Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008281.1 Hibiscus syriacus cultivar Beakdansim tig00110943_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: 2054746
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 10
Found at i:1093914 original size:48 final size:49
Alignment explanation
Indices: 1093855--1093961 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 49
1093845 TATTCTATCG
*
1093855 TTATATATATATATATATACTTTTAATTAT-T-TTTCATATATCATTATT-TT
1 TTATATATATATATAT-TAC-TATAATTATATGTTTCATATAT--TTATTATT
* * *
1093905 TTATATATATTTTTATTACTATAATTATATGTTTTATATATTTATTATT
1 TTATATATATATATATTACTATAATTATATGTTTCATATATTTATTATT
1093954 TTATATAT
1 TTATATAT
1093962 TTCATTTTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
48 13 0.26
49 14 0.28
50 23 0.46
ACGTcount: A:0.34, C:0.04, G:0.01, T:0.62
Consensus pattern (49 bp):
TTATATATATATATATTACTATAATTATATGTTTCATATATTTATTATT
Found at i:1093977 original size:29 final size:29
Alignment explanation
Indices: 1093936--1094053 Score: 102
Period size: 29 Copynumber: 4.1 Consensus size: 29
1093926 TAATTATATG
* *
1093936 TTTTATATATTTATTATTTTATATATTTCA-
1 TTTTATCT-TTTATT-TTTTATATATTTTAT
*
1093966 TTTTATCTTTTATTTTTT-TATCTTTTAT
1 TTTTATCTTTTATTTTTTATATATTTTAT
*
1093994 TTTTAT-TTTTATTTTTGTAT-TGTTATTAT
1 TTTTATCTTTTATTTTT-TATATATT-TTAT
* *
1094023 TTTTATCTTCTT-TATTTTATGTATTTTAT
1 TTTTATCTT-TTATTTTTTATATATTTTAT
1094052 TT
1 TT
1094054 ATATATATAT
Statistics
Matches: 75, Mismatches: 6, Indels: 15
0.78 0.06 0.16
Matches are distributed among these distances:
27 17 0.23
28 14 0.19
29 26 0.35
30 16 0.21
31 2 0.03
ACGTcount: A:0.19, C:0.04, G:0.03, T:0.74
Consensus pattern (29 bp):
TTTTATCTTTTATTTTTTATATATTTTAT
Found at i:1093978 original size:7 final size:6
Alignment explanation
Indices: 1093943--1094009 Score: 55
Period size: 7 Copynumber: 10.2 Consensus size: 6
1093933 ATGTTTTATA
*
1093943 TATTTAT TATTTT ATATATTT CA-TTT TATCTTT TATTTTTT TATCTTT
1 TATTT-T TATTTT -TAT-TTT TATTTT TAT-TTT TA--TTTT TAT-TTT
1093991 TATTTT TATTTT TATTTT T
1 TATTTT TATTTT TATTTT T
1094010 GTATTGTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 15
0.75 0.03 0.22
Matches are distributed among these distances:
5 4 0.08
6 18 0.35
7 20 0.39
8 8 0.16
9 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TATTTT
Found at i:1093980 original size:12 final size:12
Alignment explanation
Indices: 1093949--1094008 Score: 50
Period size: 13 Copynumber: 4.6 Consensus size: 12
1093939 TATATATTTA
*
1093949 TTATTTTATATAT
1 TTATTTTATCT-T
1093962 TTCATTTTATCTT
1 TT-ATTTTATCTT
1093975 TTATTTTTTTATCTT
1 TTA---TTTTATCTT
1093990 TTATTTTTAT-TT
1 TTA-TTTTATCTT
1094002 TTATTTT
1 TTATTTT
1094009 TGTATTGTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
11 4 0.10
12 6 0.14
13 12 0.29
14 8 0.19
15 12 0.29
ACGTcount: A:0.18, C:0.05, G:0.00, T:0.77
Consensus pattern (12 bp):
TTATTTTATCTT
Found at i:1093982 original size:27 final size:27
Alignment explanation
Indices: 1093943--1094009 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
1093933 ATGTTTTATA
1093943 TATTTATTA-TTTTATATATTTCA-TTT
1 TATTT-TTATTTTTATATATTTCATTTT
* * *
1093969 TATCTTTTATTTTTTTATCTTTTATTTT
1 TAT-TTTTATTTTTATATATTTCATTTT
1093997 TATTTTTATTTTT
1 TATTTTTATTTTT
1094010 GTATTGTTAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 6 0.17
27 23 0.66
28 6 0.17
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.76
Consensus pattern (27 bp):
TATTTTTATTTTTATATATTTCATTTT
Found at i:1093986 original size:15 final size:15
Alignment explanation
Indices: 1093966--1094031 Score: 77
Period size: 15 Copynumber: 4.6 Consensus size: 15
1093956 ATATATTTCA
1093966 TTTTATCTTTTATTT
1 TTTTATCTTTTATTT
1093981 TTTTATCTTTTA--T
1 TTTTATCTTTTATTT
1093994 TTTTAT-TTTTATTT
1 TTTTATCTTTTATTT
* *
1094008 TTGTAT-TGTTATTAT
1 TTTTATCTTTTATT-T
1094023 TTTTATCTT
1 TTTTATCTT
1094032 CTTTATTTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
12 5 0.12
13 7 0.16
14 12 0.28
15 18 0.42
16 1 0.02
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.77
Consensus pattern (15 bp):
TTTTATCTTTTATTT
Found at i:1094039 original size:15 final size:14
Alignment explanation
Indices: 1093966--1094053 Score: 60
Period size: 15 Copynumber: 6.1 Consensus size: 14
1093956 ATATATTTCA
*
1093966 TTTTATCTTTTATTT
1 TTTTATCTTTT-TAT
1093981 TTTTATC-TTTTAT
1 TTTTATCTTTTTAT
1093994 TTTTA--TTTTTATT
1 TTTTATCTTTTTA-T
1094007 TTTGTAT-TGTTATTAT
1 TTT-TATCT-TT-TTAT
1094023 TTTTATCTTCTTTA-
1 TTTTATCTT-TTTAT
*
1094037 TTTTATGTATTTTAT
1 TTTTATCT-TTTTAT
1094052 TT
1 TT
1094054 ATATATATAT
Statistics
Matches: 61, Mismatches: 2, Indels: 20
0.73 0.02 0.24
Matches are distributed among these distances:
12 5 0.08
13 11 0.18
14 16 0.26
15 18 0.30
16 8 0.13
17 3 0.05
ACGTcount: A:0.16, C:0.05, G:0.03, T:0.76
Consensus pattern (14 bp):
TTTTATCTTTTTAT
Found at i:1094042 original size:23 final size:22
Alignment explanation
Indices: 1093973--1094049 Score: 83
Period size: 23 Copynumber: 3.5 Consensus size: 22
1093963 TCATTTTATC
1093973 TTTTATT-TTTTTATC-TTTTA
1 TTTTATTATTTTTATCTTTTTA
1093993 -TTT-TTATTTTTAT-TTTTGTA
1 TTTTATTATTTTTATCTTTT-TA
1094013 TTGTTATTATTTTTATCTTCTTTA
1 TT-TTATTATTTTTATCTT-TTTA
1094037 TTTTATGTATTTT
1 TTTTAT-TATTTT
1094050 ATTTATATAT
Statistics
Matches: 48, Mismatches: 0, Indels: 14
0.77 0.00 0.23
Matches are distributed among these distances:
18 2 0.04
19 13 0.27
20 2 0.04
21 1 0.02
22 2 0.04
23 14 0.29
24 12 0.25
25 2 0.04
ACGTcount: A:0.16, C:0.04, G:0.04, T:0.77
Consensus pattern (22 bp):
TTTTATTATTTTTATCTTTTTA
Found at i:1094054 original size:18 final size:17
Alignment explanation
Indices: 1093945--1094055 Score: 56
Period size: 15 Copynumber: 6.5 Consensus size: 17
1093935 GTTTTATATA
*
1093945 TTTA-TTATTTTATATAT
1 TTTATTTATTTT-TGTAT
* *
1093962 TTCATTTTATCTTT-TAT
1 TTTA-TTTATTTTTGTAT
*
1093979 TTT-TTTATCTTT-TATT
1 TTTATTTATTTTTGTA-T
1093995 TTTATTTTTATTTTTGTAT
1 TTTA--TTTATTTTTGTAT
1094014 TGTTA-TTA-TTTT-TAT
1 T-TTATTTATTTTTGTAT
* *
1094029 CTTCTTTATTTTATGTAT
1 TTTATTTATTTT-TGTAT
1094047 TTTATTTAT
1 TTTATTTAT
1094056 ATATATATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 23
0.70 0.08 0.22
Matches are distributed among these distances:
14 2 0.03
15 17 0.23
16 11 0.15
17 12 0.16
18 11 0.15
19 16 0.22
20 5 0.07
ACGTcount: A:0.19, C:0.05, G:0.03, T:0.74
Consensus pattern (17 bp):
TTTATTTATTTTTGTAT
Found at i:1095320 original size:20 final size:20
Alignment explanation
Indices: 1095291--1095329 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
1095281 AGAGCTCATA
*
1095291 TAGGATCATATAGATGCATT
1 TAGGAGCATATAGATGCATT
*
1095311 TAGGAGCATATAGTTGCAT
1 TAGGAGCATATAGATGCAT
1095330 GTGGTGGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.33, C:0.10, G:0.23, T:0.33
Consensus pattern (20 bp):
TAGGAGCATATAGATGCATT
Found at i:1096194 original size:21 final size:23
Alignment explanation
Indices: 1096160--1096202 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
1096150 TTAATTGAGG
*
1096160 TTGTTTTTCTTTATGTT-CTTAT
1 TTGTTTTACTTTATGTTGCTTAT
1096182 TTGTTTTAC-TTATGTTGCTTA
1 TTGTTTTACTTTATGTTGCTTA
1096203 ATGTCTTAAG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.12, C:0.09, G:0.12, T:0.67
Consensus pattern (23 bp):
TTGTTTTACTTTATGTTGCTTAT
Found at i:1103039 original size:13 final size:13
Alignment explanation
Indices: 1103021--1103045 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1103011 TAGCATTGTG
1103021 GAAAAAGAATAAT
1 GAAAAAGAATAAT
1103034 GAAAAAGAATAA
1 GAAAAAGAATAA
1103046 AGATAGGAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.72, C:0.00, G:0.16, T:0.12
Consensus pattern (13 bp):
GAAAAAGAATAAT
Found at i:1103189 original size:13 final size:13
Alignment explanation
Indices: 1103171--1103209 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
1103161 TTAAATCCTA
1103171 AATAAAATATAAT
1 AATAAAATATAAT
*
1103184 AATAAAATAAAAT
1 AATAAAATATAAT
*
1103197 AATCAAACTATAA
1 AAT-AAAATATAA
1103210 ATCCTATCGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAAATATAAT
Found at i:1104795 original size:49 final size:51
Alignment explanation
Indices: 1104715--1104848 Score: 179
Period size: 49 Copynumber: 2.7 Consensus size: 51
1104705 AAATAAATAC
* *
1104715 ATATTAATTGTGAATATTAATTGAT-TT-GTTAATTATGCTGTTAATTGTG-
1 ATATTAATTGGGATTATTAATT-ATGTTAGTTAATTATGCTGTTAATTGTGA
* *
1104764 TTATTAATTGGG-TTATTAATTATGTTAGTTAATTATGTTGTTAATTGTGA
1 ATATTAATTGGGATTATTAATTATGTTAGTTAATTATGCTGTTAATTGTGA
*
1104814 ATATTAATTGGGATTATTAATTGTGTTA-TTAATTA
1 ATATTAATTGGGATTATTAATTATGTTAGTTAATTA
1104849 CATCATTAAA
Statistics
Matches: 75, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
47 2 0.03
48 10 0.13
49 31 0.41
50 18 0.24
51 14 0.19
ACGTcount: A:0.31, C:0.01, G:0.16, T:0.52
Consensus pattern (51 bp):
ATATTAATTGGGATTATTAATTATGTTAGTTAATTATGCTGTTAATTGTGA
Found at i:1104820 original size:25 final size:24
Alignment explanation
Indices: 1104729--1104848 Score: 107
Period size: 25 Copynumber: 4.9 Consensus size: 24
1104719 TAATTGTGAA
* * *
1104729 TATTAATTGAT-TTGTTAATTATGC
1 TATTAATTG-TGTTATTAATTAGGT
* *
1104753 TGTTAATTGTGTTATTAATTGGGT
1 TATTAATTGTGTTATTAATTAGGT
* *
1104777 TATTAATTATGTTAGTTAATTATGT
1 TATTAATTGTGTTA-TTAATTAGGT
* * *
1104802 TGTTAATTGTGAATATTAATTGGGAT
1 TATTAATTGTG-TTATTAATTAGG-T
1104828 TATTAATTGTGTTATTAATTA
1 TATTAATTGTGTTATTAATTA
1104849 CATCATTAAA
Statistics
Matches: 75, Mismatches: 17, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
23 1 0.01
24 29 0.39
25 32 0.43
26 13 0.17
ACGTcount: A:0.29, C:0.01, G:0.17, T:0.53
Consensus pattern (24 bp):
TATTAATTGTGTTATTAATTAGGT
Found at i:1104844 original size:12 final size:12
Alignment explanation
Indices: 1104716--1104847 Score: 113
Period size: 12 Copynumber: 10.7 Consensus size: 12
1104706 AATAAATACA
*
1104716 TATTAATTGTGAA
1 TATTAATTGTG-T
1104729 TATTAATTGAT-T
1 TATTAATTG-TGT
* * *
1104741 TGTTAATTATGC
1 TATTAATTGTGT
*
1104753 TGTTAATTGTGT
1 TATTAATTGTGT
*
1104765 TATTAATTGGGT
1 TATTAATTGTGT
*
1104777 TATTAATTATGT
1 TATTAATTGTGT
*
1104789 TAGTTAATTATGT
1 TA-TTAATTGTGT
* *
1104802 TGTTAATTGTGAA
1 TATTAATTGTG-T
*
1104815 TATTAATTGGGAT
1 TATTAATTGTG-T
1104828 TATTAATTGTGT
1 TATTAATTGTGT
1104840 TATTAATT
1 TATTAATT
1104848 ACATCATTAA
Statistics
Matches: 98, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
11 1 0.01
12 56 0.57
13 40 0.41
14 1 0.01
ACGTcount: A:0.30, C:0.01, G:0.17, T:0.53
Consensus pattern (12 bp):
TATTAATTGTGT
Found at i:1110150 original size:2 final size:2
Alignment explanation
Indices: 1110143--1110168 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1110133 AATTTATTAA
1110143 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
1110169 TATGTAAACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1110207 original size:2 final size:2
Alignment explanation
Indices: 1110200--1110224 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1110190 GGACGAGTAC
1110200 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1110225 TACTATCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1116672 original size:27 final size:27
Alignment explanation
Indices: 1116636--1116705 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
1116626 AATTAAGGAT
1116636 TAAAGTGTAAAATGACCAAAATGT-CAC
1 TAAAGTGTAAAATGACCAAAAT-TCCAC
* *
1116663 TAAAGTGTAAAATGATCAAAATTCCCC
1 TAAAGTGTAAAATGACCAAAATTCCAC
*
1116690 TAAAGTATAAAATGAC
1 TAAAGTGTAAAATGAC
1116706 ATGAAGTACC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 1 0.03
27 37 0.97
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (27 bp):
TAAAGTGTAAAATGACCAAAATTCCAC
Found at i:1119450 original size:27 final size:27
Alignment explanation
Indices: 1119416--1119485 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
1119406 AATTCAGGAT
1119416 TAAAGTGTAAAATGACCAAAATGCCAC
1 TAAAGTGTAAAATGACCAAAATGCCAC
* * *
1119443 TAAAGTGTTAAATGACCAAAATTCCCC
1 TAAAGTGTAAAATGACCAAAATGCCAC
1119470 TAAAGTGTAAAATGAC
1 TAAAGTGTAAAATGAC
1119486 ATGAAGAACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.46, C:0.17, G:0.14, T:0.23
Consensus pattern (27 bp):
TAAAGTGTAAAATGACCAAAATGCCAC
Found at i:1126403 original size:42 final size:42
Alignment explanation
Indices: 1126295--1126648 Score: 418
Period size: 42 Copynumber: 8.5 Consensus size: 42
1126285 TAATATAGTT
* * *
1126295 GCGTTTTTATA-CAAACGCCGTTATAAACTA-GTA-TTTTAGTG
1 GCGTTTTAATACCAAACGCCGCTATAGAC-ACGTACTTTT-GTG
* *
1126336 GCGTTTTTATA-CAAACGCCGTTATAGACACGTACTTTTGTG
1 GCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTG
* * *
1126377 GCGTTCTAATACCAAACGCCGCTATAGACTCGTACTTTAGTG
1 GCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTG
*
1126419 GCATTTT--TACACAAACGCCGCTATAGACACGTACTTTTGTG
1 GCGTTTTAATAC-CAAACGCCGCTATAGACACGTACTTTTGTG
* * *
1126460 GTGTTTTAATACTAAACGCCGCTATAGACATGTACTTTTGTG
1 GCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTG
* * ** * *
1126502 GCATTTTAATACCAAGCGCCGCTATAGATTCATACTTTAGTG
1 GCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTG
*
1126544 GCATTTT--TACACAAACGCCGCTATAGACACGTACTTTTGTG
1 GCGTTTTAATAC-CAAACGCCGCTATAGACACGTACTTTTGTG
* * *
1126585 GCGTTTTAATACCAAACGCCACTATAGACTCGTACTTTAGTG
1 GCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTG
1126627 GCGTTTTAATACCAAACGCCGC
1 GCGTTTTAATACCAAACGCCGC
1126649 AATTTTCATA
Statistics
Matches: 271, Mismatches: 33, Indels: 17
0.84 0.10 0.05
Matches are distributed among these distances:
40 7 0.03
41 106 0.39
42 152 0.56
43 6 0.02
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (42 bp):
GCGTTTTAATACCAAACGCCGCTATAGACACGTACTTTTGTG
Found at i:1126426 original size:83 final size:84
Alignment explanation
Indices: 1126266--1126648 Score: 422
Period size: 83 Copynumber: 4.6 Consensus size: 84
1126256 GTTTGTATAG
* * * * * * * * *
1126266 AAACGCCGCTAAAGA-ATCGTAATATAGTTGCGTTTTTATA-CAAACGCCGTTATAAACTAGTAT
1 AAACGCCGCTATAGACA-CGTACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTAC
* *
1126329 TTTAGTGGCGTTTTTATA-C
65 TTTAGTGGCATTTTAATACC
* * *
1126348 AAACGCCGTTATAGACACGTACTTTTGTGGCGTTCTAATACCAAACGCCGCTATAGACTCGTACT
1 AAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTACT
1126413 TTAGTGGCATTTT--TACAC
66 TTAGTGGCATTTTAATAC-C
* * *
1126431 AAACGCCGCTATAGACACGTACTTTTGTGGTGTTTTAATACTAAACGCCGCTATAGACAT-GTAC
1 AAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGAC-TCGTAC
*
1126495 TTTTGTGGCATTTTAATACC
65 TTTAGTGGCATTTTAATACC
* ** * * *
1126515 AAGCGCCGCTATAGATTCATACTTTAGTGGCATTTT--TACACAAACGCCGCTATAGACACGTAC
1 AAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATAC-CAAACGCCGCTATAGACTCGTAC
* *
1126578 TTTTGTGGCGTTTTAATACC
65 TTTAGTGGCATTTTAATACC
* *
1126598 AAACGCCACTATAGACTCGTACTTTAGTGGCGTTTTAATACCAAACGCCGC
1 AAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAACGCCGC
1126649 AATTTTCATA
Statistics
Matches: 257, Mismatches: 33, Indels: 20
0.83 0.11 0.06
Matches are distributed among these distances:
81 2 0.01
82 33 0.13
83 175 0.68
84 41 0.16
85 6 0.02
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (84 bp):
AAACGCCGCTATAGACACGTACTTTAGTGGCGTTTTAATACCAAACGCCGCTATAGACTCGTACT
TTAGTGGCATTTTAATACC
Found at i:1126515 original size:125 final size:124
Alignment explanation
Indices: 1126266--1126648 Score: 520
Period size: 125 Copynumber: 3.1 Consensus size: 124
1126256 GTTTGTATAG
* * * * * * * *
1126266 AAACGCCGCTAAAGAATCGTAATATAGTTGCGTTTTTATACAAACGCCGTTATAAACTA-GTA-T
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGAC-ACGTACT
* * * *
1126329 TTTAGTGGCGTTTTTATACAAACGCCGTTATAGACACGTACTTTTGTGGCGTTCTAATACC
65 TTT-GTGGCGTTTTAATACAAACGCCGCTATAGACATGTACTTTTGTGGCGTTTTAATACC
*
1126390 AAACGCCGCTATAGACTCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTT
* *
1126455 TTGTGGTGTTTTAATACTAAACGCCGCTATAGACATGTACTTTTGTGGCATTTTAATACC
66 TTGTGGCGTTTTAATAC-AAACGCCGCTATAGACATGTACTTTTGTGGCGTTTTAATACC
* * *
1126515 AAGCGCCGCTATAGATTCATACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTT
1 AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTT
* *
1126580 TTGTGGCGTTTTAATACCAAACGCCACTATAGAC-TCGTACTTTAGTGGCGTTTTAATACC
66 TTGTGGCGTTTTAATA-CAAACGCCGCTATAGACAT-GTACTTTTGTGGCGTTTTAATACC
1126640 AAACGCCGC
1 AAACGCCGC
1126649 AATTTTCATA
Statistics
Matches: 231, Mismatches: 23, Indels: 9
0.88 0.09 0.03
Matches are distributed among these distances:
123 1 0.00
124 65 0.28
125 164 0.71
126 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.18, T:0.32
Consensus pattern (124 bp):
AAACGCCGCTATAGAATCGTACTTTAGTGGCATTTTTACACAAACGCCGCTATAGACACGTACTT
TTGTGGCGTTTTAATACAAACGCCGCTATAGACATGTACTTTTGTGGCGTTTTAATACC
Found at i:1127234 original size:19 final size:19
Alignment explanation
Indices: 1127212--1127248 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1127202 ACTGGAAATT
1127212 AAGAAAAAAAAAGAAAAGC
1 AAGAAAAAAAAAGAAAAGC
* *
1127231 AAGAGAGAAAAAGAAAAG
1 AAGAAAAAAAAAGAAAAG
1127249 GAATGATAGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.76, C:0.03, G:0.22, T:0.00
Consensus pattern (19 bp):
AAGAAAAAAAAAGAAAAGC
Found at i:1130638 original size:43 final size:42
Alignment explanation
Indices: 1130591--1130927 Score: 294
Period size: 43 Copynumber: 7.9 Consensus size: 42
1130581 TTTGTATACG
* *
1130591 AAAACGCCGCTATAGGTCTAACTTTTTGCGGCGTTTGTGTTCA
1 AAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTT-TGTTCA
* * *
1130634 AAAACGCCGTTATAGGTCTGACCTTTTGCAGCGTTTGTGTCCA
1 AAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTT-TGTTCA
* * *
1130677 AAAACGCCGTTATAGGTTTGACCTTTTACGGCG-TTTGTTCTA
1 AAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTGTTC-A
1130719 AAAACGCCAG-TATAGGTCTG-CTCTTTTGCGGC-TTTTGTATCAA
1 AAAACGCC-GCTATAGGTCTGAC-CTTTTGCGGCGTTTTGT-TC-A
*
1130762 AAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTT-TTCTA
1 AAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTGTTC-A
* ** * **
1130804 GAAACGCCGCTATATATCATAAATTTTTGCGGCG-TTTGTTCCA
1 AAAACGCCGCTATAGGTC-TGACCTTTTGCGGCGTTTTGTT-CA
* * *
1130847 AAAACGCTGCTATAGATATCGACCTTTTGCGGCG-TTTGTTCAA
1 AAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTTGTTC-A
* * * *
1130890 AAAATGCCG-TAATAGATATTGACCTATTGCGGCGTTTT
1 AAAACGCCGCT-ATAGGT-CTGACCTTTTGCGGCGTTTT
1130928 TTTTTCTCAA
Statistics
Matches: 248, Mismatches: 30, Indels: 31
0.80 0.10 0.10
Matches are distributed among these distances:
41 5 0.02
42 60 0.24
43 173 0.70
44 10 0.04
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (42 bp):
AAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTTGTTCA
Found at i:1130765 original size:85 final size:85
Alignment explanation
Indices: 1130578--1130904 Score: 313
Period size: 85 Copynumber: 3.8 Consensus size: 85
1130568 GCAATTAGCG
* * *
1130578 GCGTTTGTAT-ACGAAAACGCCGCTATAGGTCTAACTTTTTGCGGCGTTTGTGT-TCAAAAACGC
1 GCGTTTGTATCA-AAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGT-TCT-AAAAACGC
1130641 CGTTATAGGTCTGACCTTTTGCA
63 CGTTATAGGTCTGACCTTTTGCA
* * * * *
1130664 GCGTTTGTGTCCAAAAACGCCGTTATAGGTTTGACCTTTTACGGCGTTTGTTCTAAAAACGCCAG
1 GCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCC-G
*
1130729 -TATAGGTCTG-CTCTTTTGCG
65 TTATAGGTCTGAC-CTTTTGCA
* * * * *
1130749 GCTTTTGTATCAAAAAACGCCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGCCGC
1 GCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGT
** * ** *
1130814 TATATATCATAAATTTTTGCG
66 TATAGGTC-TGACCTTTTGCA
* * * * * *
1130835 GCGTTTGT-TCCAAAAACGCTGCTATAGATATCGACCTTTTGCGGCGTTTGTTCAAAAAATGCCG
1 GCGTTTGTATCAAAAAACGCCGCTATAGGTCT-GACCTTTTGCGGCGTTTGTTCTAAAAACGCCG
*
1130899 TAATAG
65 TTATAG
1130905 ATATTGACCT
Statistics
Matches: 199, Mismatches: 34, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
84 2 0.01
85 107 0.54
86 90 0.45
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (85 bp):
GCGTTTGTATCAAAAAACGCCGCTATAGGTCTGACCTTTTGCGGCGTTTGTTCTAAAAACGCCGT
TATAGGTCTGACCTTTTGCA
Found at i:1130837 original size:128 final size:126
Alignment explanation
Indices: 1130576--1130929 Score: 340
Period size: 128 Copynumber: 2.8 Consensus size: 126
1130566 AGGCAATTAG
* * *
1130576 CGGCGTTTGTATACGAAAACGCCGCTATAGGTCTAACT-TTTTGCGGCGTTTGTGTTC-AAAAAC
1 CGGCGTTTGT-TCCAAAAACGCCGCTATAGGTCTAGCTCTTTTGCGGC-TTT-TGTTCAAAAAAC
* * * * * * * *
1130639 GCCGTTATAGGTCTGACCTTTTGCAGCGTTTGTGTCCAAAAACGCCGTTATAGGTTTGACCTTTT
63 GCCG-TATAGATCTGACCTTTTGCGGCGTTT-TTTCCAAAAACGCCGCTATAGATATAAACTTTT
1130704 A
126 A
*
1130705 CGGCGTTTGTTCTAAAAACGCCAG-TATAGGTCT-GCTCTTTTGCGGCTTTTGTATCAAAAAACG
1 CGGCGTTTGTTCCAAAAACGCC-GCTATAGGTCTAGCTCTTTTGCGGCTTTTGT-TCAAAAAACG
* * * * *
1130768 CCGCTATAGATCTGACCTTTTGCGGCGTTTTTTCTAGAAACGCCGCTATATATCATAAATTTTTG
64 CCG-TATAGATCTGACCTTTTGCGGCGTTTTTTCCAAAAACGCCGCTATAGAT-ATAAACTTTTA
* * * * * *
1130833 CGGCGTTTGTTCCAAAAACGCTGCTATAGATATCGAC-CTTTTGCGGCGTTTGTTCAAAAAATGC
1 CGGCGTTTGTTCCAAAAACGCCGCTATAGGTCTAG-CTCTTTTGCGGCTTTTGTTCAAAAAACGC
* *
1130897 CGTAATAGATATTGACCTATTGCGGCGTTTTTT
65 CGT-ATAGAT-CTGACCTTTTGCGGCGTTTTTT
1130930 TTTCTCAAAC
Statistics
Matches: 189, Mismatches: 26, Indels: 20
0.80 0.11 0.09
Matches are distributed among these distances:
126 3 0.02
127 26 0.14
128 112 0.59
129 47 0.25
130 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.21, T:0.35
Consensus pattern (126 bp):
CGGCGTTTGTTCCAAAAACGCCGCTATAGGTCTAGCTCTTTTGCGGCTTTTGTTCAAAAAACGCC
GTATAGATCTGACCTTTTGCGGCGTTTTTTCCAAAAACGCCGCTATAGATATAAACTTTTA
Found at i:1131315 original size:59 final size:59
Alignment explanation
Indices: 1131219--1131814 Score: 832
Period size: 59 Copynumber: 10.1 Consensus size: 59
1131209 AATACAATGT
* * * * * *
1131219 TTTCATCTAAATTGTATTAGTAGCACCTTTCTTCCAAATACACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * *
1131278 TTTCATCTAACATGCATTATTGGCATCTTTCTGCCAAATGCACAATTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* *
1131337 TTTCATCTAACATGCATTATTGGCATCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * *
1131396 TTTCATCTAACTTGCATTATTGACCCCTTTTTGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * * * *
1131455 TTTCATCTAACTTGCATTATTGGCACATTTCTACCAAATTCATATTTATGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * * *
1131514 TTTCATCTAACTTGCATTATTGACACCTTTATTCCAAAGGCACAGTTAGGAATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * * * * *
1131573 TTTCATCTAACTTACATTATTGGCACCTTTCTACAAAATCCATAGTTAGCCATTTAACA
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
*
1131632 TTTCATCTAACATGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* * * * *
1131691 TTTCACCTAACTTGCATTATTGGCACCATTCTTCCAAATACACAGTTAGGGATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
* *
1131750 TTTCATCTAACTTGCATTATTGGCACCTTTCGGTCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
1131809 TTTCAT
1 TTTCAT
1131815 TTTAAAGAAA
Statistics
Matches: 471, Mismatches: 66, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 471 1.00
ACGTcount: A:0.28, C:0.24, G:0.11, T:0.37
Consensus pattern (59 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
Found at i:1131319 original size:26 final size:26
Alignment explanation
Indices: 1131289--1131378 Score: 74
Period size: 26 Copynumber: 3.2 Consensus size: 26
1131279 TTCATCTAAC
1131289 ATGCATTATTGGCATCTTTCTGCCAA
1 ATGCATTATTGGCATCTTTCTGCCAA
** *
1131315 ATGCACAATTAGGCATTTAACCTTTCAT-CTAA
1 ATGCATTATT-GGCA--T---CTTTC-TGCCAA
1131347 CATGCATTATTGGCATCTTTCTGCCAA
1 -ATGCATTATTGGCATCTTTCTGCCAA
1131374 ATGCA
1 ATGCA
1131379 CAGTTAGGCA
Statistics
Matches: 49, Mismatches: 6, Indels: 18
0.67 0.08 0.25
Matches are distributed among these distances:
26 14 0.29
27 12 0.24
29 1 0.02
30 1 0.02
32 12 0.24
33 9 0.18
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (26 bp):
ATGCATTATTGGCATCTTTCTGCCAA
Found at i:1131329 original size:27 final size:27
Alignment explanation
Indices: 1131299--1131389 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
1131289 ATGCATTATT
1131299 GGCATCTTTCTGCCAAATGCACAATTA
1 GGCATCTTTCTGCCAAATGCACAATTA
* **
1131326 GGCATTTAACCTTTCAT-CTAACATGCATTATT-
1 GGCA--T---CTTTC-TGCCAA-ATGCACAATTA
*
1131358 GGCATCTTTCTGCCAAATGCACAGTTA
1 GGCATCTTTCTGCCAAATGCACAATTA
1131385 GGCAT
1 GGCAT
1131390 TTAACCTTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 18
0.66 0.10 0.25
Matches are distributed among these distances:
26 8 0.17
27 17 0.35
29 1 0.02
30 1 0.02
32 12 0.25
33 9 0.19
ACGTcount: A:0.27, C:0.24, G:0.15, T:0.33
Consensus pattern (27 bp):
GGCATCTTTCTGCCAAATGCACAATTA
Found at i:1138122 original size:59 final size:59
Alignment explanation
Indices: 1138050--1138409 Score: 560
Period size: 59 Copynumber: 6.1 Consensus size: 59
1138040 AATACATTGT
* * * *
1138050 TTTCATCTAACTTGCATTAGTGACACCTTTCTTCCAAATGAACAGTTAGGAATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACC
* * *
1138109 TTTCATCTAACTTGCATTATTGGTATCTTTCTGCCAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACC
* * *
1138168 TCTCATCTAACTTGCATTATTGGCACCTTTCTACCAAATACACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACC
* * * *
1138227 TTTCATGTGACTTGCATTATTGGCACCTTTATTCCAAATCCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACC
* *
1138286 TTTCATCTAACTTGCATTATTGGCACCTTTCTGCCAAATGCACAGTTAGGCATTTAAAC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACC
1138345 TTTCATCTAACTTGCATTATTGGCACCTTTCTGT-CAAATGCACAGTTAGGCATTTAACC
1 TTTCATCTAACTTGCATTATTGGCACCTTTCT-TCCAAATGCACAGTTAGGCATTTAACC
1138404 TTTCAT
1 TTTCAT
1138410 TTTAAAGAAA
Statistics
Matches: 274, Mismatches: 26, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
59 274 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (59 bp):
TTTCATCTAACTTGCATTATTGGCACCTTTCTTCCAAATGCACAGTTAGGCATTTAACC
Found at i:1142170 original size:21 final size:21
Alignment explanation
Indices: 1142146--1142185 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1142136 TATGAATCAG
*
1142146 AATAACATAAATAAAAATCCA
1 AATAAAATAAATAAAAATCCA
* *
1142167 AATAAAATAAGTAATAATC
1 AATAAAATAAATAAAAATC
1142186 TATGATTCAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.65, C:0.10, G:0.03, T:0.23
Consensus pattern (21 bp):
AATAAAATAAATAAAAATCCA
Found at i:1144316 original size:32 final size:32
Alignment explanation
Indices: 1144280--1144360 Score: 92
Period size: 32 Copynumber: 2.5 Consensus size: 32
1144270 TCAGTGTTGT
**
1144280 ATTCAGATAATGCACATTAGAGTTAGTGTTAC
1 ATTCAGATAATGCACAGAAGAGTTAGTGTTAC
* * * *
1144312 ATTCAAATGAA-GCATAGAATAGTTAGTGTTGC
1 ATTCAGAT-AATGCACAGAAGAGTTAGTGTTAC
1144344 ATTCAGATAATGCACAG
1 ATTCAGATAATGCACAG
1144361 GAGTGTAAGT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
31 2 0.05
32 35 0.90
33 2 0.05
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (32 bp):
ATTCAGATAATGCACAGAAGAGTTAGTGTTAC
Found at i:1146302 original size:13 final size:13
Alignment explanation
Indices: 1146286--1146311 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1146276 TAAATTGGAG
1146286 AAGGAAATGGGAA
1 AAGGAAATGGGAA
1146299 AAGGAAATGGGAA
1 AAGGAAATGGGAA
1146312 GGATGAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.38, T:0.08
Consensus pattern (13 bp):
AAGGAAATGGGAA
Found at i:1148109 original size:25 final size:26
Alignment explanation
Indices: 1148055--1148109 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
1148045 AAATCTTATT
* * *
1148055 TTAATTATTCTGAAATTTAATCTTCT
1 TTAATTATTCTGAAATTAAATATTCA
*
1148081 TTAATTATTTTG-AATTAAATATTCA
1 TTAATTATTCTGAAATTAAATATTCA
1148106 TTAA
1 TTAA
1148110 AAGAGTTGTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 14 0.56
26 11 0.44
ACGTcount: A:0.36, C:0.07, G:0.04, T:0.53
Consensus pattern (26 bp):
TTAATTATTCTGAAATTAAATATTCA
Found at i:1149792 original size:24 final size:24
Alignment explanation
Indices: 1149748--1149797 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
1149738 TTTGTTTATG
* *
1149748 AAATATTATTTTAATTGTTTTCAT
1 AAATATTAATTTAATTATTTTCAT
*
1149772 AAATA-TAATTTAATTTATTTTTAT
1 AAATATTAATTTAA-TTATTTTCAT
1149796 AA
1 AA
1149798 GAATAGTATT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 7 0.32
24 15 0.68
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (24 bp):
AAATATTAATTTAATTATTTTCAT
Found at i:1152172 original size:807 final size:804
Alignment explanation
Indices: 1150584--1152418 Score: 1917
Period size: 807 Copynumber: 2.3 Consensus size: 804
1150574 GACCTTGGCG
* * *
1150584 AGATGAACAACAATCCACTATAAACATAGAGAACATGAAGAATACAAATATATGACA-ACACATT
1 AGATGAACAACAATCCACTATAAACATAGAGAACATGAAGAGTACAAATATATGATATA-ACATG
* * * * * * * *
1150648 TATCTCAAAATCCGGTATAGATTTCAAAATTCAGTATATCCCAAAACACTCTTCTAGCATCCCTA
65 TATCCCAAAATCCGATATAGATAT-AAAA-CCAATATATCCCAAAAAAATCTTCTAACATCCCTA
* * * * * *
1150713 CAAAACTATCTCTACATCATAAACCTCAAAAGTTACAGAAATCCTAAAACAAATTACATCTCTCT
128 CAAAACCATCTATACATCATAAACCCCAAAAGATACAGAAATCCCAAAACAAATTACATCTCTCC
* ** * *
1150778 AAAATAATTCTCTCACATAACCCTAAAGGTTAAGGCATAATCTCTGTTTATAGACCCAAATACTC
193 AAAATAATTCTCTCACATAACCCTAAAGCTTAAAACATAATCTCTATTTATAAACCCAAATACTC
* *
1150843 GGTCACGAAGAATTCTTATTCCATGAGAAATCTTGCCTAAAATAAATATTTACTATATTAAATAA
258 GGTCACCAAGAATTCTTATCCCATGAGAAATCTTGCCTAAAATAAATATTTACTATATTAAATAA
* * *
1150908 AATTAATTACCAAGAAATCTTCAACCACTAGAATTACAATAAAATCTAACTTAATTACCAATTAT
323 AATCAATTACCAAGAAATCTTCAACCACTAGAATTAAAATAAAATCTAAATTAATTACCAATTAT
* * * * * *
1150973 AATTTATGTCAAAATATAAAAAATCTCCCCCTTGACTTGAATTTCATCCAAAATTAGTATTCAGG
388 AATTTAGGTCAAAATATAAAAAATCTCCCCATTGACCTAAATTTCATCAAAAATTAGTATCCAGG
* *
1151038 TCTTCAACAACTTCAATCTTTATGGAAGTTGCATATTTATTGAAACACCGTTGTCAAATCTGCAA
453 ACTTCAACAACTTCAATCTTTATAGAAGTTGCATATTTATTGAAACACCGTTGTCAAATCTGCAA
* * * *
1151103 CAACTTCAATTCTTACACAATATCCATTGAAGTATCGTTGGATCAATCGAAAATTACTCCTCTGT
518 CAACTTCAATTCTTACACAATATCCAATAAAGTATCCTTGGATCAATCGAAAATTACTCCTCTAT
* * *
1151168 GACTGAAAATCCATTTCAGTAAATTCATCATGCATGTCTCCAAAATACCTAACAAAGTTCACAAC
583 AACTGAAAATCCATTTCAGTAAATTCATCATACATGTCTCCAAAATACCTAACAAAATTCACAAC
* *** * ** *
1151233 AAAAAATACTTAGAAACTCCACAACCCAAACCATAGCTTGTGATCAAACTTTTTAATTATTTGTA
648 AAAAAATACTTAGAAACTCCACAACCCAAACCAAAGCTCAAGATCAAACTTGTTAAGAATTTGGA
* * * * *
1151298 AGAAGAAAATTAACCAAATAGATATTAACATAAAATAAGATATGAACAAAAAAAAAGTTAATGTG
713 ACAAGAAAAATAACCAAATAGATATCAACATAAAATAAGACATGAACAAAAAAAAACTTAATGTG
* * *
1151363 GTTTGATCTTGTCTACATACACGGGTG
778 GTTTGATCTTCTCTACATACACGCGTA
* * * * * *
1151390 ATATGAACAATAATCAATTATAAACGTAGAGAACATGAAGAGTAAAAATATATGATATAACATGT
1 AGATGAACAACAATCCACTATAAACATAGAGAACATGAAGAGTACAAATATATGATATAACATGT
*
1151455 ATCCCAGAATCCGATATAGATATAAAACCATATATATCCCAAAATAAATCTT-TCAACATCCCTA
66 ATCCCAAAATCCGATATAGATATAAAACCA-ATATATCCCAAAA-AAATCTTCT-AACATCCCTA
* *
1151519 CAAAACCATCTATGCA--ATAAAAGCCCCAAAAGATACA-AAGATCCCAAAA-AAATTACATTTC
128 CAAAACCATCTATACATCAT-AAA-CCCCAAAAGATACAGAA-ATCCCAAAACAAATTACATCTC
**
1151580 TCCAAAATAATTCTCTCTCACATAACCCTACAA-CTTAAAACATAATCTCTATTTATAAAGTCAA
190 TCCAAAATAA-T-TCTCTCACATAACCCTA-AAGCTTAAAACATAATCTCTATTTATAAACCCAA
* * * * * *
1151644 ATACTTGGTCACCAAGAATTCTTATCCCATTAG-AATTTTAGCCTTAAATAAATATTTATTTTAT
252 ATACTCGGTCACCAAGAATTCTTATCCCATGAGAAATCTT-GCCTAAAATAAATATTTACTATAT
* *
1151708 TAAATAAAGTCAATTACCAAGAAATCTTCAACCACTAGAATTAAAATAAAATCTAAATTAATTAT
316 TAAATAAAATCAATTACCAAGAAATCTTCAACCACTAGAATTAAAATAAAATCTAAATTAATTAC
* * * * *
1151773 CAATTATAATTTAGGTCAACATATAAAAGATCT-CTCATTTACCTAAATTTCATCAAAAATTGGT
381 CAATTATAATTTAGGTCAAAATATAAAAAATCTCCCCATTGACCTAAATTTCATCAAAAATTAGT
* * *
1151837 CTCC-GAGACTTCAACAACTTCAATCTTTATATAAGTTGCATATTTGTT-AAAGC-CTCAG-TGT
446 ATCCAG-GACTTCAACAACTTCAATCTTTATAGAAGTTGCATATTTATTGAAA-CAC-C-GTTGT
* * * * *
1151898 CAAATCTTC-A-AACTTCAATTCTTACATAATATCCAATAAAGTATCACTAT-G-TTAATTGAGA
507 CAAATCTGCAACAACTTCAATTCTTACACAATATCCAATAAAGTATC-CT-TGGATCAATCGAAA
* * * * *
1151959 ATTTCTCCTCTATAATTGAAAATTCATTTTAGTAAATTCATCTTACATGTCTCCAAAAT-CACTA
570 ATTACTCCTCTATAACTGAAAATCCATTTCAGTAAATTCATCATACATGTCTCCAAAATAC-CTA
* * * * ** *
1152023 ATAAAA-TCTACAACAACAAATTCCTTCA-AAACTCCACATCTGAAACCAAAGCTCAAGAATC-C
634 ACAAAATTC-ACAACAA-AAAATACTT-AGAAACTCCACAACCCAAACCAAAGCTCAAG-ATCAA
* * * * *
1152085 ACTTGTTAGGAATTTGGGAACAA-AAAAATAACC-GATGTGATATCAACATAAAATAGGACATGC
695 ACTTGTTAAGAATTT-GGAACAAGAAAAATAACCAAAT-AGATATCAACATAAAATAAGACATGA
* * * * * * *
1152148 AGAAGAAACCAGACTTAGTGTGGTTTGATCTTCTCTACCTCCATGCGTA
758 ACAA-AAA-AAAACTTAATGTGGTTTGATCTTCTCTACATACACGCGTA
* * * *
1152197 AGATGAACAACAATCCAGTATAAACATAGAGAACAT-AGAGAGTACAAATACATGATATCACTTG
1 AGATGAACAACAATCCACTATAAACATAGAGAACATGA-AGAGTACAAATATATGATATAACATG
* * * * * * ** *
1152261 TATCCCAAAAAT-CGCTATAGATATTAAAACCCAGTATATCCTAAAACACTCTTATAATGTCCTT
65 TATCCC-AAAATCCGATATAGATA-TAAAA-CCAATATATCCCAAAAAAATCTTCTAACATCCCT
* ** * * * *
1152325 ACAAAACTATTTCGGTA-A-CATAAACCCTAAAAGTTATAGATATCCCAAAA-AAGATTACATCT
127 ACAAAACCA--TCTATACATCATAAACCCCAAAAGATACAGAAATCCCAAAACAA-ATTACATCT
* *
1152387 CTCCAAAATGATTCTCCCTCAAATAACCCTAA
189 CTCCAAAATAATTCT--CTCACATAACCCTAA
1152419 GGGTGTGTTT
Statistics
Matches: 848, Mismatches: 143, Indels: 75
0.80 0.13 0.07
Matches are distributed among these distances:
803 3 0.00
804 110 0.13
805 123 0.15
806 220 0.26
807 325 0.38
808 59 0.07
809 8 0.01
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.29
Consensus pattern (804 bp):
AGATGAACAACAATCCACTATAAACATAGAGAACATGAAGAGTACAAATATATGATATAACATGT
ATCCCAAAATCCGATATAGATATAAAACCAATATATCCCAAAAAAATCTTCTAACATCCCTACAA
AACCATCTATACATCATAAACCCCAAAAGATACAGAAATCCCAAAACAAATTACATCTCTCCAAA
ATAATTCTCTCACATAACCCTAAAGCTTAAAACATAATCTCTATTTATAAACCCAAATACTCGGT
CACCAAGAATTCTTATCCCATGAGAAATCTTGCCTAAAATAAATATTTACTATATTAAATAAAAT
CAATTACCAAGAAATCTTCAACCACTAGAATTAAAATAAAATCTAAATTAATTACCAATTATAAT
TTAGGTCAAAATATAAAAAATCTCCCCATTGACCTAAATTTCATCAAAAATTAGTATCCAGGACT
TCAACAACTTCAATCTTTATAGAAGTTGCATATTTATTGAAACACCGTTGTCAAATCTGCAACAA
CTTCAATTCTTACACAATATCCAATAAAGTATCCTTGGATCAATCGAAAATTACTCCTCTATAAC
TGAAAATCCATTTCAGTAAATTCATCATACATGTCTCCAAAATACCTAACAAAATTCACAACAAA
AAATACTTAGAAACTCCACAACCCAAACCAAAGCTCAAGATCAAACTTGTTAAGAATTTGGAACA
AGAAAAATAACCAAATAGATATCAACATAAAATAAGACATGAACAAAAAAAAACTTAATGTGGTT
TGATCTTCTCTACATACACGCGTA
Found at i:1154499 original size:18 final size:17
Alignment explanation
Indices: 1154474--1154509 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
1154464 TTTAGTGGGG
1154474 TTTAGAAATTTAGGGAT
1 TTTAGAAATTTAGGGAT
1154491 TTTATGAAATTTAGGGAT
1 TTTA-GAAATTTAGGGAT
1154509 T
1 T
1154510 CTAACTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 4 0.22
18 14 0.78
ACGTcount: A:0.33, C:0.00, G:0.22, T:0.44
Consensus pattern (17 bp):
TTTAGAAATTTAGGGAT
Found at i:1161101 original size:166 final size:168
Alignment explanation
Indices: 1160856--1161190 Score: 656
Period size: 166 Copynumber: 2.0 Consensus size: 168
1160846 TTTTATTTTG
1160856 TTCTCATTTTATGATTATTTTGTCAATGATAGTTAAAAGAAACATTAATCAATATATGCTTGACA
1 TTCTCATTTTATGATTATTTTGTCAATGATAGTTAAAAGAAACATTAATCAATATATGCTTGACA
1160921 TATATCATTATTTTTATTAATATTGATTTTACAAAAATAAATAAAAAACTACTTTTTTTTTTTTA
66 TATATCATTATTTTTATTAATATTGATTTTACAAAAATAAATAAAAAACTACTTTTTTTTTTTTA
1160986 GAAAGTCGTATTTTAAATTTTCTAGACTCTGCTTGAAT
131 GAAAGTCGTATTTTAAATTTTCTAGACTCTGCTTGAAT
1161024 TTCTCATTTTATGATTATTTTGTCAATGATAGTT-AAAGAAA-ATTAATCAATATATGCTTGACA
1 TTCTCATTTTATGATTATTTTGTCAATGATAGTTAAAAGAAACATTAATCAATATATGCTTGACA
1161087 TATATCATTATTTTTATTAATATTGATTTTACAAAAATAAATAAAAAACTACTTTTTTTTTTTTA
66 TATATCATTATTTTTATTAATATTGATTTTACAAAAATAAATAAAAAACTACTTTTTTTTTTTTA
1161152 GAAAGTCGTATTTTAAATTTTCTAGACTCTGCTTGAAT
131 GAAAGTCGTATTTTAAATTTTCTAGACTCTGCTTGAAT
1161190 T
1 T
1161191 CCTAATGCAC
Statistics
Matches: 167, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
166 126 0.75
167 7 0.04
168 34 0.20
ACGTcount: A:0.36, C:0.09, G:0.08, T:0.46
Consensus pattern (168 bp):
TTCTCATTTTATGATTATTTTGTCAATGATAGTTAAAAGAAACATTAATCAATATATGCTTGACA
TATATCATTATTTTTATTAATATTGATTTTACAAAAATAAATAAAAAACTACTTTTTTTTTTTTA
GAAAGTCGTATTTTAAATTTTCTAGACTCTGCTTGAAT
Found at i:1162330 original size:59 final size:60
Alignment explanation
Indices: 1162229--1162360 Score: 149
Period size: 59 Copynumber: 2.2 Consensus size: 60
1162219 AAAAAAGGGT
* * * ** *
1162229 AAGTTACACAAATAGTCTATCGACTATAAGTTATTGCTTTGTTGACTCTTTCGACTATCAA
1 AAGTTACA-AAATAGTCCATCGACTATAAGATATTACTTTGTTGACTCCATCAACTATCAA
* * * * *
1162290 AA-TTACAAAATAGTCCGTTGACTATAGGATATTACTTTGTTGAGTCCATCAACTATTAA
1 AAGTTACAAAATAGTCCATCGACTATAAGATATTACTTTGTTGACTCCATCAACTATCAA
1162349 AAGTTACAAAAT
1 AAGTTACAAAAT
1162361 TGTCATCTGA
Statistics
Matches: 59, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
59 43 0.73
60 14 0.24
61 2 0.03
ACGTcount: A:0.36, C:0.16, G:0.13, T:0.36
Consensus pattern (60 bp):
AAGTTACAAAATAGTCCATCGACTATAAGATATTACTTTGTTGACTCCATCAACTATCAA
Found at i:1162480 original size:43 final size:43
Alignment explanation
Indices: 1162419--1162503 Score: 152
Period size: 43 Copynumber: 2.0 Consensus size: 43
1162409 AGTCTTGTAC
*
1162419 GTTAACTTGTTGATTGTGATATGATAAAATTTGGTCATAGAAT
1 GTTAACTTGTTGATTGTGATATGATAAAATTTGATCATAGAAT
*
1162462 GTTAACTTGTTGATTGTGATATGATAAAATTTGATCCTAGAA
1 GTTAACTTGTTGATTGTGATATGATAAAATTTGATCATAGAA
1162504 CCGTTTCAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (43 bp):
GTTAACTTGTTGATTGTGATATGATAAAATTTGATCATAGAAT
Found at i:1166144 original size:20 final size:20
Alignment explanation
Indices: 1166116--1166155 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1166106 AAAACAAAAA
*
1166116 TCCCGATTTTTTCCGATTTT
1 TCCCAATTTTTTCCGATTTT
*
1166136 TCCCAATTTTTTCCGGTTTT
1 TCCCAATTTTTTCCGATTTT
1166156 CTGCCGGTCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.10, C:0.25, G:0.10, T:0.55
Consensus pattern (20 bp):
TCCCAATTTTTTCCGATTTT
Found at i:1167100 original size:3 final size:3
Alignment explanation
Indices: 1167094--1167124 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
1167084 TATTTATTGC
1167094 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1167125 TTAATTTAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:1168747 original size:30 final size:30
Alignment explanation
Indices: 1168685--1168749 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
1168675 TGTTTGTGCC
*
1168685 ATTTTAGTATTTTAAGTTTCAGTTTTAGCT
1 ATTTTAGTATTTTAAGTTTCAGTTTTACCT
*
1168715 ATTTTAGTCA-TTTAAGTTTCTA-TTTTTCCT
1 ATTTTAGT-ATTTTAAGTTTC-AGTTTTACCT
1168745 ATTTT
1 ATTTT
1168750 GGTCCTTGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
30 29 0.94
31 2 0.06
ACGTcount: A:0.22, C:0.09, G:0.09, T:0.60
Consensus pattern (30 bp):
ATTTTAGTATTTTAAGTTTCAGTTTTACCT
Found at i:1172972 original size:65 final size:63
Alignment explanation
Indices: 1172862--1173062 Score: 205
Period size: 65 Copynumber: 3.1 Consensus size: 63
1172852 GTGATGCACA
* **
1172862 GATGCACCAATCCATGCATCGATGCAC-CATGGAATAAATTG-AACATCGAATGCATTTCATGCA
1 GATGCA-CAA-CCATGCATCGATGCACTCA-GG-CTATTTTGAAACATCGAATGCATTTCATGCA
1172925 TC
62 TC
* *
1172927 GATGCACATACTATGCATCGATGCACTCAGAG-T-TTTATGAAAACATCGAATGCATTTGATGCA
1 GATGCACA-ACCATGCATCGATGCACTCAG-GCTATTT-TG-AAACATCGAATGCATTTCATGCA
1172990 TC
62 TC
* *
1172992 GAT-CTACCAGCCATGCATCGATGCACTCTGGCTATTTTGAAACATCGAATGCATTTCATGCATC
1 GATGC-A-CAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTCATGCATC
*
1173056 AATGCAC
1 GATGCAC
1173063 TCTTAGTGCA
Statistics
Matches: 116, Mismatches: 9, Indels: 24
0.78 0.06 0.16
Matches are distributed among these distances:
62 1 0.01
63 4 0.03
64 47 0.41
65 59 0.51
66 5 0.04
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.27
Consensus pattern (63 bp):
GATGCACAACCATGCATCGATGCACTCAGGCTATTTTGAAACATCGAATGCATTTCATGCATC
Found at i:1177768 original size:109 final size:110
Alignment explanation
Indices: 1177577--1177798 Score: 437
Period size: 109 Copynumber: 2.0 Consensus size: 110
1177567 AAGGTTGACA
1177577 CTACATTGTTTTTAAAGCATAAATATAAAGATTTATTAGTAGTTCAAATTTATGTTTATGAAATA
1 CTACATTGTTTTTAAAGCATAAATATAAAGATTTATTAGTAGTTCAAATTTATGTTTATGAAATA
1177642 ATATTTGGTTCTACTAATGATGTTCTTTGCCAATAATTTTC-ATG
66 ATATTTGGTTCTACTAATGATGTTCTTTGCCAATAATTTTCAATG
1177686 CTACATTGTTTTTAAAGCATAAATATAAAGATTTATTAGTAGTTCAAATTTATGTTTATGAAATA
1 CTACATTGTTTTTAAAGCATAAATATAAAGATTTATTAGTAGTTCAAATTTATGTTTATGAAATA
1177751 ATATTTGGTTCTACTAATGATGTTCTTTGCCAATAATTTTCAATG
66 ATATTTGGTTCTACTAATGATGTTCTTTGCCAATAATTTTCAATG
1177796 CTA
1 CTA
1177799 ATGCAATGTG
Statistics
Matches: 112, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
109 106 0.95
110 6 0.05
ACGTcount: A:0.34, C:0.09, G:0.12, T:0.45
Consensus pattern (110 bp):
CTACATTGTTTTTAAAGCATAAATATAAAGATTTATTAGTAGTTCAAATTTATGTTTATGAAATA
ATATTTGGTTCTACTAATGATGTTCTTTGCCAATAATTTTCAATG
Found at i:1179036 original size:23 final size:22
Alignment explanation
Indices: 1178966--1179045 Score: 90
Period size: 23 Copynumber: 3.5 Consensus size: 22
1178956 CACTTAACAA
1178966 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGATGCA-CCC-TTGAATG
* * *
1178990 TGCATCGATACA-CCATGAAGG
1 TGCATCGATGCACCCTTGAATG
*
1179011 TGCACCGATGCACGCCTTGAATG
1 TGCATCGATGCAC-CCTTGAATG
1179034 TGCATCGATGCA
1 TGCATCGATGCA
1179046 TCCATCGGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 5
0.78 0.14 0.08
Matches are distributed among these distances:
21 15 0.33
22 2 0.04
23 18 0.39
24 11 0.24
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (22 bp):
TGCATCGATGCACCCTTGAATG
Found at i:1180454 original size:21 final size:21
Alignment explanation
Indices: 1180412--1180455 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
1180402 ACCCCGGGAG
* *
1180412 CTAGTTCTTCACGAGCTGCTC
1 CTAGCTCTTCACGAGCTCCTC
* *
1180433 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGAGCTCCTC
1180454 CT
1 CT
1180456 CCTCCAGCAC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.09, C:0.39, G:0.16, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGAGCTCCTC
Found at i:1181924 original size:54 final size:55
Alignment explanation
Indices: 1181842--1181950 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 55
1181832 CTAGAAGCCG
1181842 TTGATCAACAACAAGAAAACACAAGAAACAAGAATCAAGAGAGAATC-AAGAGAA
1 TTGATCAACAACAAGAAAACACAAGAAACAAGAATCAAGAGAGAATCAAAGAGAA
1181896 TTGATCAACAACAAGAAAACACAAGAAACAAGAATCAAGAGAGAATCAAAGAGAA
1 TTGATCAACAACAAGAAAACACAAGAAACAAGAATCAAGAGAGAATCAAAGAGAA
1181951 AGCATCAAAC
Statistics
Matches: 54, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
54 47 0.87
55 7 0.13
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.09
Consensus pattern (55 bp):
TTGATCAACAACAAGAAAACACAAGAAACAAGAATCAAGAGAGAATCAAAGAGAA
Found at i:1182641 original size:8 final size:7
Alignment explanation
Indices: 1182578--1182696 Score: 66
Period size: 7 Copynumber: 16.4 Consensus size: 7
1182568 CAATCAAAAC
1182578 AAAGAGAA
1 AAAGA-AA
**
1182586 AAAGAGC
1 AAAGAAA
1182593 AAAGAAA
1 AAAGAAA
*
1182600 AAACAAA
1 AAAGAAA
*
1182607 GAGAA-AGA
1 -A-AAGAAA
1182615 AAAGAAA
1 AAAGAAA
*
1182622 CAAAGAGA
1 -AAAGAAA
1182630 AAAGAAA
1 AAAGAAA
1182637 CAAAG--A
1 -AAAGAAA
*
1182643 AAAGAATC
1 AAAGAA-A
1182651 AAAGAAA
1 AAAGAAA
*
1182658 AAA-ACA
1 AAAGAAA
1182664 AAAGAAA
1 AAAGAAA
1182671 GAAAGAAA
1 -AAAGAAA
*
1182679 AAAGATA
1 AAAGAAA
1182686 AAAGATAA
1 AAAGA-AA
1182694 AAA
1 AAA
1182697 AAGCAAGGCA
Statistics
Matches: 85, Mismatches: 15, Indels: 22
0.70 0.12 0.18
Matches are distributed among these distances:
5 4 0.05
6 8 0.09
7 36 0.42
8 35 0.41
9 2 0.02
ACGTcount: A:0.76, C:0.05, G:0.17, T:0.03
Consensus pattern (7 bp):
AAAGAAA
Found at i:1182641 original size:45 final size:47
Alignment explanation
Indices: 1182574--1182696 Score: 128
Period size: 49 Copynumber: 2.6 Consensus size: 47
1182564 GATCCAATCA
* * *
1182574 AAACAAAGAGAAAA-AGAGCAAAGAAAAAA-CAAAG-AGAAAGAAAAG
1 AAACAAAGAGAAAAGA-AACAAAGAAAAAATCAAAGAAAAAACAAAAG
1182619 AAACAAAGAGAAAAGAAACAAAGAAAAGAATCAAAGAAAAAAACAAAAG
1 AAACAAAGAGAAAAGAAACAAAGAAAA-AATCAAAG-AAAAAACAAAAG
* * *
1182668 AAAGAAAGAAAAAAGATA-AAAGATAAAAA
1 AAACAAAGAGAAAAGAAACAAAGA-AAAAA
1182697 AAGCAAGGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 9
0.81 0.07 0.11
Matches are distributed among these distances:
45 24 0.36
46 3 0.05
47 5 0.08
48 7 0.11
49 27 0.41
ACGTcount: A:0.76, C:0.06, G:0.16, T:0.02
Consensus pattern (47 bp):
AAACAAAGAGAAAAGAAACAAAGAAAAAATCAAAGAAAAAACAAAAG
Found at i:1182647 original size:28 final size:28
Alignment explanation
Indices: 1182574--1182690 Score: 87
Period size: 28 Copynumber: 4.0 Consensus size: 28
1182564 GATCCAATCA
*
1182574 AAACAAAGAGAAA-AAGAGCAAAGAAAAAACA
1 AAACAAAGA-AAAGAA-A-CAAAGAAAAAA-G
* *
1182605 AAGAGAAAGAAAAGAAACAAAGAGAAAAG
1 AA-ACAAAGAAAAGAAACAAAGAAAAAAG
* *
1182634 AAACAAAGAAAAGAATCAAAGAAAAAAACA
1 AAACAAAGAAAAGAAACAAAG-AAAAAA-G
* *
1182664 AAAGAAAG-AAAGAAA-AAAGATAAAAG
1 AAACAAAGAAAAGAAACAAAGAAAAAAG
1182690 A
1 A
1182691 TAAAAAAAGC
Statistics
Matches: 71, Mismatches: 11, Indels: 13
0.75 0.12 0.14
Matches are distributed among these distances:
26 1 0.01
27 5 0.07
28 21 0.30
29 13 0.18
30 17 0.24
31 6 0.08
32 8 0.11
ACGTcount: A:0.75, C:0.06, G:0.17, T:0.02
Consensus pattern (28 bp):
AAACAAAGAAAAGAAACAAAGAAAAAAG
Found at i:1182667 original size:34 final size:33
Alignment explanation
Indices: 1182600--1182697 Score: 92
Period size: 34 Copynumber: 2.8 Consensus size: 33
1182590 AGCAAAGAAA
*
1182600 AAACAAAGAGAAAG-A-AAAGAAACAAAGAGAAAAG
1 AAACAAAGA-AAAGAATAAAGAAA-AAA-ACAAAAG
1182634 AAACAAAGAAAAGAATCAAAGAAAAAAACAAAAG
1 AAACAAAGAAAAGAAT-AAAGAAAAAAACAAAAG
* *
1182668 AAAGAAAGAAAAAAGATAAAAGATAAAAAA
1 AAACAAAGAAAAGA-AT-AAAGA-AAAAAA
1182698 AGCAAGGCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
33 4 0.07
34 28 0.51
35 10 0.18
36 13 0.24
ACGTcount: A:0.77, C:0.05, G:0.15, T:0.03
Consensus pattern (33 bp):
AAACAAAGAAAAGAATAAAGAAAAAAACAAAAG
Found at i:1182679 original size:13 final size:13
Alignment explanation
Indices: 1182610--1182674 Score: 80
Period size: 13 Copynumber: 4.9 Consensus size: 13
1182600 AAACAAAGAG
1182610 AAAGAAAAGAAAC
1 AAAGAAAAGAAAC
1182623 AAAGAGAAAAGAAAC
1 -AA-AGAAAAGAAAC
*
1182638 AAAGAAAAGAATC
1 AAAGAAAAGAAAC
1182651 AAAGAAAA-AAAC
1 AAAGAAAAGAAAC
1182663 AAA-AGAAAGAAA
1 AAAGA-AAAGAAA
1182675 GAAAAAAGAT
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
11 1 0.02
12 9 0.20
13 21 0.46
14 4 0.09
15 11 0.24
ACGTcount: A:0.77, C:0.06, G:0.15, T:0.02
Consensus pattern (13 bp):
AAAGAAAAGAAAC
Found at i:1184163 original size:38 final size:37
Alignment explanation
Indices: 1184084--1184181 Score: 144
Period size: 38 Copynumber: 2.6 Consensus size: 37
1184074 TATTTGAATA
*
1184084 TGTTTCACTTGAAACAAAGCAAAGAAATCTTTGAGTC
1 TGTTTCACTTGAAACAAAACAAAGAAATCTTTGAGTC
*
1184121 TGTTTCACTTGAAACAAAACAAA-AATCATCTTTGAGTT
1 TGTTTCACTTGAAACAAAACAAAGAA--ATCTTTGAGTC
*
1184159 TGTTTCCCTTGAAACAAAACAAA
1 TGTTTCACTTGAAACAAAACAAA
1184182 TATCTTTGAG
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
36 2 0.04
37 22 0.39
38 32 0.57
ACGTcount: A:0.40, C:0.17, G:0.12, T:0.31
Consensus pattern (37 bp):
TGTTTCACTTGAAACAAAACAAAGAAATCTTTGAGTC
Found at i:1184200 original size:35 final size:35
Alignment explanation
Indices: 1184085--1184208 Score: 133
Period size: 38 Copynumber: 3.4 Consensus size: 35
1184075 ATTTGAATAT
* *
1184085 GTTTCACTTGAAACAAAGCAAAGAAATCTTTGAGTC
1 GTTTCACTTGAAACAAAACAAA-ATATCTTTGAGTC
*
1184121 TGTTTCACTTGAAACAAAACAAAAATCATCTTTGAGTTT
1 -GTTTCACTTGAAACAAAAC-AAAAT-ATCTTTGAG-TC
*
1184160 GTTTCCCTTGAAACAAAAC-AAATATCTTTGAGATC
1 GTTTCACTTGAAACAAAACAAAATATCTTTGAG-TC
* *
1184195 ATTTCCCTTGAAAC
1 GTTTCACTTGAAAC
1184209 GAATTGTCTC
Statistics
Matches: 77, Mismatches: 7, Indels: 8
0.84 0.08 0.09
Matches are distributed among these distances:
35 23 0.30
36 4 0.05
37 19 0.25
38 30 0.39
39 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (35 bp):
GTTTCACTTGAAACAAAACAAAATATCTTTGAGTC
Found at i:1184513 original size:130 final size:130
Alignment explanation
Indices: 1184276--1184758 Score: 517
Period size: 130 Copynumber: 3.7 Consensus size: 130
1184266 TGAAACTATA
* * *
1184276 ATCCCTAAAGATGGCCTACCATCCTTAT-AGCGTAGGAACCGTGTCATCCCTCGACCAGACCTCC
1 ATCCCTAAAGATGGCATACCATCCTCATCA-CGTAGGAACCGTGTCATCCATCGACCAGACCTCC
* * * *
1184340 TCATCATGTAGGAGCCATGTCACCCCTGATAACCAA-CTTTCCTCATCATGTAGGAATCATGTTA
65 TCATCACGTAGGAGCCATGTCACCCCTGATAA-CAAGCTATCCTCATCACGTAGGAACCATGTTA
1184404 TC
129 TC
** *
1184406 ATCCCTAAAGATGGCATGTCATCCTCATCACGTAAGAACCGTGTCATCCATCGACCAGACCTCCT
1 ATCCCTAAAGATGGCATACCATCCTCATCACGTAGGAACCGTGTCATCCATCGACCAGACCTCCT
* * * * *
1184471 CATCACGTAAGAGTCATGTCACCCCTGATAACTAGCCATCCTCATCACGTAGGAACCATGTTAAC
66 CATCACGTAGGAGCCATGTCACCCCTGATAACAAGCTATCCTCATCACGTAGGAACCATGTTATC
* * * *
1184536 ATCCCTAAAGATGGCATACCGTCCTTATCACATAGGAACCGTGTTATCCATCGACACA-ACCTCC
1 ATCCCTAAAGATGGCATACCATCCTCATCACGTAGGAACCGTGTCATCCATCGAC-CAGACCTCC
* * ** * * * * * *
1184600 TAATCATGTAGGAGCTGTGTCACCCCTAGATAAGAAGTTGTCCTCATCGCGTAGGAACCGTGTAA
65 TCATCACGTAGGAGCCATGTCACCCCT-GATAACAAGCTATCCTCATCACGTAGGAACCATGTTA
1184665 TC
129 TC
* * * * * * *
1184667 AATCTTCCTAAAGATGGCCAGAAC-TCTTCAACACGTATGAGCCGTGTCATCCA-CTGACCAGAT
1 -ATC--CCTAAAGATGG-CATACCATCCTCATCACGTAGGAACCGTGTCATCCATC-GACCAGAC
*
1184730 CTCCTCATCACGTAGGAGCCGTGTCACCC
61 CTCCTCATCACGTAGGAGCCATGTCACCC
1184759 TTAGATGGCC
Statistics
Matches: 293, Mismatches: 50, Indels: 16
0.82 0.14 0.04
Matches are distributed among these distances:
129 2 0.01
130 185 0.63
131 33 0.11
132 3 0.01
133 3 0.01
134 63 0.22
135 4 0.01
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (130 bp):
ATCCCTAAAGATGGCATACCATCCTCATCACGTAGGAACCGTGTCATCCATCGACCAGACCTCCT
CATCACGTAGGAGCCATGTCACCCCTGATAACAAGCTATCCTCATCACGTAGGAACCATGTTATC
Found at i:1186588 original size:30 final size:30
Alignment explanation
Indices: 1186554--1186719 Score: 149
Period size: 30 Copynumber: 5.6 Consensus size: 30
1186544 GTAATTAATG
* *
1186554 TTTAGCCCTTTTAGTTTCTATTAATACCAT
1 TTTAGCCCTTTAAGTTTCTATTTATACCAT
* *
1186584 TTTAGACCC-TTAAGTTTCT-TTTTTACTAT
1 TTTAG-CCCTTTAAGTTTCTATTTATACCAT
* * **
1186613 TTTAGCACTTTAAGTTTCTATTTTTTTCAT
1 TTTAGCCCTTTAAGTTTCTATTTATACCAT
** * * *
1186643 TTTATTCCTTTAAATTTTTATTTATACTAT
1 TTTAGCCCTTTAAGTTTCTATTTATACCAT
* *
1186673 TTTAGCCCTTTAAGTTTCAATTT-TAGCTAT
1 TTTAGCCCTTTAAGTTTCTATTTATA-CCAT
*
1186703 TTTAGTCCTTTAAGTTT
1 TTTAGCCCTTTAAGTTT
1186720 ATGTTTTTCC
Statistics
Matches: 109, Mismatches: 23, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 24 0.22
30 80 0.73
31 3 0.03
ACGTcount: A:0.22, C:0.15, G:0.07, T:0.56
Consensus pattern (30 bp):
TTTAGCCCTTTAAGTTTCTATTTATACCAT
Found at i:1186646 original size:59 final size:60
Alignment explanation
Indices: 1186554--1186696 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 60
1186544 GTAATTAATG
* ** *
1186554 TTTAGCCCTTTTAGTTTCTATTAATACCATTTTAGACCCTTAAGTTTCTT-TTT-TACTAT
1 TTTAGCCCTTTAAGTTTCTATTTTTACCATTTTAGACCCTTAAATTT-TTATTTATACTAT
* ** ** *
1186613 TTTAGCACTTTAAGTTTCTATTTTTTTCATTTTATTCCTTTAAATTTTTATTTATACTAT
1 TTTAGCCCTTTAAGTTTCTATTTTTACCATTTTAGACCCTTAAATTTTTATTTATACTAT
*
1186673 TTTAGCCCTTTAAGTTTCAATTTT
1 TTTAGCCCTTTAAGTTTCTATTTT
1186697 AGCTATTTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
58 2 0.03
59 40 0.57
60 28 0.40
ACGTcount: A:0.22, C:0.15, G:0.06, T:0.57
Consensus pattern (60 bp):
TTTAGCCCTTTAAGTTTCTATTTTTACCATTTTAGACCCTTAAATTTTTATTTATACTAT
Found at i:1186733 original size:30 final size:29
Alignment explanation
Indices: 1186582--1186742 Score: 132
Period size: 30 Copynumber: 5.4 Consensus size: 29
1186572 TATTAATACC
* * *
1186582 ATTTTAGACCCTTAAGTTTCTTTTTTACT
1 ATTTTAGTCCTTTAAGTTTATTTTTTACT
*
1186611 ATTTTAG-CACTTTAAGTTTCTATTTTTTTC-
1 ATTTTAGTC-CTTTAAG-TT-TATTTTTTACT
* *
1186641 ATTTTATTCCTTTAAATTT-TTATTTATACT
1 ATTTTAGTCCTTTAAGTTTATT-TTT-TACT
* *
1186671 ATTTTAGCCCTTTAAGTTTCA-ATTTTAGCT
1 ATTTTAGTCCTTTAAGTTT-ATTTTTTA-CT
*
1186701 ATTTTAGTCCTTTAAGTTTATGTTTTTCCT
1 ATTTTAGTCCTTTAAGTTTAT-TTTTTACT
*
1186731 ATTTTGGTCCTT
1 ATTTTAGTCCTT
1186743 GTAATTATAA
Statistics
Matches: 106, Mismatches: 14, Indels: 23
0.74 0.10 0.16
Matches are distributed among these distances:
27 2 0.02
28 5 0.05
29 20 0.19
30 66 0.62
31 13 0.12
ACGTcount: A:0.20, C:0.14, G:0.07, T:0.58
Consensus pattern (29 bp):
ATTTTAGTCCTTTAAGTTTATTTTTTACT
Found at i:1186733 original size:60 final size:58
Alignment explanation
Indices: 1186554--1186735 Score: 186
Period size: 60 Copynumber: 3.1 Consensus size: 58
1186544 GTAATTAATG
* * * * * *
1186554 TTTAGCCCTTTTAGTTTCTATTAATACCATTTTAGACCCTTAAGTTTCTTTTTTACTAT
1 TTTAGCCCTTTAAGTTTCTATT-TTACTATTTTAGTCCTTTAAGTTTATTTTTTACTAT
* ** * *
1186613 TTTAGCACTTTAAGTTTCTATTTTTTTCATTTTATTCCTTTAAATTT-TTATTTATACTAT
1 TTTAGCCCTTTAAGTTTCTATTTTACT-ATTTTAGTCCTTTAAGTTTATT-TTT-TACTAT
* *
1186673 TTTAGCCCTTTAAGTTTCAATTTTAGCTATTTTAGTCCTTTAAGTTTATGTTTTTCCTAT
1 TTTAGCCCTTTAAGTTTCTATTTTA-CTATTTTAGTCCTTTAAGTTTAT-TTTTTACTAT
1186733 TTT
1 TTT
1186736 GGTCCTTGTA
Statistics
Matches: 100, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
58 3 0.03
59 38 0.38
60 53 0.53
61 5 0.05
62 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.07, T:0.57
Consensus pattern (58 bp):
TTTAGCCCTTTAAGTTTCTATTTTACTATTTTAGTCCTTTAAGTTTATTTTTTACTAT
Found at i:1186742 original size:90 final size:89
Alignment explanation
Indices: 1186554--1186742 Score: 206
Period size: 89 Copynumber: 2.1 Consensus size: 89
1186544 GTAATTAATG
* * * * **
1186554 TTTAGCCCTTTTAGTTTCTATTAATACCATTTTAGACCCTTAAGTTTCTTTTTTACTATTTTAGC
1 TTTAGTCCTTTAAATTTTTATTAATACCATTTTAGACCCTTAAGTTTCAATTTTACTATTTTAGC
*
1186619 ACTTTAAGTTTCTATTTTTTTCAT
66 ACTTTAAGTTTCTATTTTTTCCAT
* * *
1186643 TTTATTCCTTTAAATTTTTATTTATACTATTTTAG-CCCTTTAAGTTTCAATTTTAGCTATTTTA
1 TTTAGTCCTTTAAATTTTTATTAATACCATTTTAGACCC-TTAAGTTTCAATTTTA-CTATTTTA
1186707 GTC-CTTTAAG-TT-TATGTTTTTCCTAT
64 G-CACTTTAAGTTTCTAT-TTTTTCC-AT
*
1186733 TTTGGTCCTT
1 TTTAGTCCTT
1186743 GTAATTATAA
Statistics
Matches: 83, Mismatches: 12, Indels: 9
0.80 0.12 0.09
Matches are distributed among these distances:
88 6 0.07
89 50 0.60
90 26 0.31
91 1 0.01
ACGTcount: A:0.21, C:0.15, G:0.07, T:0.57
Consensus pattern (89 bp):
TTTAGTCCTTTAAATTTTTATTAATACCATTTTAGACCCTTAAGTTTCAATTTTACTATTTTAGC
ACTTTAAGTTTCTATTTTTTCCAT
Found at i:1187675 original size:145 final size:145
Alignment explanation
Indices: 1187412--1187702 Score: 582
Period size: 145 Copynumber: 2.0 Consensus size: 145
1187402 GGTGACTACA
1187412 AAATCAAATTGTTTTCAAAATCATATTTCATCGCTTTCCCCCAATTTAATTTTTTAAGTCTAACA
1 AAATCAAATTGTTTTCAAAATCATATTTCATCGCTTTCCCCCAATTTAATTTTTTAAGTCTAACA
1187477 GATCCCCCGGGGAGACGTTATGACAAAATCGATTTAACTCAAAATTATTTTTTACTTGAGGTGGT
66 GATCCCCCGGGGAGACGTTATGACAAAATCGATTTAACTCAAAATTATTTTTTACTTGAGGTGGT
1187542 GATGATCTGAAATCG
131 GATGATCTGAAATCG
1187557 AAATCAAATTGTTTTCAAAATCATATTTCATCGCTTTCCCCCAATTTAATTTTTTAAGTCTAACA
1 AAATCAAATTGTTTTCAAAATCATATTTCATCGCTTTCCCCCAATTTAATTTTTTAAGTCTAACA
1187622 GATCCCCCGGGGAGACGTTATGACAAAATCGATTTAACTCAAAATTATTTTTTACTTGAGGTGGT
66 GATCCCCCGGGGAGACGTTATGACAAAATCGATTTAACTCAAAATTATTTTTTACTTGAGGTGGT
1187687 GATGATCTGAAATCG
131 GATGATCTGAAATCG
1187702 A
1 A
1187703 TTTGAGTCTG
Statistics
Matches: 146, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 146 1.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (145 bp):
AAATCAAATTGTTTTCAAAATCATATTTCATCGCTTTCCCCCAATTTAATTTTTTAAGTCTAACA
GATCCCCCGGGGAGACGTTATGACAAAATCGATTTAACTCAAAATTATTTTTTACTTGAGGTGGT
GATGATCTGAAATCG
Found at i:1190759 original size:50 final size:51
Alignment explanation
Indices: 1190624--1190759 Score: 134
Period size: 50 Copynumber: 2.7 Consensus size: 51
1190614 TACAGTGACA
* * * *
1190624 TGGAACTCGTCACGTCGAGGTGACGAGTTTCAAT-AAAAATATTTTTTTAT
1 TGGAACTTGTCACCTCGATGTGACGAGTTTCAATAAAAAATATTATTTTAT
** * * * * *
1190674 TCTAACTTTTTACCTCAATGTGA-TAGATTTTAATAAAAAATA-TATTTTAT
1 TGGAACTTGTCACCTCGATGTGACGAG-TTTCAATAAAAAATATTATTTTAT
*
1190724 TGGAACTTGTCACCACGATGTGACGAGTTTCAATAA
1 TGGAACTTGTCACCTCGATGTGACGAGTTTCAATAA
1190760 CAGTGTAGAA
Statistics
Matches: 64, Mismatches: 19, Indels: 6
0.72 0.21 0.07
Matches are distributed among these distances:
49 2 0.03
50 53 0.83
51 9 0.14
ACGTcount: A:0.33, C:0.14, G:0.15, T:0.38
Consensus pattern (51 bp):
TGGAACTTGTCACCTCGATGTGACGAGTTTCAATAAAAAATATTATTTTAT
Found at i:1191252 original size:57 final size:57
Alignment explanation
Indices: 1191180--1191287 Score: 173
Period size: 57 Copynumber: 1.9 Consensus size: 57
1191170 GAATGAAACA
*
1191180 AAGAAGTACACAAGTGTTCTCGAAAGA-AAAAAGAATGTTAAAGAATATTAATTTTTT
1 AAGAAGTACAAAAGTGTTCTCGAAA-ACAAAAAGAATGTTAAAGAATATTAATTTTTT
* *
1191237 AAGAAGTACAAAAGTGTTCTTGAAAACAAAAAGAATGTTTAAGAATATTAA
1 AAGAAGTACAAAAGTGTTCTCGAAAACAAAAAGAATGTTAAAGAATATTAA
1191288 CTTGAAATTT
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
56 1 0.02
57 46 0.98
ACGTcount: A:0.50, C:0.06, G:0.16, T:0.28
Consensus pattern (57 bp):
AAGAAGTACAAAAGTGTTCTCGAAAACAAAAAGAATGTTAAAGAATATTAATTTTTT
Found at i:1194206 original size:11 final size:11
Alignment explanation
Indices: 1194190--1194220 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
1194180 ATATTACTTG
1194190 AAAAATGACCC
1 AAAAATGACCC
1194201 AAAAATGACCC
1 AAAAATGACCC
1194212 AAAAATGAC
1 AAAAATGAC
1194221 GAGAAACTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.58, C:0.23, G:0.10, T:0.10
Consensus pattern (11 bp):
AAAAATGACCC
Found at i:1194801 original size:20 final size:19
Alignment explanation
Indices: 1194762--1194802 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1194752 CTCTAAATGG
**
1194762 ACAATGAAAACATGTTCAA
1 ACAATGAAAACACATTCAA
1194781 ACAATGAAATACACATTCAA
1 ACAATGAAA-ACACATTCAA
1194801 AC
1 AC
1194803 GTACTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.20
Consensus pattern (19 bp):
ACAATGAAAACACATTCAA
Found at i:1199954 original size:20 final size:19
Alignment explanation
Indices: 1199915--1199955 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
1199905 CTCTAAATGG
**
1199915 ACAATGAAAACATGTTCAA
1 ACAATGAAAACACATTCAA
1199934 ACAATGAAATACACATTCAA
1 ACAATGAAA-ACACATTCAA
1199954 AC
1 AC
1199956 GTACTTTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.54, C:0.20, G:0.07, T:0.20
Consensus pattern (19 bp):
ACAATGAAAACACATTCAA
Found at i:1203596 original size:2 final size:2
Alignment explanation
Indices: 1203589--1203613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1203579 TTCTTCAAAT
1203589 AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC A
1203614 TATATATACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.48, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:1205359 original size:43 final size:44
Alignment explanation
Indices: 1205312--1205400 Score: 162
Period size: 43 Copynumber: 2.0 Consensus size: 44
1205302 AACCTATATT
1205312 ATCAAACCCCTAACTTGATTTCATAAAAATAC-ATCTCCCTTAA
1 ATCAAACCCCTAACTTGATTTCATAAAAATACAATCTCCCTTAA
1205355 ATCAAACCCCTAACTTGATTTCATAAAAATACATATCTCCCTTAA
1 ATCAAACCCCTAACTTGATTTCATAAAAATACA-ATCTCCCTTAA
1205400 A
1 A
1205401 GTTAGGGTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
43 32 0.73
45 12 0.27
ACGTcount: A:0.40, C:0.27, G:0.02, T:0.30
Consensus pattern (44 bp):
ATCAAACCCCTAACTTGATTTCATAAAAATACAATCTCCCTTAA
Found at i:1209549 original size:175 final size:175
Alignment explanation
Indices: 1209250--1209607 Score: 700
Period size: 175 Copynumber: 2.1 Consensus size: 175
1209240 CATTTTAACA
*
1209250 TATGGAA-ATAATATTTTTAAGCCTAATTTATCATCCTTCAATTTTCCCAAAATTTTTATTCGAT
1 TATGGAATGTAATATTTTTAAGCCTAATTTATCATCCTTCAATTTTCCCAAAATTTTTATTCGAT
1209314 CGGGTTTTCCAATTTCTTATCGGACTTTAACTCTTTCTAGTTTTTAACATAAATTCCGGATCAAG
66 CGGGTTTTCCAATTTCTTATCGGACTTTAACTCTTTCTAGTTTTTAACATAAATTCCGGATCAAG
1209379 AATCTGATTTAATAAAACCTCAATCTAACCACTAAACTATTTATT
131 AATCTGATTTAATAAAACCTCAATCTAACCACTAAACTATTTATT
1209424 TATGGAATGTAATATTTTTAAGCCTAATTTATCATCCTTCAATTTTCCCAAAATTTTTATTCGAT
1 TATGGAATGTAATATTTTTAAGCCTAATTTATCATCCTTCAATTTTCCCAAAATTTTTATTCGAT
1209489 CGGGTTTTCCAATTTCTTATCGGACTTTAACTCTTTCTAGTTTTTAACATAAATTCCGGATCAAG
66 CGGGTTTTCCAATTTCTTATCGGACTTTAACTCTTTCTAGTTTTTAACATAAATTCCGGATCAAG
1209554 AATCTGATTTAATAAAACCTCAATCTAACCACTAAACTATTTATT
131 AATCTGATTTAATAAAACCTCAATCTAACCACTAAACTATTTATT
1209599 TATGGAATG
1 TATGGAATG
1209608 AAAATTATTT
Statistics
Matches: 182, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
174 7 0.04
175 175 0.96
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.41
Consensus pattern (175 bp):
TATGGAATGTAATATTTTTAAGCCTAATTTATCATCCTTCAATTTTCCCAAAATTTTTATTCGAT
CGGGTTTTCCAATTTCTTATCGGACTTTAACTCTTTCTAGTTTTTAACATAAATTCCGGATCAAG
AATCTGATTTAATAAAACCTCAATCTAACCACTAAACTATTTATT
Found at i:1211019 original size:18 final size:17
Alignment explanation
Indices: 1210980--1211033 Score: 58
Period size: 18 Copynumber: 3.2 Consensus size: 17
1210970 CACCAACCTT
1210980 TTTCTTCTTTTTT-AT-
1 TTTCTTCTTTTTTCATC
*
1210995 TTCCTTCTTTTCTTCATC
1 TTTCTTCTTTT-TTCATC
*
1211013 TTTCTTCTCTTGTTCATC
1 TTTCTTCT-TTTTTCATC
1211031 TTT
1 TTT
1211034 TTCGTTCACC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
15 10 0.31
16 2 0.06
17 2 0.06
18 16 0.50
19 2 0.06
ACGTcount: A:0.06, C:0.24, G:0.02, T:0.69
Consensus pattern (17 bp):
TTTCTTCTTTTTTCATC
Found at i:1222704 original size:13 final size:13
Alignment explanation
Indices: 1222697--1222741 Score: 72
Period size: 13 Copynumber: 3.5 Consensus size: 13
1222687 CTTTATGTCG
1222697 CGCATTTATGACA
1 CGCATTTATGACA
1222710 CGCATTTATGACA
1 CGCATTTATGACA
* *
1222723 CACATTTATGACG
1 CGCATTTATGACA
1222736 CGCATT
1 CGCATT
1222742 GCGTGTCATT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (13 bp):
CGCATTTATGACA
Found at i:1222863 original size:85 final size:84
Alignment explanation
Indices: 1222713--1222878 Score: 224
Period size: 85 Copynumber: 2.0 Consensus size: 84
1222703 TATGACACGC
* *
1222713 ATTTATGACACACATTTATGACGCGCATTGCGTGTCATTGAAGCCCCCATCATAAATAAAAATGA
1 ATTTATGACACACATGTATGACGCACATTGCGTGTCATTGAAGCCCCCATCATAAATAAAAATGA
*
1222778 CACATATTTGTGTGTCATAA
66 CACACA-TTGTGTGTCATAA
* ** * * * * *
1222798 ATTTATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGTCCTCGTCATAAATGAAGATGA
1 ATTTATGACACACATGTATGACGCACATTGCGTGTCATTGAAGCCCCCATCATAAATAAAAATGA
1222863 CACACATTGTGTGTCA
66 CACACATTGTGTGTCA
1222879 AAGAGTATAT
Statistics
Matches: 70, Mismatches: 11, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
84 10 0.14
85 60 0.86
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.31
Consensus pattern (84 bp):
ATTTATGACACACATGTATGACGCACATTGCGTGTCATTGAAGCCCCCATCATAAATAAAAATGA
CACACATTGTGTGTCATAA
Found at i:1228744 original size:182 final size:184
Alignment explanation
Indices: 1228437--1228802 Score: 718
Period size: 182 Copynumber: 2.0 Consensus size: 184
1228427 TTTACATTAT
1228437 CATTTGATTTCACTACACACACTTTATTTTGGCACGACATCTCTATTTGCTACCACATCACAATA
1 CATTTGATTTCACTACACACACTTTATTTTGGCACGACATCTCTATTTGCTACCACATCACAATA
1228502 TCATTTTATCCCCACCAATACATATTGCATTAACATTTTTCAATGGTACACACCATCACACTAAC
66 TCATTTTATCCCCACCAATACATATTGCATTAACATTTTTCAATGGTACACACCATCACACTAAC
1228567 TATACTTAGATAAAGTAGTCCTTTAC-TTGGTT-AACTCATAAATTTCAACCAA
131 TATACTTAGATAAAGTAGTCCTTTACTTTGGTTAAACTCATAAATTTCAACCAA
1228619 CATTTGATTTCACTACACACACTTTATTTTGGCACGACATCTCTATTTGCTACCACATCACAATA
1 CATTTGATTTCACTACACACACTTTATTTTGGCACGACATCTCTATTTGCTACCACATCACAATA
1228684 TCATTTTATCCCCACCAATACATATTGCATTAACATTTTTCAATGGTACACACCATCACACTAAC
66 TCATTTTATCCCCACCAATACATATTGCATTAACATTTTTCAATGGTACACACCATCACACTAAC
1228749 TATACTTAGATAAAGTAGTCCTTTACTTTGGTTAAACTCATAAATTTCAACCAA
131 TATACTTAGATAAAGTAGTCCTTTACTTTGGTTAAACTCATAAATTTCAACCAA
1228803 TCCCTGTGGG
Statistics
Matches: 182, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
182 156 0.86
183 6 0.03
184 20 0.11
ACGTcount: A:0.33, C:0.25, G:0.07, T:0.35
Consensus pattern (184 bp):
CATTTGATTTCACTACACACACTTTATTTTGGCACGACATCTCTATTTGCTACCACATCACAATA
TCATTTTATCCCCACCAATACATATTGCATTAACATTTTTCAATGGTACACACCATCACACTAAC
TATACTTAGATAAAGTAGTCCTTTACTTTGGTTAAACTCATAAATTTCAACCAA
Found at i:1240615 original size:24 final size:24
Alignment explanation
Indices: 1240564--1240617 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
1240554 AACGAAGATA
* **
1240564 TCAGAAATCAAAACAGAATTCATT
1 TCAGAAATCAAAACAGAATCCAGG
* *
1240588 TCAGATATCAGAACAGAATCCAGG
1 TCAGAAATCAAAACAGAATCCAGG
1240612 TCAGAA
1 TCAGAA
1240618 TTTAGATCAA
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.46, C:0.19, G:0.15, T:0.20
Consensus pattern (24 bp):
TCAGAAATCAAAACAGAATCCAGG
Found at i:1247349 original size:99 final size:99
Alignment explanation
Indices: 1247160--1247352 Score: 219
Period size: 99 Copynumber: 1.9 Consensus size: 99
1247150 AAAGTATCAT
* * *
1247160 CCGAATTACGACTTAGCGTCCTTCAAAGCAATGAGTAAGATCATTCCACGACTTAGCATCTTTCT
1 CCGAATTACGACTTAGCATCCTTCAAAGCAATGAGTAAGATCATTCCACGACTCAGCATCTTTCA
* * *
1247225 GAGTAAAGAATGAGTTTGTCTCCAGATTTAACAC
66 GAGTAAAGAATGAGATCGTCACCAGATTTAACAC
* * * * * **
1247259 CCGAATTACGACTTAGTATTCTTCAAAAG-AATGAGTCAGATCGTTCTACGACTCAGTGTCTTTC
1 CCGAATTACGACTTAGCATCCTTC-AAAGCAATGAGTAAGATCATTCCACGACTCAGCATCTTTC
* *
1247323 AGAAG-AAAGAGTGCGATCGTCACCAGATTT
65 AG-AGTAAAGAATGAGATCGTCACCAGATTT
1247353 CAGCGAAAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
99 71 0.92
100 6 0.08
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.29
Consensus pattern (99 bp):
CCGAATTACGACTTAGCATCCTTCAAAGCAATGAGTAAGATCATTCCACGACTCAGCATCTTTCA
GAGTAAAGAATGAGATCGTCACCAGATTTAACAC
Found at i:1247543 original size:3 final size:3
Alignment explanation
Indices: 1247535--1247586 Score: 59
Period size: 3 Copynumber: 16.3 Consensus size: 3
1247525 GGGTTTATAA
* *
1247535 ATT ATT ATT ATT ATTT ACCT AAT ATT ATT ATT ATAT ATT ATT ATT ATT
1 ATT ATT ATT ATT A-TT A-TT ATT ATT ATT ATT AT-T ATT ATT ATT ATT
1247583 ATT A
1 ATT A
1247587 ATTTTTTTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
3 35 0.81
4 8 0.19
ACGTcount: A:0.37, C:0.04, G:0.00, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:1248098 original size:16 final size:15
Alignment explanation
Indices: 1248076--1248116 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 15
1248066 AGAAATATTA
1248076 AAAAAAGAAGAAAAC
1 AAAAAAGAAGAAAAC
*
1248091 AAAGAAAGAAAGAAAAG
1 AAA-AAAG-AAGAAAAC
1248108 AAAAAAGAA
1 AAAAAAGAA
1248117 AACATAGGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
15 5 0.22
16 8 0.35
17 10 0.43
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAGAAAAC
Found at i:1248117 original size:16 final size:16
Alignment explanation
Indices: 1248076--1248117 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
1248066 AGAAATATTA
1248076 AAAAAAG-AAGAAAAC
1 AAAAAAGAAAGAAAAC
*
1248091 AAAGAAAGAAAGAAAAG
1 AAA-AAAGAAAGAAAAC
1248108 AAAAAAGAAA
1 AAAAAAGAAA
1248118 ACATAGGAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
15 3 0.12
16 11 0.46
17 10 0.42
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (16 bp):
AAAAAAGAAAGAAAAC
Found at i:1248144 original size:17 final size:18
Alignment explanation
Indices: 1248076--1248146 Score: 63
Period size: 20 Copynumber: 3.7 Consensus size: 18
1248066 AGAAATATTA
1248076 AAAAAAGAAGAAAACAAAG
1 AAAAAAG-AGAAAACAAAG
* *
1248095 AAAGAAAGAAAAGAAAAAAG
1 AAA-AAAGAGAA-AACAAAG
1248115 AAAACATAGGAGAAAACAAA-
1 AAAA-A-A-GAGAAAACAAAG
1248135 AAAAAAGAGAAA
1 AAAAAAGAGAAA
1248147 GAGATTTTAC
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
17 6 0.14
18 1 0.02
19 8 0.19
20 18 0.42
21 6 0.14
22 4 0.09
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.01
Consensus pattern (18 bp):
AAAAAAGAGAAAACAAAG
Found at i:1251281 original size:22 final size:22
Alignment explanation
Indices: 1251255--1251298 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
1251245 ATATATCTTC
* *
1251255 AATAATATTTTATGTACCTTTT
1 AATAACATGTTATGTACCTTTT
*
1251277 AATAACATGTTATGTACTTTTT
1 AATAACATGTTATGTACCTTTT
1251299 TTTACTTTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.32, C:0.09, G:0.07, T:0.52
Consensus pattern (22 bp):
AATAACATGTTATGTACCTTTT
Found at i:1253517 original size:28 final size:28
Alignment explanation
Indices: 1253455--1253542 Score: 83
Period size: 28 Copynumber: 3.2 Consensus size: 28
1253445 TTTTTCTACA
* * *
1253455 TCAAATTTTATAAG-TAACTTCAAGACT
1 TCAAATTTCATTAGATAACTTCAATACT
1253482 TCAAATTTC-TTAGAATAACTTCAATACT
1 TCAAATTTCATTAG-ATAACTTCAATACT
* * *
1253510 AT-AGATTTCATTCGGTAACTTCAATACT
1 -TCAAATTTCATTAGATAACTTCAATACT
1253538 TCAAA
1 TCAAA
1253543 GTTGAAAATA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
26 3 0.06
27 9 0.18
28 33 0.67
29 4 0.08
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.38
Consensus pattern (28 bp):
TCAAATTTCATTAGATAACTTCAATACT
Found at i:1256134 original size:20 final size:20
Alignment explanation
Indices: 1256106--1256145 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1256096 GGCTTGACAT
1256106 TACTATAGCAGTATCAATAC
1 TACTATAGCAGTATCAATAC
* *
1256126 TACTGTAGCAGTATCGATAC
1 TACTATAGCAGTATCAATAC
1256146 CCATTTTGCA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (20 bp):
TACTATAGCAGTATCAATAC
Found at i:1257618 original size:19 final size:20
Alignment explanation
Indices: 1257579--1257620 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
1257569 GCAAAATTTC
*
1257579 ATTTTGATTTCCAAAATCAA
1 ATTTTGATTTCCAAAACCAA
*
1257599 ATTTTGCTTT-CAAAACCAA
1 ATTTTGATTTCCAAAACCAA
1257618 ATT
1 ATT
1257621 ATTTTCATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.40
Consensus pattern (20 bp):
ATTTTGATTTCCAAAACCAA
Found at i:1259555 original size:19 final size:20
Alignment explanation
Indices: 1259512--1259557 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
1259502 ATAGTATCTG
* *
1259512 TACTATTCATACAGTATCGA
1 TACTATTAATACAGTATCAA
1259532 TACTATTAATACAGTAT-AA
1 TACTATTAATACAGTATCAA
1259551 TACTATT
1 TACTATT
1259558 TATAAAAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 8 0.33
20 16 0.67
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (20 bp):
TACTATTAATACAGTATCAA
Found at i:1261260 original size:6 final size:6
Alignment explanation
Indices: 1261249--1261282 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
1261239 AATCTTATAG
1261249 GGCTGC GGCTGC GGCTGC GGCTGC GGCTGC GGCT
1 GGCTGC GGCTGC GGCTGC GGCTGC GGCTGC GGCT
1261283 TTTACTTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.50, T:0.18
Consensus pattern (6 bp):
GGCTGC
Found at i:1262246 original size:9 final size:8
Alignment explanation
Indices: 1262190--1263187 Score: 189
Period size: 9 Copynumber: 124.6 Consensus size: 8
1262180 TTAAAACAAT
1262190 TATA-ATA
1 TATATATA
1262197 TAT-TA-A
1 TATATATA
1262203 TATATATA
1 TATATATA
1262211 TATATATA
1 TATATATA
1262219 TATA-ATA
1 TATATATA
1262226 -ATATA-A
1 TATATATA
1262232 TATATATA
1 TATATATA
1262240 TACTATATA
1 TA-TATATA
* *
1262249 GTTTATATT
1 -TATATATA
1262258 TATATACTA
1 TATATA-TA
* *
1262267 TATCTAAA
1 TATATATA
1262275 CTATATAGTA
1 -TATATA-TA
* *
1262285 TGTAAACTA
1 TATATA-TA
1262294 TATATAT-
1 TATATATA
*
1262301 TATAAACTA
1 TATATA-TA
* *
1262310 TATAGAAA
1 TATATATA
1262318 CTATATA-A
1 -TATATATA
*
1262326 TATATAAA
1 TATATATA
*
1262334 T-TATGTA
1 TATATATA
*
1262341 AAT-TATA
1 TATATATA
*
1262348 TTTATATA
1 TATATATA
1262356 T-TATATA
1 TATATATA
1262363 TGA-ACTATA
1 T-ATA-TATA
1262372 TATAT-TA
1 TATATATA
1262379 TATATAT-
1 TATATATA
*
1262386 TATGTATA
1 TATATATA
*
1262394 AACT-TA-A
1 TA-TATATA
1262401 TATATATA
1 TATATATA
1262409 TATACTATA
1 TATA-TATA
* *
1262418 TACATAAA
1 TATATATA
*
1262426 CTATATAGTT
1 -TATATA-TA
1262436 TATATATA
1 TATATATA
*
1262444 AACTATATA
1 TA-TATATA
1262453 TGA-AT-TA
1 T-ATATATA
* *
1262460 T-TTTGT-
1 TATATATA
1262466 TA-AT-TA
1 TATATATA
1262472 -ATATGA-A
1 TATAT-ATA
*
1262479 CTATGTAGTA
1 -TATATA-TA
*
1262489 TATATGT-
1 TATATATA
1262496 TATATATA
1 TATATATA
* *
1262504 AAAACTATA
1 TATA-TATA
*
1262513 TAGTTTAT-
1 TA-TATATA
1262521 TA-ATATA
1 TATATATA
* *
1262528 AACTATGTA
1 TA-TATATA
* *
1262537 AACTATTTA
1 TA-TATATA
1262546 TATATATA
1 TATATATA
1262554 T-TATATA
1 TATATATA
*
1262561 TGTATATGA
1 TATATAT-A
1262570 -ACTATATA
1 TA-TATATA
1262578 GTATATATA
1 -TATATATA
1262587 CTATATATA
1 -TATATATA
*
1262596 TATAAACTA
1 TATATA-TA
* *
1262605 CATAGTTTA
1 TATA-TATA
1262614 T-TA-ATA
1 TATATATA
*
1262620 TAAAT-TA
1 TATATATA
* *
1262627 TGTAAACTA
1 TATATA-TA
*
1262636 TTTATATA
1 TATATATA
*
1262644 TATTTAT-
1 TATATATA
1262651 TATATATA
1 TATATATA
*
1262659 AACTATATA
1 TA-TATATA
*
1262668 TATAAATA
1 TATATATA
1262676 -ATATATA
1 TATATATA
1262683 CTATATATA
1 -TATATATA
*
1262692 TATAAACTA
1 TATATA-TA
*
1262701 TGTA-ATA
1 TATATATA
1262708 TATATATA
1 TATATATA
1262716 TATATA-A
1 TATATATA
* *
1262723 TCTATAGTT
1 TATATA-TA
1262732 TAT-TA-A
1 TATATATA
1262738 TATA-ATA
1 TATATATA
*
1262745 TAGTTTATA
1 TA-TATATA
* *
1262754 TAAAAATA
1 TATATATA
1262762 T-TA-AT-
1 TATATATA
*
1262767 TATAGTTTA
1 TATA-TATA
* *
1262776 TATGTTTA
1 TATATATA
1262784 TCA-ATATA
1 T-ATATATA
*
1262792 AACTATAT-
1 TA-TATATA
*
1262800 TCTA-ATA
1 TATATATA
1262807 TATATATA
1 TATATATA
*
1262815 TAGTATGTA
1 TA-TATATA
*
1262824 AACTATATA
1 TA-TATATA
* *
1262833 GAAACTATA
1 TATA-TATA
1262842 TA-ATATA
1 TATATATA
*
1262849 TAAAT-TA
1 TATATATA
* *
1262856 TGTA-ATT
1 TATATATA
*
1262863 TATATTTA
1 TATATATA
1262871 TATAT-TA
1 TATATATA
1262878 TATATGA-A
1 TATAT-ATA
1262886 CTATATAT-
1 -TATATATA
1262894 TATATATA
1 TATATATA
*
1262902 T-TATGTA
1 TATATATA
*
1262909 TAAACT-TA
1 TATA-TATA
*
1262917 -AAATATA
1 TATATATA
*
1262924 AATACTATA
1 TATA-TATA
* *
1262933 TACATAAA
1 TATATATA
*
1262941 CTATATAGTT
1 -TATATA-TA
*
1262951 TATATTTA
1 TATATATA
1262959 TATACTATA
1 TATA-TATA
* *
1262968 TATACAAA
1 TATATATA
*
1262976 CTATATAGTG
1 -TATATA-TA
1262986 TATATATGA
1 TATATAT-A
*
1262995 -ACTATACA
1 TA-TATATA
*
1263003 TAAACTATA
1 TATA-TATA
*
1263012 TAGTTTATA
1 TA-TATATA
*
1263021 TATAAACTA
1 TATATA-TA
*
1263030 TATATAAA
1 TATATATA
*
1263038 T-TATTTA
1 TATATATA
*
1263045 GTTTAT-TA
1 -TATATATA
1263053 -ATATGA-A
1 TATAT-ATA
1263060 CTATATAGTA
1 -TATATA-TA
1263070 TATATAT-
1 TATATATA
1263077 TATATATA
1 TATATATA
*
1263085 -AAACTATA
1 TATA-TATA
*
1263093 TAGTTTAT-
1 TA-TATATA
1263101 TA-ATATA
1 TATATATA
*
1263108 -ACTATGTA
1 TA-TATATA
* *
1263116 AACTATTTA
1 TA-TATATA
1263125 TATATACTA
1 TATATA-TA
* *
1263134 TATAAACCA
1 TATATA-TA
1263143 TATATATA
1 TATATATA
1263151 TATATATA
1 TATATATA
1263159 TATATATA
1 TATATATA
1263167 TATATATA
1 TATATATA
1263175 TATATATA
1 TATATATA
1263183 TATAT
1 TATAT
1263188 GAACTATATA
Statistics
Matches: 721, Mismatches: 147, Indels: 245
0.65 0.13 0.22
Matches are distributed among these distances:
5 3 0.00
6 38 0.05
7 168 0.23
8 219 0.30
9 287 0.40
10 6 0.01
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (8 bp):
TATATATA
Found at i:1262304 original size:43 final size:43
Alignment explanation
Indices: 1262190--1262348 Score: 119
Period size: 43 Copynumber: 3.7 Consensus size: 43
1262180 TTAAAACAAT
* *
1262190 TATAATATATTAA-TATATATATATATATA-TATAATA-ATATAATA
1 TATAATATATAAACTATATATAT-TATATACTAT-ATAGA-A-ACTA
* * * **
1262234 TATATATACTATATAGTTTATAT-TTATATACTATATCTAAACTA
1 TATA-ATA-TATAAACTATATATATTATATACTATATAGAAACTA
* * *
1262278 TATAGTATGTAAACTATATATATTATAAACTATATAGAAACTA
1 TATAATATATAAACTATATATATTATATACTATATAGAAACTA
* * *
1262321 TATAATATATAAATTATGTAAATTATAT
1 TATAATATATAAACTATATATATTATAT
1262349 TTATATATTA
Statistics
Matches: 90, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
42 10 0.11
43 42 0.47
44 11 0.12
45 12 0.13
46 9 0.10
47 6 0.07
ACGTcount: A:0.48, C:0.04, G:0.03, T:0.44
Consensus pattern (43 bp):
TATAATATATAAACTATATATATTATATACTATATAGAAACTA
Found at i:1262362 original size:33 final size:33
Alignment explanation
Indices: 1262319--1262432 Score: 82
Period size: 33 Copynumber: 3.7 Consensus size: 33
1262309 ATATAGAAAC
* *
1262319 TATATAATATATAAATTATGTAAATTATATTTA
1 TATATAATATATAAACTATATAAATTATATTTA
* * *
1262352 TATATTATATATGAACTATATATATTATA--TA
1 TATATAATATATAAACTATATAAATTATATTTA
* * *
1262383 TAT-T-ATGTATAAACT-TA-ATA-TATATATA
1 TATATAATATATAAACTATATAAATTATATTTA
*
1262411 TACTAT-ATACATAAACTATATA
1 TA-TATAATATATAAACTATATA
1262433 GTTTATATAT
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
26 4 0.06
27 3 0.05
28 6 0.09
29 10 0.15
30 11 0.17
31 7 0.11
32 1 0.02
33 24 0.36
ACGTcount: A:0.47, C:0.04, G:0.03, T:0.46
Consensus pattern (33 bp):
TATATAATATATAAACTATATAAATTATATTTA
Found at i:1262614 original size:94 final size:94
Alignment explanation
Indices: 1262472--1262700 Score: 306
Period size: 94 Copynumber: 2.4 Consensus size: 94
1262462 TTGTTAATTA
* * * *
1262472 ATATGAACTATGTAGTATATAT-GT-TATATATAAAAACTATATAGTTTATTAATATAAACTATG
1 ATATGAACTATATAGTATATATACTATATATATATAAACTACATAGTTTATTAATATAAACTATG
*
1262535 TAAACTATTTATATATATATTA-TATATGT
66 TAAACTATTTATATATAT-TTATTATATAT
*
1262564 ATATGAACTATATAGTATATATACTATATATATATAAACTACATAGTTTATTAATATAAATTATG
1 ATATGAACTATATAGTATATATACTATATATATATAAACTACATAGTTTATTAATATAAACTATG
1262629 TAAACTATTTATATATATTTATTATATAT
66 TAAACTATTTATATATATTTATTATATAT
* *
1262658 AAACT-ATA-TATATAAATAATATATACTATATATATATAAACTA
1 ATA-TGA-ACTATAT-AGT-ATATATACTATATATATATAAACTA
1262701 TGTAATATAT
Statistics
Matches: 122, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
92 21 0.17
93 4 0.03
94 68 0.56
95 4 0.03
96 25 0.20
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (94 bp):
ATATGAACTATATAGTATATATACTATATATATATAAACTACATAGTTTATTAATATAAACTATG
TAAACTATTTATATATATTTATTATATAT
Found at i:1263008 original size:31 final size:31
Alignment explanation
Indices: 1262931--1263064 Score: 144
Period size: 31 Copynumber: 4.1 Consensus size: 31
1262921 ATAAATACTA
1262931 TATACATAAACTATATAGTTTATATTTAT-ATAC
1 TATACATAAACTATATAGTTTATA--TATGA-AC
* *
1262964 TATATATACAAACTATATAGTGTATATATGAAC
1 TATACAT--AAACTATATAGTTTATATATGAAC
*
1262997 TATACATAAACTATATAGTTTATATATAAAC
1 TATACATAAACTATATAGTTTATATATGAAC
* * *
1263028 TATATATAAATTATTTAGTTTATTAATATGAAC
1 TATACATAAACTATATAGTTTA-T-ATATGAAC
1263061 TATA
1 TATA
1263065 TAGTATATAT
Statistics
Matches: 87, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
31 41 0.47
32 1 0.01
33 28 0.32
34 1 0.01
35 16 0.18
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (31 bp):
TATACATAAACTATATAGTTTATATATGAAC
Found at i:1263062 original size:53 final size:49
Alignment explanation
Indices: 1263005--1263199 Score: 155
Period size: 53 Copynumber: 3.8 Consensus size: 49
1262995 ACTATACATA
* * *
1263005 AACTATATAGTTTATATATAAACTATATATAAATTATTTAGTTTATTAATAT
1 AACTATATAGTATATATAT-AA-TATATA-AAACTATATAGTTTATTAATAT
*
1263057 GAACTATATAGTATATATATTATATATAAAACTATATAGTTTATTAATAT
1 -AACTATATAGTATATATATAATATATAAAACTATATAGTTTATTAATAT
* * * * *
1263107 AACTATGTA-AACTATTTATATATACTATATAAACCATATA-TATATATATATAT
1 AACTATATAGTA-TATATATA-ATA-TATA-AAACTATATAGTTTAT-TA-ATAT
*
1263160 ATA-TATATA-TATATATATATATATATATGAACTATATAGT
1 A-ACTATATAGTATATATATA-ATATATA-AAACTATATAGT
1263200 ATACACTATA
Statistics
Matches: 119, Mismatches: 15, Indels: 17
0.79 0.10 0.11
Matches are distributed among these distances:
48 1 0.01
49 14 0.12
50 23 0.19
51 27 0.23
52 24 0.20
53 29 0.24
54 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (49 bp):
AACTATATAGTATATATATAATATATAAAACTATATAGTTTATTAATAT
Found at i:1263065 original size:31 final size:29
Alignment explanation
Indices: 1262968--1263197 Score: 102
Period size: 31 Copynumber: 8.2 Consensus size: 29
1262958 ATATACTATA
* *
1262968 TATACAAACTATATAGTGTATATATGAAC
1 TATATAAACTATATAGTTTATATATGAAC
*
1262997 TATACATAAACTATATAGTTTATATATAAAC
1 TAT--ATAAACTATATAGTTTATATATGAAC
* *
1263028 TATATATAAATTATTTAGTTTATTAATATGAAC
1 --TATATAAACTATATAGTTTA-T-ATATGAAC
*
1263061 TATAT--AGTATATA---TAT-TAT--A-
1 TATATAAACTATATAGTTTATATATGAAC
1263081 TATA-AAACTATATAGTTTATTAATAT-AAC
1 TATATAAACTATATAGTTTA-T-ATATGAAC
* * *
1263110 TATGTAAACTATTTATA-TATACTATATAAAC
1 TATATAAACTA--TATAGTTTA-TATATGAAC
* * *
1263141 CATATATA-TATATA-TATATATAT--A-
1 TATATAAACTATATAGTTTATATATGAAC
* *
1263165 TATATATA-TATATA-TATATATATGAAC
1 TATATAAACTATATAGTTTATATATGAAC
1263192 TATATA
1 TATATA
1263198 GTATACACTA
Statistics
Matches: 162, Mismatches: 16, Indels: 48
0.72 0.07 0.21
Matches are distributed among these distances:
20 4 0.02
21 8 0.05
23 3 0.02
24 24 0.15
25 3 0.02
26 3 0.02
27 14 0.09
28 9 0.06
29 12 0.07
30 12 0.07
31 55 0.34
32 5 0.03
33 10 0.06
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (29 bp):
TATATAAACTATATAGTTTATATATGAAC
Found at i:1263197 original size:2 final size:2
Alignment explanation
Indices: 1262190--1263187 Score: 189
Period size: 2 Copynumber: 498.5 Consensus size: 2
1262180 TTAAAACAAT
1262190 TA TA -A TA TA T- TA -A TA TA TA TA TA TA TA TA TA TA -A TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
1262227 TA TA -A TA TA TA TA TA CTA TA TA GTT TA TA TT TA TA TA CTA TA
1 TA TA TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA
* * * * *
1262269 TC TA AA CTA TA TA GTA TG TA AA CTA TA TA TA T- TA TA AA CTA TA
1 TA TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA -TA TA
* * * * * *
1262312 TA GA AA CTA TA TA -A TA TA TA AA T- TA TG TA AA T- TA TA TT TA
1 TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
1262352 TA TA T- TA TA TA TGA -A CTA TA TA TA T- TA TA TA TA T- TA TG TA
1 TA TA TA TA TA TA T-A TA -TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
1262392 TA AA CT- TA -A TA TA TA TA TA TA CTA TA TA CA TA AA CTA TA TA
1 TA TA -TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA
* * * *
1262433 GTT TA TA TA TA AA CTA TA TA TGA -A T- TA T- TT TG T- TA -A T-
1 -TA TA TA TA TA TA -TA TA TA T-A TA TA TA TA TA TA TA TA TA TA
* * * *
1262470 TA -A TA TGA -A CTA TG TA GTA TA TA TG T- TA TA TA TA AA AA CTA
1 TA TA TA T-A TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA -TA
* * * * *
1262511 TA TA GTT TA T- TA -A TA TA AA CTA TG TA AA CTA TT 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
*
1262552 TA T- TA TA TA TG TA TA TGA -A CTA TA TA GTA TA TA TA CTA TA TA
1 TA TA TA TA TA TA TA TA T-A TA -TA TA TA -TA TA TA TA -TA TA TA
* * * * * *
1262594 TA TA TA AA CTA CA TA GTT TA T- TA -A TA TA AA T- TA TG TA AA CTA
1 TA TA TA TA -TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA -TA
* * * *
1262636 TT TA TA TA TA TT TA T- TA TA TA TA AA CTA TA TA TA TA AA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA
* *
1262677 TA TA TA CTA TA TA TA TA TA AA CTA TG TA -A TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
1262720 TA -A TC TA TA GTT TA T- TA -A TA TA -A TA TA GTT TA TA TA AA AA
1 TA TA TA TA TA -TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
* * * *
1262760 TA T- TA -A T- TA TA GTT TA TA TG TT TA TCA -A TA TA AA CTA TA
1 TA TA TA TA TA TA TA -TA TA TA TA TA TA T-A TA TA TA TA -TA TA
* * * * *
1262799 T- TC TA -A TA TA TA TA TA TA GTA TG TA AA CTA TA TA GA AA CTA
1 TA TA TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA TA TA -TA
* * * *
1262840 TA TA -A TA TA TA AA T- TA TG TA -A TT TA TA TT TA TA 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
* *
1262878 TA TA TGA -A CTA TA TA T- TA TA TA TA T- TA TG TA TA AA CT- TA
1 TA TA T-A TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA
* * * * * *
1262917 -A AA TA TA AA TA CTA TA TA CA TA AA CTA TA TA GTT TA TA TT TA
1 TA TA TA TA TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA TA
* * * *
1262959 TA TA CTA TA TA TA CA AA CTA TA TA GTG TA TA TA TGA -A CTA TA CA
1 TA TA -TA TA TA TA TA TA -TA TA TA -TA TA TA TA T-A TA -TA TA TA
* * * * *
1263003 TA AA CTA TA TA GTT TA TA TA TA AA CTA TA TA TA AA T- TA TT TA
1 TA TA -TA TA TA -TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
*
1263045 GTT TA T- TA -A TA TGA -A CTA TA TA GTA TA TA TA T- TA TA TA TA
1 -TA TA TA TA TA TA T-A TA -TA TA TA -TA TA TA TA TA TA TA TA TA
* * * * *
1263085 -A AA CTA TA TA GTT TA T- TA -A TA TA -A CTA TG TA AA CTA TT TA
1 TA TA -TA TA TA -TA TA TA TA TA TA TA TA -TA TA TA TA -TA TA TA
* *
1263125 TA TA TA CTA TA TA AA CCA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1263169 TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA T
1263188 GAACTATATA
Statistics
Matches: 711, Mismatches: 156, Indels: 258
0.63 0.14 0.23
Matches are distributed among these distances:
1 64 0.09
2 571 0.80
3 76 0.11
ACGTcount: A:0.46, C:0.05, G:0.04, T:0.45
Consensus pattern (2 bp):
TA
Found at i:1264696 original size:2 final size:2
Alignment explanation
Indices: 1264689--1264797 Score: 107
Period size: 2 Copynumber: 54.0 Consensus size: 2
1264679 GTAAACTACT
* * *
1264689 TA TA TA TA TT TA T- TA TA TA TA AA CTA TA TA TA TA TA AA TA -A
1 TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA TA TA TA
* * *
1264730 TA TA TA CTA TA TA TA TA AA CTA TG TA AA CTA 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
1264773 TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1264798 GTTTATTAAT
Statistics
Matches: 88, Mismatches: 12, Indels: 14
0.77 0.11 0.12
Matches are distributed among these distances:
1 3 0.03
2 80 0.91
3 5 0.06
ACGTcount: A:0.50, C:0.04, G:0.01, T:0.46
Consensus pattern (2 bp):
TA
Found at i:1264973 original size:20 final size:20
Alignment explanation
Indices: 1264880--1264981 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 20
1264870 CTAATATAAT
1264880 ATATAAACTATAG--T-TT-
1 ATATAAACTATAGATTATTA
*
1264896 ATATAAACTATATA-TA-T-
1 ATATAAACTATAGATTATTA
* * *
1264913 ATATAAACTATATATGAATA
1 ATATAAACTATAGATTATTA
*
1264933 ATTATAAATTATATAGATTATTA
1 A-TATAAA--CTATAGATTATTA
*
1264956 ATATAAACTATAGTTTATTA
1 ATATAAACTATAGATTATTA
1264976 ATATAA
1 ATATAA
1264982 TATTAATTGA
Statistics
Matches: 70, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
16 12 0.17
17 16 0.23
18 1 0.01
19 1 0.01
20 18 0.26
21 6 0.09
22 6 0.09
23 10 0.14
ACGTcount: A:0.50, C:0.04, G:0.04, T:0.42
Consensus pattern (20 bp):
ATATAAACTATAGATTATTA
Found at i:1265438 original size:96 final size:99
Alignment explanation
Indices: 1265317--1265595 Score: 270
Period size: 96 Copynumber: 2.8 Consensus size: 99
1265307 ATTTTTTTTT
1265317 ATCAAACA-CCACAAATTCAACCCTTGTTCATTCGTGTTCATCCCAAAAACCATCATTTGACCTT
1 ATCAAACACCCACAAATTCAACCCTTGTTCATTCGTGTTCATCCCAAAAACCATCATTTGACCTT
* *
1265381 TACATA-AACCAAA-C-CCTATCATATTTTTTCA
66 TACAAACAACAAAACCACCTATCATATTTTTTCA
* * * * **
1265412 ATCAAACACCCAAAAATTCAACCCTTGTTCATAT-GTGTTCATCCCCAAACCCCTCATTTGATTT
1 ATCAAACACCCACAAATTCAACCCTTGTTCAT-TCGTGTTCATCCCAAAAACCATCATTTGACCT
* *
1265476 TTACAAACAACAAAACCCATAACCTATCTTGTTTTTTCA
65 TTACAAACAACAAAA-CC---ACCTATCATATTTTTTCA
* * * * * *
1265515 TTCAAATACCC-CAAATTCAACCCTTATTCATCCGTGTTCATCTCC-AAACCCTTC-TTTGATCC
1 ATCAAACACCCACAAATTCAACCCTTGTTCATTCGTGTTCATC-CCAAAAACCATCATTTGA-CC
*
1265577 -TTACAAACACCCAAAACCA
64 TTTACAAACA-ACAAAACCA
1265596 AAATCAAATC
Statistics
Matches: 152, Mismatches: 19, Indels: 23
0.78 0.10 0.12
Matches are distributed among these distances:
95 8 0.05
96 53 0.35
97 7 0.05
98 1 0.01
99 1 0.01
101 16 0.11
102 40 0.26
103 26 0.17
ACGTcount: A:0.34, C:0.31, G:0.04, T:0.31
Consensus pattern (99 bp):
ATCAAACACCCACAAATTCAACCCTTGTTCATTCGTGTTCATCCCAAAAACCATCATTTGACCTT
TACAAACAACAAAACCACCTATCATATTTTTTCA
Found at i:1265545 original size:102 final size:103
Alignment explanation
Indices: 1265395--1265689 Score: 281
Period size: 95 Copynumber: 3.0 Consensus size: 103
1265385 TAAACCAAAC
* *
1265395 CCTATCATATTTTTTCAATCAAACACCCAAAAATTCAACCCTTGTTCATATGTGTTCATCCCCAA
1 CCTATCATATTTTTTCAATCAAACACCCAAAAATTCAACCCTTATTCATACGTGTTCATCCCCAA
**
1265460 ACCCCTCATTTGATTTTTACAAACA-ACAAAACCCATAA
66 ACCCCTC-TTTGATCCTTACAAACACACAAAACCCATAA
* * * * * * *
1265498 CCTATCTTGTTTTTTCATTCAAATACCC-CAAATTCAACCCTTATTCATCCGTGTTCATCTCCAA
1 CCTATCATATTTTTTCAATCAAACACCCAAAAATTCAACCCTTATTCATACGTGTTCATCCCCAA
* *
1265562 ACCCTTCTTTGATCCTTACAAACACCCAAAA-CCA-AA
66 ACCCCTCTTTGATCCTTACAAACACACAAAACCCATAA
* * * * * *
1265598 ---ATCAAATCTTTTT-TATC-AA-A-CCAAAAATTAAACCCTTGTTCAT-CTATATTCATCCCC
1 CCTATCATAT-TTTTTCAATCAAACACCCAAAAATTCAACCCTTATTCATAC-GTGTTCATCCCC
* * *
1265655 AAACCCTTGTTTAATCCTTACAAACACACAAAACC
64 AAACCCCTCTTTGATCCTTACAAACACACAAAACC
1265690 AAAACCCAAC
Statistics
Matches: 160, Mismatches: 27, Indels: 17
0.78 0.13 0.08
Matches are distributed among these distances:
94 3 0.02
95 57 0.36
96 3 0.02
97 6 0.04
98 5 0.03
100 2 0.01
101 18 0.11
102 42 0.26
103 24 0.15
ACGTcount: A:0.35, C:0.30, G:0.03, T:0.32
Consensus pattern (103 bp):
CCTATCATATTTTTTCAATCAAACACCCAAAAATTCAACCCTTATTCATACGTGTTCATCCCCAA
ACCCCTCTTTGATCCTTACAAACACACAAAACCCATAA
Found at i:1266823 original size:15 final size:14
Alignment explanation
Indices: 1266803--1266836 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
1266793 CATAGAGTCT
1266803 TATATCTCATTATCA
1 TATATCTCA-TATCA
1266818 TATATCTCATATCA
1 TATATCTCATATCA
*
1266832 CATAT
1 TATAT
1266837 TCTTGTATTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.35, C:0.21, G:0.00, T:0.44
Consensus pattern (14 bp):
TATATCTCATATCA
Found at i:1268153 original size:18 final size:18
Alignment explanation
Indices: 1268130--1268167 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1268120 GACCGGTTTT
*
1268130 GACCCAACCCGTTGACCC
1 GACCCAACCCGCTGACCC
1268148 GACCCAACCCGCTGACCC
1 GACCCAACCCGCTGACCC
1268166 GA
1 GA
1268168 TCGTTGATCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.24, C:0.50, G:0.18, T:0.08
Consensus pattern (18 bp):
GACCCAACCCGCTGACCC
Found at i:1268233 original size:29 final size:28
Alignment explanation
Indices: 1268191--1268369 Score: 166
Period size: 29 Copynumber: 6.1 Consensus size: 28
1268181 ATCGAGTGAC
1268191 ATTTTGGGAATTAATTC-AAAATGGGTGCT
1 ATTTT-GGAATTAATTCGAAAA-GGGTGCT
*
1268220 ATTTTAGGAATTAATTCGAAATGGGTGCT
1 ATTTT-GGAATTAATTCGAAAAGGGTGCT
* * *
1268249 AGTTTGAGAATTAATTCGAAAAAAGGTGAT
1 ATTTTG-GAATTAATTCG-AAAAGGGTGCT
*
1268279 ATTTTGGGAATTTAATTCGAAAA-AGTGCT
1 ATTTT-GGAA-TTAATTCGAAAAGGGTGCT
*
1268308 ATTTTAGGAATTTAATTCGAAAA-GGTGAT
1 ATTTT-GGAA-TTAATTCGAAAAGGGTGCT
* **
1268337 ATTTTGGTAATTATTTTAAAAAGGGTGCT
1 ATTTTGG-AATTAATTCGAAAAGGGTGCT
1268366 ATTT
1 ATTT
1268370 CTGTAAAATG
Statistics
Matches: 127, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
28 12 0.09
29 84 0.66
30 22 0.17
31 9 0.07
ACGTcount: A:0.35, C:0.05, G:0.22, T:0.39
Consensus pattern (28 bp):
ATTTTGGAATTAATTCGAAAAGGGTGCT
Found at i:1268568 original size:6 final size:6
Alignment explanation
Indices: 1268557--1268581 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1268547 CAGTCAAACC
1268557 CTTTGA CTTTGA CTTTGA CTTTGA C
1 CTTTGA CTTTGA CTTTGA CTTTGA C
1268582 CAAGAATTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.20, G:0.16, T:0.48
Consensus pattern (6 bp):
CTTTGA
Found at i:1269519 original size:117 final size:117
Alignment explanation
Indices: 1269305--1269596 Score: 453
Period size: 117 Copynumber: 2.5 Consensus size: 117
1269295 GGAAGTATTT
*
1269305 CAGGCTCCTTTGCTGTGTGCTCAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
1 CAGGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
* * * * *
1269370 GGAACCTACACATTGTAGTGATTGGAGTGACTGGATGGGGAAGTTATTACTG
66 GGAACCTACACATTGTAGTGAGTGGAGCGACTGGATAGAGAAGTTATTACTA
*
1269422 CAGGCTCCTTTGCTGTGTGCTTAGGGAAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
1 CAGGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
*
1269487 GGAACCTACACATTGTAGTG-GTGGAAGCGACTGGATAGAGACGTTATTACTA
66 GGAACCTACACATTGTAGTGAGTGG-AGCGACTGGATAGAGAAGTTATTACTA
* **
1269539 CAAGCTCCTCAGCT-TCGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
1 CAGGCTCCTTTGCTGT-GTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATG
1269597 TTCGGGAAAA
Statistics
Matches: 161, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
116 4 0.02
117 157 0.98
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (117 bp):
CAGGCTCCTTTGCTGTGTGCTTAGGGTAAGTCCTTACTGGTGTGCAGGTGGGTGTATGGTTCTGG
GGAACCTACACATTGTAGTGAGTGGAGCGACTGGATAGAGAAGTTATTACTA
Found at i:1270935 original size:53 final size:51
Alignment explanation
Indices: 1270879--1270988 Score: 138
Period size: 47 Copynumber: 2.2 Consensus size: 51
1270869 TAATCAAGTT
* *
1270879 TCTTCTTCTTATATTCATATTCTCTAACCTTAAACCCTAATCGAGCCTATT-A
1 TCTTCTTCTTAT-TT-ATATTCTCTAACCTTAAACCCTAACCGAGACTATTCA
* *
1270931 --TTCTTC-TATTTATCTTCTCTAACCTTAAACCCTAACCGAGATTATTCA
1 TCTTCTTCTTATTTATATTCTCTAACCTTAAACCCTAACCGAGACTATTCA
1270979 TCTTCTTCTT
1 TCTTCTTCTT
1270989 CTATCTCTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
47 31 0.62
48 3 0.06
49 3 0.06
50 12 0.24
51 1 0.02
ACGTcount: A:0.25, C:0.27, G:0.04, T:0.45
Consensus pattern (51 bp):
TCTTCTTCTTATTTATATTCTCTAACCTTAAACCCTAACCGAGACTATTCA
Found at i:1271063 original size:55 final size:55
Alignment explanation
Indices: 1270986--1271121 Score: 175
Period size: 55 Copynumber: 2.5 Consensus size: 55
1270976 TCATCTTCTT
* * *
1270986 CTTCTATCTCTATTCATCTTCTCTAACCCTATATCTAA-CAGAGACTCTTCATTTA
1 CTTCTGTCTCTATTCATATTCTCTAACCCTATATCTAATC-GAGACTCTTCATCTA
* *
1271041 CTTCTGTCTCTATTCTTATTCTCTAACCCTATATCTAATCGAGATTCTTCATCTA
1 CTTCTGTCTCTATTCATATTCTCTAACCCTATATCTAATCGAGACTCTTCATCTA
* * * *
1271096 CTTGTGTCTCTGTTTATCTTCTCTAA
1 CTTCTGTCTCTATTCATATTCTCTAA
1271122 TCGAGACTAT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
55 69 0.99
56 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.06, T:0.46
Consensus pattern (55 bp):
CTTCTGTCTCTATTCATATTCTCTAACCCTATATCTAATCGAGACTCTTCATCTA
Found at i:1272884 original size:3 final size:3
Alignment explanation
Indices: 1272876--1272930 Score: 92
Period size: 3 Copynumber: 18.3 Consensus size: 3
1272866 CACCTTGTGG
*
1272876 TTA TTA TTA TTA TTA TTA TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
1272924 TCA TTA T
1 TTA TTA T
1272931 GTCCAAAGTA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.31, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1273535 original size:19 final size:18
Alignment explanation
Indices: 1273488--1273536 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
1273478 ATTTTATTTT
1273488 TAATTTTAATTTCATTAA
1 TAATTTTAATTTCATTAA
* *
1273506 T-ATTTCGAATTCTTATTAA
1 TAATTT-TAATT-TCATTAA
1273525 TAATTTTAATTT
1 TAATTTTAATTT
1273537 TAATTTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 6
0.74 0.09 0.18
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 11 0.44
20 4 0.16
ACGTcount: A:0.35, C:0.06, G:0.02, T:0.57
Consensus pattern (18 bp):
TAATTTTAATTTCATTAA
Found at i:1273925 original size:13 final size:13
Alignment explanation
Indices: 1273907--1273960 Score: 60
Period size: 13 Copynumber: 4.4 Consensus size: 13
1273897 ATTGATGTAA
1273907 TGCTTCCTGTTAC
1 TGCTTCCTGTTAC
*
1273920 TGCTTCC---TAT
1 TGCTTCCTGTTAC
1273930 TGCTTCCTGTTAC
1 TGCTTCCTGTTAC
* *
1273943 TGCTTCCTATTGC
1 TGCTTCCTGTTAC
1273956 TGCTT
1 TGCTT
1273961 GTTGCTGCCT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
10 9 0.26
13 25 0.74
ACGTcount: A:0.07, C:0.30, G:0.15, T:0.48
Consensus pattern (13 bp):
TGCTTCCTGTTAC
Found at i:1273937 original size:23 final size:23
Alignment explanation
Indices: 1273907--1273956 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
1273897 ATTGATGTAA
1273907 TGCTTCCTGTTACTGCTTCCTAT
1 TGCTTCCTGTTACTGCTTCCTAT
1273930 TGCTTCCTGTTACTGCTTCCTAT
1 TGCTTCCTGTTACTGCTTCCTAT
1273953 TGCT
1 TGCT
1273957 GCTTGTTGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.08, C:0.30, G:0.14, T:0.48
Consensus pattern (23 bp):
TGCTTCCTGTTACTGCTTCCTAT
Found at i:1273963 original size:23 final size:23
Alignment explanation
Indices: 1273907--1273968 Score: 88
Period size: 23 Copynumber: 2.7 Consensus size: 23
1273897 ATTGATGTAA
*
1273907 TGCTTCCTGTTACTGCTTCCTAT
1 TGCTGCCTGTTACTGCTTCCTAT
*
1273930 TGCTTCCTGTTACTGCTTCCTAT
1 TGCTGCCTGTTACTGCTTCCTAT
* *
1273953 TGCTGCTTGTTGCTGC
1 TGCTGCCTGTTACTGC
1273969 CTTTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.06, C:0.29, G:0.18, T:0.47
Consensus pattern (23 bp):
TGCTGCCTGTTACTGCTTCCTAT
Found at i:1274507 original size:56 final size:56
Alignment explanation
Indices: 1274437--1274573 Score: 148
Period size: 58 Copynumber: 2.4 Consensus size: 56
1274427 ATTATTTTTA
** * * **
1274437 AATTAATCACGTTCAATAAATAGCTTATTTTAACTTTTAATGATTATAATCAATTT
1 AATTAATCACGTTCAATAAATAAATTATTTTAACATGTAACCATTATAATCAATTT
* * * * * *
1274493 TATTAATCATGTTCAATGCCAATAAATTATTTTATCATGTAACCATTATGATTAATTT
1 AATTAATCACGTTCAAT--AAATAAATTATTTTAACATGTAACCATTATAATCAATTT
1274551 AATTAATCACGTTCAATAAATAA
1 AATTAATCACGTTCAATAAATAA
1274574 TTTACTTAAT
Statistics
Matches: 64, Mismatches: 15, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
56 20 0.31
58 44 0.69
ACGTcount: A:0.40, C:0.12, G:0.06, T:0.42
Consensus pattern (56 bp):
AATTAATCACGTTCAATAAATAAATTATTTTAACATGTAACCATTATAATCAATTT
Found at i:1276377 original size:3 final size:3
Alignment explanation
Indices: 1276369--1276473 Score: 210
Period size: 3 Copynumber: 35.0 Consensus size: 3
1276359 TTCATTCACA
1276369 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1276417 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG
1276465 AGG AGG AGG
1 AGG AGG AGG
1276474 GTCAAATGGT
Statistics
Matches: 102, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 102 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:1287751 original size:79 final size:79
Alignment explanation
Indices: 1287620--1287780 Score: 322
Period size: 79 Copynumber: 2.0 Consensus size: 79
1287610 CCTCACGCGT
1287620 CGGCGACGACGGAGACGCCATGGACACCGGTGGACTTGGAACGGTAGAAAGAACACTATGGTACG
1 CGGCGACGACGGAGACGCCATGGACACCGGTGGACTTGGAACGGTAGAAAGAACACTATGGTACG
1287685 GGAGGAGTCGAAAA
66 GGAGGAGTCGAAAA
1287699 CGGCGACGACGGAGACGCCATGGACACCGGTGGACTTGGAACGGTAGAAAGAACACTATGGTACG
1 CGGCGACGACGGAGACGCCATGGACACCGGTGGACTTGGAACGGTAGAAAGAACACTATGGTACG
1287764 GGAGGAGTCGAAAA
66 GGAGGAGTCGAAAA
1287778 CGG
1 CGG
1287781 AGCAACGACT
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.31, C:0.20, G:0.37, T:0.11
Consensus pattern (79 bp):
CGGCGACGACGGAGACGCCATGGACACCGGTGGACTTGGAACGGTAGAAAGAACACTATGGTACG
GGAGGAGTCGAAAA
Found at i:1288231 original size:139 final size:140
Alignment explanation
Indices: 1287981--1288262 Score: 557
Period size: 139 Copynumber: 2.0 Consensus size: 140
1287971 GGCCTTGGAA
1287981 AAAGGGTTGACGGGGAGAAAATTTTGTGAAATTGGTTTCTAGTTTGCCACATAAACCAAATTCAA
1 AAAGGGTTGACGGGGAGAAAATTTTGTGAAATTGGTTTCTAGTTTGCCACATAAACCAAATTCAA
1288046 CGAAATTAATAAAATTGCCTGTCGACACAAAATGATAAAATTAAGGGTTGGGCCCCTAAA-TTCC
66 CGAAATTAATAAAATTGCCTGTCGACACAAAATGATAAAATTAAGGGTTGGGCCCCTAAATTTCC
1288110 TTCAACTTCT
131 TTCAACTTCT
1288120 AAAGGGTTGACGGGGAGAAAATTTTGTGAAATTGGTTTCTAGTTTGCCACATAAACCAAATTCAA
1 AAAGGGTTGACGGGGAGAAAATTTTGTGAAATTGGTTTCTAGTTTGCCACATAAACCAAATTCAA
1288185 CGAAATTAATAAAATTGCCTGTCGACACAAAATGATAAAATTAAGGGTTGGGCCCCTAAATTTCC
66 CGAAATTAATAAAATTGCCTGTCGACACAAAATGATAAAATTAAGGGTTGGGCCCCTAAATTTCC
1288250 TTCAACTTCT
131 TTCAACTTCT
1288260 AAA
1 AAA
1288263 ATGAGCAACC
Statistics
Matches: 142, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
139 125 0.88
140 17 0.12
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (140 bp):
AAAGGGTTGACGGGGAGAAAATTTTGTGAAATTGGTTTCTAGTTTGCCACATAAACCAAATTCAA
CGAAATTAATAAAATTGCCTGTCGACACAAAATGATAAAATTAAGGGTTGGGCCCCTAAATTTCC
TTCAACTTCT
Found at i:1318491 original size:23 final size:25
Alignment explanation
Indices: 1318465--1318510 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
1318455 TGTAAGAATA
*
1318465 AAAATATG-AT-AAAATATGTTATG
1 AAAATATGAATCAAAACATGTTATG
1318488 AAAATATGAATCAAAACATGTTA
1 AAAATATGAATCAAAACATGTTA
1318511 CGATTGATGA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 8 0.40
24 2 0.10
25 10 0.50
ACGTcount: A:0.54, C:0.04, G:0.11, T:0.30
Consensus pattern (25 bp):
AAAATATGAATCAAAACATGTTATG
Found at i:1319944 original size:20 final size:21
Alignment explanation
Indices: 1319921--1319964 Score: 72
Period size: 20 Copynumber: 2.1 Consensus size: 21
1319911 TGCAACCTGA
1319921 TTTTTCATATAGAAACCA-AT
1 TTTTTCATATAGAAACCACAT
*
1319941 TTTTTCATATGGAAACCACAT
1 TTTTTCATATAGAAACCACAT
1319962 TTT
1 TTT
1319965 AGGTTGCAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 17 0.77
21 5 0.23
ACGTcount: A:0.34, C:0.16, G:0.07, T:0.43
Consensus pattern (21 bp):
TTTTTCATATAGAAACCACAT
Found at i:1319982 original size:38 final size:38
Alignment explanation
Indices: 1319939--1320131 Score: 172
Period size: 38 Copynumber: 5.2 Consensus size: 38
1319929 ATAGAAACCA
*
1319939 ATTTTTTCATATGGAAACCACATTTTAGGTTGCAACTTG
1 ATTTTTTCATATAGAAACCA-ATTTTAGGTTGCAACTTG
* *
1319978 -TTTTTCCATACAGAAACCAA----AGGTTGCAACTTG
1 ATTTTTTCATATAGAAACCAATTTTAGGTTGCAACTTG
*
1320011 ATTTTTTCATATAGAAATCAGATTTTAGGTTGCAA-TCTG
1 ATTTTTTCATATAGAAACCA-ATTTTAGGTTGCAACT-TG
*
1320050 ATTTTTT-ATATAGAAACCAAATATTAGGTTGCAA-TCTG
1 ATTTTTTCATATAGAAACC-AATTTTAGGTTGCAACT-TG
* * * *
1320088 A-TTTTACATATAGAAGCCAGATTTTTA-GTTACAACATG
1 ATTTTTTCATATAGAAACCA-A-TTTTAGGTTGCAACTTG
1320126 ATTTTT
1 ATTTTT
1320132 GTATTGGAAT
Statistics
Matches: 128, Mismatches: 13, Indels: 26
0.77 0.08 0.16
Matches are distributed among these distances:
33 13 0.10
34 16 0.12
35 1 0.01
37 6 0.05
38 65 0.51
39 27 0.21
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (38 bp):
ATTTTTTCATATAGAAACCAATTTTAGGTTGCAACTTG
Found at i:1321134 original size:20 final size:20
Alignment explanation
Indices: 1321109--1321201 Score: 118
Period size: 20 Copynumber: 4.7 Consensus size: 20
1321099 TTTTCCTAAT
1321109 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* *
1321129 TCGCAACGCGAATACGTACA
1 TCGCAATGCGAATACGTAAA
* *
1321149 TCGCAATGCAAAT-C-TGACTA
1 TCGCAATGCGAATACGT-A-AA
1321169 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
1321189 TCGCAATGCGAAT
1 TCGCAATGCGAAT
1321202 CTGACTATCG
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
18 1 0.02
19 2 0.03
20 56 0.90
21 2 0.03
22 1 0.02
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:1321153 original size:40 final size:40
Alignment explanation
Indices: 1321109--1321219 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 40
1321099 TTTTCCTAAT
*
1321109 TCGCAATGCGAATAC-GTA-AATCGCAACGCGAATACGTACA
1 TCGCAATGCGAAT-CTG-ACAATCGCAACGCGAATACGTAAA
* * *
1321149 TCGCAATGCAAATCTGACTATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATCTGACAATCGCAACGCGAATACGTAAA
* *
1321189 TCGCAATGCGAATCTGACTATCGCAATGCGA
1 TCGCAATGCGAATCTGACAATCGCAACGCGA
1321220 TTTACATAGC
Statistics
Matches: 64, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 2 0.03
40 62 0.97
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (40 bp):
TCGCAATGCGAATCTGACAATCGCAACGCGAATACGTAAA
Done.