ACGTcount: A:0.81, C:0.05, G:0.11, T:0.03
Consensus pattern (18 bp):
AAAGAAAAAAAGAAAAAA
Found at i:1123617 original size:14 final size:14
Alignment explanation
Indices: 1123580--1123620 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
1123570 AAGCAAAAAA
1123580 AGAAAAAAAAAGAC
1 AGAAAAAAAAAGAC
1123594 A-AAAATAAAAA-ATC
1 AGAAAA-AAAAAGA-C
1123608 AGAAAAAAAAAGA
1 AGAAAAAAAAAGA
1123621 AAAGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
13 5 0.22
14 13 0.57
15 5 0.22
ACGTcount: A:0.80, C:0.05, G:0.10, T:0.05
Consensus pattern (14 bp):
AGAAAAAAAAAGAC
Found at i:1131587 original size:24 final size:21
Alignment explanation
Indices: 1131553--1131595 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1131543 GCACCAAGAT
*
1131553 ATGTCCTTTGACATTTCAAAGG
1 ATGTCCTTTGA-AATTCAAAGG
1131575 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1131596 AGAATGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.35
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAAGG
Found at i:1133066 original size:188 final size:184
Alignment explanation
Indices: 1132753--1133124 Score: 692
Period size: 188 Copynumber: 2.0 Consensus size: 184
1132743 ACATTGCTTA
1132753 TTTTATTTGTTTGGTGATTCCTATAGGTGAAACACAAAACAAGCATATTATGGTAGCTTGGCTAA
1 TTTTATTTGTTTGGTGATTCCTATAGGTGAAACACAAAACAAGCATATTATGGTAGCTTGGCTAA
1132818 AAGGACAAGCACAACAGCTCACACTAGCTCATGAACATTATGGCAGCTCATTTCATCACATAAGG
66 AAGGACAAGCACAACAGCTCACACTAGCTCATGAACATTATGGCAGCTCATTTCATCACATAAGG
1132883 AGCTTAAACTTAGCTGGAGGAGCTAGCATGTAGCTGAACTTAGCTGGAGGAGAG
131 AGCTTAAACTTAGCTGGAGGAGCTAGCATGTAGCTGAACTTAGCTGGAGGAGAG
1132937 TTTTATTTGTTTGGTGATTCCTATA-GTGAAACACAAAACAAGGCATATTATGGTAGCTTGGCTA
1 TTTTATTTGTTTGGTGATTCCTATAGGTGAAACACAAAACAA-GCATATTATGGTAGCTT-G---
1133001 GCTAAAAGGACAAGCACAACAGCTCACACTAGCTCATGAACATTATGGCAGCTCATTTCATCACA
61 GCTAAAAGGACAAGCACAACAGCTCACACTAGCTCATGAACATTATGGCAGCTCATTTCATCACA
1133066 TAAGGAGCTTAAACTTAGCTGGAGGAGCTAGCATGTAGCTGAACTTAGCTGGAGGAGAG
126 TAAGGAGCTTAAACTTAGCTGGAGGAGCTAGCATGTAGCTGAACTTAGCTGGAGGAGAG
1133125 CTTTGGACCA
Statistics
Matches: 183, Mismatches: 0, Indels: 6
0.97 0.00 0.03
Matches are distributed among these distances:
183 16 0.09
184 42 0.23
185 1 0.01
188 124 0.68
ACGTcount: A:0.33, C:0.18, G:0.23, T:0.27
Consensus pattern (184 bp):
TTTTATTTGTTTGGTGATTCCTATAGGTGAAACACAAAACAAGCATATTATGGTAGCTTGGCTAA
AAGGACAAGCACAACAGCTCACACTAGCTCATGAACATTATGGCAGCTCATTTCATCACATAAGG
AGCTTAAACTTAGCTGGAGGAGCTAGCATGTAGCTGAACTTAGCTGGAGGAGAG
Found at i:1138038 original size:23 final size:23
Alignment explanation
Indices: 1138012--1138068 Score: 69
Period size: 24 Copynumber: 2.4 Consensus size: 23
1138002 AAGAAAAATC
*
1138012 AGAAAAGAAAGCACTCCAAAAGA
1 AGAAAAGAAAGCACTCAAAAAGA
***
1138035 AGAAAATTCCAGCACTCAAAAAGA
1 AGAAAA-GAAAGCACTCAAAAAGA
1138059 AGAAAAGAAA
1 AGAAAAGAAA
1138069 AAAACAACTG
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
23 7 0.27
24 19 0.73
ACGTcount: A:0.61, C:0.16, G:0.16, T:0.07
Consensus pattern (23 bp):
AGAAAAGAAAGCACTCAAAAAGA
Found at i:1143859 original size:22 final size:22
Alignment explanation
Indices: 1143834--1143882 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
1143824 AATGAATGCC
*
1143834 AAGGCCTATTTATAGATTTTTA
1 AAGGCCTATTTATAGATTTGTA
1143856 AAGGCCTATTTATAGATTTGTA
1 AAGGCCTATTTATAGATTTGTA
1143878 AAGGC
1 AAGGC
1143883 TTGGCCGAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (22 bp):
AAGGCCTATTTATAGATTTGTA
Found at i:1148759 original size:18 final size:17
Alignment explanation
Indices: 1148711--1148759 Score: 53
Period size: 18 Copynumber: 2.8 Consensus size: 17
1148701 ACTTGCTTCA
*
1148711 CTTTTCTTTTTCTTTTG
1 CTTTTCTTTTTTTTTTG
* *
1148728 ATTTTCTTCTTTTTTTTT
1 CTTTTCTT-TTTTTTTTG
*
1148746 CTTTTCTTTATTTT
1 CTTTTCTTTTTTTT
1148760 GCACTCCAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 12 0.46
18 14 0.54
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (17 bp):
CTTTTCTTTTTTTTTTG
Found at i:1158876 original size:24 final size:21
Alignment explanation
Indices: 1158842--1158884 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1158832 TCGACAAGAT
*
1158842 ATGTCCTTTGACATTTCAAATG
1 ATGTCCTTTGA-AATTCAAATG
1158864 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1158885 AGAATGAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAATG
Found at i:1161597 original size:24 final size:24
Alignment explanation
Indices: 1161539--1161598 Score: 81
Period size: 24 Copynumber: 2.6 Consensus size: 24
1161529 AAAATCAGCC
1161539 AAGAAAATA-AAAGCACTCAAAAG
1 AAGAAAATAGAAAGCACTCAAAAG
*
1161562 AA-AAAATTGAAAGCACTCGAAAAG
1 AAGAAAATAGAAAGCACTC-AAAAG
1161586 AAGAAAA-AGAAAG
1 AAGAAAATAGAAAG
1161599 AAAGAAAAGT
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
22 5 0.16
23 11 0.34
24 12 0.38
25 4 0.12
ACGTcount: A:0.65, C:0.10, G:0.17, T:0.08
Consensus pattern (24 bp):
AAGAAAATAGAAAGCACTCAAAAG
Found at i:1164371 original size:11 final size:13
Alignment explanation
Indices: 1164339--1164368 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1164329 TGGCCAAAGA
1164339 TGAAAAGGTATGT
1 TGAAAAGGTATGT
1164352 TGAAAAGGTATG-
1 TGAAAAGGTATGT
1164364 TGAAA
1 TGAAA
1164369 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:1180498 original size:33 final size:33
Alignment explanation
Indices: 1180419--1180522 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
1180409 ATACAATCTG
* *
1180419 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
1180455 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
1180488 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
1180521 TC
1 TC
1180523 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:1184427 original size:33 final size:33
Alignment explanation
Indices: 1184348--1184451 Score: 95
Period size: 33 Copynumber: 3.1 Consensus size: 33
1184338 ATACAATCTG
* *
1184348 TCCATCACCATTATCACGCCTATATCATCA-CCATAT
1 TCCATCACCA-TATCACGCCAATAACATCATCC---T
1184384 TCCATCACCATATCACGCCAATAACATCATCCT
1 TCCATCACCATATCACGCCAATAACATCATCCT
* * * *
1184417 TCCATTACCATTTCATCACCATTAA-ATCATCCT
1 TCCATCACCATATCA-CGCCAATAACATCATCCT
1184450 TC
1 TC
1184452 ATTCATCAAC
Statistics
Matches: 60, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
33 24 0.40
34 7 0.12
35 17 0.28
36 12 0.20
ACGTcount: A:0.31, C:0.37, G:0.02, T:0.31
Consensus pattern (33 bp):
TCCATCACCATATCACGCCAATAACATCATCCT
Found at i:1186754 original size:35 final size:36
Alignment explanation
Indices: 1186715--1186814 Score: 141
Period size: 35 Copynumber: 2.8 Consensus size: 36
1186705 TTAGGCATGT
* * **
1186715 AATGGTGATAGAAGATGGTAATGTTATAGGCGT-TC
1 AATGGTGATGGAAGATGGTGATGTTATAGGCGTGAA
*
1186750 AATGGTAATGGAAGATGGTGATGTTATAGGCGTGAA
1 AATGGTGATGGAAGATGGTGATGTTATAGGCGTGAA
1186786 AATGGTGATGGAAGATGGTGATGTT-TAGG
1 AATGGTGATGGAAGATGGTGATGTTATAGG
1186815 TAGTATCTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
35 34 0.59
36 24 0.41
ACGTcount: A:0.31, C:0.03, G:0.36, T:0.30
Consensus pattern (36 bp):
AATGGTGATGGAAGATGGTGATGTTATAGGCGTGAA
Found at i:1187177 original size:20 final size:20
Alignment explanation
Indices: 1187152--1187189 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
1187142 TGAAACCCCT
*
1187152 TTGAAAACACATGATTTTTA
1 TTGAAAACACATAATTTTTA
*
1187172 TTGAAAATACATAATTTT
1 TTGAAAACACATAATTTT
1187190 AATGAATATA
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:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (20 bp):
TTGAAAACACATAATTTTTA
Found at i:1187195 original size:19 final size:20
Alignment explanation
Indices: 1187153--1187195 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
1187143 GAAACCCCTT
* *
1187153 TGAAAACACATGATTTTTAT
1 TGAAAACACATGAATTTTAA
*
1187173 TGAAAATACAT-AATTTTAA
1 TGAAAACACATGAATTTTAA
1187192 TGAA
1 TGAA
1187196 TATATATGCT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.37
Consensus pattern (20 bp):
TGAAAACACATGAATTTTAA
Found at i:1187927 original size:20 final size:21
Alignment explanation
Indices: 1187889--1187927 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1187879 GATCATCTAG
* *
1187889 AAGCTAAGATAACATGTATAT
1 AAGCTAAGATAAAAGGTATAT
1187910 AAGCT-AGATAAAAGGTAT
1 AAGCTAAGATAAAAGGTAT
1187928 TGGACGTTCA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 11 0.69
21 5 0.31
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.26
Consensus pattern (21 bp):
AAGCTAAGATAAAAGGTATAT
Found at i:1195591 original size:24 final size:21
Alignment explanation
Indices: 1195556--1195598 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1195546 GGCTCATTCT
*
1195556 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
1195579 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
1195599 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:1207136 original size:20 final size:21
Alignment explanation
Indices: 1207110--1207156 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
1207100 TCCTACAACA
1207110 AAAAAAACAACAAGAAA-G-AAG
1 AAAAAAA-AACAA-AAAGGAAAG
1207131 AAAAAAAAACAAAAAGGAAAG
1 AAAAAAAAACAAAAAGGAAAG
1207152 AAAAA
1 AAAAA
1207157 GACTCCTACA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.12
20 6 0.25
21 15 0.62
ACGTcount: A:0.81, C:0.06, G:0.13, T:0.00
Consensus pattern (21 bp):
AAAAAAAAACAAAAAGGAAAG
Found at i:1207139 original size:23 final size:24
Alignment explanation
Indices: 1207109--1207153 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
1207099 GTCCTACAAC
*
1207109 AAAAAAAACAACAA-GAAAGAAGA
1 AAAAAAAACAAAAAGGAAAGAAGA
1207132 AAAAAAAACAAAAAGGAAAGAA
1 AAAAAAAACAAAAAGGAAAGAA
1207154 AAAGACTCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 13 0.65
24 7 0.35
ACGTcount: A:0.80, C:0.07, G:0.13, T:0.00
Consensus pattern (24 bp):
AAAAAAAACAAAAAGGAAAGAAGA
Found at i:1216751 original size:14 final size:15
Alignment explanation
Indices: 1216712--1216768 Score: 55
Period size: 16 Copynumber: 3.7 Consensus size: 15
1216702 GAGTTGTAAG
1216712 TTATCTTCATTTTCTTAC
1 TTAT-TTCATTTT-TT-C
1216730 -TATTTCATTTTTT-
1 TTATTTCATTTTTTC
*
1216743 TTCTTTCATCTTTTTC
1 TTATTTCAT-TTTTTC
1216759 TTATTTCATT
1 TTATTTCATT
1216769 ACCTTATCTG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
14 7 0.21
15 8 0.24
16 16 0.47
17 3 0.09
ACGTcount: A:0.14, C:0.18, G:0.00, T:0.68
Consensus pattern (15 bp):
TTATTTCATTTTTTC
Found at i:1220032 original size:22 final size:23
Alignment explanation
Indices: 1219996--1220039 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
1219986 GCCATAGTCT
1219996 ATCACCATTATCACGCCTATATC
1 ATCACCATTATCACGCCTATATC
1220019 ATCACCA-TATCACGCCTATAT
1 ATCACCATTATCACGCCTATAT
1220040 TATCCCCAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.32, C:0.34, G:0.05, T:0.30
Consensus pattern (23 bp):
ATCACCATTATCACGCCTATATC
Found at i:1228884 original size:6 final size:6
Alignment explanation
Indices: 1228875--1228917 Score: 54
Period size: 6 Copynumber: 7.2 Consensus size: 6
1228865 TTTGAACTTC
1228875 TCTTTT TCTTTT T-TTTT TCTTTTT ATCTTTT TC-TTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TC-TTTT -TCTTTT TCTTTT TCTTTT T
1228918 TTTGCTTTCC
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 10 0.30
6 13 0.39
7 8 0.24
8 2 0.06
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:1228894 original size:19 final size:18
Alignment explanation
Indices: 1228872--1228918 Score: 67
Period size: 19 Copynumber: 2.5 Consensus size: 18
1228862 CTTTTTGAAC
*
1228872 TTCTCTTTTTCTTTTTTTT
1 TTCT-TTTTTCTTTTTCTT
1228891 TTCTTTTTATCTTTTTCTT
1 TTCTTTTT-TCTTTTTCTT
1228910 TTCTTTTTT
1 TTCTTTTTT
1228919 TTGCTTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 5 0.19
19 21 0.81
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (18 bp):
TTCTTTTTTCTTTTTCTT
Found at i:1228896 original size:31 final size:30
Alignment explanation
Indices: 1228861--1228920 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
1228851 GCTTGCTTTC
1228861 TCTTTTTGAAC-TTCTCTTTTTCTTTTTTTTT
1 TCTTTTT-AACTTTCTC-TTTTCTTTTTTTTT
* *
1228892 TCTTTTTATCTTTTTCTTTTCTTTTTTTT
1 TCTTTTTAACTTTCTCTTTTCTTTTTTTT
1228921 GCTTTCCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
30 15 0.58
31 11 0.42
ACGTcount: A:0.05, C:0.15, G:0.02, T:0.78
Consensus pattern (30 bp):
TCTTTTTAACTTTCTCTTTTCTTTTTTTTT
Found at i:1229168 original size:19 final size:20
Alignment explanation
Indices: 1229140--1229179 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1229130 GGGTAATAAT
1229140 ATAAGTAATGAAAAGAAATA
1 ATAAGTAATGAAAAGAAATA
*
1229160 ATAAG-AATGAAATGAAATA
1 ATAAGTAATGAAAAGAAATA
1229179 A
1 A
1229180 AGAAAGGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (20 bp):
ATAAGTAATGAAAAGAAATA
Found at i:1243731 original size:22 final size:20
Alignment explanation
Indices: 1243706--1243745 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1243696 ATGTTTGTTT
1243706 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
1243728 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
1243746 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:1245102 original size:13 final size:13
Alignment explanation
Indices: 1245080--1245109 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1245070 ACTAAACACC
1245080 TTTC-ACATACCT
1 TTTCAACATACCT
1245092 TTTCAACATACCT
1 TTTCAACATACCT
1245105 TTTCA
1 TTTCA
1245110 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:1249287 original size:22 final size:20
Alignment explanation
Indices: 1249262--1249301 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1249252 ATGTTTGTTT
1249262 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
1249284 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
1249302 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:1258210 original size:24 final size:21
Alignment explanation
Indices: 1258176--1258218 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
1258166 ATGACAAGAT
*
1258176 ATGTCCTTTGACATTTCAAATG
1 ATGTCCTTTGA-AATTCAAATG
1258198 ATGTACCTCTTGAAATTCAAA
1 ATGT-CCT-TTGAAATTCAAA
1258219 AGAATGACAC
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 10 0.56
24 4 0.22
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (21 bp):
ATGTCCTTTGAAATTCAAATG
Found at i:1261341 original size:19 final size:21
Alignment explanation
Indices: 1261300--1261349 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
1261290 AAACCCTTTA
*
1261300 AAAATACATGTTTTTTAAATG
1 AAAATACATGTATTTTAAATG
1261321 AAAATACATG-ATTTT-AATG
1 AAAATACATGTATTTTAAATG
*
1261340 AAGATACATG
1 AAAATACATG
1261350 CTCTCGGCCG
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 13 0.48
20 4 0.15
21 10 0.37
ACGTcount: A:0.46, C:0.06, G:0.12, T:0.36
Consensus pattern (21 bp):
AAAATACATGTATTTTAAATG
Found at i:1263593 original size:150 final size:150
Alignment explanation
Indices: 1263322--1263619 Score: 560
Period size: 150 Copynumber: 2.0 Consensus size: 150
1263312 GATTTTTGAA
* *
1263322 TCATCTCCTTGAAAAGATATGTCACTTGAATTATCCTGCAAAACAAAAGAGAGAATAGGAGAAGA
1 TCATCTCCTTGAAAAGATATGTCACTTGAATTATCCTACAAAACAAAAGAGAAAATAGGAGAAGA
*
1263387 AGTAAGGTTAGATAAAAATTGTTCTTCATTCTCCTCTTTTCCTCCAAATTCATTCTTTTCAACTC
66 AGTAAGGTTAGATAAAAAATGTTCTTCATTCTCCTCTTTTCCTCCAAATTCATTCTTTTCAACTC
1263452 AAACAGTTTCTGCATCCACT
131 AAACAGTTTCTGCATCCACT
1263472 TCATCTCCTTGAAAAGATATGTCACTTGAATTATCCTACAAAACAAAAGAGAAAATAGGAGAAGA
1 TCATCTCCTTGAAAAGATATGTCACTTGAATTATCCTACAAAACAAAAGAGAAAATAGGAGAAGA
1263537 AGTAAGGTTAGATAAAAAATGTTCTTCATTCTCCTCTTTTCCTCCAAATTCATTCTTTTCAACTC
66 AGTAAGGTTAGATAAAAAATGTTCTTCATTCTCCTCTTTTCCTCCAAATTCATTCTTTTCAACTC
*
1263602 CAACAGTTTCTGCATCCA
131 AAACAGTTTCTGCATCCA
1263620 ATCTCCGTTC
Statistics
Matches: 144, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
150 144 1.00
ACGTcount: A:0.35, C:0.21, G:0.12, T:0.32
Consensus pattern (150 bp):
TCATCTCCTTGAAAAGATATGTCACTTGAATTATCCTACAAAACAAAAGAGAAAATAGGAGAAGA
AGTAAGGTTAGATAAAAAATGTTCTTCATTCTCCTCTTTTCCTCCAAATTCATTCTTTTCAACTC
AAACAGTTTCTGCATCCACT
Found at i:1263743 original size:22 final size:23
Alignment explanation
Indices: 1263691--1263744 Score: 58
Period size: 22 Copynumber: 2.3 Consensus size: 23
1263681 TCTCCAAACA
*
1263691 TTCTTCATTTGCATTGTCTTTAAG
1 TTCTTC-TTTGCATTGTCTTCAAG
*
1263715 TTGTTCTTT-CATTG-CTTCAATG
1 TTCTTCTTTGCATTGTCTTCAA-G
1263737 TTCTTCTT
1 TTCTTCTT
1263745 CAAGGTGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
21 5 0.19
22 13 0.50
23 3 0.12
24 5 0.19
ACGTcount: A:0.13, C:0.19, G:0.11, T:0.57
Consensus pattern (23 bp):
TTCTTCTTTGCATTGTCTTCAAG
Found at i:1265429 original size:30 final size:31
Alignment explanation
Indices: 1265390--1265449 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
1265380 ACATGCTACC
**
1265390 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
* *
1265421 ATGA-ATCTAAAACATATGTAAGCATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
1265450 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.52, C:0.10, G:0.10, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:1269436 original size:19 final size:20
Alignment explanation
Indices: 1269366--1269421 Score: 112
Period size: 20 Copynumber: 2.8 Consensus size: 20
1269356 GAAAGCCCTT
1269366 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTGA
1269386 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTGA
1269406 TGAAAATACATGATTT
1 TGAAAATACATGATTT
1269422 AAATGAAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.41, C:0.05, G:0.14, T:0.39
Consensus pattern (20 bp):
TGAAAATACATGATTTTTGA
Found at i:1278587 original size:12 final size:12
Alignment explanation
Indices: 1278557--1278595 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
1278547 AAAGTGGACT
1278557 AGAG-GTAGCTG
1 AGAGAGTAGCTG
1278568 -GA-AGTAGCTG
1 AGAGAGTAGCTG
1278578 AGAGAGTAGCTG
1 AGAGAGTAGCTG
1278590 AG-GAGT
1 AGAGAGT
1278596 TGAGAAGACC
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 9 0.36
11 6 0.24
12 10 0.40
ACGTcount: A:0.31, C:0.08, G:0.44, T:0.18
Consensus pattern (12 bp):
AGAGAGTAGCTG
Found at i:1285290 original size:16 final size:16
Alignment explanation
Indices: 1285256--1285296 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
1285246 TCTTATTATC
*
1285256 TTATTTCATCTTTCAT
1 TTATTTTATCTTTCAT
**
1285272 TTATTTTATCTTTTGT
1 TTATTTTATCTTTCAT
1285288 TTATTTTAT
1 TTATTTTAT
1285297 TCTAATCGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.17, C:0.10, G:0.02, T:0.71
Consensus pattern (16 bp):
TTATTTTATCTTTCAT
Found at i:1285663 original size:8 final size:8
Alignment explanation
Indices: 1285652--1285709 Score: 53
Period size: 8 Copynumber: 6.8 Consensus size: 8
1285642 TTCAAAACAA
1285652 AAAAAAAC
1 AAAAAAAC
1285660 AAAAAAAGGGC
1 AAAAAAA---C
*
1285671 AAAAAAAG
1 AAAAAAAC
**
1285679 GCAAAAAC
1 AAAAAAAC
1285687 AAAAAAAC
1 AAAAAAAC
1285695 AAATAAAAC
1 AAA-AAAAC
1285704 AAAAAA
1 AAAAAA
1285710 TCCAAAAATT
Statistics
Matches: 40, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
8 24 0.60
9 8 0.20
11 8 0.20
ACGTcount: A:0.79, C:0.10, G:0.09, T:0.02
Consensus pattern (8 bp):
AAAAAAAC
Found at i:1291468 original size:10 final size:10
Alignment explanation
Indices: 1291455--1291480 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
1291445 GTGCTTTAAC
1291455 TTTCTTTCCT
1 TTTCTTTCCT
1291465 TTTCTTTCCT
1 TTTCTTTCCT
1291475 TTTCTT
1 TTTCTT
1291481 CTTTTTGAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.00, C:0.27, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTCTTTCCT
Found at i:1298064 original size:15 final size:15
Alignment explanation
Indices: 1298044--1298077 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
1298034 TTGAATGATC
*
1298044 TTCAATATATAAATT
1 TTCAATATAGAAATT
*
1298059 TTCAATATGGAAATT
1 TTCAATATAGAAATT
1298074 TTCA
1 TTCA
1298078 CCACGAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.09, G:0.06, T:0.44
Consensus pattern (15 bp):
TTCAATATAGAAATT
Found at i:1298302 original size:22 final size:22
Alignment explanation
Indices: 1298277--1298341 Score: 62
Period size: 21 Copynumber: 3.0 Consensus size: 22
1298267 TTTTTTGAAA
*
1298277 TTTTGGCTTTTTGGGCTCTTTT
1 TTTTGGCTTTTTGGCCTCTTTT
* * *
1298299 TTTT-GTTTTTTTGCCTTTTTT
1 TTTTGGCTTTTTGGCCTCTTTT
* *
1298320 TTTTGCCTTTTTTGCCT-TTTT
1 TTTTGGCTTTTTGGCCTCTTTT
1298341 T
1 T
1298342 GTTTTTTTGT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
21 22 0.61
22 14 0.39
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.72
Consensus pattern (22 bp):
TTTTGGCTTTTTGGCCTCTTTT
Found at i:1298307 original size:8 final size:8
Alignment explanation
Indices: 1298296--1298358 Score: 51
Period size: 8 Copynumber: 8.0 Consensus size: 8
1298286 TTTGGGCTCT
1298296 TTTTTTTG
1 TTTTTTTG
1298304 TTTTTTTG
1 TTTTTTTG
**
1298312 --CCTTT-
1 TTTTTTTG
1298317 TTTTTTTG
1 TTTTTTTG
*
1298325 CCTTTTTTG
1 -TTTTTTTG
*
1298334 CCTTTTTTG
1 -TTTTTTTG
1298343 TTTTTTTG
1 TTTTTTTG
1298351 TTTTTTTG
1 TTTTTTTG
1298359 AAAAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
6 3 0.07
7 3 0.07
8 23 0.51
9 16 0.36
ACGTcount: A:0.00, C:0.10, G:0.11, T:0.79
Consensus pattern (8 bp):
TTTTTTTG
Found at i:1298320 original size:13 final size:13
Alignment explanation
Indices: 1298304--1298332 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1298294 CTTTTTTTTG
1298304 TTTTTTTGCCTTT
1 TTTTTTTGCCTTT
1298317 TTTTTTTGCCTTT
1 TTTTTTTGCCTTT
1298330 TTT
1 TTT
1298333 GCCTTTTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.14, G:0.07, T:0.79
Consensus pattern (13 bp):
TTTTTTTGCCTTT
Found at i:1298354 original size:22 final size:20
Alignment explanation
Indices: 1298295--1298354 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 20
1298285 TTTTGGGCTC
*
1298295 TTTTTTTTGTTTTTTTGCCT
1 TTTTTTTTTTTTTTTTGCCT
*
1298315 TTTTTTTTTGCCTTTTTTGCCT
1 TTTTTTTTT--TTTTTTTGCCT
1298337 TTTTTGTTTTTTTGTTTT
1 TTTTT-TTTTTTT-TTTT
1298355 TTTGAAAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
20 8 0.24
21 2 0.06
22 19 0.58
23 4 0.12
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (20 bp):
TTTTTTTTTTTTTTTTGCCT
Found at i:1310233 original size:23 final size:24
Alignment explanation
Indices: 1310191--1310243 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
1310181 TTTCTTTCTT
1310191 TTTCTTCTTTTCGAGTGCTTTCAA
1 TTTCTTCTTTTCGAGTGCTTTCAA
* *
1310215 TTTCTTCTTTT-GAGTGCTTTTAT
1 TTTCTTCTTTTCGAGTGCTTTCAA
1310238 TTTCTT
1 TTTCTT
1310244 TGCTGATTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 16 0.59
24 11 0.41
ACGTcount: A:0.09, C:0.17, G:0.11, T:0.62
Consensus pattern (24 bp):
TTTCTTCTTTTCGAGTGCTTTCAA
Found at i:1315821 original size:17 final size:18
Alignment explanation
Indices: 1315787--1315822 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
1315777 GATGTAGGAG
1315787 TCTTTTTCTTTTCTTCTT
1 TCTTTTTCTTTTCTTCTT
*
1315805 TCTTTTTTTTTTC-TCTT
1 TCTTTTTCTTTTCTTCTT
1315822 T
1 T
1315823 TTGTTGCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (18 bp):
TCTTTTTCTTTTCTTCTT
Found at i:1315832 original size:23 final size:23
Alignment explanation
Indices: 1315789--1315833 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
1315779 TGTAGGAGTC
*
1315789 TTTTTCTTTTCTTCTTTCTTTTT
1 TTTTTCTTTTCTTCTTGCTTTTT
*
1315812 TTTTTCTCTTT-TTGTTGCTTTT
1 TTTTTCT-TTTCTTCTTGCTTTT
1315834 GTTGCAGCAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.00, C:0.16, G:0.04, T:0.80
Consensus pattern (23 bp):
TTTTTCTTTTCTTCTTGCTTTTT
Found at i:1317698 original size:20 final size:19
Alignment explanation
Indices: 1317662--1317700 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
1317652 AGAAAAGATG
**
1317662 TGAAAACATATGTTATGCA
1 TGAAAACATATAATATGCA
1317681 TGAAAATCATATAATATGCA
1 TGAAAA-CATATAATATGCA
1317701 AGTAAGTGAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.31
Consensus pattern (19 bp):
TGAAAACATATAATATGCA
Found at i:1318577 original size:22 final size:23
Alignment explanation
Indices: 1318538--1318581 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 23
1318528 TTTTTAATCT
1318538 TTTTGAGTGCTTTCAATTTCTTC
1 TTTTGAGTGCTTTCAATTTCTTC
1318561 TTTTGAGTGC-TTCAATTTCTT
1 TTTTGAGTGCTTTCAATTTCTT
1318582 TGCTAGAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 11 0.52
23 10 0.48
ACGTcount: A:0.14, C:0.16, G:0.14, T:0.57
Consensus pattern (23 bp):
TTTTGAGTGCTTTCAATTTCTTC
Found at i:1320548 original size:27 final size:25
Alignment explanation
Indices: 1320513--1320567 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 25
1320503 GGAAAAATAA
1320513 ATAAGAAATGGAAAAAGAAAGGAAATG
1 ATAAGAAAT-GAAAAAGAAA-GAAATG
*
1320540 ATAAGAAATGAAATAGAAAGAAATG
1 ATAAGAAATGAAAAAGAAAGAAATG
1320565 ATA
1 ATA
1320568 TGGATAAAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
25 9 0.33
26 9 0.33
27 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.22, T:0.15
Consensus pattern (25 bp):
ATAAGAAATGAAAAAGAAAGAAATG
Found at i:1320582 original size:40 final size:40
Alignment explanation
Indices: 1320535--1320619 Score: 143
Period size: 40 Copynumber: 2.1 Consensus size: 40
1320525 AAAAGAAAGG
1320535 AAATGATAAGAAATGAAATAGAAAGAAATGATATGGATAA
1 AAATGATAAGAAATGAAATAGAAAGAAATGATATGGATAA
* * *
1320575 AAATGATAAGAAATGAAATGGAAAGAAATTATATGGATAG
1 AAATGATAAGAAATGAAATAGAAAGAAATGATATGGATAA
1320615 AAATG
1 AAATG
1320620 TTATCAAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.58, C:0.00, G:0.21, T:0.21
Consensus pattern (40 bp):
AAATGATAAGAAATGAAATAGAAAGAAATGATATGGATAA
Found at i:1320603 original size:25 final size:25
Alignment explanation
Indices: 1320523--1320603 Score: 71
Period size: 25 Copynumber: 3.2 Consensus size: 25
1320513 ATAAGAAATG
*
1320523 GAAAAAGAAAGGAAATGATAA--GAAA
1 GAAATAGAAA-GAAATGA-AATGGAAA
*
1320548 TGAAATAGAAAGAAATGATATGGATAA
1 -GAAATAGAAAGAAATGAAATGGA-AA
1320575 -AAAT-GATAAGAAATGAAATGGAAA
1 GAAATAGA-AAGAAATGAAATGGAAA
1320599 GAAAT
1 GAAAT
1320604 TATATGGATA
Statistics
Matches: 47, Mismatches: 3, Indels: 11
0.77 0.05 0.18
Matches are distributed among these distances:
24 5 0.11
25 29 0.62
26 11 0.23
27 2 0.04
ACGTcount: A:0.62, C:0.00, G:0.22, T:0.16
Consensus pattern (25 bp):
GAAATAGAAAGAAATGAAATGGAAA
Found at i:1320610 original size:15 final size:15
Alignment explanation
Indices: 1320526--1320619 Score: 67
Period size: 15 Copynumber: 6.6 Consensus size: 15
1320516 AGAAATGGAA
*
1320526 AAAGAAAGGAAAT-G
1 AAAGAAATGAAATGG
*
1320540 ATAAGAAATGAAATAG
1 A-AAGAAATGAAATGG
*
1320556 AAAGAAATGATATGG
1 AAAGAAATGAAATGG
1320571 ATAA-AAATG--AT--
1 A-AAGAAATGAAATGG
1320582 -AAGAAATGAAATGG
1 AAAGAAATGAAATGG
* *
1320596 AAAGAAATTATATGG
1 AAAGAAATGAAATGG
*
1320611 ATAGAAATG
1 AAAGAAATG
1320620 TTATCAAAGA
Statistics
Matches: 64, Mismatches: 7, Indels: 17
0.73 0.08 0.19
Matches are distributed among these distances:
9 2 0.03
10 5 0.08
12 2 0.03
13 2 0.03
14 1 0.02
15 48 0.75
16 4 0.06
ACGTcount: A:0.59, C:0.00, G:0.22, T:0.19
Consensus pattern (15 bp):
AAAGAAATGAAATGG
Found at i:1322701 original size:20 final size:20
Alignment explanation
Indices: 1322672--1322726 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
1322662 AATTGGAGTG
*
1322672 AAAA-AAGAAATA-AAATTAC
1 AAAAGAAGAAA-AGAAATCAC
*
1322691 AAAAGAAGAAAAGAAATCAG
1 AAAAGAAGAAAAGAAATCAC
1322711 AAAAGAAGAAAAGAAA
1 AAAAGAAGAAAAGAAA
1322727 AGAAAAAGAG
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
19 5 0.16
20 27 0.84
ACGTcount: A:0.75, C:0.04, G:0.15, T:0.07
Consensus pattern (20 bp):
AAAAGAAGAAAAGAAATCAC
Found at i:1333333 original size:10 final size:9
Alignment explanation
Indices: 1333306--1333356 Score: 52
Period size: 9 Copynumber: 5.8 Consensus size: 9
1333296 CTATTTTTTT
*
1333306 CAAAAAAAGG
1 CAAAAAAA-A
*
1333316 CAAAAAAAG
1 CAAAAAAAA
1333325 CAAAAAAAA
1 CAAAAAAAA
*
1333334 -AAAAACAA
1 CAAAAAAAA
1333342 -AAAAAAAA
1 CAAAAAAAA
1333350 CAAAAAA
1 CAAAAAA
1333357 GCCAAAATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
8 14 0.38
9 15 0.41
10 8 0.22
ACGTcount: A:0.84, C:0.10, G:0.06, T:0.00
Consensus pattern (9 bp):
CAAAAAAAA
Found at i:1333334 original size:11 final size:11
Alignment explanation
Indices: 1333316--1333356 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
1333306 CAAAAAAAGG
1333316 CAAAAAAAGCAAA
1 CAAAAAAA--AAA
1333329 -AAAAAAAAAA
1 CAAAAAAAAAA
1333339 CAAAAAAAAAA
1 CAAAAAAAAAA
1333350 CAAAAAA
1 CAAAAAA
1333357 GCCAAAATTT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 3 0.11
11 17 0.63
12 7 0.26
ACGTcount: A:0.88, C:0.10, G:0.02, T:0.00
Consensus pattern (11 bp):
CAAAAAAAAAA
Found at i:1333337 original size:15 final size:14
Alignment explanation
Indices: 1333317--1333349 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
1333307 AAAAAAAGGC
*
1333317 AAAAAAAGCAAAAA
1 AAAAAAAACAAAAA
1333331 AAAAAAAACAAAAA
1 AAAAAAAACAAAAA
1333345 AAAAA
1 AAAAA
1333350 CAAAAAAGCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.91, C:0.06, G:0.03, T:0.00
Consensus pattern (14 bp):
AAAAAAAACAAAAA
Found at i:1334973 original size:15 final size:15
Alignment explanation
Indices: 1334953--1334988 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1334943 ATTATTAGCT
*
1334953 TTATAATATATGTTA
1 TTATAATATATATTA
1334968 TTATAATATATATTA
1 TTATAATATATATTA
*
1334983 TGATAA
1 TTATAA
1334989 GAATATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAATATATATTA
Found at i:1339249 original size:15 final size:15
Alignment explanation
Indices: 1339229--1339264 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
1339219 ATTATTAGCT
*
1339229 TTATAATATATGTTA
1 TTATAATATATATTA
1339244 TTATAATATATATTA
1 TTATAATATATATTA
*
1339259 TGATAA
1 TTATAA
1339265 GAATATTAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.44, C:0.00, G:0.06, T:0.50
Consensus pattern (15 bp):
TTATAATATATATTA
Found at i:1341135 original size:451 final size:451
Alignment explanation
Indices: 1340293--1341196 Score: 1799
Period size: 451 Copynumber: 2.0 Consensus size: 451
1340283 CATTTGTAAA
1340293 CAGACCTTTTTATTCAATTAAAGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTTTATCGAC
1 CAGACCTTTTTATTCAATTAAAGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTTTATCGAC
1340358 TTATCAAGTATTTTATACTTGTGGCGTCAACCCCTTCCTTACATCTTGATACTTCTGGTTCCTAG
66 TTATCAAGTATTTTATACTTGTGGCGTCAACCCCTTCCTTACATCTTGATACTTCTGGTTCCTAG
1340423 TTCATATAACTAGTGGGTCAAAGTACTTAATACCACCCCTTGAAGAAGCAATATAAAGATTGGGT
131 TTCATATAACTAGTGGGTCAAAGTACTTAATACCACCCCTTGAAGAAGCAATATAAAGATTGGGT
1340488 CTCTGCTCTCTATAGCATTGGTTCTTCTTTGAGATTTCTTCAAGATACTATCCTCACAACCATCC
196 CTCTGCTCTCTATAGCATTGGTTCTTCTTTGAGATTTCTTCAAGATACTATCCTCACAACCATCC
1340553 CTTTATTTCATCTCCATAACCATAGCCTTATCAACTATCTTCCGCTTCCATTACTCATTATTTAA
261 CTTTATTTCATCTCCATAACCATAGCCTTATCAACTATCTTCCGCTTCCATTACTCATTATTTAA
1340618 ATAGCCTACCATTTCACCCCTACGTCTACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTG
326 ATAGCCTACCATTTCACCCCTACGTCTACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTG
*
1340683 CAGGTTGTTTTTCTTCCTTCCTAGATCCACAATCATTTGAAAAGGTACAAGTACCTTACAT
391 CAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCATTTGAAAAGGTACAAGTACCTTACAT
1340744 CAGACCTTTTTATTCAATTAAAGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTTTATCGAC
1 CAGACCTTTTTATTCAATTAAAGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTTTATCGAC
1340809 TTATCAAGTATTTTATACTTGTGGCGTCAACCCCTTCCTTACATCTTGATACTTCTGGTTCCTAG
66 TTATCAAGTATTTTATACTTGTGGCGTCAACCCCTTCCTTACATCTTGATACTTCTGGTTCCTAG
1340874 TTCATATAACTAGTGGGTCAAAGTACTTAATACCACCCCTTGAAGAAGCAATATAAAGATTGGGT
131 TTCATATAACTAGTGGGTCAAAGTACTTAATACCACCCCTTGAAGAAGCAATATAAAGATTGGGT
1340939 CTCTGCTCTCTATAGCATTGGTTCTTCTTTGAGATTTCTTCAAGATACTATCCTCACAACCATCC
196 CTCTGCTCTCTATAGCATTGGTTCTTCTTTGAGATTTCTTCAAGATACTATCCTCACAACCATCC
1341004 CTTTATTTCATCTCCATAACCATAGCCTTATCAACTATCTTCCGCTTCCATTACTCATTATTTAA
261 CTTTATTTCATCTCCATAACCATAGCCTTATCAACTATCTTCCGCTTCCATTACTCATTATTTAA
1341069 ATAGCCTACCATTTCACCCCTACGTCTACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTG
326 ATAGCCTACCATTTCACCCCTACGTCTACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTG
1341134 CAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCATTTGAAAAGGTACAAGTACCTTACAT
391 CAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCATTTGAAAAGGTACAAGTACCTTACAT
1341195 CA
1 CA
1341197 ACATCACTGA
Statistics
Matches: 452, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
451 452 1.00
ACGTcount: A:0.26, C:0.25, G:0.12, T:0.37
Consensus pattern (451 bp):
CAGACCTTTTTATTCAATTAAAGTGAGATTATTCTCTTCTTAAGTCCTGGTGACTTTTTATCGAC
TTATCAAGTATTTTATACTTGTGGCGTCAACCCCTTCCTTACATCTTGATACTTCTGGTTCCTAG
TTCATATAACTAGTGGGTCAAAGTACTTAATACCACCCCTTGAAGAAGCAATATAAAGATTGGGT
CTCTGCTCTCTATAGCATTGGTTCTTCTTTGAGATTTCTTCAAGATACTATCCTCACAACCATCC
CTTTATTTCATCTCCATAACCATAGCCTTATCAACTATCTTCCGCTTCCATTACTCATTATTTAA
ATAGCCTACCATTTCACCCCTACGTCTACCACCCTTAACCATTCTATTTTGAGCCATTCACTTTG
CAGGTTGTTTTGCTTCCTTCCTAGATCCACAATCATTTGAAAAGGTACAAGTACCTTACAT
Found at i:1346034 original size:47 final size:47
Alignment explanation
Indices: 1345965--1346069 Score: 192
Period size: 47 Copynumber: 2.2 Consensus size: 47
1345955 TTCTATCACT
1345965 ATCATTTCTTTCCATTTTCATTTCCATTCTTAATTATCAATCCCTTA
1 ATCATTTCTTTCCATTTTCATTTCCATTCTTAATTATCAATCCCTTA
**
1346012 ATCATTTCTTTCCATTTTCATTTTTATTCTTAATTATCAATCCCTTA
1 ATCATTTCTTTCCATTTTCATTTCCATTCTTAATTATCAATCCCTTA
1346059 ATCATTTCTTT
1 ATCATTTCTTT
1346070 ATTTAATTGT
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.54
Consensus pattern (47 bp):
ATCATTTCTTTCCATTTTCATTTCCATTCTTAATTATCAATCCCTTA
Found at i:1351945 original size:24 final size:25
Alignment explanation
Indices: 1351899--1351953 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
1351889 ACAGTTATGC
*
1351899 CACTTGAAGTTCAAAAAGATGTG-T
1 CACTTGAAGTGCAAAAAGATGTGAT
* * *
1351923 CACTTGAAGTGCCACAAGTTGTGAT
1 CACTTGAAGTGCAAAAAGATGTGAT
1351948 CA-TTGA
1 CACTTGA
1351954 GGCTCCAAGT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (25 bp):
CACTTGAAGTGCAAAAAGATGTGAT
Found at i:1353479 original size:33 final size:33
Alignment explanation
Indices: 1353437--1353505 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1353427 GTTGATGAAT
*
1353437 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1353470 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1353503 GAA
1 GAA
1353506 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1357411 original size:33 final size:33
Alignment explanation
Indices: 1357369--1357437 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1357359 GTTGATGAAT
*
1357369 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1357402 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1357435 GAA
1 GAA
1357438 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1364706 original size:36 final size:36
Alignment explanation
Indices: 1364633--1364738 Score: 153
Period size: 36 Copynumber: 3.0 Consensus size: 36
1364623 ATTTATAAGT
* * *
1364633 TGGTGATAATATAAGCGTGAT-ATGATGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
1364668 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
*
1364704 TGGTTATGATATAGGCGTGATAATGGTGAT-GAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
1364739 GATTGTATCT
Statistics
Matches: 64, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
35 23 0.36
36 41 0.64
ACGTcount: A:0.32, C:0.04, G:0.32, T:0.32
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGAATA
Found at i:1370430 original size:36 final size:36
Alignment explanation
Indices: 1370357--1370461 Score: 176
Period size: 36 Copynumber: 2.9 Consensus size: 36
1370347 ATTTATAAGT
* * *
1370357 TGGTGATAATATAGGCGTGAT-ATGATGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1370392 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
1370428 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1370462 AGATTGTATC
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
35 20 0.30
36 46 0.70
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:1378332 original size:21 final size:21
Alignment explanation
Indices: 1378308--1378348 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1378298 GACATATCCA
1378308 TTCA-TTAAAACATCATGTATT
1 TTCATTTAAAA-ATCATGTATT
1378329 TTCATTTAAAAATCATGTAT
1 TTCATTTAAAAATCATGTAT
1378349 CTAGCCGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.39, C:0.12, G:0.05, T:0.44
Consensus pattern (21 bp):
TTCATTTAAAAATCATGTATT
Found at i:1381745 original size:219 final size:219
Alignment explanation
Indices: 1381366--1381762 Score: 742
Period size: 219 Copynumber: 1.8 Consensus size: 219
1381356 AAAACATAAT
1381366 AACATAATAACATCCATCAAAGTATGGCAAACTTATTGTAAACTTACTAATAAACTGAAAATACC
1 AACATAATAACATCCATCAAAGTATGGCAAACTTATTGTAAACTTACTAATAAACTGAAAATACC
*
1381431 ATGCAAACACACTTACAAGCTATAAAACCTATTAAAAGCATAAAGTAATATATATAATGCACACA
66 ATGCAAACACACTTACAAGCTATAAAACCTATTAAAAGCATAAAGTAATATATATAATACACACA
1381496 CTTATATATCTAATGAAACTAATGCAAATGCATATAATTACTTAGTATGGCAAACTTAAGTTGCT
131 CTTATATATCTAATGAAACTAATGCAAATGCATATAATTACTTAGTATGGCAAACTTAAGTTGCT
1381561 GCCCTTTATTGTTCCTATATGAAA
196 GCCCTTTATTGTTCCTATATGAAA
*
1381585 AACATAATAACATCCATCAAAGTATGGCACACTTATTGTAAACTTACTAATAAACTGAAAATACC
1 AACATAATAACATCCATCAAAGTATGGCAAACTTATTGTAAACTTACTAATAAACTGAAAATACC
* *
1381650 ATGCAAACACACTTATGAA-CTATAAAACTTATTAAAAGCATAAAGTAATATATATAATACACAC
66 ATGCAAACACACTTA-CAAGCTATAAAACCTATTAAAAGCATAAAGTAATATATATAATACACAC
1381714 ACTTATATATCTAATGAAACTAATGCAAATGCATATAATTACTTAGTAT
130 ACTTATATATCTAATGAAACTAATGCAAATGCATATAATTACTTAGTAT
1381763 AACTAAGGTG
Statistics
Matches: 173, Mismatches: 4, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
219 171 0.99
220 2 0.01
ACGTcount: A:0.45, C:0.17, G:0.09, T:0.29
Consensus pattern (219 bp):
AACATAATAACATCCATCAAAGTATGGCAAACTTATTGTAAACTTACTAATAAACTGAAAATACC
ATGCAAACACACTTACAAGCTATAAAACCTATTAAAAGCATAAAGTAATATATATAATACACACA
CTTATATATCTAATGAAACTAATGCAAATGCATATAATTACTTAGTATGGCAAACTTAAGTTGCT
GCCCTTTATTGTTCCTATATGAAA
Found at i:1383645 original size:24 final size:24
Alignment explanation
Indices: 1383587--1383645 Score: 57
Period size: 24 Copynumber: 2.5 Consensus size: 24
1383577 CATTCATGAT
* *
1383587 CCAATGAACATGCCTATTGGAGAG
1 CCAAGGAACATGACTATTGGAGAG
* * *
1383611 CCATGGCACATGACT-TTTGAGATG
1 CCAAGGAACATGACTATTGGAGA-G
1383635 CCAAGGAACAT
1 CCAAGGAACAT
1383646 AATCGTTCAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
23 6 0.22
24 21 0.78
ACGTcount: A:0.32, C:0.22, G:0.24, T:0.22
Consensus pattern (24 bp):
CCAAGGAACATGACTATTGGAGAG
Found at i:1384824 original size:18 final size:18
Alignment explanation
Indices: 1384783--1384822 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
1384773 GGCATGACCT
*
1384783 GAAAAGGCACCAATTCGC
1 GAAAAGGCACCAATTCGA
*
1384801 GAAAAGGCA-CAATTTGA
1 GAAAAGGCACCAATTCGA
1384818 GAAAA
1 GAAAA
1384823 AGTAACCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.47, C:0.17, G:0.23, T:0.12
Consensus pattern (18 bp):
GAAAAGGCACCAATTCGA
Found at i:1384925 original size:34 final size:34
Alignment explanation
Indices: 1384878--1384952 Score: 132
Period size: 34 Copynumber: 2.2 Consensus size: 34
1384868 TAACATGTGA
1384878 TATGATAACTTATACTAACATGTGAATGCATGCT
1 TATGATAACTTATACTAACATGTGAATGCATGCT
* *
1384912 TATGATAATTTATACTAACATGTGAATGCATGTT
1 TATGATAACTTATACTAACATGTGAATGCATGCT
1384946 TATGATA
1 TATGATA
1384953 GAATAGAATG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.36, C:0.11, G:0.15, T:0.39
Consensus pattern (34 bp):
TATGATAACTTATACTAACATGTGAATGCATGCT
Found at i:1398709 original size:19 final size:20
Alignment explanation
Indices: 1398685--1398724 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1398675 TATCCTTTCT
1398685 TTATTTCATTTCATT-CTTA
1 TTATTTCATTTCATTACTTA
*
1398704 TTATTTCTTTTCATTACTTA
1 TTATTTCATTTCATTACTTA
1398724 T
1 T
1398725 ATTATTATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 14 0.74
20 5 0.26
ACGTcount: A:0.20, C:0.15, G:0.00, T:0.65
Consensus pattern (20 bp):
TTATTTCATTTCATTACTTA
Found at i:1399026 original size:16 final size:16
Alignment explanation
Indices: 1399007--1399037 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1398997 AAAGAAGAGA
*
1399007 AAAATCAGAAAAGAAG
1 AAAATAAGAAAAGAAG
1399023 AAAATAAGAAAAGAA
1 AAAATAAGAAAAGAA
1399038 AAGAAAAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.03, G:0.16, T:0.06
Consensus pattern (16 bp):
AAAATAAGAAAAGAAG
Done.