Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_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: 4020056
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 21
Found at i:1908456 original size:64 final size:63
Alignment explanation
Indices: 1908298--1908483 Score: 189
Period size: 64 Copynumber: 2.9 Consensus size: 63
1908288 TTTTGGAAAA
* *
1908298 TTATATAATATATAGTTTTTTTAAAACATTTTTG-AAATCATATATTATATAGTTTTGAAAATAT
1 TTATATAATATATAG--TTTTTAAAACATTTTTGAAAATTATATATTATATAGTTTTGAAAACAT
* * * * * *
1908362 TTTTAAAATATATA-TAATATATATA-GTTTTTGAAAACTTATATATTATATAGTTTTGAAAACA
1 TTATATAATATATAGT-TTTTA-AAACATTTTTGAAAA-TTATATATTATATAGTTTTGAAAACA
1908425 T
63 T
* *
1908426 TTATATATTATATAGTTTTTAAAACATTTTTTAAAATTTATATATAATATATAGTTTT
1 TTATATAATATATAGTTTTTAAAACATTTTTGAAAA-TTATATAT--TATATAGTTTT
1908484 TTAAAAAAGC
Statistics
Matches: 97, Mismatches: 17, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
61 1 0.01
62 9 0.09
63 7 0.07
64 68 0.70
65 1 0.01
66 11 0.11
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (63 bp):
TTATATAATATATAGTTTTTAAAACATTTTTGAAAATTATATATTATATAGTTTTGAAAACAT
Found at i:1908467 original size:37 final size:37
Alignment explanation
Indices: 1908424--1908521 Score: 114
Period size: 37 Copynumber: 2.6 Consensus size: 37
1908414 TTTTGAAAAC
1908424 ATTTATATATTATATAGTTTTT-AAAA-CATTTTTTAAA
1 ATTTATATATTATATAGTTTTTAAAAAGCA-TTTTT-AA
1908461 ATTTATATATAATATATAGTTTTTTAAAAAAGCATTTTTAA
1 ATTTATATAT--TATATAG-TTTTT-AAAAAGCATTTTTAA
1908502 A-TT-TATATTATATAGTTTTT
1 ATTTATATATTATATAGTTTTT
1908522 TTTAAAAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 13
0.81 0.00 0.19
Matches are distributed among these distances:
36 5 0.09
37 17 0.31
39 12 0.22
40 7 0.13
41 3 0.05
42 9 0.16
43 2 0.04
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (37 bp):
ATTTATATATTATATAGTTTTTAAAAAGCATTTTTAA
Found at i:1908509 original size:39 final size:37
Alignment explanation
Indices: 1908424--1908522 Score: 107
Period size: 39 Copynumber: 2.6 Consensus size: 37
1908414 TTTTGAAAAC
1908424 ATTTATATATTATATAG-TTTTTAAAACATTTTTTAAA
1 ATTTATATA-TATATAGTTTTTTAAAACATTTTTTAAA
1908461 ATTTATATATAATATATAGTTTTTTAAAAAAGCA-TTTTT-AA
1 A-TT-TATAT-ATATATAGTTTTTT--AAAA-CATTTTTTAAA
1908502 ATTTATAT-TATATAGTTTTTT
1 ATTTATATATATATAGTTTTTT
1908523 TTAAAAATAA
Statistics
Matches: 55, Mismatches: 0, Indels: 14
0.80 0.00 0.20
Matches are distributed among these distances:
37 14 0.25
38 2 0.04
39 17 0.31
40 8 0.15
41 3 0.05
42 9 0.16
43 2 0.04
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (37 bp):
ATTTATATATATATAGTTTTTTAAAACATTTTTTAAA
Found at i:1908538 original size:39 final size:37
Alignment explanation
Indices: 1908468--1908546 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 37
1908458 AAAATTTATA
*
1908468 TATAATATATAGTTTTTTAAAAAAGCATTTTTAAATT
1 TATAATATATAGTTTTTTAAAAAAGAATTTTTAAATT
* * * *
1908505 TATATTATATAGTTTTTTTTAAAAATAATTTTTTATATT
1 TATAATATATAG-TTTTTTAAAAAAGAA-TTTTTAAATT
1908544 TAT
1 TAT
1908547 TTTTATTATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
37 11 0.31
38 12 0.34
39 12 0.34
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (37 bp):
TATAATATATAGTTTTTTAAAAAAGAATTTTTAAATT
Found at i:1909064 original size:19 final size:20
Alignment explanation
Indices: 1909026--1909064 Score: 53
Period size: 19 Copynumber: 2.0 Consensus size: 20
1909016 AACAAACAGT
*
1909026 AAACCATCAACAACAGACAA
1 AAACCATCAACAAAAGACAA
*
1909046 AAACCATC-ACAAAATACAA
1 AAACCATCAACAAAAGACAA
1909065 GCCAAACAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.62, C:0.28, G:0.03, T:0.08
Consensus pattern (20 bp):
AAACCATCAACAAAAGACAA
Found at i:1909941 original size:2 final size:2
Alignment explanation
Indices: 1909934--1909964 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1909924 TCTATTTTAT
1909934 TA TA TA 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 TA TA TA T
1909965 TATTTTTACC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1910087 original size:26 final size:26
Alignment explanation
Indices: 1910053--1910113 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
1910043 TATTTTATTT
1910053 TTTATTCTTTTTTCTTTCTTTCA-TTAC
1 TTTA-TCTTTTTTCTTT-TTTCAGTTAC
* * *
1910080 TTTATCTTTTTTGTTTTTTTAGTTTC
1 TTTATCTTTTTTCTTTTTTCAGTTAC
1910106 TTTATCTT
1 TTTATCTT
1910114 AATCTTCTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
25 4 0.13
26 22 0.73
27 4 0.13
ACGTcount: A:0.10, C:0.13, G:0.03, T:0.74
Consensus pattern (26 bp):
TTTATCTTTTTTCTTTTTTCAGTTAC
Found at i:1910578 original size:24 final size:24
Alignment explanation
Indices: 1910544--1910594 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
1910534 CATTTATTGT
* * *
1910544 GTTCGTTTATGTTTGTTTACGTTC
1 GTTCGTCTATGTTCGTTTACATTC
1910568 GTTCGTCTATGTTCGTTTACATTC
1 GTTCGTCTATGTTCGTTTACATTC
1910592 GTT
1 GTT
1910595 TATTGTGTTC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.10, C:0.16, G:0.20, T:0.55
Consensus pattern (24 bp):
GTTCGTCTATGTTCGTTTACATTC
Found at i:1914772 original size:51 final size:50
Alignment explanation
Indices: 1914696--1914808 Score: 156
Period size: 51 Copynumber: 2.2 Consensus size: 50
1914686 ATAGCAGTAA
* * *
1914696 AGCGCGCCCCCT-GCACCGCGCTATACGCTGATTTGGCGCCACGTGGAGTAT
1 AGCGCGCCCCCTACCA-CGCGATATACGCTGATTTGGCGCCACGTAG-GTAT
* *
1914747 AGCGCGCGCCCTACCACGCGATATACGGTGATTTGGCGCCACGTAGGTAT
1 AGCGCGCCCCCTACCACGCGATATACGCTGATTTGGCGCCACGTAGGTAT
1914797 AGCGCGCCCCCT
1 AGCGCGCCCCCT
1914809 GATCCGCACT
Statistics
Matches: 55, Mismatches: 6, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
50 15 0.27
51 38 0.69
52 2 0.04
ACGTcount: A:0.17, C:0.35, G:0.29, T:0.19
Consensus pattern (50 bp):
AGCGCGCCCCCTACCACGCGATATACGCTGATTTGGCGCCACGTAGGTAT
Found at i:1915054 original size:17 final size:18
Alignment explanation
Indices: 1915017--1915055 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
1915007 ATATTATGTA
1915017 TTTAATTTATTTAAGTAT
1 TTTAATTTATTTAAGTAT
*
1915035 TTTACTTTATTTAA-TAT
1 TTTAATTTATTTAAGTAT
1915052 TTTA
1 TTTA
1915056 GTAATATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (18 bp):
TTTAATTTATTTAAGTAT
Found at i:1916030 original size:12 final size:12
Alignment explanation
Indices: 1916013--1916043 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1916003 TTCCAACATG
*
1916013 AATCTTCCTCGA
1 AATCTTCATCGA
1916025 AATCTTCATCGA
1 AATCTTCATCGA
1916037 AATCTTC
1 AATCTTC
1916044 GTTATCAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.06, T:0.35
Consensus pattern (12 bp):
AATCTTCATCGA
Found at i:1920611 original size:26 final size:27
Alignment explanation
Indices: 1920561--1920618 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
1920551 TCTAAAGAAC
1920561 AATG-TTAAAATATTACATTTAATTTT
1 AATGTTTAAAATATTACATTTAATTTT
*
1920587 AATGTTTATAAATTTTA-ATTT-ATTTT
1 AATGTTTA-AAATATTACATTTAATTTT
*
1920613 ATTGTT
1 AATGTT
1920619 CAAATTTATG
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
26 14 0.50
27 7 0.25
28 7 0.25
ACGTcount: A:0.36, C:0.02, G:0.05, T:0.57
Consensus pattern (27 bp):
AATGTTTAAAATATTACATTTAATTTT
Found at i:1921966 original size:2 final size:2
Alignment explanation
Indices: 1921959--1921994 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
1921949 ATTTAAATTA
1921959 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
1921995 TGTTCTTTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1922349 original size:21 final size:21
Alignment explanation
Indices: 1922325--1922364 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1922315 CCTTTCTTAA
*
1922325 GTATTATTATTCAACTTTTGG
1 GTATTATTATGCAACTTTTGG
*
1922346 GTATTATTATGGAACTTTT
1 GTATTATTATGCAACTTTT
1922365 TTAGTCTTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.07, G:0.15, T:0.53
Consensus pattern (21 bp):
GTATTATTATGCAACTTTTGG
Found at i:1922958 original size:25 final size:26
Alignment explanation
Indices: 1922925--1922974 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
1922915 CTGATTTTTT
*
1922925 AAATATTTTCAAATTATAATCATATA
1 AAATATTTTAAAATTATAATCATATA
* *
1922951 AAAT-TTTTAAAATTTTAATTATAT
1 AAATATTTTAAAATTATAATCATAT
1922975 TATTTTTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (26 bp):
AAATATTTTAAAATTATAATCATATA
Found at i:1923018 original size:26 final size:27
Alignment explanation
Indices: 1922961--1923012 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 27
1922951 AAATTTTTAA
* *
1922961 AATTTTAATTATATTATTTTTAAATAT
1 AATTTTAATGATATTATTTTTAAAAAT
*
1922988 AATTTTAATGAT-TTTTTTTTAAAAA
1 AATTTTAATGATATTATTTTTAAAAA
1923013 ATATTTCACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 11 0.50
27 11 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
AATTTTAATGATATTATTTTTAAAAAT
Found at i:1924761 original size:17 final size:17
Alignment explanation
Indices: 1924727--1924780 Score: 58
Period size: 17 Copynumber: 3.3 Consensus size: 17
1924717 ACCGGATAAA
* *
1924727 TTTATTATTTTAGAGAG
1 TTTATTAATTTAAAGAG
**
1924744 TTTATTAATTTACCGAG
1 TTTATTAATTTAAAGAG
1924761 --TATTAATTTAAAGAG
1 TTTATTAATTTAAAGAG
1924776 TTTAT
1 TTTAT
1924781 ACTGTATATC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 13 0.43
17 17 0.57
ACGTcount: A:0.33, C:0.04, G:0.13, T:0.50
Consensus pattern (17 bp):
TTTATTAATTTAAAGAG
Found at i:1936335 original size:30 final size:32
Alignment explanation
Indices: 1936273--1936342 Score: 83
Period size: 30 Copynumber: 2.2 Consensus size: 32
1936263 TTATTTTAAT
* *
1936273 AAAAAAATATTTACATAAATATATTAATATAA
1 AAAAAAATATTTACATAAATATACTAACATAA
1936305 AAAAATAATATTTA-A-AAA-ATACTAACATAA
1 AAAAA-AATATTTACATAAATATACTAACATAA
*
1936335 AAATAAAT
1 AAAAAAAT
1936343 TTCTTACCAC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
29 3 0.09
30 14 0.41
31 3 0.09
32 6 0.18
33 8 0.24
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (32 bp):
AAAAAAATATTTACATAAATATACTAACATAA
Found at i:1937670 original size:21 final size:19
Alignment explanation
Indices: 1937642--1937726 Score: 66
Period size: 19 Copynumber: 4.3 Consensus size: 19
1937632 TAGAGATGGA
1937642 AAAT-TATAAATTTACATAAT
1 AAATATATAAATTTA-A-AAT
*
1937662 AAATATATATATTTAAAAT
1 AAATATATAAATTTAAAAT
*
1937681 AAA-ATCATAAATATAAAAT
1 AAATAT-ATAAATTTAAAAT
* *
1937700 AAATTTAAAATTATTTAAAAT
1 AAATATATAA--ATTTAAAAT
*
1937721 GAATAT
1 AAATAT
1937727 CTTCAAATGA
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
18 2 0.04
19 23 0.44
20 6 0.12
21 21 0.40
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (19 bp):
AAATATATAAATTTAAAAT
Found at i:1937951 original size:2 final size:2
Alignment explanation
Indices: 1937944--1938019 Score: 138
Period size: 2 Copynumber: 39.0 Consensus size: 2
1937934 TTTTAAAACA
1937944 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
1937986 -T AT AT A- 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
1938020 TGGAATAATT
Statistics
Matches: 72, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
1 2 0.03
2 70 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1938770 original size:23 final size:23
Alignment explanation
Indices: 1938728--1938771 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
1938718 TAAATATAAT
* *
1938728 TATTTTTGTGACACATTTTTCTC
1 TATTTTTGTGACAAAATTTTCTC
1938751 TATTTTTGTGACAAAATTTTC
1 TATTTTTGTGACAAAATTTTC
1938772 ATTTTATTTC
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:0.23, C:0.14, G:0.09, T:0.55
Consensus pattern (23 bp):
TATTTTTGTGACAAAATTTTCTC
Found at i:1939162 original size:8 final size:8
Alignment explanation
Indices: 1939149--1939293 Score: 53
Period size: 8 Copynumber: 17.4 Consensus size: 8
1939139 GTCAGATTGT
1939149 AAAATAAA
1 AAAATAAA
*
1939157 AAAATAAT
1 AAAATAAA
* *
1939165 AATAGAAA
1 AAAATAAA
*
1939173 AAAATAATT
1 AAAATAA-A
*
1939182 AATATAATA
1 AAAATAA-A
*
1939191 ATAATAAA
1 AAAATAAA
1939199 ACAAATAAA
1 A-AAATAAA
**
1939208 ATGGATAAA
1 A-AAATAAA
*
1939217 TAGAGAT-AA
1 -A-AAATAAA
1939226 AAAAT-AA
1 AAAATAAA
1939233 AAAATAAA
1 AAAATAAA
* *
1939241 AATAT-TA
1 AAAATAAA
1939248 AAAATAAA
1 AAAATAAA
*
1939256 TAAATAAA
1 AAAATAAA
** *
1939264 TGAAGAAA
1 AAAATAAA
1939272 AAAACTAAAA
1 AAAA-T-AAA
1939282 TAAAATAAA
1 -AAAATAAA
1939291 AAA
1 AAA
1939294 GGGGAGAATG
Statistics
Matches: 101, Mismatches: 28, Indels: 16
0.70 0.19 0.11
Matches are distributed among these distances:
7 15 0.15
8 45 0.45
9 29 0.29
10 8 0.08
11 4 0.04
ACGTcount: A:0.74, C:0.01, G:0.05, T:0.20
Consensus pattern (8 bp):
AAAATAAA
Found at i:1939178 original size:13 final size:14
Alignment explanation
Indices: 1939151--1939206 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
1939141 CAGATTGTAA
1939151 AATAAAAAAATAAT
1 AATAAAAAAATAAT
*
1939165 AATAGAAAAA-AAT
1 AATAAAAAAATAAT
* *
1939178 AATTAATATAATAAT
1 AA-TAAAAAAATAAT
1939193 AATAAAACAAATAA
1 AATAAAA-AAATAA
1939207 AATGGATAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
13 5 0.15
14 18 0.55
15 10 0.30
ACGTcount: A:0.73, C:0.02, G:0.02, T:0.23
Consensus pattern (14 bp):
AATAAAAAAATAAT
Found at i:1939234 original size:7 final size:7
Alignment explanation
Indices: 1939222--1939263 Score: 57
Period size: 7 Copynumber: 5.7 Consensus size: 7
1939212 ATAAATAGAG
1939222 ATAAAAA
1 ATAAAAA
1939229 ATAAAAA
1 ATAAAAA
1939236 ATAAAAA
1 ATAAAAA
*
1939243 TATTAAAA
1 -ATAAAAA
1939251 ATAAATAA
1 ATAAA-AA
1939259 ATAAA
1 ATAAA
1939264 TGAAGAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
7 18 0.58
8 13 0.42
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (7 bp):
ATAAAAA
Found at i:1939250 original size:15 final size:14
Alignment explanation
Indices: 1939222--1939263 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
1939212 ATAAATAGAG
1939222 ATAAAAAATAAAAA
1 ATAAAAAATAAAAA
*
1939236 ATAAAAATATTAAAA
1 ATAAAAA-ATAAAAA
1939251 ATAAATAAATAAA
1 ATAAA-AAATAAA
1939264 TGAAGAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 15 0.62
16 2 0.08
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
ATAAAAAATAAAAA
Found at i:1941118 original size:80 final size:80
Alignment explanation
Indices: 1940970--1942690 Score: 1787
Period size: 84 Copynumber: 20.9 Consensus size: 80
1940960 GTAGTTCCTC
* * *
1940970 GAGCTGAATGAAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGAAGATAACCCTTCTTGCCTTGAGCTATG
1941035 CTGCAAATGATGTGCCTTT
62 CTGCAAATGATGTGCCTTT
** *
1941054 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAGTCATTCTTGCCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
*
1941119 AAAAGATGTGCCTTT
66 AAATGATGTGCCTTT
* * * ** * * *
1941134 GAGCTGAGTATAATCGAACTCGAAGGTCTTTGGTAGGTAGTCTTTATTGCCTTGAGTTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
* *
1941199 AAAGGATGTGACTTT
66 AAATGATGTGCCTTT
* * * *
1941214 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGCAGATAGCCCTTCTTGCCTTGAGCCATACTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
1941279 AAATGATGTGCCTTT
66 AAATGATGTGCCTTT
* * * * * * * *
1941294 GGGCTGAGTGTAATCAAACTCGAAGGTTTTTGGAAGATAGCCCTTCTTGCATTGAACTATGTTAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
*
1941359 AAATGATGTGCTTTT
66 AAATGATGTGCCTTT
* * * ** *
1941374 GAGCTGAGTGTAATCGAACTCGAAGGTATTTGGCAGGTAGTCATTCTTGCCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
1941439 AAATGATGTGCCTTT
66 AAATGATGTGCCTTT
* * *
1941454 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTTGCAA-ATAGCCCTTCTTGTCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G---G-AAGATAACCCTTCTTGCCTTGAGCTAT
*
1941518 GCTGCAAATGATGTGTCTTT
61 GCTGCAAATGATGTGCCTTT
* * * * ** *
1941538 GAGCTGAGTGTAATCAAACTCGAAAGTCTTTGTTGACATATAACCCTTATAACCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAACCCTTCTTGCCTTGAGCTATGC
1941603 TGCAAATGATGTGCCTTT
63 TGCAAATGATGTGCCTTT
* *
1941621 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
*
1941686 AAATGATGTGCCTTC
66 AAATGATGTGCCTTT
* * * * * * *
1941701 GAGCTGAGTGTAATCGACCTCGAAGGTCTTTTGTTGGCATATAGCTCTTCTCGCCTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGAAGATAACCCTTCTTGCCTTGAGCTATG
* *
1941766 CTACAAATAATGTGCCTTT
62 CTGCAAATGATGTGCCTTT
* *
1941785 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGGAGATAGA-CCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGAAGATA-ACCCTTCTTGCCTTGAGCTAT
* *
1941849 ACTGCAAATAATGTGCCTTT
61 GCTGCAAATGATGTGCCTTT
* * * * * * *
1941869 GAGCTGAGTGTAATCAAACTCTAAAGTATTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAACCCTTCTTGCCTTGAGCTATGC
*
1941934 TGTAAATGATGTGCCTTT
63 TGCAAATGATGTGCCTTT
* * * *
1941952 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATAACCCTTTTTACCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
** *
1942017 TATAAATGATGTGCCTAT
63 TGCAAATGATGTGCCTTT
* * * *
1942035 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACTCTTCTAGCCTTGAGTTATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAACCCTTCTTGCCTTGAGCTATGC
** *
1942100 TATAAATGATGTGCTTTT
63 TGCAAATGATGTGCCTTT
* * * * *
1942118 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTGCCTTTAGATATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTC--T-TTGGAAGATAACCCTTCTTGCCTTGAGCTATGC
*
1942183 TACAAATGATGTGCCTTT
63 TGCAAATGATGTGCCTTT
* *
1942201 GAGTTGAGTATAATCGAACTCGAAGGTCTTTTGGTGGCAA-ATAACCCTTCTTGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC--TT--TGG-AAGATAACCCTTCTTGCCTTGAGCTAT
*
1942265 GCTGCAAATGTTGTGCCTTT
61 GCTGCAAATGATGTGCCTTT
* * * *
1942285 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTACCTTAAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTC---T-TTGGAAGATAACCCTTCTTGCCTTGAGCTATG
* *
1942350 CTGCAAATGTTGTGCATTT
62 CTGCAAATGATGTGCCTTT
* * * *
1942369 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAACCCTTCTTGCCTTGAGCTATGC
*
1942434 TG-TAATGATGTGCCTTT
63 TGCAAATGATGTGCCTTT
* *
1942451 GAGCTGAGTGTAATCGAACTCGAAGGTCTTATGATGGCAGATAACCCTTCTTACCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-T-T--TGGAAGATAACCCTTCTTGCCTTGAGCTATG
1942516 CTGCAAATGATGTGCCTTT
62 CTGCAAATGATGTGCCTTT
* ** * * * *
1942535 GAGCTGAGTGTAATCAAACTCGAACATC-TTGGTTAACAAATAACCATTCTCGCCTTGAGTTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGG---A-AGATAACCCTTCTTGCCTTGAGCTATG
* *
1942599 CTGTAAATGATATGCCTTT
62 CTGCAAATGATGTGCCTTT
* * * * * *
1942618 GATCTGAGTGTAATCGAACTAGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTCATCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTG--GA-AGATAACCCTTCTTGCCTTGAGCTATG
*
1942683 CTACAAAT
62 CTGCAAAT
1942691 AGAAAAAAAT
Statistics
Matches: 1394, Mismatches: 196, Indels: 94
0.83 0.12 0.06
Matches are distributed among these distances:
79 3 0.00
80 429 0.31
81 8 0.01
82 49 0.04
83 438 0.31
84 447 0.32
85 10 0.01
86 9 0.01
87 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (80 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGGAAGATAACCCTTCTTGCCTTGAGCTATGCTGC
AAATGATGTGCCTTT
Found at i:1941641 original size:83 final size:83
Alignment explanation
Indices: 1940970--1942690 Score: 2019
Period size: 83 Copynumber: 20.9 Consensus size: 83
1940960 GTAGTTCCTC
* * *
1940970 GAGCTGAATGAAATCGAACTCGAAGGTCTTTTGTTGGA-AGATAACCCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTT-GACAGATAACCCTTCTTGCCTTGAGCTAT
1941034 GCTGCAAATGATGTGCCTTT
64 GCTGCAAATGATGTGCCTTT
** *
1941054 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGATAGTCATTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
1941116 TGCAAAAGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * ** * * *
1941134 GAGCTGAGTATAATCGAACTCGAAGGTCTTTG--G-TAGGTAGTCTTTATTGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
1941196 TGCAAAGGATGTGACTTT
66 TGCAAATGATGTGCCTTT
* * *
1941214 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--G-CAGATAGCCCTTCTTGCCTTGAGCCATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
1941276 TGCAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * * * *
1941294 GGGCTGAGTGTAATCAAACTCGAAGGT-TTT-TGGA-AGATAGCCCTTCTTGCATTGAACTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
1941356 TACAAATGATGTGCTTTT
66 TGCAAATGATGTGCCTTT
* * ** *
1941374 GAGCTGAGTGTAATCGAACTCGAAGGTATTTG--G-CAGGTAGTCATTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
1941436 TGCAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * *
1941454 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTTG-CAAATAGCCCTTCTTGTCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-G-TTGACAGATAACCCTTCTTGCCTTGAGCTAT
*
1941518 GCTGCAAATGATGTGTCTTT
64 GCTGCAAATGATGTGCCTTT
* * * * ** *
1941538 GAGCTGAGTGTAATCAAACTCGAAAGTCTTTGTTGACATATAACCCTTATAACCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
1941603 TGCAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
*
1941621 GAGCTGAGTGTAATCGAACTCGAAGG--TTT-TTGGCAGATAACCCTTCTTGCCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
1941683 TGCAAATGATGTGCCTTC
66 TGCAAATGATGTGCCTTT
* * * * * * *
1941701 GAGCTGAGTGTAATCGACCTCGAAGGTCTTTTGTTGGCATATAGCTCTTCTCGCCTTAAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
* *
1941766 CTACAAATAATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
** *
1941785 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGGAGATAGA-CCTTCTCGCCTTGAGCTAT
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATA-ACCCTTCTTGCCTTGAGCTAT
* *
1941849 ACTGCAAATAATGTGCCTTT
64 GCTGCAAATGATGTGCCTTT
* * * * * * *
1941869 GAGCTGAGTGTAATCAAACTCTAAAGTATTTGTTGACAGATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
1941934 TGTAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* ** * *
1941952 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATAACCCTTTTTACCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
** *
1942017 TATAAATGATGTGCCTAT
66 TGCAAATGATGTGCCTTT
* * * *
1942035 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACTCTTCTAGCCTTGAGTTATAC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
** *
1942100 TATAAATGATGTGCTTTT
66 TGCAAATGATGTGCCTTT
* * * * *
1942118 GAGCTGAGTGTAATTGAACTCGAAGGTCTTTGTTGGCAGATAGCCCTTCTTGCCTTTAGATATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
1942183 TACAAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * *
1942201 GAGTTGAGTATAATCGAACTCGAAGGTCTTTTGGTGGCAAATAACCCTTCTTGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
*
1942266 CTGCAAATGTTGTGCCTTT
65 CTGCAAATGATGTGCCTTT
** * * *
1942285 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTACCTTAAGCTATA
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
* *
1942350 CTGCAAATGTTGTGCATTT
65 CTGCAAATGATGTGCCTTT
* * * *
1942369 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACATATAACCCTTCTAGCCTTGAGTTATGT
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
*
1942434 TG-TAATGATGTGCCTTT
66 TGCAAATGATGTGCCTTT
* * *
1942451 GAGCTGAGTGTAATCGAACTCGAAGGTCTTATGATGGCAGATAACCCTTCTTACCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTT-TGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
1942516 CTGCAAATGATGTGCCTTT
65 CTGCAAATGATGTGCCTTT
* ** * * * * * *
1942535 GAGCTGAGTGTAATCAAACTCGAACATCTTGGTTAACAAATAACCATTCTCGCCTTGAGTTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
* *
1942600 TGTAAATGATATGCCTTT
66 TGCAAATGATGTGCCTTT
* * * * * *
1942618 GATCTGAGTGTAATCGAACTAGAAGGTCTTTTGTTGACAGATAGCCCTTCTCGCCTTCATCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATG
*
1942683 CTACAAAT
65 CTGCAAAT
1942691 AGAAAAAAAT
Statistics
Matches: 1412, Mismatches: 203, Indels: 44
0.85 0.12 0.03
Matches are distributed among these distances:
79 3 0.00
80 412 0.29
81 7 0.00
82 46 0.03
83 480 0.34
84 464 0.33
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (83 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACCCTTCTTGCCTTGAGCTATGC
TGCAAATGATGTGCCTTT
Found at i:1942372 original size:500 final size:499
Alignment explanation
Indices: 1940970--1942690 Score: 2221
Period size: 500 Copynumber: 3.5 Consensus size: 499
1940960 GTAGTTCCTC
* * * **
1940970 GAGCTGAATGAAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTCGCCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTC-TTTGTTGGCAGATAACCCTTCTTACCTTGAGCTATG
* *
1941035 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTG--GA-AGAT-AGTC
65 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACTC
* * * *
1941096 ATTCTTGCCTTGAGCTATGCTGCAAAAGATGTGCCTTTGAGCTGAGTATAATCGAACTCGAAGGT
130 ATTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
* * * * * * * * *
1941161 C--TTTGGTAGGTAGTCTTTATTGCCTTGAGTTATGCTGCAAAGGATGTGACTTTGAGCTGAGTG
195 CTTTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTG
* * *
1941224 TAATCGAACTCGAAGGTC--TT-TGGCAGATAGCCCTTCTTGCCTTGAGCCATACTGCAAATGAT
260 TAATCGAACTCGAAGGTCTTTTGTGGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGAT
* * * *
1941286 GTGCCTTTGGGCTGAGTGTAATCAAACTCGAAGG---TTT-TTGGAAGATAGCCCTTCTTGCATT
325 GTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTTGCCTT
** * *
1941347 GAA-CTATGTTACAAATGATGTGCTTTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTG--G-C
390 -AAGCTATACTGCAAATGATGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGAC
* ** * * * * *
1941408 AGGTAGTCATTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTT
454 AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTT
* * * * **
1941454 GAGCTGAGTGTAATCGAACTCGAAGGTTTTTGGTTTGCAAATAGCCCTTCTTGTCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTT-GTTGGCAGATAACCCTTCTTACCTTGAGCTATG
* * *
1941519 CTGCAAATGATGTGTCTTTGAGCTGAGTGTAATCAAACTCGAAAGTCTTTGTTGACATATAAC-C
65 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACTC
* * *
1941583 CTTATAACCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGG-
130 ATTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
* * *
1941647 -TTTTTGGCAGATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGATGTGCCTTCGAGCTGAGTG
195 CTTTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTG
* * * * * * *
1941711 TAATCGACCTCGAAGGTCTTTTGTTGGCATATAGCTCTTCTCGCCTTAAGCTATGCTACAAATAA
260 TAATCGAACTCGAAGGTCTTTTG-TGGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGA
* *
1941776 TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGGAGATAGA-CCTTCTCGCC
324 TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATA-ACCCTTCTTGCC
* * * * * *
1941840 TTGAGCTATACTGCAAATAATGTGCCTTTGAGCTGAGTGTAATCAAACTCTAAAGTATTTGTTGA
388 TTAAGCTATACTGCAAATGATGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGA
1941905 CAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTT
453 CAGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTT
* * *
1941952 AAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGTAGATAACCCTTTTTACCTTGAGCTATGC
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTACCTTGAGCTATGC
** * *
1942017 TATAAATGATGTGCCTATGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGACAGATAACTC-
66 TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACTCA
* ** * *
1942081 TTCTAGCCTTGAGTTATACTATAAATGATGTGCTTTTGAGCTGAGTGTAATTGAACTCGAAGGTC
131 TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
* * * *
1942146 TTTGTTGGCAGATAGCCCTTCTTGCCTTTAGATATGCTACAAATGATGTGCCTTTGAGTTGAGTA
196 TTT-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTG
* *
1942211 TAATCGAACTCGAAGGTCTTTTGGTGGCAAATAACCCTTCTTGCCTTGAGCTATGCTGCAAATGT
260 TAATCGAACTCGAAGGTCTTTT-GTGGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGA
* *
1942276 TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGTAGATAACCCTTCTTACCT
324 TGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTTGCCT
* *
1942341 TAAGCTATACTGCAAATGTTGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGAC
389 TAAGCTATACTGCAAATGATGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGAC
*
1942406 ATATAACCCTTCTAGCCTTGAGTTATGTTGT-AATGATGTGCCTTT
454 AGATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTT
*
1942451 GAGCTGAGTGTAATCGAACTCGAAGGTCTTATGATGGCAGATAACCCTTCTTACCTTGAGCTATG
1 GAGCTGAGTGTAATCGAACTCGAAGGTCTT-TGTTGGCAGATAACCCTTCTTACCTTGAGCTATG
** * * *
1942516 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAACATCTTGGTTAACAAATAAC-C
65 CTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACTC
* * * * *
1942580 ATTCTCGCCTTGAGTTATGCTGTAAATGATATGCCTTTGATCTGAGTGTAATCGAACTAGAAGGT
130 ATTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGT
* * * *
1942645 CTTTTGTTGACAGATAGCCCTTCTCGCCTTCATCTATGCTACAAAT
195 C-TTT-TTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTACAAAT
1942691 AGAAAAAAAT
Statistics
Matches: 1068, Mismatches: 140, Indels: 41
0.86 0.11 0.03
Matches are distributed among these distances:
483 3 0.00
484 100 0.09
486 2 0.00
487 130 0.12
488 1 0.00
489 2 0.00
491 66 0.06
494 4 0.00
495 67 0.06
497 139 0.13
498 69 0.06
499 48 0.04
500 397 0.37
501 40 0.04
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (499 bp):
GAGCTGAGTGTAATCGAACTCGAAGGTCTTTGTTGGCAGATAACCCTTCTTACCTTGAGCTATGC
TGCAAATGATGTGCCTTTGAGCTGAGTGTAATCAAACTCGAAGGTCTTTGTTGACAGATAACTCA
TTCTAGCCTTGAGTTATGCTGCAAATGATGTGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTC
TTTTTGGCAGATAGCCCTTCTTGCCTTGAGCTATGCTACAAATGATGTGCCTTTGAGCTGAGTGT
AATCGAACTCGAAGGTCTTTTGTGGCAAATAGCCCTTCTTGCCTTGAGCTATGCTGCAAATGATG
TGCCTTTGAGCTGAGTGTAATCGAACTCGAAGGTCTTTTGTTGGAAGATAACCCTTCTTGCCTTA
AGCTATACTGCAAATGATGTGCATTTGAGCTGAGTGTAATCGAACTCGAAGGTATTTGTTGACAG
ATAACCCTTCTAGCCTTGAGTTATGTTGTAAATGATGTGCCTTT
Found at i:1944030 original size:95 final size:95
Alignment explanation
Indices: 1943820--1944082 Score: 339
Period size: 95 Copynumber: 2.7 Consensus size: 95
1943810 GGCTAGCTAG
* * * * * *
1943820 ATCCATAAAGCCTGGGCGTTTAACCAATTGCTCTAGAGGGACAACTCAATATCGTTGTA-TAGAA
1 ATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGGGATAACTC-A-AGC-TT-TATTATAT
*
1943884 ATTATAATCACCTTTATAAGGCTAGCTGAATATT
62 ATTATAATCACATTTATAAGGCTAGCTGAATATT
*
1943918 ATCCATAAAACCAGGGCATTTAACCAATTGCTCTAGAGGGATAACTCAAGCTTTATTATATATTA
1 ATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGGGATAACTCAAGCTTTATTATATATTA
* * *
1943983 TAATCTCATTTATCAGGCTAGCTGAATCTT
66 TAATCACATTTATAAGGCTAGCTGAATATT
* ** *
1944013 ATCCATAAAGCCGGGGCATTTAACCAATTGCTCTAGAGGGATAGTTCAAGCTTTATTGTATATAT
1 ATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGGGATAACTCAAGCTTTATTATATAT-T
1944078 ATAAT
65 ATAAT
1944083 ATTATAATCT
Statistics
Matches: 147, Mismatches: 16, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
94 2 0.01
95 93 0.63
96 8 0.05
97 1 0.01
98 43 0.29
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.32
Consensus pattern (95 bp):
ATCCATAAAGCCAGGGCATTTAACCAATTGCTCTAGAGGGATAACTCAAGCTTTATTATATATTA
TAATCACATTTATAAGGCTAGCTGAATATT
Found at i:1947824 original size:18 final size:18
Alignment explanation
Indices: 1947801--1947842 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
1947791 GACATAGACT
1947801 TCCACGTCAACTTTCCCC
1 TCCACGTCAACTTTCCCC
*
1947819 TCCACGTTAACTTTCCCC
1 TCCACGTCAACTTTCCCC
1947837 TCCACG
1 TCCACG
1947843 CATGTGCGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.48, G:0.07, T:0.29
Consensus pattern (18 bp):
TCCACGTCAACTTTCCCC
Found at i:1952607 original size:60 final size:59
Alignment explanation
Indices: 1952458--1952647 Score: 161
Period size: 60 Copynumber: 3.2 Consensus size: 59
1952448 ATTTGGATGG
* * * * * * *
1952458 ATTTAGGGATGAAATTGGAATATCTAAAAGTTTAGGGACCTATTTAGAATGAGATTCATA
1 ATTTGGGGATGAAATAGAAATGT-TAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATA
* * * *
1952518 GTTTGGGGATGAAATAGGAATGTTCAAAAGGTTAAGGACCAATTTAGAATGAGAGTCGTA
1 ATTTGGGGATGAAATAGAAATGTT-AAAAGTTTAAGGACCAATTTAGAATGAGAGTCATA
** * *
1952578 ATTTGAGGG-TGAAATTA-AAATAGTTAAAAGTTTAAGGAATAATTT-GAAATGTGGGTCATA
1 ATTTG-GGGATGAAA-TAGAAAT-GTTAAAAGTTTAAGGACCAATTTAG-AATGAGAGTCATA
*
1952638 GTTTGGGGAT
1 ATTTGGGGAT
1952648 AAACTGATGC
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
59 5 0.05
60 93 0.88
61 8 0.08
ACGTcount: A:0.37, C:0.05, G:0.26, T:0.32
Consensus pattern (59 bp):
ATTTGGGGATGAAATAGAAATGTTAAAAGTTTAAGGACCAATTTAGAATGAGAGTCATA
Found at i:1954500 original size:21 final size:21
Alignment explanation
Indices: 1954474--1954526 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 21
1954464 TTATAAAATT
1954474 TATATTAAATTATTC-TAAAAA
1 TATATTAAATTA-TCATAAAAA
* *
1954495 TATATTTATACTATCATAAAAA
1 TATA-TTAAATTATCATAAAAA
*
1954517 TATTTTAAAT
1 TATATTAAAT
1954527 ATTTATTTAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
21 10 0.40
22 15 0.60
ACGTcount: A:0.49, C:0.06, G:0.00, T:0.45
Consensus pattern (21 bp):
TATATTAAATTATCATAAAAA
Found at i:1954609 original size:34 final size:34
Alignment explanation
Indices: 1954571--1954644 Score: 130
Period size: 34 Copynumber: 2.2 Consensus size: 34
1954561 TTTAAAACAA
*
1954571 TATTAATTATTTATTTGATAATGATATAAGTAAG
1 TATTAATTATTTATTTAATAATGATATAAGTAAG
*
1954605 TATTATTTATTTATTTAATAATGATATAAGTAAG
1 TATTAATTATTTATTTAATAATGATATAAGTAAG
1954639 TATTAA
1 TATTAA
1954645 GTGCATTATA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.00, G:0.09, T:0.49
Consensus pattern (34 bp):
TATTAATTATTTATTTAATAATGATATAAGTAAG
Found at i:1955148 original size:23 final size:23
Alignment explanation
Indices: 1955122--1955173 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
1955112 AATAACATAT
**
1955122 TAGGTAGCACTTATATAATGTAA
1 TAGGTAGCACTTATATAATAAAA
*
1955145 TAGGTAGCGCTTATATAATAAAA
1 TAGGTAGCACTTATATAATAAAA
1955168 TAGGTA
1 TAGGTA
1955174 TTTAACCGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (23 bp):
TAGGTAGCACTTATATAATAAAA
Found at i:1955654 original size:199 final size:195
Alignment explanation
Indices: 1955247--1955963 Score: 785
Period size: 198 Copynumber: 3.6 Consensus size: 195
1955237 AGCGTTAATA
* *
1955247 TTGACCTATTTTTATA-AGTAAACCGGTATATTTATACC-GGTAACATTGCAAATTTACCTATTA
1 TTGACCTATTTTTTTATA--AAACCGGTATATTTATACCGGGT-ACATTGTAAATTTACCTATTA
* * *
1955310 CATTATAATTATCGGTTTCGATGTTTTTTGGATCGATACAATTT--TAAATGTATCGACAGTTTA
63 CATTATAATTATCGGTTTCGAT-TTTTTGGGATCGATAC-TTTTAATAAATGTATCGACACTTTA
* *
1955373 TGCGTGCACCTAG-TTGGACATTCATTCTGGAAACAAGTATCGACACAAACTTAAAGAATGTCGA
126 TGCGTGCACCTCGTTTGG-CATTCATTATGGAAACAAGTATCGACACAAA-TTAAAG--TGTCGA
*
1955437 TGCATTAT-
187 TACATTATG
* * * *
1955445 TTAGACCTATTTTTTTATAAAATCGGTATATTTCTATCGGGTACATTGTAAATTTACCTATCACA
1 TT-GACCTATTTTTTTATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATTACA
* * * *
1955510 TTGTAATTATCGGTTTCAATATTTTTGGGATCGATACTTTTAATAAATGAATCGACACTTTATAC
65 TTATAATTATCGGTTTCGAT-TTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGC
1955575 GTGCACC-CGTTTGGCATTCATTATGGACAA-AATGTATCGACACAAATTTAATATGTGTCGATA
129 GTGCACCTCGTTTGGCATTCATTATGGA-AACAA-GTATCGACACAAA-TTAA-A-GTGTCGATA
*
1955638 CTTTATG
189 CATTATG
* * * * * *
1955645 ATGACCTA-TTTATCATAAAACCGGTATATTTATACCAGTTACATTGTAAATTTACATATTACAT
1 TTGACCTATTTTTTTATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATTACAT
* *
1955709 TATAATTATCGGTTTCGATTTTATTGGGATCGATACTTTTAATAATTGTATCGACATTTTATGCG
66 TATAATTATCGGTTTCGATTTT-TTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCG
* * *
1955774 TGCACCTCGTTTGGGCAATCATTTTGGATAATAAGTATCGACA-AAATTACACAAGTGTCGATAC
130 TGCACCTCGTTT-GGCATTCATTATGGA-AACAAGTATCGACACAAATT--A-AAGTGTCGATAC
1955838 ATTATG
190 ATTATG
* * * * * * * * *
1955844 TTGACATGTTTTCTAAT-TAACCGATATATTTATACCGGTTTCATTGTTAATTTACCTATTACAT
1 TTGACCTATTTTTTTATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATTACAT
*
1955908 TATAATTATTGGTTTCGATTTTTTTGGG-TCGATACTTTTAGA-AAATGTATCGACAC
66 TATAATTATCGGTTTCGA-TTTTTTGGGATCGATACTTTTA-ATAAATGTATCGACAC
1955964 ATATTTAGGT
Statistics
Matches: 445, Mismatches: 53, Indels: 42
0.82 0.10 0.08
Matches are distributed among these distances:
197 6 0.01
198 221 0.50
199 175 0.39
200 39 0.09
201 4 0.01
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.40
Consensus pattern (195 bp):
TTGACCTATTTTTTTATAAAACCGGTATATTTATACCGGGTACATTGTAAATTTACCTATTACAT
TATAATTATCGGTTTCGATTTTTTGGGATCGATACTTTTAATAAATGTATCGACACTTTATGCGT
GCACCTCGTTTGGCATTCATTATGGAAACAAGTATCGACACAAATTAAAGTGTCGATACATTATG
Found at i:1960644 original size:404 final size:401
Alignment explanation
Indices: 1960146--1961452 Score: 1925
Period size: 404 Copynumber: 3.3 Consensus size: 401
1960136 AAAATCGGTA
*
1960146 TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCAATGTTTTTGG
1 TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGG
* * * * * *
1960211 GATCGATACGTTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTATGGA
66 GATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGGA
* *
1960276 CAAAAAGTATGGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACATAAAAC
131 CAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA-
* *
1960341 CGATATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTTGATGTT
195 CGATATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTT
*
1960406 TTAGGGATCGATACTTTTTAAAAATATATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTCC
260 TTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTCC
1960471 TTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTT
325 TTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTC-T
*
1960536 TAAAAAAACCAGTT
389 TCAAAAAACC-GTT
* * * *
1960550 TATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTAGTTTTGATATTTTTGG
1 TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGG
1960615 GATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGGA
66 GATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGGA
* * *
1960680 CAAACAGTATCGACACAACAGTCAAACGTGTCGACACATTATGTAGACCTATTCTCACATAAAAT
131 CAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA-
*
1960745 C-AGTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTATGGGTTTCGATGT
195 CGA-TATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGT
*
1960809 TTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCC-TTTTTGGATTTTC
259 TTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTC
* * *
1960873 CTTGTGGGCCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTTTGTATATTTATTTTC-
324 CTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCT
*
1960937 TCAAAAAATCGGTT
389 TCAAAAAA-CCGTT
* *
1960951 TATTTATACCAGTTACATTGTATATTTACCTATTACATTATAATTATCGGTTTCGATGTTTTTGG
1 TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGG
* *
1961016 GATTGATATTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTTGGGCATTCATTCTG
66 GATCGATA-CTTTTTATAAATGTATCGACACTCTATGCGTTCACCA-TTTTGGGCATTCATTCTG
* *
1961081 GACAAACAA-TATCGACATAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAA
129 GACAAA-AAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAA
* * * *
1961145 AACGGTATATTTATACCGGTTATATTACAAAAATACTTATTACATTATAATTATGGGTTTCGATG
193 AACGATATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATG
* * * *
1961210 TTTTTGGGATCGATACTTTTTAAACATGTATCGACACTTTATGGGTGC-TCCTTTTTGGGCA--T
258 TTTTAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGG-ATTT
* * * * * *
1961272 TCCTTCTGGA-TAAATAGTATCGACACAAATTCTAGAAGTGTCGATACATTATGTAGA-C-ATAT
322 TCCTTGTGGACCAAA-AGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTT
**
1961334 TCTCTCATTAAACCGATT
386 TCT-TCAAAAAACCG-TT
* * * * *
1961352 TAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAATTTCGATGTTTCTGG
1 TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGG
*
1961417 GATCGATACTTTTTA-AAACTGTATCGACACTTTATG
66 GATCGATACTTTTTATAAA-TGTATCGACACTCTATG
1961453 GGAAACTTTA
Statistics
Matches: 818, Mismatches: 72, Indels: 30
0.89 0.08 0.03
Matches are distributed among these distances:
399 8 0.01
400 27 0.03
401 198 0.24
402 145 0.18
403 153 0.19
404 287 0.35
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (401 bp):
TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCGATGTTTTTGG
GATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCATTCTGGA
CAAAAAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAAC
GATATATTTATACCGGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTT
TAGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTCCT
TGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTTC
AAAAAACCGTT
Found at i:1961315 original size:602 final size:600
Alignment explanation
Indices: 1960081--1961452 Score: 1600
Period size: 602 Copynumber: 2.3 Consensus size: 600
1960071 GTTATTTATA
* * ** * * *
1960081 AGTATCGAAACAAATT-TAAAACGTGTCGATACATTTTGTTCACCTATTTTAACATAAAATCGGT
1 AGTATCGACACAAATTCT-AAACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCAGT
* * *
1960145 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCAATGTTTTTG
65 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAGTTTCGATG-TTTTG
* * * *
1960210 GGATCGATACGTTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTATGG
129 GGATCGATACTTTTTAAAAATGTATCGACACTTTA-TGATGCACCCTTTTGGGCATTCATTATGG
* *
1960275 ACAAAAAGTATGGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACATAAAA
193 ACAAAAAGTATCGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACAAAAAA
* * * *
1960340 CCGATATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTTGATGT
258 CCGATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGT
* * * *
1960405 TTTAGGGATCGATACTTTTTAAAAATATATCGACACTTTATGGGTGCACCCTTTTTTGGATTTTC
323 TTTAGGGATCGATACTTTTTAAAAATATATCGACACTCTATGCGTGCACCATTTTTGGGA-TTTC
* * * * * * * *
1960470 CTTGTGGACCAAAAGTATCGACACAAATTCCACAAGTGTCGATACATTATGTATATCTATTTTCT
387 ATTCTGGACCAAAAATATCGACACAAATTCAAAAAGTGTCGACACATTATGTAGACCTA-TTTCT
* * ** ** *
1960535 TTAAAAAAACCAGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTAG
451 TCAAAAAAACCAGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAATTATGAG
* *
1960600 TTTTGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTG
516 TTTCGATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTGCACCATTTTG
1960665 GGCATTCATTCTGGACAAAC
581 GGCATTCATTCTGGACAAAC
* *
1960685 AGTATCGACACAACAGTC-AAACGTGTCGACACATTATGTAGACCTATTCTCACATAAAATCAGT
1 AGTATCGACACAA-ATTCTAAACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCAGT
* * * * *
1960749 ATATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTTAG
65 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAGTTTCGATGTTTT-G
* * *
1960814 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCTTTTTGG-ATTTTCCTTGT
129 GGATCGATACTTTTTAAAAATGTATCGACACTTTATGA-TGCACCCTTTTGGGCA--TTCATTAT
* * * * * * * ** * *
1960878 GGGCCAAAAGTATCGACACAA-ATTCCACAAGTGTCGATACATTTTGTATATTTATTTTCTCAAA
191 GGACAAAAAGTATCGACACAACATT-CAAAAGTGTCAACACATTATGTAGACCTATTCTCACAAA
* * * ** * *
1960942 AAATCGGTTTATTTATACCAGTTACATTGTATATTTACCTATTACATTATAATTATCGGTTTCGA
255 AAACCGATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGA
* * * * * *
1961007 TGTTTTTGGGATTGATATTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTTGGGCA
320 TGTTTTAGGGATCGATA-CTTTTTAAAAATATATCGACACTCTATGCGTGCACCATTTTTGGG-A
*
1961072 -TTCATTCTGGA-CAAACAATATCGACATAACATT-AAAAAGTGTCGACACATTATGTAGACCTA
383 TTTCATTCTGGACCAAA-AATATCGACACAA-ATTCAAAAAGTGTCGACACATTATGTAGACCTA
* * * *
1961134 -TTC-TCACATAAAA-CGGTATATTTATACCGGTTATATTACAAAAATACTTATTACATTATAAT
446 TTTCTTCA-AAAAAACCAGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAAT
* * * * *
1961196 TATGGGTTTCGATGTTTTTGGGATCGATACTTTTTA-AACATGTATCGACACTTTATGGGTGCTC
510 TATGAGTTTCGATATTTTTGGGATCGATACTTTTTATAA-ATGTATCGACACTCTATGCGTGCAC
* * * *
1961260 CTTTTTGGGCATTCCTTCTGGATAAAT
574 CATTTTGGGCATTCATTCTGGACAAAC
* * * *
1961287 AGTATCGACACAAATTCTAGAA-GTGTCGATACATTATGTAGACATATTCTCTCATTAAA-CCGA
1 AGTATCGACACAAATTCTA-AACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCAG-
* * *
1961350 TTTAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAATTTCGATGTTTCT
64 TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAGTTTCGATGTTT-T
*
1961415 GGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
128 GGGATCGATACTTTTTAAAAATGTATCGACACTTTATG
1961453 GGAAACTTTA
Statistics
Matches: 647, Mismatches: 104, Indels: 36
0.82 0.13 0.05
Matches are distributed among these distances:
601 7 0.01
602 258 0.40
603 18 0.03
604 155 0.24
605 168 0.26
606 40 0.06
607 1 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (600 bp):
AGTATCGACACAAATTCTAAACGTGTCGATACATTATGTAGACCTATTCTCACATAAAATCAGTA
TATTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAGTTTCGATGTTTTGGG
ATCGATACTTTTTAAAAATGTATCGACACTTTATGATGCACCCTTTTGGGCATTCATTATGGACA
AAAAGTATCGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACAAAAAACCG
ATATATTTATACCAGTTACATTACAAAATTACCTATTACATTATAATTATCGGTTTCGATGTTTT
AGGGATCGATACTTTTTAAAAATATATCGACACTCTATGCGTGCACCATTTTTGGGATTTCATTC
TGGACCAAAAATATCGACACAAATTCAAAAAGTGTCGACACATTATGTAGACCTATTTCTTCAAA
AAAACCAGTATATTTATACCGGTTACATTACAAAAATACCTATTACATTATAATTATGAGTTTCG
ATATTTTTGGGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTGCACCATTTTGGGCAT
TCATTCTGGACAAAC
Found at i:1961454 original size:200 final size:198
Alignment explanation
Indices: 1960080--1961452 Score: 1452
Period size: 200 Copynumber: 6.8 Consensus size: 198
1960070 TGTTATTTAT
* * * * ** * * * *
1960080 AAGTATCGAAACAA-ATTTAAAACGTGTCGATACATTTTGTTCACCTATTTTAACATAAAATCGG
1 AAGTATCGACACAACATTCAAAA-GTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGA
* *
1960144 TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATCAGTTTCAATGTTTTT
65 TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTT
* * * * * *
1960209 GGGATCGATACGTTTTATAAATGTATCGACACTTTATTCATTCACCCTTTTGGGCATTCATTATG
130 GGGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTGCACCTTTTTGGGCATTCATTCTG
1960274 GACAAA
194 GAC-AA
* *
1960280 AAGTATGGACACAACATTCAAAAGTGTCAACACATTATGTAGACCTATTCTCACATAAAACCGAT
1 AAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGAT
* ** * * * * *
1960345 ATATTTATACCAGTTATATTACAAAATTACCTATTACATTATATTTATGGGTTTTGATGTTTTAG
66 ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTG
* * * * *
1960410 GGATCGATACTTTTTAAAAATATATCGACACTTTATGGGTGCACCCTTTTTTGG-ATTTTCCTTG
131 GGATCGATACTTTTT-AAAATGTATCGACACTTTATGCGTGCA-CCTTTTTGGGCA--TTCATTC
1960474 TGGACCAA
192 TGGA-CAA
* * * * * *
1960482 AAGTATCGACACAA-ATTCCACAAGTGTCGATACATTATGTATATCTATTTTCTTTA-AAAAAAC
1 AAGTATCGACACAACATT-CAAAAGTGTCGACACATTATGTAGACCTA--TTC-TCACATAAAAC
* * * * *
1960545 C-AGTTTATTTATACCGGTTACATTGTAAATTTACCTATTACATTATAATTATTAGTTTTGATAT
62 CGA-TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGT
* * *
1960609 TTTTGGGATCGATACTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTGGGCATTCAT
126 TTTTGGGATCGATACTTTTTA-AAATGTATCGACACTTTATGCGTGCACCTTTTTGGGCATTCAT
1960674 TCTGGACAA
190 TCTGGACAA
* * *
1960683 ACAGTATCGACACAACAGTCAAACGTGTCGACACATTATGTAGACCTATTCTCACATAAAATC-A
1 A-AGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGA
* * * * * *
1960747 GTATATTTATACCGGTTATATTATAAAATTACCTATTACATTATATTTATGGGTTTCGATGTTTT
65 -TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTT
* * *** * *
1960812 AGGGATCGATACTTTTTAAAAATGTATCGACACTTTATGAGTGCACCCTTTTTGGATTTTCCTTG
129 TGGGATCGATACTTTTT-AAAATGTATCGACACTTTATGCGTGCA-CCTTTTTGGGCATTCATTC
*
1960877 TGGGCCAA
192 T-GGACAA
* * * * ** * * * * *
1960885 AAGTATCGACACAA-ATTCCACAAGTGTCGATACATTTTGTATATTTATTTTCTCAAAAAATCGG
1 AAGTATCGACACAACATT-CAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGA
* *
1960949 TTTATTTATACCAGTTACATTGTATATTTACCTATTACATTATAATTATCG-GTTTCGATGTTTT
65 TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTAT-GAGTTTCGATGTTTT
* * * *
1961013 TGGGATTGATATTTTTTTATAAATGTATCGACACTCTATGCGTTCACCATTTTTGGGCATTCATT
129 TGGGATCGATA-CTTTTTA-AAATGTATCGACACTTTATGCGTGCACC-TTTTTGGGCATTCATT
1961078 CTGGACAA
191 CTGGACAA
* * * *
1961086 ACAATATCGACATAACATTAAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAA-CGG
1 A-AGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGA
* * ** ** * *
1961150 TATATTTATACCGGTTATATTACAAAAATACTTATTACATTATAATTATGGGTTTCGATGTTTTT
65 TATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTT
* * *
1961215 GGGATCGATACTTTTTAAACATGTATCGACACTTTATGGGTGCTCCTTTTTGGGCATTCCTTCTG
130 GGGATCGATACTTTTTAAA-ATGTATCGACACTTTATGCGTGCACCTTTTTGGGCATTCATTCTG
*
1961280 GATAA
194 GACAA
* * * * *
1961285 ATAGTATCGACACAA-ATTCTAGAAGTGTCGATACATTATGTAGACATATTCTCTCATTAAACCG
1 A-AGTATCGACACAACATTC-AAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCG
* * * * *
1961349 ATTTAGTTATACCAGTTACATTGTAAATTTACCTATTACATTATATTTATGAATTTCGATGTTTC
64 ATATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTT
1961414 TGGGATCGATACTTTTTAAAACTGTATCGACACTTTATG
129 TGGGATCGATACTTTTTAAAA-TGTATCGACACTTTATG
1961453 GGAAACTTTA
Statistics
Matches: 970, Mismatches: 171, Indels: 64
0.80 0.14 0.05
Matches are distributed among these distances:
198 3 0.00
199 75 0.08
200 362 0.37
201 224 0.23
202 185 0.19
203 16 0.02
204 103 0.11
205 2 0.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (198 bp):
AAGTATCGACACAACATTCAAAAGTGTCGACACATTATGTAGACCTATTCTCACATAAAACCGAT
ATATTTATACCAGTTACATTGTAAATTTACCTATTACATTATAATTATGAGTTTCGATGTTTTTG
GGATCGATACTTTTTAAAATGTATCGACACTTTATGCGTGCACCTTTTTGGGCATTCATTCTGGA
CAA
Found at i:1962976 original size:3 final size:3
Alignment explanation
Indices: 1962961--1963001 Score: 64
Period size: 3 Copynumber: 13.7 Consensus size: 3
1962951 ACTTGTTTGG
* *
1962961 ATC ATC ATA ATC ATC ATC ATC ATC ATC ATC ATC ATC TTC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC AT
1963002 TGTCATCTTC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.34, C:0.29, G:0.00, T:0.37
Consensus pattern (3 bp):
ATC
Found at i:1963007 original size:18 final size:18
Alignment explanation
Indices: 1962970--1963021 Score: 68
Period size: 18 Copynumber: 2.9 Consensus size: 18
1962960 GATCATCATA
* **
1962970 ATCATCATCATCATCATC
1 ATCATCATCTTCATTGTC
1962988 ATCATCATCTTCATTGTC
1 ATCATCATCTTCATTGTC
*
1963006 ATCTTCATCTTCATTG
1 ATCATCATCTTCATTG
1963022 ACCTGTTGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.04, T:0.42
Consensus pattern (18 bp):
ATCATCATCTTCATTGTC
Found at i:1963019 original size:12 final size:12
Alignment explanation
Indices: 1962962--1963019 Score: 62
Period size: 12 Copynumber: 4.8 Consensus size: 12
1962952 CTTGTTTGGA
* *
1962962 TCATCATAATCA
1 TCATCATCATCT
*
1962974 TCATCATCATCA
1 TCATCATCATCT
1962986 TCATCATCATCT
1 TCATCATCATCT
**
1962998 TCATTGTCATCT
1 TCATCATCATCT
*
1963010 TCATCTTCAT
1 TCATCATCAT
1963020 TGACCTGTTG
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.28, C:0.29, G:0.02, T:0.41
Consensus pattern (12 bp):
TCATCATCATCT
Found at i:1965055 original size:21 final size:21
Alignment explanation
Indices: 1965029--1965070 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
1965019 AATTCTGGAC
1965029 AAAAAGTATCGACACATTATG
1 AAAAAGTATCGACACATTATG
* *
1965050 AAAAAGTGTCGATACATTATG
1 AAAAAGTATCGACACATTATG
1965071 TAGACCTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (21 bp):
AAAAAGTATCGACACATTATG
Found at i:1965147 original size:179 final size:178
Alignment explanation
Indices: 1964807--1965174 Score: 488
Period size: 179 Copynumber: 2.1 Consensus size: 178
1964797 TTATAAATGT
* * * * *
1964807 ATCGACACTTTTTGCGTGCACTCTTTTTGGGCTTCTTCTGGACAAACAGTATCGACACAAATTCC
1 ATCGACACTTTATGCGTGCACTCATTTTGGGCTTATTCTGGACAAAAAGTATCGACACAAATTCA
* * * *
1964872 AGAAGTGTCGATACATTATGTAGACCTATTCTCTCATAAAACCGATTTAATTATACCGGTCACAT
66 AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATATAATTATACCAGTCACAT
** * * *
1964937 TGTAAATTTACCTATTACATTATATTTATGGGTTTTGATGTTTCTGGG
131 TACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
* * *
1964985 ATCGACACTTTATGTGTTCA-TCATTTTGGGCATTAATTCTGGACAAAAAGTATCGACAC-ATTA
1 ATCGACACTTTATGCGTGCACTCATTTTGGGC-TT-ATTCTGGACAAAAAGTATCGACACAAAT-
* * * *
1965048 TGAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGGTATATTTATACCAGTTA
63 TCAAAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATATAATTATACCAGTCA
* *
1965113 TATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTTTGGG
128 CATTACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
1965164 ATCGACACTTT
1 ATCGACACTTT
1965175 TTATAAATGT
Statistics
Matches: 164, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
177 10 0.06
178 21 0.13
179 133 0.81
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (178 bp):
ATCGACACTTTATGCGTGCACTCATTTTGGGCTTATTCTGGACAAAAAGTATCGACACAAATTCA
AAAAGTGTCGATACATTATGTAGACCTATTCTCACATAAAACCGATATAATTATACCAGTCACAT
TACAAAATTACCTATTACATTATAATTATGGGTTTCGATGTTTCTGGG
Found at i:1967163 original size:18 final size:18
Alignment explanation
Indices: 1967140--1967199 Score: 86
Period size: 18 Copynumber: 3.3 Consensus size: 18
1967130 TCCTCCTCAT
1967140 TTCCTCCATCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
*
1967158 TTCCT-CACTCTTTTATTC
1 TTCCTCCA-TCTTTTCTTC
*
1967176 TTCCTCCCTCTTTTCTTC
1 TTCCTCCATCTTTTCTTC
1967194 TTCCTC
1 TTCCTC
1967200 ATATTTTTCA
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 2 0.05
18 34 0.92
19 1 0.03
ACGTcount: A:0.05, C:0.40, G:0.00, T:0.55
Consensus pattern (18 bp):
TTCCTCCATCTTTTCTTC
Found at i:1967208 original size:18 final size:17
Alignment explanation
Indices: 1967140--1967206 Score: 80
Period size: 18 Copynumber: 3.8 Consensus size: 17
1967130 TCCTCCTCAT
1967140 TTCCTCCATCTTTTCTTC
1 TTCCT-CATCTTTTCTTC
*
1967158 TTCCTCACTCTTTTATTC
1 TTCCTCA-TCTTTTCTTC
*
1967176 TTCCTCCCTCTTTTCTTC
1 TTCCT-CATCTTTTCTTC
*
1967194 TTCCTCATATTTT
1 TTCCTCATCTTTT
1967207 TCAGTTCATC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
17 8 0.19
18 33 0.79
19 1 0.02
ACGTcount: A:0.07, C:0.36, G:0.00, T:0.57
Consensus pattern (17 bp):
TTCCTCATCTTTTCTTC
Found at i:1967419 original size:33 final size:33
Alignment explanation
Indices: 1967382--1967481 Score: 173
Period size: 33 Copynumber: 3.0 Consensus size: 33
1967372 CCATCTTAAG
* *
1967382 TTCACCCCTCAGCACCTCAACTTCTTTCACTAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
*
1967415 TTCACCCCTCAACACCTCAACTTCTCTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1967448 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1 TTCACCCCTCAACACCTCAACTTCTTTCACCAC
1967481 T
1 T
1967482 CCATCTATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 63 1.00
ACGTcount: A:0.23, C:0.48, G:0.01, T:0.28
Consensus pattern (33 bp):
TTCACCCCTCAACACCTCAACTTCTTTCACCAC
Found at i:1967540 original size:21 final size:21
Alignment explanation
Indices: 1967515--1967558 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1967505 CCCATTATGC
1967515 CTCTCAAGTGTCTCTTCGACT
1 CTCTCAAGTGTCTCTTCGACT
* *
1967536 CTCTCAAGTTTCTCTTTGACT
1 CTCTCAAGTGTCTCTTCGACT
1967557 CT
1 CT
1967559 TGATTGTATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.32, G:0.11, T:0.43
Consensus pattern (21 bp):
CTCTCAAGTGTCTCTTCGACT
Found at i:1970218 original size:184 final size:184
Alignment explanation
Indices: 1969944--1970395 Score: 624
Period size: 184 Copynumber: 2.5 Consensus size: 184
1969934 GATACCGTTT
*
1969944 TACCGGTTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGA
1 TACCGGGTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGA
* *
1970009 TACATTTTTATAAAGTATTGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
66 TACATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
1970074 TGTCGATACTTATAGTAAAGTATCAACACTTTCAATATATATATGGTCGCTCTA
131 TGTCGATACTTATAGTAAAGTATCAACACTTTCAATATATATATGGTCGCTCTA
* * * *
1970128 TACCGGGTTTGTCCTTTAGAGATCGGTTTTGTCATATTTTTACCTGTTATATCGTTGTGGATTGA
1 TACCGGGTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGA
* *
1970193 TATATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAATG
66 TACATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
* * ** * * *
1970258 TGTCGATACTTATATTAAAGTATCGACACTTTC-A-ATATATCCGGTAGCGCTT
131 TGTCGATACTTATAGTAAAGTATCAACACTTTCAATATATATATGGTCGCTCTA
** * * *** * * * *
1970310 TACTAGTTTTGTCTTTTCCTGACCGG--TTGTCATATTTTTTCCTGTTATATTGATGTGGATCGA
1 TACCGGGTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGA
*
1970373 TACATTTTTATAAAGTATCGACA
66 TACATATTTATAAAGTATCGACA
1970396 TAAATGACAA
Statistics
Matches: 238, Mismatches: 30, Indels: 4
0.88 0.11 0.01
Matches are distributed among these distances:
180 54 0.23
182 31 0.13
183 1 0.00
184 152 0.64
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.42
Consensus pattern (184 bp):
TACCGGGTTTGTCATTTAGAGACCGGTTTTGTCATATTTTTACCTGTTATATCGTTATGGATCGA
TACATATTTATAAAGTATCGACACTTTATAGGCGCTAAAACTGCTTCTCTTTTAAATTCACAAAG
TGTCGATACTTATAGTAAAGTATCAACACTTTCAATATATATATGGTCGCTCTA
Found at i:1979037 original size:30 final size:29
Alignment explanation
Indices: 1979001--1979058 Score: 89
Period size: 30 Copynumber: 2.0 Consensus size: 29
1978991 TTTTACGACA
*
1979001 CGATACCTGATTTTCTGAATATTGTTTATC
1 CGATACCTGATTTACTGAATATT-TTTATC
*
1979031 CGATACCTGATTTACTGTATATTTTTAT
1 CGATACCTGATTTACTGAATATTTTTAT
1979059 ATGATATATG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 5 0.19
30 21 0.81
ACGTcount: A:0.24, C:0.16, G:0.12, T:0.48
Consensus pattern (29 bp):
CGATACCTGATTTACTGAATATTTTTATC
Found at i:1984999 original size:17 final size:18
Alignment explanation
Indices: 1984960--1985006 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
1984950 TGTTTCTGAG
*
1984960 GGAATTGGAATATGTGAA
1 GGAATTGGAATCTGTGAA
*
1984978 GGAATTGGAATCTGT-CA
1 GGAATTGGAATCTGTGAA
1984995 GGAATTGGAATC
1 GGAATTGGAATC
1985007 CAATTCCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
17 13 0.48
18 14 0.52
ACGTcount: A:0.34, C:0.06, G:0.32, T:0.28
Consensus pattern (18 bp):
GGAATTGGAATCTGTGAA
Found at i:1985587 original size:246 final size:242
Alignment explanation
Indices: 1985306--1985902 Score: 780
Period size: 246 Copynumber: 2.4 Consensus size: 242
1985296 CTCCATCCGA
*
1985306 GACCCGACCCGACCAAAATAAAGTTTCATCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
*
1985371 CCGAAATAATAAAAAAAATTATTTTTATTCAATAAAAACA-TGACTTAATTGGAAAAAA-TATAT
66 CCGAAATAAT-AAAAAAA-TATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATAT
* *
1985434 ATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAGATTATATATTTTTTGGGCCGG
129 ATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTT----CGG
1985499 GTCGGGTATTTTTCACCCT-AA-ACCCGACCCGAATATCACACTTAAAAAAAACC
190 GTCGGGTATTTTTCACCCTAAACACCCGACCCGAATATCACA-TT-AAAAAAACC
* *
1985552 GACCAGACCCGACCAAAATAAAGTTTCACCCGACCCAACCCGAATATATGAATTAGAAATCAGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAA-C---C
* * * *
1985617 TTGACCCGACCCGA-AATAAAACAA-A--TTTATTCAATAAAAATAGTGACTTAATTGAAAAAAA
62 -CGACCCGA---AATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAA
*
1985678 TTATATATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTC
123 TTATATATAGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTC
*
1985743 GGGTCGGGTATTTTTCACCCTAAACCCGAACTCGACCCGACCCGAATATCACATTTAAAAAACC
188 GGGTCGGGTATTTTTCACCCT--A----AA--C-ACCCGACCCGAATATCACATTAAAAAAACC
* *
1985807 -ACCCGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGAC
1 GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
1985871 CCGAAATAATAAAAAAATATTTTTATTCAATA
66 CCGAAATAATAAAAAAATATTTTTATTCAATA
1985903 TATGAATAAT
Statistics
Matches: 307, Mismatches: 19, Indels: 46
0.83 0.05 0.12
Matches are distributed among these distances:
246 79 0.26
247 10 0.03
248 17 0.06
249 24 0.08
250 74 0.24
251 7 0.02
252 6 0.02
253 6 0.02
254 55 0.18
255 8 0.03
256 2 0.01
257 19 0.06
ACGTcount: A:0.41, C:0.20, G:0.13, T:0.26
Consensus pattern (242 bp):
GACCCGACCCGACCAAAATAAAGTTTCACCCGACCCGACCCGAATATATGAATTAGAAACCCGAC
CCGAAATAATAAAAAAATATTTTTATTCAATAAAAACAGTGACTTAATTGAAAAAAATTATATAT
AGAGGGGTATTATTATAATTATTCCTAAATATATAAGGTAAAATTATATATATTTTCGGGTCGGG
TATTTTTCACCCTAAACACCCGACCCGAATATCACATTAAAAAAACC
Found at i:1986465 original size:23 final size:21
Alignment explanation
Indices: 1986413--1986466 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 21
1986403 ACCCCCTTAA
* *
1986413 GTATCGATACACCTTGAATGT
1 GTATCGATACACATTGAATAT
1986434 GTA-CAGATACATTCATTGAATAT
1 GTATC-GATACA--CATTGAATAT
1986457 GTATCGATAC
1 GTATCGATAC
1986467 CCTAGAGGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
20 1 0.04
21 9 0.33
23 16 0.59
24 1 0.04
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Consensus pattern (21 bp):
GTATCGATACACATTGAATAT
Found at i:1986791 original size:18 final size:18
Alignment explanation
Indices: 1986770--1986810 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
1986760 TTAAAAAAAA
*
1986770 GTTTTTTTTTAA-ATTGTT
1 GTTTTTATTTAATA-TGTT
1986788 GTTTTTATTTAATATGTT
1 GTTTTTATTTAATATGTT
1986806 GTTTT
1 GTTTT
1986811 GAAAACTATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.17, C:0.00, G:0.12, T:0.71
Consensus pattern (18 bp):
GTTTTTATTTAATATGTT
Found at i:1987445 original size:15 final size:15
Alignment explanation
Indices: 1987425--1987453 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
1987415 TAGCACATTT
1987425 GGTTTAGATAACGAC
1 GGTTTAGATAACGAC
1987440 GGTTTAGATAACGA
1 GGTTTAGATAACGA
1987454 GAGAGAAATT
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:0.34, C:0.10, G:0.28, T:0.28
Consensus pattern (15 bp):
GGTTTAGATAACGAC
Found at i:1988671 original size:13 final size:13
Alignment explanation
Indices: 1988642--1988676 Score: 54
Period size: 12 Copynumber: 2.8 Consensus size: 13
1988632 GGGGAGTAAT
*
1988642 TTTTCAAAATTGA
1 TTTTCAAAAATGA
1988655 -TTTCAAAAATGA
1 TTTTCAAAAATGA
1988667 TTTTCAAAAA
1 TTTTCAAAAA
1988677 GAAAATCTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 11 0.55
13 9 0.45
ACGTcount: A:0.46, C:0.09, G:0.06, T:0.40
Consensus pattern (13 bp):
TTTTCAAAAATGA
Found at i:1990363 original size:2 final size:2
Alignment explanation
Indices: 1990356--1990403 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
1990346 AGGTTTTATG
1990356 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
1990398 AT AT AT
1 AT AT AT
1990404 GTTTATCGTA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1997432 original size:15 final size:15
Alignment explanation
Indices: 1997412--1997458 Score: 76
Period size: 15 Copynumber: 3.1 Consensus size: 15
1997402 TTAGCTGAGT
*
1997412 GGGCGGATGTGGGGC
1 GGGCGGATGCGGGGC
1997427 GGGCGGATGCGGGGC
1 GGGCGGATGCGGGGC
*
1997442 GGGTGGATGCGGGGC
1 GGGCGGATGCGGGGC
1997457 GG
1 GG
1997459 ATGCGGGGCG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.06, C:0.15, G:0.68, T:0.11
Consensus pattern (15 bp):
GGGCGGATGCGGGGC
Found at i:2000018 original size:26 final size:26
Alignment explanation
Indices: 1999964--2000024 Score: 65
Period size: 26 Copynumber: 2.4 Consensus size: 26
1999954 TAAAAGTCAA
*
1999964 ATTTTAAAACTTAAATAATAATGATT
1 ATTTTAAAAATTAAATAATAATGATT
*
1999990 ATTTTAAATAATTATATAA-AAT-ATGT
1 ATTTTAAA-AATTAAATAATAATGAT-T
2000016 A-TTTAAAAA
1 ATTTTAAAAA
2000025 CTATTTGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
24 2 0.06
25 8 0.26
26 13 0.42
27 8 0.26
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (26 bp):
ATTTTAAAAATTAAATAATAATGATT
Found at i:2000839 original size:22 final size:22
Alignment explanation
Indices: 2000811--2000863 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
2000801 AAGTTTTATT
2000811 CTTACCATAATCCTGCATCCAG
1 CTTACCATAATCCTGCATCCAG
2000833 CTTACCATAATCCTGCATCCAG
1 CTTACCATAATCCTGCATCCAG
2000855 CTTACCATA
1 CTTACCATA
2000864 TCCATCCAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.28, C:0.36, G:0.08, T:0.28
Consensus pattern (22 bp):
CTTACCATAATCCTGCATCCAG
Found at i:2007084 original size:21 final size:21
Alignment explanation
Indices: 2007029--2007090 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
2007019 TCGCGGGTTC
** *
2007029 TATGTGGTCATTCAAGACATC
1 TATGTGGTCATTCGGGACATA
*
2007050 TATGTGGTCCTTCGGGACATA
1 TATGTGGTCATTCGGGACATA
2007071 TATGTGGTCATTCGGGACAT
1 TATGTGGTCATTCGGGACAT
2007091 TTCTATGCGG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.34
Consensus pattern (21 bp):
TATGTGGTCATTCGGGACATA
Found at i:2007090 original size:42 final size:43
Alignment explanation
Indices: 2007029--2007112 Score: 125
Period size: 44 Copynumber: 2.0 Consensus size: 43
2007019 TCGCGGGTTC
*
2007029 TATGTGGTCATTCAAGACA-TCTATGTGGTCCTTCGGGACATA
1 TATGTGGTCATTCAAGACATTCTATGCGGTCCTTCGGGACATA
**
2007071 TATGTGGTCATTCGGGACATTTCTATGCGGTCCTTCGGGACA
1 TATGTGGTCATTCAAGACA-TTCTATGCGGTCCTTCGGGACA
2007113 AATTCTATGT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
42 17 0.46
44 20 0.54
ACGTcount: A:0.20, C:0.20, G:0.26, T:0.33
Consensus pattern (43 bp):
TATGTGGTCATTCAAGACATTCTATGCGGTCCTTCGGGACATA
Found at i:2027887 original size:18 final size:20
Alignment explanation
Indices: 2027830--2027878 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
2027820 TTCACGGAAC
*
2027830 GTAAGATTA-CAATTGAAAAT
1 GTAAGATTATCAA-TGAGAAT
2027850 GTAAGATTATCAATGAGAAT
1 GTAAGATTATCAATGAGAAT
2027870 GTAAGATTA
1 GTAAGATTA
2027879 CCAGAGAATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 24 0.89
21 3 0.11
ACGTcount: A:0.47, C:0.04, G:0.18, T:0.31
Consensus pattern (20 bp):
GTAAGATTATCAATGAGAAT
Found at i:2028088 original size:37 final size:37
Alignment explanation
Indices: 2028017--2028089 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 37
2028007 TGAAAAATAC
* *
2028017 TTATATATTTTCTTTTAAAAAATTAAATTCATAAAAT
1 TTATATATTTTCTTTAAAAAAATTAAAATCATAAAAT
2028054 TTATATATATTT-TTTAAAAAAATTTAAAAT-ATAAAA
1 TTATATAT-TTTCTTTAAAAAAA-TTAAAATCATAAAA
2028090 AGGTTTAATG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
37 23 0.72
38 9 0.28
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.47
Consensus pattern (37 bp):
TTATATATTTTCTTTAAAAAAATTAAAATCATAAAAT
Found at i:2028476 original size:52 final size:51
Alignment explanation
Indices: 2028399--2028509 Score: 152
Period size: 52 Copynumber: 2.2 Consensus size: 51
2028389 TTCCGGCCAA
* * * *
2028399 CCAAACATGGAATGTGGATTCCATTCCTATTAGAATCCC-ACATTCCTTGAT
1 CCAAACACGGAATGTAGATTCCATTCCCATGAGAATCCCGAC-TTCCTTGAT
*
2028450 CCAAACACGGAAATGTAGATTCCATTCCCATGAGAATCCCGTCTTCCTTGAT
1 CCAAACACGG-AATGTAGATTCCATTCCCATGAGAATCCCGACTTCCTTGAT
2028502 CCAAACAC
1 CCAAACAC
2028510 CCCTTAGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
51 9 0.17
52 43 0.81
53 1 0.02
ACGTcount: A:0.31, C:0.29, G:0.14, T:0.27
Consensus pattern (51 bp):
CCAAACACGGAATGTAGATTCCATTCCCATGAGAATCCCGACTTCCTTGAT
Found at i:2040593 original size:24 final size:24
Alignment explanation
Indices: 2040566--2040636 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
2040556 AAACGGAGAT
* *
2040566 ATCAGAGATCAAAACAGAATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
* *
2040590 ATCAGATATCAGAACAGAATCCAG
1 ATCAGAAATCAGAACAGAATTCAG
2040614 ATCAGAAATCAGAACAG-ATTCAG
1 ATCAGAAATCAGAACAGAATTCAG
2040637 GTAATGTATT
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 5 0.12
24 37 0.88
ACGTcount: A:0.48, C:0.18, G:0.17, T:0.17
Consensus pattern (24 bp):
ATCAGAAATCAGAACAGAATTCAG
Found at i:2040595 original size:12 final size:12
Alignment explanation
Indices: 2040578--2040636 Score: 59
Period size: 12 Copynumber: 5.0 Consensus size: 12
2040568 CAGAGATCAA
2040578 AACAGAATTCAG
1 AACAGAATTCAG
*
2040590 ATCAG-ATATCAG
1 AACAGAAT-TCAG
*
2040602 AACAGAATCCAG
1 AACAGAATTCAG
* *
2040614 ATCAGAAATCAG
1 AACAGAATTCAG
2040626 AACAG-ATTCAG
1 AACAGAATTCAG
2040637 GTAATGTATT
Statistics
Matches: 37, Mismatches: 8, Indels: 5
0.74 0.16 0.10
Matches are distributed among these distances:
11 7 0.19
12 28 0.76
13 2 0.05
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (12 bp):
AACAGAATTCAG
Found at i:2043615 original size:13 final size:13
Alignment explanation
Indices: 2043597--2043626 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
2043587 ATAATACTTC
*
2043597 CGACTGAAATTAA
1 CGACTGAAATGAA
2043610 CGACTGAAATGAA
1 CGACTGAAATGAA
2043623 CGAC
1 CGAC
2043627 GAACGACGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.20, G:0.20, T:0.17
Consensus pattern (13 bp):
CGACTGAAATGAA
Found at i:2049464 original size:23 final size:23
Alignment explanation
Indices: 2049452--2049501 Score: 64
Period size: 25 Copynumber: 2.1 Consensus size: 23
2049442 AATTAATTTT
2049452 ATATGTTTTTATAATATTATATG
1 ATATGTTTTTATAATATTATATG
**
2049475 ATATGTTTTGTATTTTCATTATATG
1 ATATGTTTT-TATAAT-ATTATATG
2049500 AT
1 AT
2049502 TTATTTTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 4 0.17
25 10 0.43
ACGTcount: A:0.30, C:0.02, G:0.10, T:0.58
Consensus pattern (23 bp):
ATATGTTTTTATAATATTATATG
Found at i:2049527 original size:23 final size:23
Alignment explanation
Indices: 2049473--2049539 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
2049463 TAATATTATA
* *
2049473 TGATATGTTTTGTATT-T-TCAT
1 TGATATGTTTTATTTTATATCAT
*
2049494 T-ATATGATTTATTTTATATCAT
1 TGATATGTTTTATTTTATATCAT
*
2049516 TGATATGTTTTACTTTATATCAT
1 TGATATGTTTTATTTTATATCAT
2049539 T
1 T
2049540 AATTATGCAT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
20 11 0.29
21 2 0.05
22 5 0.13
23 20 0.53
ACGTcount: A:0.25, C:0.06, G:0.09, T:0.60
Consensus pattern (23 bp):
TGATATGTTTTATTTTATATCAT
Found at i:2059975 original size:285 final size:285
Alignment explanation
Indices: 2059458--2060038 Score: 982
Period size: 285 Copynumber: 2.0 Consensus size: 285
2059448 TAATTCGGTT
*
2059458 AAAACCAAAGTGTAAACACTCTAATATATAAATAATATGTATGATATGTTACTTTTTTAATAATT
1 AAAACCAAAGTGTAAACACTATAATATATAAATAATATGTATGATATGTTACTTTTTTAATAATT
* *
2059523 TTTATTAATCCAGTTAATTGACTTGTAGCACCCCGAAACTCAAGTTGGTAGATTCGGGCTAGCCC
66 TTTATTAATCCAGTTAATTGACTTGTAGCACCCCGAAACTCAAGTTGGTAGATTCGGGATAACCC
*
2059588 GAGTTGGTCCTTGAATAAATTCCTTAGCCTATGAAAGGCCTTGGCCCAATTTAAGTGGAGTTGGG
131 GAGTTGGTCCTTGAATAAATTCCTTAGCCTATGAAAGGCCTTGACCCAATTTAAGTGGAGTTGGG
2059653 CTTCGAATTAAGCCCAATAGTAGGTAAAAAGGAGGATTATGAGAGTTAACCAAAAGTAAAGTGAC
196 CTTCGAATTAAGCCCAATAGTAGGTAAAAAGGAGGATTATGAGAGTTAACCAAAAGTAAAGTGAC
2059718 CAAAAGGGTAAATATACCATTTTTC
261 CAAAAGGGTAAATATACCATTTTTC
*
2059743 AAAACCAAAGTGTAAACACTATAATATATAAATAATATGTATGATATGTTTCTTTTTTAATAATT
1 AAAACCAAAGTGTAAACACTATAATATATAAATAATATGTATGATATGTTACTTTTTTAATAATT
* * * * * *
2059808 TTTATTAATTCATTTGATTGACTTGTAGCACCCCGAAACTTAGGTTGGTAGATTCGGGATAACTC
66 TTTATTAATCCAGTTAATTGACTTGTAGCACCCCGAAACTCAAGTTGGTAGATTCGGGATAACCC
* *
2059873 GAGTTGGTCCTTGAATAAATTCCTTAGCCTATGGAAGGCCTTGACCCAATTTGAGTGGAGTTGGG
131 GAGTTGGTCCTTGAATAAATTCCTTAGCCTATGAAAGGCCTTGACCCAATTTAAGTGGAGTTGGG
* * * *
2059938 CTTGGAATTAAGCCCAATAGTAGGTAGAAATGAGGATTATGAGAGTTAACCAAAAGTAGAGTGAC
196 CTTCGAATTAAGCCCAATAGTAGGTAAAAAGGAGGATTATGAGAGTTAACCAAAAGTAAAGTGAC
* *
2060003 CAAGAGGGTAAATATACCATTTTTT
261 CAAAAGGGTAAATATACCATTTTTC
*
2060028 AAAACAAAAGT
1 AAAACCAAAGT
2060039 TGAAAACCAT
Statistics
Matches: 276, Mismatches: 20, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
285 276 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.31
Consensus pattern (285 bp):
AAAACCAAAGTGTAAACACTATAATATATAAATAATATGTATGATATGTTACTTTTTTAATAATT
TTTATTAATCCAGTTAATTGACTTGTAGCACCCCGAAACTCAAGTTGGTAGATTCGGGATAACCC
GAGTTGGTCCTTGAATAAATTCCTTAGCCTATGAAAGGCCTTGACCCAATTTAAGTGGAGTTGGG
CTTCGAATTAAGCCCAATAGTAGGTAAAAAGGAGGATTATGAGAGTTAACCAAAAGTAAAGTGAC
CAAAAGGGTAAATATACCATTTTTC
Found at i:2061016 original size:20 final size:20
Alignment explanation
Indices: 2060970--2061017 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
2060960 TAGGGGACAA
* *
2060970 TATCGATACTCAAGGGTTAG
1 TATCGATACTCAAGGCTTAC
* *
2060990 TACCGATACTGAAGGCTTAC
1 TATCGATACTCAAGGCTTAC
2061010 TATCGATA
1 TATCGATA
2061018 GCCACAAGCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (20 bp):
TATCGATACTCAAGGCTTAC
Found at i:2061837 original size:14 final size:15
Alignment explanation
Indices: 2061818--2061848 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
2061808 CTATGGGTGA
2061818 TTTTATT-AGATATT
1 TTTTATTCAGATATT
2061832 TTTTATTCAGATATT
1 TTTTATTCAGATATT
2061847 TT
1 TT
2061849 AAAAGAAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.44
15 9 0.56
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.65
Consensus pattern (15 bp):
TTTTATTCAGATATT
Found at i:2063221 original size:7 final size:7
Alignment explanation
Indices: 2063181--2063228 Score: 51
Period size: 7 Copynumber: 6.4 Consensus size: 7
2063171 TGTCTTTTTC
*
2063181 ATTATTT
1 ATTATAT
*
2063188 ATTTTAT
1 ATTATAT
2063195 ATTACTATT
1 ATTA-TA-T
2063204 ATTATTAT
1 ATTA-TAT
2063212 ATTATAT
1 ATTATAT
2063219 ATTATAT
1 ATTATAT
2063226 ATT
1 ATT
2063229 TTAAATATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
7 21 0.60
8 7 0.20
9 7 0.20
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (7 bp):
ATTATAT
Found at i:2064101 original size:4 final size:4
Alignment explanation
Indices: 2064094--2064129 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
2064084 TCGTTGCCTG
2064094 CCTA CCTA CCTA CCTA CCTA CCTA CCTA CCTA CCTA
1 CCTA CCTA CCTA CCTA CCTA CCTA CCTA CCTA CCTA
2064130 TCTATCTATC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.25, C:0.50, G:0.00, T:0.25
Consensus pattern (4 bp):
CCTA
Found at i:2066372 original size:18 final size:19
Alignment explanation
Indices: 2066349--2066387 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
2066339 AACTTAAAGG
*
2066349 ATTAAAATGATAAAA-AAA
1 ATTAAAAGGATAAAATAAA
*
2066367 ATTAAAAGGTTAAAATAAA
1 ATTAAAAGGATAAAATAAA
2066386 AT
1 AT
2066388 AACAGAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.67, C:0.00, G:0.08, T:0.26
Consensus pattern (19 bp):
ATTAAAAGGATAAAATAAA
Found at i:2067786 original size:132 final size:132
Alignment explanation
Indices: 2067486--2068034 Score: 697
Period size: 132 Copynumber: 4.1 Consensus size: 132
2067476 TTGATGATGT
* * * ** * * ** * *
2067486 TGATCCAACTCCGTATGCGATTGATTCAAGTGAAATGAAAACATCGATCCACCTCCTTCTGTGAT
1 TGATCCAACTCCCTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCATCTCTTTCTGTGAT
* ** * *
2067551 GGAATCGAACGAGATATCGATGATGATCCATCTCCTTCTCCTTTTGATGATAGAATCGAGCAAAA
66 GGAATCGAACGAGATGTC-A-G-TG-TTGATCTAC--CTCCTTCTG-TGATAGAATCGAGCAAAA
* * *
2067616 ATTTGATGA
124 AGTTGACGC
* * * *
2067625 TGATCCAACTCCTTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCTTTTCTTTCTGTGAC
1 TGATCCAACTCCCTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCATCTCTTTCTGTGAT
**
2067690 GGAATCGAACGAGATGTCAGTACTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAC
66 GGAATCGAACGAGATGTCAGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAC
*
2067755 GT
131 GC
2067757 TGATCCAACTCCCTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCATCTCTTTCTGTGAT
1 TGATCCAACTCCCTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCATCTCTTTCTGTGAT
* * **
2067822 GGAATCAAACGAGATGTCAGTGTTGATTTACCTTATTCTGTGATA-AATCGAGCAAAAAGTTGAC
66 GGAATCGAACGAGATGTCAGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAC
2067886 GC
131 GC
* * *
2067888 TGATCCAACTCCCTCTGCGATGGATTTGAGCAAAATAAAAATGTCAATCCATCTCCTTCTGTGAT
1 TGATCCAACTCCCTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCATCTCTTTCTGTGAT
* *
2067953 GGAATCGAACGAGATATCGGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAC
66 GGAATCGAACGAGATGTCAGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAC
2068018 GC
131 GC
*
2068020 TGATTCAA-TCCCTCT
1 TGATCCAACTCCCTCT
2068035 CCTTCTATGA
Statistics
Matches: 364, Mismatches: 45, Indels: 10
0.87 0.11 0.02
Matches are distributed among these distances:
131 128 0.35
132 152 0.42
133 8 0.02
135 5 0.01
136 1 0.00
137 1 0.00
138 1 0.00
139 68 0.19
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (132 bp):
TGATCCAACTCCCTCTGCGATGGATTTGAGCGAAATAAAAATGTCGATCCATCTCTTTCTGTGAT
GGAATCGAACGAGATGTCAGTGTTGATCTACCTCCTTCTGTGATAGAATCGAGCAAAAAGTTGAC
GC
Found at i:2068421 original size:126 final size:128
Alignment explanation
Indices: 2068033--2068476 Score: 543
Period size: 126 Copynumber: 3.6 Consensus size: 128
2068023 TTCAATCCCT
**
2068033 CTCCTTCTATGATAGAATCGAGCT--AA-TTGACGCTGATCCAACTCCTTCTGTAATGGATTTGA
1 CTCCTTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * *
2068095 GCGAAAAATGTCAATCCACCTCCTTCTATGATGGATTTGAACAAGATGTCGGTGCTGATCTAC
66 GCGAAAAATGTCGATCCATCTCCTTCTGTGATGGATTTGAACGAGATGTCGGTGCTGATCTAC
* * * *
2068158 CTCATTCTATGATAGAATCGAGATAAAAGTTGACGTTGATCCAACT-C--CTGCGATTGATTTGA
1 CTCCTTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
*
2068220 ---AAAAATGTTGATCCATCTCCTTCTGTGATGGATTTGAACGAGATGTCGGTGCTGATCTAC
66 GCGAAAAATGTCGATCCATCTCCTTCTGTGATGGATTTGAACGAGATGTCGGTGCTGATCTAC
* * * * * *
2068280 CT-CTTATGTGATAGAATCGAGCTAAAAGTTGATGTTGATCCAACTTCTTCTGTGATGGATTTGA
1 CTCCTTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
* * * * * *
2068344 GTGAAAAATGTCGAT-CATCTCCTTCTGTGATGGATTCGAATGAGATAT-TGTGTTGATCTAC
66 GCGAAAAATGTCGATCCATCTCCTTCTGTGATGGATTTGAACGAGATGTCGGTGCTGATCTAC
* * * * * *
2068405 ATCCTTCTGTAATAGAATCGAGCAAAAAGTTGACGCTGATTCAACTCCTTTTGCGATGGATTTGA
1 CTCCTTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
2068470 GCGAAAA
66 GCGAAAA
2068477 TTTGAACAAA
Statistics
Matches: 274, Mismatches: 35, Indels: 19
0.84 0.11 0.06
Matches are distributed among these distances:
121 38 0.14
122 58 0.21
124 13 0.05
125 46 0.17
126 89 0.32
127 14 0.05
128 16 0.06
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (128 bp):
CTCCTTCTATGATAGAATCGAGCTAAAAGTTGACGCTGATCCAACTCCTTCTGCGATGGATTTGA
GCGAAAAATGTCGATCCATCTCCTTCTGTGATGGATTTGAACGAGATGTCGGTGCTGATCTAC
Found at i:2078701 original size:3 final size:3
Alignment explanation
Indices: 2078693--2078720 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
2078683 AGTGCTCGGG
2078693 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
2078721 TTTTTGACCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:2082211 original size:25 final size:25
Alignment explanation
Indices: 2082164--2082231 Score: 115
Period size: 25 Copynumber: 2.8 Consensus size: 25
2082154 TAAGGGGCAC
2082164 CATTTTTCAAAA--C-TTCATCAAA
1 CATTTTTCAAAATTCTTTCATCAAA
2082186 CATTTTTCAAAATTCTTTCATCAAA
1 CATTTTTCAAAATTCTTTCATCAAA
2082211 CATTTTTCAAAATTCTTTCAT
1 CATTTTTCAAAATTCTTTCAT
2082232 TATTAGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
22 12 0.28
24 1 0.02
25 30 0.70
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (25 bp):
CATTTTTCAAAATTCTTTCATCAAA
Found at i:2082508 original size:19 final size:19
Alignment explanation
Indices: 2082484--2082520 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
2082474 AATCATTTCA
2082484 AGAAGATTCGACCTCCGCC
1 AGAAGATTCGACCTCCGCC
2082503 AGAAGATTCGACCTCCGC
1 AGAAGATTCGACCTCCGC
2082521 AAAAAGACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.35, G:0.22, T:0.16
Consensus pattern (19 bp):
AGAAGATTCGACCTCCGCC
Found at i:2082527 original size:19 final size:19
Alignment explanation
Indices: 2082486--2082527 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
2082476 TCATTTCAAG
* *
2082486 AAGATTCGACCTCCGCCAG
1 AAGATTCGACCTCCGCAAA
2082505 AAGATTCGACCTCCGCAAA
1 AAGATTCGACCTCCGCAAA
2082524 AAGA
1 AAGA
2082528 CTTGTTTCTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (19 bp):
AAGATTCGACCTCCGCAAA
Found at i:2085877 original size:18 final size:18
Alignment explanation
Indices: 2085847--2085956 Score: 109
Period size: 17 Copynumber: 6.2 Consensus size: 18
2085837 CATTTCAACA
* *
2085847 TTATCAAAT-ATTTACAA
1 TTATCAGATGATTTACAG
**
2085864 TTATCAGATGATTTTTTAG
1 TTATCAGATGA-TTTACAG
* *
2085883 TTATCATAT-ATTTATAG
1 TTATCAGATGATTTACAG
**
2085900 TTATCAGATGATTTTTAG
1 TTATCAGATGATTTACAG
2085918 TTATCAGATGA-TTACAG
1 TTATCAGATGATTTACAG
*
2085935 TTATCAGATGTTTTACAG
1 TTATCAGATGATTTACAG
2085953 TTAT
1 TTAT
2085957 TACACGTAGA
Statistics
Matches: 78, Mismatches: 11, Indels: 7
0.81 0.11 0.07
Matches are distributed among these distances:
17 36 0.46
18 30 0.38
19 12 0.15
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.47
Consensus pattern (18 bp):
TTATCAGATGATTTACAG
Found at i:2085894 original size:36 final size:36
Alignment explanation
Indices: 2085847--2085948 Score: 138
Period size: 35 Copynumber: 2.9 Consensus size: 36
2085837 CATTTCAACA
*
2085847 TTATCAAATATTTACAATTATCAGATGATTTTTTAG
1 TTATCAAATATTTACAGTTATCAGATGATTTTTTAG
* *
2085883 TTATCATATATTTATAGTTATCAGATGA-TTTTTAG
1 TTATCAAATATTTACAGTTATCAGATGATTTTTTAG
*
2085918 TTATCAGATGA-TTACAGTTATCAGATG-TTTT
1 TTATCAAAT-ATTTACAGTTATCAGATGATTTT
2085949 ACAGTTATTA
Statistics
Matches: 59, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
35 33 0.56
36 26 0.44
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (36 bp):
TTATCAAATATTTACAGTTATCAGATGATTTTTTAG
Found at i:2085902 original size:17 final size:18
Alignment explanation
Indices: 2085864--2085956 Score: 109
Period size: 18 Copynumber: 5.2 Consensus size: 18
2085854 ATATTTACAA
*
2085864 TTATCAGATGATTTTTTAG
1 TTATCAGATGA-TTTATAG
*
2085883 TTATCATAT-ATTTATAG
1 TTATCAGATGATTTATAG
*
2085900 TTATCAGATGATTTTTAG
1 TTATCAGATGATTTATAG
*
2085918 TTATCAGATGA-TTACAG
1 TTATCAGATGATTTATAG
* *
2085935 TTATCAGATGTTTTACAG
1 TTATCAGATGATTTATAG
2085953 TTAT
1 TTAT
2085957 TACACGTAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 5
0.84 0.09 0.06
Matches are distributed among these distances:
17 28 0.43
18 29 0.45
19 8 0.12
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.48
Consensus pattern (18 bp):
TTATCAGATGATTTATAG
Found at i:2087649 original size:233 final size:233
Alignment explanation
Indices: 2087233--2087679 Score: 633
Period size: 233 Copynumber: 1.9 Consensus size: 233
2087223 TTCATATGCG
** * *
2087233 ACTAGACGTCCTCATCAAGTAGGAACAATGTCATCCACTGACTAGACCTCATCAATATGAAGGGG
1 ACTAGACGTCCTCATCAAGTAGGAACAATGTCATCCACCAACTAGACCTCATCAACATGAAGGAG
* * ** *
2087298 CAATGTTAACACCATATTTGACATCGAGCAAATCACCCCAAAGGCTGCCAGATTCTCTTCATCGT
66 CAATGTCAACACCAGATTTGACATCGAGCAAATCACCCCAAAGGAGGCCAGATTCTCTTCAACGT
* * * ** * * *
2087363 CGATGAGCATTGTAGCTTCCAACATCAAATTATCTATATGCAGTCAGATTTCCTCAACAAGAATG
131 CGATGAACAGTGTAGCTTCCAACATCAAATTATCTACAAACAATCAAATTTCCTCAACAAGAATA
*
2087428 AACAATGTTGTCTTCAGATGTGTAGTCACCCAAATACA
196 AACAATATTGTCTTCAGATGTGTAGTCACCCAAATACA
** * *
2087466 ACTAGACGTCCTCATCAAGTAGGAACAATGTTGTCCACCAACTTGACCTCCTCAACATGAAGGAG
1 ACTAGACGTCCTCATCAAGTAGGAACAATGTCATCCACCAACTAGACCTCATCAACATGAAGGAG
* *
2087531 CAATGTCAGCACCAGATTTGACATTGAGCAAATCACCCCAAAGGAGGCCAGATTCTCTTCAACGT
66 CAATGTCAACACCAGATTTGACATCGAGCAAATCACCCCAAAGGAGGCCAGATTCTCTTCAACGT
* * * * *
2087596 GGATGAATAGTGTCGTTTCCAACATCAAATTATCTCCAAACAATCAAATTTCCTCAACAAGAATA
131 CGATGAACAGTGTAGCTTCCAACATCAAATTATCTACAAACAATCAAATTTCCTCAACAAGAATA
2087661 AACAATATTGTCTTCAGAT
196 AACAATATTGTCTTCAGAT
2087680 ACATAGTCAT
Statistics
Matches: 185, Mismatches: 29, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
233 185 1.00
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.26
Consensus pattern (233 bp):
ACTAGACGTCCTCATCAAGTAGGAACAATGTCATCCACCAACTAGACCTCATCAACATGAAGGAG
CAATGTCAACACCAGATTTGACATCGAGCAAATCACCCCAAAGGAGGCCAGATTCTCTTCAACGT
CGATGAACAGTGTAGCTTCCAACATCAAATTATCTACAAACAATCAAATTTCCTCAACAAGAATA
AACAATATTGTCTTCAGATGTGTAGTCACCCAAATACA
Found at i:2088736 original size:6 final size:6
Alignment explanation
Indices: 2088725--2088767 Score: 63
Period size: 6 Copynumber: 7.5 Consensus size: 6
2088715 AATAGAGAAC
*
2088725 AAAAAG AAAAAG AAAAAG -AAAAG AAAAAG AAAAA- TAAAAG AAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAA
2088768 TATTATCGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 9 0.27
6 24 0.73
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (6 bp):
AAAAAG
Found at i:2088746 original size:11 final size:11
Alignment explanation
Indices: 2088725--2088767 Score: 61
Period size: 11 Copynumber: 3.8 Consensus size: 11
2088715 AATAGAGAAC
2088725 AAAAAGAAAAAG
1 AAAAAG-AAAAG
2088737 AAAAAGAAAAG
1 AAAAAGAAAAG
2088748 AAAAAGAAAA-
1 AAAAAGAAAAG
2088758 ATAAAAGAAA
1 A-AAAAGAAA
2088768 TATTATCGAA
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
10 1 0.03
11 23 0.77
12 6 0.20
ACGTcount: A:0.84, C:0.00, G:0.14, T:0.02
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:2088748 original size:17 final size:17
Alignment explanation
Indices: 2088726--2088767 Score: 75
Period size: 17 Copynumber: 2.5 Consensus size: 17
2088716 ATAGAGAACA
2088726 AAAAGAAAAAGAAAAAG
1 AAAAGAAAAAGAAAAAG
*
2088743 AAAAGAAAAAGAAAAAT
1 AAAAGAAAAAGAAAAAG
2088760 AAAAGAAA
1 AAAAGAAA
2088768 TATTATCGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAGAAAAAGAAAAAG
Found at i:2089373 original size:2 final size:2
Alignment explanation
Indices: 2089366--2089484 Score: 135
Period size: 2 Copynumber: 62.0 Consensus size: 2
2089356 TATTTACCTT
2089366 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * * *
2089406 TA T- TA TA TA TA TA TA T- TA AA TG TA T- TA -A GTT TA TA TGG TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA T-A TA
2089446 TA TA TA TA -A 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
2089485 GTATGTATTT
Statistics
Matches: 100, Mismatches: 8, Indels: 18
0.79 0.06 0.14
Matches are distributed among these distances:
1 7 0.07
2 92 0.92
3 1 0.01
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2093246 original size:19 final size:19
Alignment explanation
Indices: 2093222--2093263 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
2093212 GATGAATCAT
2093222 ATTTTATAACTCAAACTTG
1 ATTTTATAACTCAAACTTG
*
2093241 ATTTTATAACTCAAACTTT
1 ATTTTATAACTCAAACTTG
2093260 ATTT
1 ATTT
2093264 AAATTTAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (19 bp):
ATTTTATAACTCAAACTTG
Found at i:2098363 original size:21 final size:19
Alignment explanation
Indices: 2098339--2098452 Score: 68
Period size: 19 Copynumber: 6.3 Consensus size: 19
2098329 ACCCTCATCA
2098339 TTATTTTTCATATATTACTTT
1 TTATTTTTCATATATTA--TT
* *
2098360 TTATTTTTCTTATTTTATT
1 TTATTTTTCATATATTATT
2098379 TTA-TTTT-AT-T-TTATT
1 TTATTTTTCATATATTATT
* *
2098394 TTATTCTT--T-TCTTATT
1 TTATTTTTCATATATTATT
*
2098410 TTATTTTT-TTATATTAGTT
1 TTATTTTTCATATATTA-TT
*
2098429 TTATTTAT-ATAT-TTATT
1 TTATTTTTCATATATTATT
2098446 TTCATTT
1 TT-ATTT
2098453 GTATTTTACT
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
15 10 0.13
16 16 0.20
17 6 0.08
18 15 0.19
19 17 0.22
21 15 0.19
ACGTcount: A:0.20, C:0.05, G:0.01, T:0.74
Consensus pattern (19 bp):
TTATTTTTCATATATTATT
Found at i:2098375 original size:15 final size:15
Alignment explanation
Indices: 2098358--2098681 Score: 89
Period size: 14 Copynumber: 21.3 Consensus size: 15
2098348 ATATATTACT
2098358 TTTTATTTT-TCTTA
1 TTTTATTTTATCTTA
*
2098372 TTTTATTTTATTTTA
1 TTTTATTTTATCTTA
2098387 TTTTATTTTATTCTT-
1 TTTTATTTTA-TCTTA
2098402 TTCTTATTTTAT-TT-
1 TT-TTATTTTATCTTA
* *
2098416 TTTTATATTAGTTTTA
1 TTTTATTTTA-TCTTA
*
2098432 TTTATATATTTATTTTCA
1 TTT-TAT-TTTATCTT-A
*
2098450 TTTGTATTTTACTCTTG
1 TTT-TATTTTA-TCTTA
*
2098467 TTTTTTATTTAT-TTA
1 TTTTAT-TTTATCTTA
*
2098482 --TTATGTATATACAATTA
1 TTTTAT-TTTAT-C--TTA
* *
2098499 TTAATATTTT-CCTTTA
1 TT-TTATTTTATC-TTA
*
2098515 TTTTATTATTATTTTTA
1 TTTTATT-TTA-TCTTA
*
2098532 TTTTATTTTGCTCGTTA
1 TTTTATTTT-ATC-TTA
2098549 TCTTTATTTTGA--TTA
1 T-TTTATTTT-ATCTTA
2098564 TTTTA-TTTAT-TT-
1 TTTTATTTTATCTTA
2098576 TTCTTATTTT-TCTTA
1 TT-TTATTTTATCTTA
*
2098591 TTTT-TCTTATTTCTT-
1 TTTTAT-TT-TATCTTA
*
2098606 TTGTT-TTTTATGTT-
1 TT-TTATTTTATCTTA
*
2098620 CTTTATTTTAT-TTA
1 TTTTATTTTATCTTA
*
2098634 -GTT-TTTTATCTTTA
1 TTTTATTTTATC-TTA
* * *
2098648 TTTTATTTTTTATGTC
1 TTTTATTTTATCT-TA
2098664 TTTTA-TTTATCTTA
1 TTTTATTTTATCTTA
2098678 TTTT
1 TTTT
2098682 CCTTTTTTCA
Statistics
Matches: 237, Mismatches: 33, Indels: 80
0.68 0.09 0.23
Matches are distributed among these distances:
12 9 0.04
13 30 0.13
14 46 0.19
15 44 0.19
16 45 0.19
17 36 0.15
18 22 0.09
19 2 0.01
20 3 0.01
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.72
Consensus pattern (15 bp):
TTTTATTTTATCTTA
Found at i:2098377 original size:5 final size:5
Alignment explanation
Indices: 2098358--2098739 Score: 113
Period size: 5 Copynumber: 74.6 Consensus size: 5
2098348 ATATATTACT
*
2098358 TTTTA TTTT- TCTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTCTT- TTCTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT-TTA TT-TTA
*
2098408 TTTTA -TTT- TTTTA TATTA GTTTTA TTTATA TATTTA TTTTCA TTTGTA
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTT-TA T-TTTA TTTT-A TTT-TA
* * ** *
2098456 TTTTA CTCTTGTT TTTTA -TTTA -TTTA TTATGTA -TATA CAATTA TTAATA
1 TTTTA -T-TT-TA TTTTA TTTTA TTTTA TT-T-TA TTTTA -TTTTA TT-TTA
* * * *
2098505 TTTTC CTTTA TTTTA TTATTA TTTTTA TTTTA TTTTGC TCGTTA TCTTTA
1 TTTTA TTTTA TTTTA TT-TTA -TTTTA TTTTA TTTT-A T-TTTA T-TTTA
* * *
2098555 TTTTGA --TTA TTTTA -TTTA TTTT- TCTTA TTTT- TCTTA TTTT- TCTTA
1 TTTT-A TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * * *
2098600 TTTCT- TTTGTT TTTTA TGTT- CTTTA TTTTA TTTAGTT TTTTA TCTTTA
1 TTT-TA TTT-TA TTTTA TTTTA TTTTA TTTTA TTT--TA TTTTA T-TTTA
* * * * *
2098648 TTTTA TTTT- TTATGTC TTTTA -TTTA TCTTA TTTTC CTTT- TTTCA -TTTA
1 TTTTA TTTTA TT-T-TA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
* * *
2098696 TTTTTA TTTT- TAATTC TTTTA TTTTA TTTT- TCTTTA GTTTA TTT
1 -TTTTA TTTTA T-TTTA TTTTA TTTTA TTTTA T-TTTA TTTTA TTT
2098740 ATCTTCATTG
Statistics
Matches: 282, Mismatches: 48, Indels: 94
0.67 0.11 0.22
Matches are distributed among these distances:
3 1 0.00
4 49 0.17
5 150 0.53
6 63 0.22
7 18 0.06
8 1 0.00
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (5 bp):
TTTTA
Found at i:2098403 original size:18 final size:17
Alignment explanation
Indices: 2098358--2098725 Score: 107
Period size: 18 Copynumber: 20.2 Consensus size: 17
2098348 ATATATTACT
2098358 TTTTATTTTTCTTATTTTA
1 TTTTA-TTTT-TTATTTTA
2098377 TTTTA--TTTTATTTTA
1 TTTTATTTTTTATTTTA
* *
2098392 TTTTATTCTTT-TCTTA
1 TTTTATTTTTTATTTTA
*
2098408 TTTTATTTTTTTATATTA
1 TTTTA-TTTTTTATTTTA
*
2098426 GTTTTA-TTTATATATTTA
1 -TTTTATTTTTTAT-TTTA
*
2098444 TTTTCA-TTTGTATTTTA
1 TTTT-ATTTTTTATTTTA
* *
2098461 CTCTTGTTTTTTA-TTTA
1 -TTTTATTTTTTATTTTA
**
2098478 -TTTATTATGTATATACAATTA
1 TTTTATT-T-T-T-TA-TTTTA
*
2098499 TTAATATTTTCCTTTATTTTA
1 TT-TTA-TTT--TTTATTTTA
2098520 TTATTA-TTTTTATTTTA
1 TT-TTATTTTTTATTTTA
** **
2098537 TTTTGCTCGTTATCTTTA
1 TTTTATTTTTTAT-TTTA
*
2098555 TTTTGATTATTTTATTTATTT
1 TTTT-ATT-TTTTA-TT-TTA
2098576 TTCTTATTTTTCTTATTTT-
1 TT-TTA-TTTT-TTATTTTA
* *
2098595 TCTTATTTCTTT-TGTT-
1 TTTTATTT-TTTATTTTA
2098611 TTTTATGTTCTTTATTTTA
1 TTTTAT-TT-TTTATTTTA
2098630 -TTTAGTTTTTTATCTTTA
1 TTTTA-TTTTTTAT-TTTA
* *
2098648 TTTTATTTTTTA-TGTC
1 TTTTATTTTTTATTTTA
*
2098664 TTTTATTTATCTTATTTTCC
1 TTTTATTT-T-TTATTTT-A
*
2098684 TTTT-TTCATTTATTTTTA
1 TTTTATT-TTTTA-TTTTA
2098702 TTTTTAATTCTTTTATTTTA
1 -TTTT-ATT-TTTTATTTTA
2098722 TTTT
1 TTTT
2098726 TCTTTAGTTT
Statistics
Matches: 269, Mismatches: 36, Indels: 88
0.68 0.09 0.22
Matches are distributed among these distances:
15 17 0.06
16 32 0.12
17 60 0.22
18 61 0.23
19 38 0.14
20 16 0.06
21 28 0.10
22 10 0.04
23 4 0.01
24 3 0.01
ACGTcount: A:0.18, C:0.07, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTATTTTTTATTTTA
Found at i:2098406 original size:36 final size:35
Alignment explanation
Indices: 2098339--2098433 Score: 106
Period size: 36 Copynumber: 2.7 Consensus size: 35
2098329 ACCCTCATCA
* *
2098339 TTATTTTTCATATATTACTTTT-TAT-TTTTCTTATT
1 TTATTTTT-TTATATTAGTTTTAT-TCTTTTCTTATT
*
2098374 TTATTTTATTTTATTTTA-TTTTATTCTTTTCTTATT
1 TTA-TTT-TTTTATATTAGTTTTATTCTTTTCTTATT
2098410 TTATTTTTTTATATTAGTTTTATT
1 TTATTTTTTTATATTAGTTTTATT
2098434 TATATATTTA
Statistics
Matches: 52, Mismatches: 3, Indels: 10
0.80 0.05 0.15
Matches are distributed among these distances:
34 9 0.17
35 18 0.35
36 23 0.44
37 2 0.04
ACGTcount: A:0.19, C:0.05, G:0.01, T:0.75
Consensus pattern (35 bp):
TTATTTTTTTATATTAGTTTTATTCTTTTCTTATT
Found at i:2098528 original size:11 final size:10
Alignment explanation
Indices: 2098511--2098739 Score: 63
Period size: 9 Copynumber: 22.7 Consensus size: 10
2098501 AATATTTTCC
2098511 TTTATTTTAT
1 TTTATTTTAT
2098521 TATTATTTTTAT
1 T-TTA-TTTTAT
*
2098533 TTTATTTTGCT
1 TTTATTTT-AT
*
2098544 CGTTATCTTTAT
1 -TTTAT-TTTAT
2098556 TTTGA--TTAT
1 TTT-ATTTTAT
2098565 TTTA-TTTAT
1 TTTATTTTAT
*
2098574 TTT-TCTTAT
1 TTTATTTTAT
*
2098583 TTT-TCTTAT
1 TTTATTTTAT
*
2098592 TTT-TCTTAT
1 TTTATTTTAT
*
2098601 TTCT-TTTGTTT
1 TT-TATTT-TAT
* *
2098612 TTTATGTT-C
1 TTTATTTTAT
2098621 TTTATTTTAT
1 TTTATTTTAT
*
2098631 TTAGTTTTTTAT
1 TT--TATTTTAT
2098643 CTTTATTTTAT
1 -TTTATTTTAT
*
2098654 TTT-TTATGTCT
1 TTTATT-T-TAT
2098665 TTTA-TTTAT
1 TTTATTTTAT
* **
2098674 CTTATTTTCC
1 TTTATTTTAT
*
2098684 TTT-TTTCA-
1 TTTATTTTAT
2098692 TTTATTTTTAT
1 TTTA-TTTTAT
* *
2098703 TTT-TAATTCT
1 TTTAT-TTTAT
2098713 TTTATTTTAT
1 TTTATTTTAT
*
2098723 TTT-TCTTTAG
1 TTTAT-TTTAT
2098733 TTTATTT
1 TTTATTT
2098740 ATCTTCATTG
Statistics
Matches: 166, Mismatches: 27, Indels: 52
0.68 0.11 0.21
Matches are distributed among these distances:
8 4 0.02
9 57 0.34
10 47 0.28
11 33 0.20
12 20 0.12
13 5 0.03
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.74
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:2098532 original size:12 final size:11
Alignment explanation
Indices: 2098511--2098726 Score: 51
Period size: 12 Copynumber: 18.8 Consensus size: 11
2098501 AATATTTTCC
2098511 TTTA-TTTTAT
1 TTTATTTTTAT
2098521 TATTATTTTTAT
1 T-TTATTTTTAT
**
2098533 TTTATTTTGCT
1 TTTATTTTTAT
* *
2098544 CGTTATCTTTAT
1 -TTTATTTTTAT
2098556 TTTGATTATTT-T
1 TTT-ATT-TTTAT
*
2098568 ATTTATTTTTCT
1 -TTTATTTTTAT
2098580 TATT-TTTCTTA-
1 T-TTATTT-TTAT
*
2098591 TTT-TTCTTAT
1 TTTATTTTTAT
2098601 TTCT-TTTGTT-T
1 TT-TATTT-TTAT
2098612 TTTATGTTCTTTAT
1 TTTA--TT-TTTAT
2098626 TTTATTTAGTT-T
1 TTTATTT--TTAT
*
2098638 TTTATCTTTAT
1 TTTATTTTTAT
2098649 TTTATTTTTTAT
1 TTTA-TTTTTAT
2098661 GTCTT-TTATTTAT
1 -T-TTATT-TTTAT
* **
2098674 CTTATTTTCCT
1 TTTATTTTTAT
2098685 TTT-TTCATTTATT
1 TTTATT--TTTA-T
2098698 TTTATTTTTA-
1 TTTATTTTTAT
* *
2098708 ATT-CTTTTAT
1 TTTATTTTTAT
2098718 TTTATTTTT
1 TTTATTTTT
2098727 CTTTAGTTTA
Statistics
Matches: 152, Mismatches: 23, Indels: 61
0.64 0.10 0.26
Matches are distributed among these distances:
9 8 0.05
10 16 0.11
11 44 0.29
12 52 0.34
13 22 0.14
14 10 0.07
ACGTcount: A:0.15, C:0.07, G:0.03, T:0.75
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:2098594 original size:8 final size:9
Alignment explanation
Indices: 2098561--2098602 Score: 68
Period size: 9 Copynumber: 4.7 Consensus size: 9
2098551 TTTATTTTGA
2098561 TTATTTTAT-
1 TTATTTT-TC
2098570 TTATTTTTC
1 TTATTTTTC
2098579 TTATTTTTC
1 TTATTTTTC
2098588 TTATTTTTC
1 TTATTTTTC
2098597 TTATTT
1 TTATTT
2098603 CTTTTGTTTT
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 1 0.03
9 31 0.97
ACGTcount: A:0.14, C:0.07, G:0.00, T:0.79
Consensus pattern (9 bp):
TTATTTTTC
Found at i:2098673 original size:48 final size:49
Alignment explanation
Indices: 2098621--2098744 Score: 137
Period size: 48 Copynumber: 2.5 Consensus size: 49
2098611 TTTTATGTTC
*
2098621 TTTATTTTATTTAGTTTTTTATCTTTA-TTTTATTTTTTATGTCTTTTA-
1 TTTATTTTATTTAGTTTTTTATCTTTATTTTTATTTTTAAT-TCTTTTAT
* ***
2098669 TTTATCTTATTTTCCTTTTT-TCATTTATTTTTATTTTTAATTCTTTTAT
1 TTTATTTTATTTAGTTTTTTATC-TTTATTTTTATTTTTAATTCTTTTAT
*
2098718 TTTATTTTTCTTTAGTTTATTTATCTT
1 TTTA-TTTTATTTAGTTT-TTTATCTT
2098745 CATTGCCTTT
Statistics
Matches: 60, Mismatches: 10, Indels: 9
0.76 0.13 0.11
Matches are distributed among these distances:
47 2 0.03
48 27 0.45
49 16 0.27
50 8 0.13
51 5 0.08
52 2 0.03
ACGTcount: A:0.16, C:0.07, G:0.02, T:0.74
Consensus pattern (49 bp):
TTTATTTTATTTAGTTTTTTATCTTTATTTTTATTTTTAATTCTTTTAT
Found at i:2104828 original size:19 final size:20
Alignment explanation
Indices: 2104800--2104838 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2104790 TTTGGGAAAA
*
2104800 ATCGG-TTTTTTTTAACCGG
1 ATCGGATTTTTTTAAACCGG
2104819 ATCGGATTTTTTTAAACCGG
1 ATCGGATTTTTTTAAACCGG
2104839 TTATTTTAAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.21, C:0.15, G:0.21, T:0.44
Consensus pattern (20 bp):
ATCGGATTTTTTTAAACCGG
Found at i:2104898 original size:12 final size:12
Alignment explanation
Indices: 2104883--2104928 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
2104873 CGGTTTTTTT
*
2104883 ACCGGATAAAAA
1 ACCGGTTAAAAA
2104895 ACCGGTTTGAAAAAA
1 ACCGG-TT--AAAAA
2104910 ACCGGTTAAAAA
1 ACCGGTTAAAAA
2104922 ACCGGTT
1 ACCGGTT
2104929 TTTATCCGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
12 17 0.57
13 1 0.03
14 2 0.07
15 10 0.33
ACGTcount: A:0.46, C:0.17, G:0.20, T:0.17
Consensus pattern (12 bp):
ACCGGTTAAAAA
Found at i:2104910 original size:15 final size:13
Alignment explanation
Indices: 2104889--2104929 Score: 57
Period size: 12 Copynumber: 3.1 Consensus size: 13
2104879 TTTTACCGGA
2104889 TAAAAAACCGGTT
1 TAAAAAACCGGTT
2104902 TGAAAAAAACCGG-T
1 T--AAAAAACCGGTT
2104916 TAAAAAACCGGTT
1 TAAAAAACCGGTT
2104929 T
1 T
2104930 TTATCCGGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
12 10 0.40
13 3 0.12
14 2 0.08
15 10 0.40
ACGTcount: A:0.46, C:0.15, G:0.17, T:0.22
Consensus pattern (13 bp):
TAAAAAACCGGTT
Found at i:2107247 original size:21 final size:21
Alignment explanation
Indices: 2107223--2107262 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
2107213 TTTATTTTAT
2107223 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
2107244 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
2107263 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:2107310 original size:33 final size:33
Alignment explanation
Indices: 2107257--2107355 Score: 164
Period size: 33 Copynumber: 3.0 Consensus size: 33
2107247 TTTGTTTCAA
2107257 TTATCGAACTT-GAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2107289 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
* * *
2107322 TTATCAAACTTGGAAGTATTTAAGTATTTCAAT
1 TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
2107355 T
1 T
2107356 ATGTTGAGTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
32 11 0.17
33 52 0.83
ACGTcount: A:0.32, C:0.07, G:0.15, T:0.45
Consensus pattern (33 bp):
TTATCGAACTTGGAAGTTTTTAAGTATTTGAAT
Found at i:2107617 original size:21 final size:21
Alignment explanation
Indices: 2107591--2107647 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
2107581 TGGAGCGTGG
*
2107591 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
2107612 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
2107633 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
2107648 AAGTGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:2107838 original size:15 final size:15
Alignment explanation
Indices: 2107813--2107868 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 15
2107803 ATCTGGAATA
*
2107813 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
2107828 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
*
2107843 TAAAAAAACCGGTTTTT
1 T--TAAAACCGGTTTTT
2107860 TTAAAACCG
1 TTAAAACCG
2107869 AAACCGGTTA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
15 21 0.62
17 13 0.38
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.43
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:2107877 original size:21 final size:18
Alignment explanation
Indices: 2107832--2107865 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
2107822 GTTTTTTTAT
2107832 AACCGG-TTTTTTAAAAA
1 AACCGGTTTTTTTAAAAA
2107849 AACCGGTTTTTTTAAAA
1 AACCGGTTTTTTTAAAA
2107866 CCGAAACCGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.38, C:0.12, G:0.12, T:0.38
Consensus pattern (18 bp):
AACCGGTTTTTTTAAAAA
Found at i:2107976 original size:15 final size:17
Alignment explanation
Indices: 2107950--2107981 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
2107940 TTCTATGGGA
2107950 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
2107966 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
2107982 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:2110988 original size:24 final size:24
Alignment explanation
Indices: 2110961--2111016 Score: 69
Period size: 25 Copynumber: 2.3 Consensus size: 24
2110951 ATTATAAAAT
*
2110961 AAAATATCATA-TAAATAATTTAAA
1 AAAATATAATATTAAAT-ATTTAAA
2110985 AAAATATAATATTTAAATATTTAAA
1 AAAATATAATA-TTAAATATTTAAA
*
2111010 TAAATAT
1 AAAATAT
2111017 TAGATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 10 0.36
25 13 0.46
26 5 0.18
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.38
Consensus pattern (24 bp):
AAAATATAATATTAAATATTTAAA
Found at i:2111023 original size:25 final size:26
Alignment explanation
Indices: 2110972--2111023 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 26
2110962 AAATATCATA
*
2110972 TAAATAATTTAAAAAAATATAATATT
1 TAAATAATTTAAAAAAATATAAGATT
* *
2110998 TAAAT-ATTTAAATAAATATTAGATT
1 TAAATAATTTAAAAAAATATAAGATT
2111023 T
1 T
2111024 TTTAATTTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 18 0.78
26 5 0.22
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (26 bp):
TAAATAATTTAAAAAAATATAAGATT
Found at i:2111202 original size:18 final size:18
Alignment explanation
Indices: 2111179--2111252 Score: 123
Period size: 18 Copynumber: 4.1 Consensus size: 18
2111169 ATGTAATATT
2111179 TTATTTTAAAATTTAAAA
1 TTATTTTAAAATTTAAAA
*
2111197 TTATTTTAAATTTTAAAA
1 TTATTTTAAAATTTAAAA
2111215 TTATTTT-AAATATTAAAA
1 TTATTTTAAAAT-TTAAAA
2111233 TTATTTTAAAATTTAAAA
1 TTATTTTAAAATTTAAAA
2111251 TT
1 TT
2111253 TAATTATAAA
Statistics
Matches: 52, Mismatches: 2, Indels: 4
0.90 0.03 0.07
Matches are distributed among these distances:
17 3 0.06
18 45 0.87
19 4 0.08
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (18 bp):
TTATTTTAAAATTTAAAA
Found at i:2111206 original size:11 final size:11
Alignment explanation
Indices: 2111190--2111245 Score: 56
Period size: 11 Copynumber: 5.8 Consensus size: 11
2111180 TATTTTAAAA
2111190 TTTAAAATTAT
1 TTTAAAATTAT
2111201 TTT--AA--AT
1 TTTAAAATTAT
2111208 TTTAAAATTAT
1 TTTAAAATTAT
2111219 TTT-AAA-TA-
1 TTTAAAATTAT
2111227 -TTAAAATTAT
1 TTTAAAATTAT
2111237 TTTAAAATT
1 TTTAAAATT
2111246 TAAAATTTAA
Statistics
Matches: 37, Mismatches: 0, Indels: 16
0.70 0.00 0.30
Matches are distributed among these distances:
7 7 0.19
8 3 0.08
9 8 0.22
10 3 0.08
11 16 0.43
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTAAAATTAT
Found at i:2112290 original size:31 final size:31
Alignment explanation
Indices: 2112198--2112291 Score: 82
Period size: 31 Copynumber: 3.0 Consensus size: 31
2112188 AAACAACATC
* * *
2112198 TTATTTTTATCGA-AACTTAAATAAGATATTTT
1 TTATTCTTATC-ATAACTTAAA-AACATATATT
***
2112230 TTATTCTTATCATAACTTAAAATTTTATATT
1 TTATTCTTATCATAACTTAAAAACATATATT
* **
2112261 TTATTTTTATTTTAACTTAAAAACATATATT
1 TTATTCTTATCATAACTTAAAAACATATATT
2112292 CACAGTATAC
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
31 32 0.64
32 18 0.36
ACGTcount: A:0.37, C:0.07, G:0.02, T:0.53
Consensus pattern (31 bp):
TTATTCTTATCATAACTTAAAAACATATATT
Found at i:2112364 original size:27 final size:26
Alignment explanation
Indices: 2112334--2112387 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
2112324 AAAATACTTA
*
2112334 ATTTCTATTCATAATTTAAAAATGTAT
1 ATTTCTATTCAT-ACTTAAAAATGTAT
* *
2112361 ATTTTTATTTATACTTAAAAATGTAT
1 ATTTCTATTCATACTTAAAAATGTAT
2112387 A
1 A
2112388 AATACTTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.41, C:0.06, G:0.04, T:0.50
Consensus pattern (26 bp):
ATTTCTATTCATACTTAAAAATGTAT
Found at i:2112499 original size:31 final size:32
Alignment explanation
Indices: 2112459--2112531 Score: 96
Period size: 32 Copynumber: 2.3 Consensus size: 32
2112449 TAAAATAAAA
*
2112459 ATAAAAATAAAATATA-CATT-TTTAAGTTTTG
1 ATAAAAATAAAAAATATC-TTATTTAAGTTTTG
* *
2112490 ATAAGAATAAAAAATATCTTATTTTAGTTTTG
1 ATAAAAATAAAAAATATCTTATTTAAGTTTTG
2112522 ATAAAAATAA
1 ATAAAAATAA
2112532 GATGATGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
31 16 0.44
32 20 0.56
ACGTcount: A:0.51, C:0.03, G:0.07, T:0.40
Consensus pattern (32 bp):
ATAAAAATAAAAAATATCTTATTTAAGTTTTG
Found at i:2112634 original size:20 final size:21
Alignment explanation
Indices: 2112595--2112638 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
2112585 TTAAAAACAT
2112595 ATATTTTATAGAACTTAATAA
1 ATATTTTATAGAACTTAATAA
* *
2112616 ATATTTT-TTGAAGTTAATAA
1 ATATTTTATAGAACTTAATAA
2112636 ATA
1 ATA
2112639 AAGTATTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 14 0.67
21 7 0.33
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.45
Consensus pattern (21 bp):
ATATTTTATAGAACTTAATAA
Found at i:2120351 original size:10 final size:10
Alignment explanation
Indices: 2120336--2120406 Score: 53
Period size: 10 Copynumber: 7.3 Consensus size: 10
2120326 AGGTCTCCAA
2120336 CGTTTATGTT
1 CGTTTATGTT
2120346 CGTTTATGTT
1 CGTTTATGTT
2120356 CGTATTCAT-TT
1 CGT-TT-ATGTT
* **
2120367 ATGTTCGTGTT
1 -CGTTTATGTT
2120378 CGTTTATGTT
1 CGTTTATGTT
2120388 CG----TGTT
1 CGTTTATGTT
2120394 CGTTTATGTT
1 CGTTTATGTT
2120404 CGT
1 CGT
2120407 GTTCGTTTAT
Statistics
Matches: 47, Mismatches: 6, Indels: 16
0.68 0.09 0.23
Matches are distributed among these distances:
6 6 0.13
10 30 0.64
11 7 0.15
12 4 0.09
ACGTcount: A:0.10, C:0.13, G:0.21, T:0.56
Consensus pattern (10 bp):
CGTTTATGTT
Found at i:2120369 original size:16 final size:16
Alignment explanation
Indices: 2120342--2120416 Score: 132
Period size: 16 Copynumber: 4.7 Consensus size: 16
2120332 CCAACGTTTA
2120342 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
* *
2120358 TATTCATTTATGTTCG
1 TGTTCGTTTATGTTCG
2120374 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2120390 TGTTCGTTTATGTTCG
1 TGTTCGTTTATGTTCG
2120406 TGTTCGTTTAT
1 TGTTCGTTTAT
2120417 TTATTAAATG
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 55 1.00
ACGTcount: A:0.09, C:0.12, G:0.21, T:0.57
Consensus pattern (16 bp):
TGTTCGTTTATGTTCG
Found at i:2120504 original size:16 final size:16
Alignment explanation
Indices: 2120480--2120510 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2120470 TAAAAAAAAT
*
2120480 TGTTTGTTTATGTTCA
1 TGTTCGTTTATGTTCA
2120496 TGTTCGTTTATGTTC
1 TGTTCGTTTATGTTC
2120511 GTTTATTTAT
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:0.10, C:0.10, G:0.19, T:0.61
Consensus pattern (16 bp):
TGTTCGTTTATGTTCA
Found at i:2124340 original size:23 final size:23
Alignment explanation
Indices: 2124314--2124358 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
2124304 TATGGAAACA
*
2124314 ATTTTGT-AATCTATTCCATATAC
1 ATTTTGTCAATCTAATCC-TATAC
*
2124337 ATTTTTTCAATCTAATCCTATA
1 ATTTTGTCAATCTAATCCTATA
2124359 ACAATTTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 10 0.53
24 9 0.47
ACGTcount: A:0.31, C:0.18, G:0.02, T:0.49
Consensus pattern (23 bp):
ATTTTGTCAATCTAATCCTATAC
Done.