Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008393.1 Hibiscus syriacus cultivar Beakdansim tig00111158_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: 162953
ACGTcount: A:0.33, C:0.17, G:0.18, T:0.33
Found at i:9043 original size:36 final size:36
Alignment explanation
Indices: 8992--9061 Score: 113
Period size: 36 Copynumber: 1.9 Consensus size: 36
8982 AAGTCTCTAC
**
8992 AGGTTCAACTTCGATCAAACTGGTAATTCCTTATAT
1 AGGTTCAACAACGATCAAACTGGTAATTCCTTATAT
*
9028 AGGTTCAACAACGATCAAGCTGGTAATTCCTTAT
1 AGGTTCAACAACGATCAAACTGGTAATTCCTTAT
9062 GGATCTAAGA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 31 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (36 bp):
AGGTTCAACAACGATCAAACTGGTAATTCCTTATAT
Found at i:17846 original size:28 final size:28
Alignment explanation
Indices: 17813--17868 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
17803 CCTTTCCATG
17813 ATGAACATGCCTTTGAAACCATTTCATC
1 ATGAACATGCCTTTGAAACCATTTCATC
17841 ATGAACATGCCTTTGAAACCATTTCATC
1 ATGAACATGCCTTTGAAACCATTTCATC
17869 CCATGATAAG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (28 bp):
ATGAACATGCCTTTGAAACCATTTCATC
Found at i:20443 original size:81 final size:82
Alignment explanation
Indices: 20336--20513 Score: 259
Period size: 81 Copynumber: 2.2 Consensus size: 82
20326 CGCAACAGAG
* * *
20336 TAGTACTTTAGAGGCATTTTTATACAAACGCCGCTATAGACTTGTACTTTAGTGGCATTTTTATA
1 TAGTACTTTAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTTTAGTGGCATTTTTATA
* *
20401 TAAGCAC-CCTATACAA
66 CAAACACTCCTATACAA
* *
20417 TTGTACTTTAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTTTAGTGGCGTTTTTATA
1 TAGTACTTTAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTTTAGTGGCATTTTTATA
* * *
20482 CAAACGCTGCTATACAC
66 CAAACACTCCTATACAA
20499 TAGTACTTTAGTGGC
1 TAGTACTTTAGTGGC
20514 GTTTGTATTT
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
81 64 0.75
82 21 0.25
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (82 bp):
TAGTACTTTAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTTTAGTGGCATTTTTATA
CAAACACTCCTATACAA
Found at i:20517 original size:41 final size:41
Alignment explanation
Indices: 20261--20513 Score: 267
Period size: 41 Copynumber: 6.2 Consensus size: 41
20251 GGTTCATCAA
* * * *
20261 TAGTGGCATTTTT-TCAACAAACGCCGCAACAGAGTAGTACTT
1 TAGTGGCATTTTTAT--ACAAACGCCGCTATACACTAGTACTT
* * * * * * *
20303 TAGTGGCGTTTCTAGACAAACGCCGCAACAGAGTAGTACTT
1 TAGTGGCATTTTTATACAAACGCCGCTATACACTAGTACTT
* * *
20344 TAGAGGCATTTTTATACAAACGCCGCTATAGACTTGTACTT
1 TAGTGGCATTTTTATACAAACGCCGCTATACACTAGTACTT
* * * * *
20385 TAGTGGCATTTTTATATAAGCACC-CTATACAATTGTACTT
1 TAGTGGCATTTTTATACAAACGCCGCTATACACTAGTACTT
* *
20425 TAGTGGCATTTTTATACAAACACCGCTATACACTTGTACTT
1 TAGTGGCATTTTTATACAAACGCCGCTATACACTAGTACTT
* *
20466 TAGTGGCGTTTTTATACAAACGCTGCTATACACTAGTACTT
1 TAGTGGCATTTTTATACAAACGCCGCTATACACTAGTACTT
20507 TAGTGGC
1 TAGTGGC
20514 GTTTGTATTT
Statistics
Matches: 185, Mismatches: 24, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
40 36 0.19
41 138 0.75
42 11 0.06
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (41 bp):
TAGTGGCATTTTTATACAAACGCCGCTATACACTAGTACTT
Found at i:20901 original size:82 final size:81
Alignment explanation
Indices: 20810--21228 Score: 295
Period size: 82 Copynumber: 5.1 Consensus size: 81
20800 ATAACATTAA
* *
20810 TGGCGTTTTTCAATAAACGCCGCTAAA-ACTCATACTTTAGTGGCGTTTATTCGACAAACGTCGC
1 TGGCGTTTTTCAA-AAACGCCGCTAAAGACTCATACTTTAGTGGCGTTT-TTAGACAAACGCCGC
*
20874 AAAAGATAAGTACTTTAG
64 AAAACATAAGTACTTTAG
* ** * * *
20892 TGGCGTTTTTAAACAAACGCCG-TAATAGGGT-ATA-TATATTGTGGCGTTTTTAGATAAACGCT
1 TGGCGTTTTTCAA-AAACGCCGCTAA-AGACTCATACT-T-TAGTGGCGTTTTTAGACAAACGCC
* *
20954 GTTAAAACCT-AGTACTTTAG
62 G-CAAAACATAAGTACTTTAG
* * * *
20974 AGGCGTTTTATGCAAAAACGCCGCTAAA-ACTCGTACTTTAGTGGCGTTTGTAAACAAACGCCGC
1 TGGCGTTTT-T-CAAAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTAGACAAACGCCG-
* * *
21038 CATAGA-AT-TGTTCTTTAG
63 CA-AAACATAAGTACTTTAG
* ** * * * * *
21056 TGGCGTTTTTAAACAAACGCCG-TAATAGGGTACATA-TATCGTTGCGTTTTTAAATAAACGCCG
1 TGGCGTTTTTCAA-AAACGCCGCTAA-AGACT-CATACTTTAGTGGCGTTTTTAGACAAACGCCG
*
21119 CTAAAACCTAA-TACTTTAG
63 C-AAAACATAAGTACTTTAG
* * *
21138 TGGCGTTTTATTCAAAAACGCCGCTAAATACTCATACTTTAGTGACGATTTTAGACAAACGCCGC
1 TGGCG-TTT-TTCAAAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTAGACAAACGCCGC
* * *
21203 TAAAACCT-TGTACTTTAT
64 -AAAACATAAGTACTTTAG
21221 TGGCGTTT
1 TGGCGTTT
21229 AACCATTAAC
Statistics
Matches: 259, Mismatches: 55, Indels: 46
0.72 0.15 0.13
Matches are distributed among these distances:
80 5 0.02
81 17 0.07
82 136 0.53
83 88 0.34
84 13 0.05
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (81 bp):
TGGCGTTTTTCAAAAACGCCGCTAAAGACTCATACTTTAGTGGCGTTTTTAGACAAACGCCGCAA
AACATAAGTACTTTAG
Found at i:21082 original size:164 final size:162
Alignment explanation
Indices: 20811--21207 Score: 537
Period size: 164 Copynumber: 2.4 Consensus size: 162
20801 TAACATTAAT
* *
20811 GGCGTTTT-TCAATAAACGCCGCTAAAACTCATACTTTAGTGGCGTTTATTCGACAAACGTCGCA
1 GGCGTTTTATCAA-AAACGCCGCTAAAACTCATACTTTAGTGGCG-TT-TTAGACAAACGCCGCA
* *
20875 AAAGATAAGTACTTTAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTATATATATTGTGGCGTT
63 AAAGATAAGTACTTTAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTACATATATCGTGGCGTT
* * * *
20940 TTTAGATAAACGCTGTTAAAACCTAGTACTTTAGA
128 TTTAAATAAACGCCGCTAAAACCTAATACTTTAGA
* * *
20975 GGCGTTTTATGCAAAAACGCCGCTAAAACTCGTACTTTAGTGGCGTTTGTAAACAAACGCCGCCA
1 GGCGTTTTAT-CAAAAACGCCGCTAAAACTCATACTTTAGTGGCGTTT-TAGACAAACGCCGCAA
* * * *
21040 TAGA-ATTGTTCTTTAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTACATATATCGTTGCGTT
64 AAGATA-AGTACTTTAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTACATATATCGTGGCGTT
*
21104 TTTAAATAAACGCCGCTAAAACCTAATACTTTAGT
128 TTTAAATAAACGCCGCTAAAACCTAATACTTTAGA
*
21139 GGCGTTTTATTCAAAAACGCCGCTAAATACTCATACTTTAGTGACGATTTTAGACAAACGCCGCT
1 GGCGTTTTA-TCAAAAACGCCGCTAAA-ACTCATACTTTAGTGGCG-TTTTAGACAAACGCCGC-
21204 AAAA
62 AAAA
21208 CCTTGTACTT
Statistics
Matches: 204, Mismatches: 21, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
163 2 0.01
164 133 0.65
165 61 0.30
166 8 0.04
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.31
Consensus pattern (162 bp):
GGCGTTTTATCAAAAACGCCGCTAAAACTCATACTTTAGTGGCGTTTTAGACAAACGCCGCAAAA
GATAAGTACTTTAGTGGCGTTTTTAAACAAACGCCGTAATAGGGTACATATATCGTGGCGTTTTT
AAATAAACGCCGCTAAAACCTAATACTTTAGA
Found at i:21217 original size:41 final size:39
Alignment explanation
Indices: 20810--21228 Score: 212
Period size: 41 Copynumber: 10.2 Consensus size: 39
20800 ATAACATTAA
* *
20810 TGGCGTTTTTCAATAAACGCCGCTAAAACTCA-TACTTTAG
1 TGGCG-TTTTAAACAAACGCCGCTAAAACT-AGTACTTTAG
** * *
20850 TGGCGTTTATTCGACAAACGTCGC-AAAAGATAAGTACTTTAG
1 TGGCG-TT-TTAAACAAACGCCGCTAAAA-CT-AGTACTTTAG
** *
20892 TGGCGTTTTTAAACAAACGCCG-TAATAGGGTA-TA-TATATTG
1 TGGCG-TTTTAAACAAACGCCGCTAA-A-ACTAGTACT-T-TAG
* * * *
20933 TGGCGTTTTTAGATAAACGCTGTTAAAACCTAGTACTTTAG
1 TGGCG-TTTTAAACAAACGCCGCTAAAA-CTAGTACTTTAG
* *
20974 AGGCGTTTTATGCAA-AAACGCCGCTAAAACTCGTACTTTAG
1 TGGCGTTTTA---AACAAACGCCGCTAAAACTAGTACTTTAG
* * *
21015 TGGCGTTTGTAAACAAACGCCGCCATAGAA-TTGTTCTTTAG
1 TGGCGTTT-TAAACAAACGCCG-C-TAAAACTAGTACTTTAG
* ** *
21056 TGGCGTTTTTAAACAAACGCCG-TAATA-GGGTACATATATCG
1 TGGCG-TTTTAAACAAACGCCGCTAAAACTAGTAC-T-T-TAG
* * *
21097 TTGCGTTTTTAAATAAACGCCGCTAAAACCTAATACTTTAG
1 TGGCG-TTTTAAACAAACGCCGCTAAAA-CTAGTACTTTAG
21138 TGGCGTTTTATTCAA-AAACGCCGCTAAATACTCA-TACTTTAG
1 TGGCGTTTTA---AACAAACGCCGCTAAA-ACT-AGTACTTTAG
* * * *
21180 TGACGATTTTAGACAAACGCCGCTAAAACCTTGTACTTTAT
1 TGGCG-TTTTAAACAAACGCCGCTAAAA-CTAGTACTTTAG
21221 TGGCGTTT
1 TGGCGTTT
21229 AACCATTAAC
Statistics
Matches: 299, Mismatches: 45, Indels: 70
0.72 0.11 0.17
Matches are distributed among these distances:
38 6 0.02
39 4 0.01
40 39 0.13
41 158 0.53
42 77 0.26
43 12 0.04
44 3 0.01
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.32
Consensus pattern (39 bp):
TGGCGTTTTAAACAAACGCCGCTAAAACTAGTACTTTAG
Found at i:27293 original size:21 final size:21
Alignment explanation
Indices: 27267--27327 Score: 113
Period size: 21 Copynumber: 2.9 Consensus size: 21
27257 TGATTTATTA
*
27267 TTATGGATTTCAAGTTTTTTG
1 TTATGGATTTCAAGTTTGTTG
27288 TTATGGATTTCAAGTTTGTTG
1 TTATGGATTTCAAGTTTGTTG
27309 TTATGGATTTCAAGTTTGT
1 TTATGGATTTCAAGTTTGT
27328 GTCTTAATTA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.20, C:0.05, G:0.21, T:0.54
Consensus pattern (21 bp):
TTATGGATTTCAAGTTTGTTG
Found at i:27513 original size:43 final size:43
Alignment explanation
Indices: 27462--27838 Score: 585
Period size: 43 Copynumber: 8.8 Consensus size: 43
27452 GTTTGTATAG
* *
27462 AAAAACGCCGCTATAAATCTCAACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
*
27505 AAAAACGCCGCTATAGATCT-GACCTTTTGCGGCATTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* * *
27547 AAAAATGCCGCTATAAATCTCGACCTTTAGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* *
27590 AAAAACGCCGTTATAGATCTCGACATTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
27633 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* * *
27676 AAAAACGCTGCTATAAATCTTGACCTTTTGCGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
*
27719 AAAAACGCCGCTATAGATCTCGACCTTTTACGGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* * *
27762 AAAAATGCCGCTATAGATCTCGACCTTTTACAGCGTTTGTTCC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
* * *
27805 AAAAATGCCGCTATATATCTTGACCTTTTGCGGC
1 AAAAACGCCGCTATAGATCTCGACCTTTTGCGGC
27839 ATTTTTTGTT
Statistics
Matches: 306, Mismatches: 27, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 38 0.12
43 268 0.88
ACGTcount: A:0.24, C:0.26, G:0.19, T:0.32
Consensus pattern (43 bp):
AAAAACGCCGCTATAGATCTCGACCTTTTGCGGCGTTTGTTCC
Found at i:30713 original size:20 final size:20
Alignment explanation
Indices: 30688--30742 Score: 92
Period size: 20 Copynumber: 2.8 Consensus size: 20
30678 AGTTTGTTTG
30688 GAATTTTATCATTTTTAAAT
1 GAATTTTATCATTTTTAAAT
*
30708 GAATTTCATCATTTTTAAAT
1 GAATTTTATCATTTTTAAAT
*
30728 GAATTTTCTCATTTT
1 GAATTTTATCATTTT
30743 AGCTTAGTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.31, C:0.09, G:0.05, T:0.55
Consensus pattern (20 bp):
GAATTTTATCATTTTTAAAT
Found at i:31304 original size:42 final size:42
Alignment explanation
Indices: 31244--31518 Score: 319
Period size: 42 Copynumber: 6.5 Consensus size: 42
31234 GTTTCGATTA
*
31244 GCGGCATTTGTTCTAAAAACGCCGCTATAGAATTGACCTTTT
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGAATTGACCTTTT
*
31286 GCGGCGTTTGTT-TAAAAAATGCCGCTATAGAATTGACCTTTT
1 GCGGCGTTTGTTCT-AAAAACGCCGCTATAGAATTGACCTTTT
* * *
31328 GTGGCGTTTGTTCAAAAAACGCCGCTATAG-ATCTGACATTTT
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGAAT-TGACCTTTT
* *
31370 GCGGCGTTTGTTCTGAAAACGCCTCTATAG-ATTCGGACCTTTT
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGAATT--GACCTTTT
* ** *
31413 GCGGCGTTTGTATCT-AAAATGCCATTATAGAA-CGACCTTTT
1 GCGGCGTTTGT-TCTAAAAACGCCGCTATAGAATTGACCTTTT
* * *
31454 GTGGCGTTTTGTTCTAAAAACGCCGCTATA-TATCTGACATTTT
1 GCGGCG-TTTGTTCTAAAAACGCCGCTATAGAAT-TGACCTTTT
31497 GCGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTTCTAAAAACGC
31519 TTCTTGCGGC
Statistics
Matches: 199, Mismatches: 23, Indels: 22
0.82 0.09 0.09
Matches are distributed among these distances:
41 21 0.11
42 132 0.66
43 42 0.21
44 4 0.02
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (42 bp):
GCGGCGTTTGTTCTAAAAACGCCGCTATAGAATTGACCTTTT
Found at i:31473 original size:127 final size:126
Alignment explanation
Indices: 31244--31518 Score: 410
Period size: 127 Copynumber: 2.2 Consensus size: 126
31234 GTTTCGATTA
* *
31244 GCGGCATTTGTTCTAAAAACGCCGCTATAGAATTGACCTTTTGCGGCGTTTGTTTAAAAAATGCC
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGAATTGACCTTTTGCGGCGTTTGTATAAAAAATGCC
* *
31309 GCTATAGAATTGACCTTTTGTGGCGTTTGTTCAAAAAACGCCGCTATAGATCTGACATTTT
66 ACTATAGAATCGACCTTTTGTGGCGTTTGTTCAAAAAACGCCGCTATAGATCTGACATTTT
* * **
31370 GCGGCGTTTGTTCTGAAAACGCCTCTATAG-ATTCGGACCTTTTGCGGCGTTTGTATCTAAAATG
1 GCGGCGTTTGTTCTAAAAACGCCGCTATAGAATT--GACCTTTTGCGGCGTTTGTATAAAAAATG
* * *
31434 CCATTATAGAA-CGACCTTTTGTGGCGTTTTGTTCTAAAAACGCCGCTATATATCTGACATTTT
64 CCACTATAGAATCGACCTTTTGTGGCG-TTTGTTCAAAAAACGCCGCTATAGATCTGACATTTT
31497 GCGGCGTTTGTTCTAAAAACGC
1 GCGGCGTTTGTTCTAAAAACGC
31519 TTCTTGCGGC
Statistics
Matches: 134, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
125 3 0.02
126 41 0.31
127 90 0.67
ACGTcount: A:0.24, C:0.20, G:0.21, T:0.35
Consensus pattern (126 bp):
GCGGCGTTTGTTCTAAAAACGCCGCTATAGAATTGACCTTTTGCGGCGTTTGTATAAAAAATGCC
ACTATAGAATCGACCTTTTGTGGCGTTTGTTCAAAAAACGCCGCTATAGATCTGACATTTT
Found at i:33895 original size:18 final size:19
Alignment explanation
Indices: 33866--33901 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
33856 CACACACGTA
33866 TATATGCATATAAAATTAC
1 TATATGCATATAAAATTAC
*
33885 TATAT-CATATAGAATTA
1 TATATGCATATAAAATTA
33902 TGGGGATCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (19 bp):
TATATGCATATAAAATTAC
Found at i:34843 original size:15 final size:16
Alignment explanation
Indices: 34823--34858 Score: 56
Period size: 15 Copynumber: 2.3 Consensus size: 16
34813 TCTTTCATAC
34823 TATTTAAATT-TGAAT
1 TATTTAAATTCTGAAT
*
34838 TATTTAAATTCTTAAT
1 TATTTAAATTCTGAAT
34854 TATTT
1 TATTT
34859 CATAATATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 10 0.53
16 9 0.47
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (16 bp):
TATTTAAATTCTGAAT
Found at i:35520 original size:10 final size:10
Alignment explanation
Indices: 35502--35551 Score: 55
Period size: 10 Copynumber: 5.0 Consensus size: 10
35492 ATGGTTTTAT
35502 GTCTTCAAAG
1 GTCTTCAAAG
* *
35512 GTCTGCAAAC
1 GTCTTCAAAG
35522 GTCTTCAAAG
1 GTCTTCAAAG
* * *
35532 GTCTACAGAC
1 GTCTTCAAAG
35542 GTCTTCAAAG
1 GTCTTCAAAG
35552 AACATTAAAA
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (10 bp):
GTCTTCAAAG
Found at i:35527 original size:20 final size:20
Alignment explanation
Indices: 35502--35551 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
35492 ATGGTTTTAT
*
35502 GTCTTCAAAGGTCTGCAAAC
1 GTCTTCAAAGGTCTACAAAC
*
35522 GTCTTCAAAGGTCTACAGAC
1 GTCTTCAAAGGTCTACAAAC
35542 GTCTTCAAAG
1 GTCTTCAAAG
35552 AACATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.30, C:0.24, G:0.20, T:0.26
Consensus pattern (20 bp):
GTCTTCAAAGGTCTACAAAC
Found at i:35601 original size:22 final size:22
Alignment explanation
Indices: 35573--35854 Score: 232
Period size: 22 Copynumber: 12.5 Consensus size: 22
35563 TATTTAAATC
35573 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATAGATTGATT
* *** *
35595 TATTTTAAAATATGAAAAAAAAT
1 TATTTTAAAATAT-AGATTGATT
35618 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATAGATTGATT
**
35640 TATTTTAAAATAT-GA---AAA
1 TATTTTAAAATATAGATTGATT
* *
35658 AAATTTAAAATATAGATTGATT
1 TATTTTAAAATATAGATTGATT
35680 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATAGATTGATT
*
35702 TATTTTAAAATATAAAAAAAATATGGATT
1 TATTTTAAAATAT-----AGAT-T-GATT
* * *** *
35731 GATTTATTTTAAAATATAAAAAAAAT
1 TATTT----TAAAATATAGATTGATT
* *
35757 TATTTTAAAATATGGATTAATT
1 TATTTTAAAATATAGATTGATT
35779 TATTTTAAAATATTA-ATTGATT
1 TATTTTAAAATA-TAGATTGATT
35801 TATTTTAAAATATAGATTGATT
1 TATTTTAAAATATAGATTGATT
* *
35823 TATTTTAAAATCTGGATTGATT
1 TATTTTAAAATATAGATTGATT
35845 TATTTTAAAA
1 TATTTTAAAA
35855 AATTTATTAT
Statistics
Matches: 208, Mismatches: 34, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
18 12 0.06
19 2 0.01
21 4 0.02
22 143 0.69
23 18 0.09
26 6 0.03
27 3 0.01
28 4 0.02
29 8 0.04
33 8 0.04
ACGTcount: A:0.47, C:0.00, G:0.07, T:0.45
Consensus pattern (22 bp):
TATTTTAAAATATAGATTGATT
Found at i:35624 original size:45 final size:45
Alignment explanation
Indices: 35568--35833 Score: 260
Period size: 44 Copynumber: 5.8 Consensus size: 45
35558 AAAATTATTT
35568 AAATCTATTTTAAAATATAGATTGATTTATTTTAAAATATGAAAAA
1 AAAT-TATTTTAAAATATAGATTGATTTATTTTAAAATATGAAAAA
35614 AAATTATTTTAAAATATAGATTGATTTATTTTAAAATATG--AAA
1 AAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAAAAA
*
35657 AAA--A-TTTAAAATATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTA
1 AAATTATTTTAAAATATAGATTGATTTATTTTAAAATAT-GA---A---A---AA
*** *
35709 AAA-TATAAAAAAAATATGGATTGATTTATTTTAAAATAT-AAAAA
1 AAATTAT-TTTAAAATATAGATTGATTTATTTTAAAATATGAAAAA
* * * **
35753 AAATTATTTTAAAATATGGATTAATTTATTTTAAAATAT-TAATT
1 AAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAAAAA
* *
35797 GATTTATTTTAAAATATAGATTGATTTATTTTAAAAT
1 AAATTATTTTAAAATATAGATTGATTTATTTTAAAAT
35834 CTGGATTGAT
Statistics
Matches: 187, Mismatches: 17, Indels: 34
0.79 0.07 0.14
Matches are distributed among these distances:
40 32 0.17
41 2 0.01
43 6 0.03
44 67 0.36
45 39 0.21
46 4 0.02
47 1 0.01
49 1 0.01
50 1 0.01
52 4 0.02
53 2 0.01
55 28 0.15
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (45 bp):
AAATTATTTTAAAATATAGATTGATTTATTTTAAAATATGAAAAA
Found at i:35723 original size:33 final size:33
Alignment explanation
Indices: 35686--35756 Score: 133
Period size: 33 Copynumber: 2.2 Consensus size: 33
35676 GATTTATTTT
35686 AAAATATAGATTGATTTATTTTAAAATATAAAA
1 AAAATATAGATTGATTTATTTTAAAATATAAAA
*
35719 AAAATATGGATTGATTTATTTTAAAATATAAAA
1 AAAATATAGATTGATTTATTTTAAAATATAAAA
35752 AAAAT
1 AAAAT
35757 TATTTTAAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (33 bp):
AAAATATAGATTGATTTATTTTAAAATATAAAA
Found at i:35760 original size:55 final size:55
Alignment explanation
Indices: 35664--35769 Score: 158
Period size: 55 Copynumber: 1.9 Consensus size: 55
35654 AAAAAAATTT
* *** *
35664 AAAATATAGATTGATTTATTTTAAAATATAGATTGATTTATTTTAAAATATAAAA
1 AAAATATAGATTGATTTATTTTAAAATATAAAAAAAATTATTTTAAAATATAAAA
*
35719 AAAATATGGATTGATTTATTTTAAAATATAAAAAAAATTATTTTAAAATAT
1 AAAATATAGATTGATTTATTTTAAAATATAAAAAAAATTATTTTAAAATAT
35770 GGATTAATTT
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
55 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (55 bp):
AAAATATAGATTGATTTATTTTAAAATATAAAAAAAATTATTTTAAAATATAAAA
Found at i:35807 original size:99 final size:95
Alignment explanation
Indices: 35624--35814 Score: 294
Period size: 99 Copynumber: 2.0 Consensus size: 95
35614 AAATTATTTT
* *
35624 AAAATATAGATTGATTTATTTTAAAATATGAAAAAAATTTAAAATATAGATTGATTTATTTTAAA
1 AAAATATAGATTGATTTATTTTAAAATATAAAAAAAATTTAAAATATAGATTAATTTATTTTAAA
35689 ATATAGATTGATTTATTTTAAAATATAAAA
66 ATATAGATTGATTTATTTTAAAATATAAAA
* *
35719 AAAATATGGATTGATTTATTTTAAAATATAAAAAAAATTATTTTAAAATATGGATTAATTTATTT
1 AAAATATAGATTGATTTATTTTAAAATAT-AAAAAAA--A-TTTAAAATATAGATTAATTTATTT
35784 TAAAATATTA-ATTGATTTATTTTAAAATATA
62 TAAAATA-TAGATTGATTTATTTTAAAATATA
35815 GATTGATTTA
Statistics
Matches: 87, Mismatches: 4, Indels: 6
0.90 0.04 0.06
Matches are distributed among these distances:
95 28 0.32
96 6 0.07
98 1 0.01
99 50 0.57
100 2 0.02
ACGTcount: A:0.49, C:0.00, G:0.07, T:0.44
Consensus pattern (95 bp):
AAAATATAGATTGATTTATTTTAAAATATAAAAAAAATTTAAAATATAGATTAATTTATTTTAAA
ATATAGATTGATTTATTTTAAAATATAAAA
Found at i:35912 original size:31 final size:31
Alignment explanation
Indices: 35877--35936 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
35867 TAATTGTATG
* *
35877 AATTATTTAAATTTTAGTATTATAAAACTAA
1 AATTATTTAAATTTCAGTATTACAAAACTAA
35908 AATTATTTAAATTTCAGTATTACAAAACT
1 AATTATTTAAATTTCAGTATTACAAAACT
35937 CTTTTAAGTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (31 bp):
AATTATTTAAATTTCAGTATTACAAAACTAA
Found at i:39130 original size:105 final size:105
Alignment explanation
Indices: 38827--40446 Score: 2442
Period size: 106 Copynumber: 15.5 Consensus size: 105
38817 CATTGTTCCA
* * ** *
38827 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGGTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGACAAC
* * * *
38892 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* ** * *
38933 AGTCCAACATCCTTCGTTGTGAAGTTGAAATTGATTCTG-AA-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* *
38993 AGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTAG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
39033 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
39098 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
39138 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAAT-TTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* *
39202 AGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * *
39242 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTTTAAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
*
39307 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
39348 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
* *
39413 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * * * * * *
39454 AGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTCT-AGAATTGGAAAATTATTTATTGACAA
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTT-GTTGTTGACAA
39518 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
64 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
39560 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
* * **
39625 CAGCGGTCCCTTCGTCGTGAAGTTGAACATACGTTGTCAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
39666 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* *
39731 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTTTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
39771 AGTCCAATATCCTTCGCTCTGAAGTTGAAATTGGCTCTGAAATTGGAAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
39836 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
39876 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
*
39941 CAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
** * *
39982 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGATTCTG-AA-T--GAAATT-TTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
40042 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* * *
40082 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
*
40147 AGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
*
40187 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAG-T-TTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* **
40250 AGCGGTCCCTTCGTCGTGAAGTTGAACATATGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* **
40290 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAAT-TTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
40354 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
* *
40394 AGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTG
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG
40447 ATTGAGGTGT
Statistics
Matches: 1383, Mismatches: 112, Indels: 39
0.90 0.07 0.03
Matches are distributed among these distances:
100 167 0.12
101 2 0.00
102 13 0.01
103 95 0.07
104 205 0.15
105 394 0.28
106 506 0.37
107 1 0.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (105 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGG
Found at i:39830 original size:422 final size:417
Alignment explanation
Indices: 38827--40442 Score: 2462
Period size: 422 Copynumber: 3.9 Consensus size: 417
38817 CATTGTTCCA
* * ** *
38827 AGTCCAATATCCTCCGTCGTGAAGTTGAAATTGGCTCTGAAACCGGGAAATTGGTTGTTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTT-GTTGTTGACAAC
* * * * * *
38892 CAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCTCGAGTCCAACATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
** * *
38957 TTGAAATTGATTCTG-AA-TGAAA-TTTTGTTGACAAGCAGCGGTCCCTTTGTCGTGAAGTTGAA
130 TTGAAATTGGCTCTGAAATTGAAAGTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* * *
39019 CTTGCGTTGTCTAGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGT
195 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGA-ATTGGAAAAT
* * *
39084 T-GTTGTTGACAAGCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
259 TATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
* **
39148 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAAATTTGTTGACAACCAGCGGTCCCTT
324 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCGGTCCCTT
39213 CGTCGTGAAGTTGAACATACGTTGTCTGG
389 CGTCGTGAAGTTGAACATACGTTGTCTGG
* * * * *
39242 AGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTTTAAAATTGAGAAGTTGTTTATTGACAAC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTG-TTGTTGACAAC
* *
39307 CAGTGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAG
65 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAG
*
39372 TTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGTGGTCCCTTCGTCGTGAAGTT
130 TTGAAATTGGCTCTGAAATTGA-AAG-T-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTT
* * * *
39437 GAACTTGTGTTGTCTGGAGTCCACTATCCTTCGCTGTGAAGTTGAAATTGACTCTAGAATTGGAA
192 GAACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCT-GAATTGGAA
39502 AATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
256 AATTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAA
*
39567 TATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAGTTGTTTGTTGACAACCAGCGGT
321 TATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA--TGTTTGTTGACAACCAGCGGT
**
39632 CCCTTCGTCGTGAAGTTGAACATACGTTGTCAAG
384 CCCTTCGTCGTGAAGTTGAACATACGTTGTCTGG
39666 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
* * *
39731 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTTTGGAGTCCAATATCCTTCGCTCTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
39796 TGAAATTGGCTCTGAAATTGGAAAGTTGTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
131 TGAAATTGGCTCTGAAATT-GAAAGTT-TTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGA
* *
39861 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTTGAGAAG
194 ACTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGA-AAA
* *
39926 TTGTTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACATGCGTTGTCTGGAGTCCAATA
258 TTATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATA
* ** *
39991 TCCTTCGTTGTGAAGTTGAAATTGATTCTG-AA-TGA-AAT-TTTGTTGACAAGCAGCGGTCCCT
323 TCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCGGTCCCT
* *
40052 TCGTCGTGAAGTTGAACTTGCGTTGTCTGG
388 TCGTCGTGAAGTTGAACATACGTTGTCTGG
* * *
40082 AGTCCAATATCATTCGTTGTGAAGTTGAAATTGGCTCTGAGATTGGGAAGTTGTTGTTGACAAGC
1 AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
*
40147 AGCGGTCCCTTTGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
66 AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
*
40212 TGAAATTGGCTCTGAAATTGGGAAG-TTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
131 TGAAATTGGCTCTGAAATT-GAAAGTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAA
* ** * *
40276 CATATGTTGTCTGGAGTCCAATATCCTTCGATGTGAAGTTGAAATTGGCTCTGAAATTGGGAAA-
195 CTTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG-AATTGGAAAAT
*
40340 -ATTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
259 TATTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATAT
40404 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
324 CCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAA
40443 GTTGATTGAG
Statistics
Matches: 1099, Mismatches: 84, Indels: 36
0.90 0.07 0.03
Matches are distributed among these distances:
412 87 0.08
413 2 0.00
414 93 0.08
415 133 0.12
416 197 0.18
417 4 0.00
418 2 0.00
419 2 0.00
420 4 0.00
421 102 0.09
422 278 0.25
423 93 0.08
424 102 0.09
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (417 bp):
AGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTGTTGACAACC
AGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCCTTCGCTGTGAAGT
TGAAATTGGCTCTGAAATTGAAAGTTTTGTTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAAC
TTGCGTTGTCTGGAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAATTGGAAAATTA
TTTATTGACAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTGGAGTCCAATATCC
TTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGAGAATGTTTGTTGACAACCAGCGGTCCCTTCG
TCGTGAAGTTGAACATACGTTGTCTGG
Found at i:49030 original size:4 final size:4
Alignment explanation
Indices: 49023--49065 Score: 59
Period size: 4 Copynumber: 10.8 Consensus size: 4
49013 TTGAGAGAGA
* * *
49023 TATG TATG TATG TATG TATG TATG CATG TATG GATG GATG TAT
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TAT
49066 AAACAAAGCT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.26, C:0.02, G:0.28, T:0.44
Consensus pattern (4 bp):
TATG
Found at i:49986 original size:118 final size:117
Alignment explanation
Indices: 49780--50013 Score: 459
Period size: 118 Copynumber: 2.0 Consensus size: 117
49770 CATAAATAAA
49780 AAATAAAAATAAAAATGAATAATGAAATCTATTTTAGTGAATTTTTAAAATACAAATTATAACTA
1 AAATAAAAATAAAAATGAATAATGAAATCTATTTTAGTGAATTTTTAAAATACAAATTATAACTA
49845 AAGATGTTCATTAGCCATATTAGGTTTAAAAAAGTCTTCAAATTCCATGTCT
66 AAGATGTTCATTAGCCATATTAGGTTTAAAAAAGTCTTCAAATTCCATGTCT
49897 AAATAAAAAATAAAAATGAATAATGAAATCTATTTTAGTGAATTTTTAAAATACAAATTATAACT
1 AAAT-AAAAATAAAAATGAATAATGAAATCTATTTTAGTGAATTTTTAAAATACAAATTATAACT
49962 AAAGATGTTCATTAGCCATATTAGGTTTAAAAAAGTCTTCAAATTCCATGTC
65 AAAGATGTTCATTAGCCATATTAGGTTTAAAAAAGTCTTCAAATTCCATGTC
50014 CAAGTCCGAA
Statistics
Matches: 116, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
117 4 0.03
118 112 0.97
ACGTcount: A:0.47, C:0.09, G:0.09, T:0.35
Consensus pattern (117 bp):
AAATAAAAATAAAAATGAATAATGAAATCTATTTTAGTGAATTTTTAAAATACAAATTATAACTA
AAGATGTTCATTAGCCATATTAGGTTTAAAAAAGTCTTCAAATTCCATGTCT
Found at i:50179 original size:14 final size:15
Alignment explanation
Indices: 50151--50180 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
50141 ATTTTTTTTA
50151 AAATTTATATAAATT
1 AAATTTATATAAATT
50166 AAATTTAT-TAAATT
1 AAATTTATATAAATT
50180 A
1 A
50181 TATAAAAACT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
AAATTTATATAAATT
Found at i:60638 original size:20 final size:22
Alignment explanation
Indices: 60605--60648 Score: 56
Period size: 20 Copynumber: 2.1 Consensus size: 22
60595 CACTCGCAGC
60605 ATCCATCCACCCAT-TA-ATAT
1 ATCCATCCACCCATATATATAT
* *
60625 ATCCATCTATCCATATATATAT
1 ATCCATCCACCCATATATATAT
60647 AT
1 AT
60649 ATTATACATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.60
21 2 0.10
22 6 0.30
ACGTcount: A:0.36, C:0.27, G:0.00, T:0.36
Consensus pattern (22 bp):
ATCCATCCACCCATATATATAT
Found at i:61232 original size:17 final size:17
Alignment explanation
Indices: 61183--61232 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
61173 TTGTTCATGT
61183 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
*
61200 TTTGAG----TATCAATG
1 TTTG-GTTTCTATGAATG
61214 TTTGGTTTCTATGAATG
1 TTTGGTTTCTATGAATG
61231 TT
1 TT
61233 AGAAGAATTT
Statistics
Matches: 26, Mismatches: 2, Indels: 10
0.68 0.05 0.26
Matches are distributed among these distances:
13 1 0.04
14 11 0.42
17 13 0.50
18 1 0.04
ACGTcount: A:0.20, C:0.06, G:0.22, T:0.52
Consensus pattern (17 bp):
TTTGGTTTCTATGAATG
Found at i:66262 original size:6 final size:6
Alignment explanation
Indices: 66251--66279 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
66241 ACTCGCGCAC
66251 GCACAA GCACAA GCACAA GCACAA GCACA
1 GCACAA GCACAA GCACAA GCACAA GCACA
66280 CACACTACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.48, C:0.34, G:0.17, T:0.00
Consensus pattern (6 bp):
GCACAA
Found at i:67617 original size:9 final size:9
Alignment explanation
Indices: 67603--67632 Score: 60
Period size: 9 Copynumber: 3.3 Consensus size: 9
67593 GCAGTTGTAA
67603 TTTTAAATT
1 TTTTAAATT
67612 TTTTAAATT
1 TTTTAAATT
67621 TTTTAAATT
1 TTTTAAATT
67630 TTT
1 TTT
67633 CATACAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TTTTAAATT
Found at i:69721 original size:43 final size:42
Alignment explanation
Indices: 69678--69954 Score: 263
Period size: 43 Copynumber: 6.5 Consensus size: 42
69668 CTATTACGGT
* * ** *
69678 GTTTTTTGAACAAACGCCGCAAAAAGTTATGATATATAGCGGT
1 GTTTTTGGAACAAACGCCGCAAAAAGTCA-GACCTATAGCGGC
* * * * * *
69721 GTGTCTAGAAAAAACGCCGCAAAAGGTCAGATCTATAGCGGC
1 GTTTTTGGAACAAACGCCGCAAAAAGTCAGACCTATAGCGGC
*
69763 GTTTTTGGATACAAACGCCGCAAAAGAG-AAGACCTATA-CTGGC
1 GTTTTTGGA-ACAAACGCCGCAAAA-AGTCAGACCTATAGC-GGC
** * *
69806 GTTTTTATAACAAACGCCGCAAAATGTCAGACCTATAGCAGC
1 GTTTTTGGAACAAACGCCGCAAAAAGTCAGACCTATAGCGGC
* **
69848 GTTTTTGGACACAAACGCCGCAAAAGGTCAGACCTATAATGGC
1 GTTTTTGGA-ACAAACGCCGCAAAAAGTCAGACCTATAGCGGC
* *
69891 GTTTTTGAACACAAACGCCGCAAAAAGTCAGGCCTATAGCGGC
1 GTTTTTGGA-ACAAACGCCGCAAAAAGTCAGACCTATAGCGGC
*
69934 GTTTATT-AATACAAACGCCGC
1 GTTT-TTGGA-ACAAACGCCGC
69955 TAATTACCTT
Statistics
Matches: 195, Mismatches: 32, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
41 1 0.01
42 51 0.26
43 140 0.72
44 3 0.02
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.22
Consensus pattern (42 bp):
GTTTTTGGAACAAACGCCGCAAAAAGTCAGACCTATAGCGGC
Found at i:69826 original size:85 final size:86
Alignment explanation
Indices: 69732--69954 Score: 310
Period size: 85 Copynumber: 2.6 Consensus size: 86
69722 TGTCTAGAAA
* *
69732 AAACGCCGCAAAAGGTCAGATCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGAG-AAGAC
1 AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAG-GTAAGAC
*
69796 CTATACTGGCGTTTTT-ATA-AC
65 CTATAATGGCGTTTTTGA-ACAC
* * * *
69817 AAACGCCGCAAAATGTCAGACCTATAGCAGCGTTTTTGGACACAAACGCCGCAAAAGGTCAGACC
1 AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTAAGACC
69882 TATAATGGCGTTTTTGAACAC
66 TATAATGGCGTTTTTGAACAC
* *
69903 AAACGCCGCAAAAAGTCAGGCCTATAGCGGCGTTTATT-AATACAAACGCCGC
1 AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTT-TTGGATACAAACGCCGC
69955 TAATTACCTT
Statistics
Matches: 123, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 73 0.59
86 47 0.38
87 2 0.02
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.21
Consensus pattern (86 bp):
AAACGCCGCAAAAAGTCAGACCTATAGCGGCGTTTTTGGATACAAACGCCGCAAAAGGTAAGACC
TATAATGGCGTTTTTGAACAC
Found at i:74261 original size:41 final size:41
Alignment explanation
Indices: 74204--74714 Score: 535
Period size: 41 Copynumber: 12.4 Consensus size: 41
74194 TTGTAAACAC
* * * * * * *
74204 AAACGCCACTATAGTACAAATGTATAGCGGCGCTTGAATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
*
74245 AAACGCCACTAAAGTACGAGTCTTTAGCGGCATTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
74286 AAATGCCACTAAATTACGAGTCTTTAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA-A
* * * * * *
74328 CAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAA
1 -AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
74370 AAATGCCACTAAAGTACGCGTCTTTAGTGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
*
74411 AAACGCCACTAAAGTATGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
74452 AAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATA-A
* * * *
74494 CAAACGCCACTATAGTAC-ATGTGTATAACGGCGTTTGTATAA
1 -AAACGCCACTAAAGTACGA-GTCTTTAGCGGCGTTTGTATAA
* * *
74536 AAACGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* *
74577 AAATGCCACTAAATTACGAGTCTTTAGCGGCGTTTGTATAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
* * *
74618 AAACGCCACTAAAGTACTACTCTTTTGCGGCGTTTGT-TGAAA
1 AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTAT--AA
* * ** *
74660 AAACGCCACTACAG-ATGAACCTATT-GCGGCGTTTTTATAA
1 AAACGCCACTAAAGTACGAGTCT-TTAGCGGCGTTTGTATAA
**
74700 AAACGCTGCTAAAGT
1 AAACGCCACTAAAGT
74715 TACCATTTGT
Statistics
Matches: 393, Mismatches: 66, Indels: 22
0.82 0.14 0.05
Matches are distributed among these distances:
40 14 0.04
41 293 0.75
42 24 0.06
43 62 0.16
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (41 bp):
AAACGCCACTAAAGTACGAGTCTTTAGCGGCGTTTGTATAA
Found at i:74346 original size:125 final size:123
Alignment explanation
Indices: 74193--74670 Score: 530
Period size: 125 Copynumber: 3.8 Consensus size: 123
74183 ACACTTAAAA
* * * *
74193 TTTGTAAACACAAACGCCACTATAGTACAAATGTATAGCGGCGCTTGAATAAAAACGCCACTAAA
1 TTTGTAAA-A-AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAAAAACGCCACTAAA
* * *
74258 GTACGAGTCTTTAGCGGCATTTGTATAAAAATGCCACTAAATTACGAGTCTTTAGCGGCG
64 GTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * * *
74318 TTTGTAAACACAAACGCCACTATAGTACAAGTGTATAACGGCGTTTGAATAAAAATGCCACTAAA
1 TTTGTAAA-A-AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAAAAACGCCACTAAA
* * *
74383 GTACGCGTCTTTAGTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTTTAGCGGCG
64 GTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * ** * *
74443 TTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAA-ACACAAACGCCACTAT
1 TTTGTAAAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTG-AATA-A-AAACGCCACTAA
* * * * * *
74507 AGTAC-ATGTGTATAACGGCGTTTGTATAAAAACGCCACTAAAGTACAATTCTATAGCGGCG
63 AGTACGA-GTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
* * * * * *
74568 TTTGTATAAAAATGCCACTAAATTACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGT
1 TTTGTAAAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAAAAACGCCACTAAAGT
* * *
74633 ACTACTCTTTTGCGGCGTTTGT-TGAAAAAACGCCACTA
66 ACGAGTCTTTAGCGGCGTTTGTAT--AAAAACGCCACTA
74671 CAGATGAACC
Statistics
Matches: 307, Mismatches: 38, Indels: 17
0.85 0.10 0.05
Matches are distributed among these distances:
122 1 0.00
123 59 0.19
124 20 0.07
125 227 0.74
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (123 bp):
TTTGTAAAAAAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGAATAAAAACGCCACTAAAGT
ACGAGTCTTTAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTTTAGCGGCG
Found at i:74482 original size:166 final size:166
Alignment explanation
Indices: 74204--74670 Score: 688
Period size: 166 Copynumber: 2.8 Consensus size: 166
74194 TTGTAAACAC
* * * * *
74204 AAACGCCACTATAGTACAAATGTATAGCGGCGCTTGAATAAAAACGCCACTAAAGTACGAGTCTT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* * *
74269 TAGCGGCATTTGTATAAAAATGCCACTAAATTACGAGTCTTTAGCGGCGTTTGTAAACACAAACG
66 TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
74334 CCACTATAGTACAAGTGTATAACGGCGTTTGAATAA
131 CCACTATAGTACAAGTGTATAACGGCGTTTGAATAA
* ** * * *
74370 AAATGCCACTAAAGTACGCGTCTTTAGTGGCGTTTGTATAAAAACGCCACTAAAGTATGAGTCTT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
74435 TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
66 TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
* *
74500 CCACTATAGTACATGTGTATAACGGCGTTTGTATAA
131 CCACTATAGTACAAGTGTATAACGGCGTTTGAATAA
* * *
74536 AAACGCCACTAAAGTACAATTCTATAGCGGCGTTTGTATAAAAATGCCACTAAATTACGAGTCTT
1 AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
* * * *
74601 TAGCGGCGTTTGTATAAAAACGCCACTAAAGTACT-ACTCTTTTGCGGCGTTTGTTGAA-A-AAA
66 TAGCGGCGTTTGTATAAAAACGCCACTAAATTA-TGAGTCTTTAGCGGCGTTTG-TAAACACAAA
74663 CGCCACTA
129 CGCCACTA
74671 CAGATGAACC
Statistics
Matches: 270, Mismatches: 29, Indels: 5
0.89 0.10 0.02
Matches are distributed among these distances:
165 11 0.04
166 255 0.94
167 4 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.28
Consensus pattern (166 bp):
AAACGCCACTAAAGTACAAGTCTATAGCGGCGTTTGTATAAAAACGCCACTAAAGTACGAGTCTT
TAGCGGCGTTTGTATAAAAACGCCACTAAATTATGAGTCTTTAGCGGCGTTTGTAAACACAAACG
CCACTATAGTACAAGTGTATAACGGCGTTTGAATAA
Found at i:77012 original size:50 final size:50
Alignment explanation
Indices: 76918--77013 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
76908 CTATTTTTTG
* *
76918 GTACTGCACTTTTTATCGTTGTTGGCAGCTAATCACCTTCTGTCACATTA
1 GTACTGCACTTTTTATCGTTGTTGACAGCTAATCACCCTCTGTCACATTA
* * *
76968 GTACTGTACTTTTTATCGTTGTTGATAGTTAATCACCACT-TGTCAC
1 GTACTGCACTTTTTATCGTTGTTGACAGCTAATCACC-CTCTGTCAC
77014 CGGTTGTTTT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
50 39 0.98
51 1 0.03
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.42
Consensus pattern (50 bp):
GTACTGCACTTTTTATCGTTGTTGACAGCTAATCACCCTCTGTCACATTA
Found at i:84035 original size:18 final size:18
Alignment explanation
Indices: 84014--84049 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
84004 TCACCCGTTT
84014 ACCCGACCAGTTGACCCG
1 ACCCGACCAGTTGACCCG
*
84032 ACCCGACCCGTTGACCCG
1 ACCCGACCAGTTGACCCG
84050 TTGACCGTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.19, C:0.47, G:0.22, T:0.11
Consensus pattern (18 bp):
ACCCGACCAGTTGACCCG
Found at i:84047 original size:8 final size:8
Alignment explanation
Indices: 84036--84078 Score: 63
Period size: 8 Copynumber: 5.6 Consensus size: 8
84026 GACCCGACCC
84036 GACCCGTT
1 GACCCGTT
84044 GACCCGTT
1 GACCCGTT
84052 GA-CCGTT
1 GACCCGTT
*
84059 GACTCGTT
1 GACCCGTT
84067 GA-CCGTT
1 GACCCGTT
84074 GACCC
1 GACCC
84079 ACGTTGACCA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
7 13 0.42
8 18 0.58
ACGTcount: A:0.14, C:0.35, G:0.26, T:0.26
Consensus pattern (8 bp):
GACCCGTT
Found at i:84059 original size:7 final size:7
Alignment explanation
Indices: 84039--84077 Score: 60
Period size: 7 Copynumber: 5.3 Consensus size: 7
84029 CCGACCCGAC
84039 CCGTTGA
1 CCGTTGA
84046 CCCGTTGA
1 -CCGTTGA
84054 CCGTTGA
1 CCGTTGA
84061 CTCGTTGA
1 C-CGTTGA
84069 CCGTTGA
1 CCGTTGA
84076 CC
1 CC
84078 CACGTTGACC
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
7 16 0.53
8 14 0.47
ACGTcount: A:0.13, C:0.33, G:0.26, T:0.28
Consensus pattern (7 bp):
CCGTTGA
Found at i:84059 original size:15 final size:15
Alignment explanation
Indices: 84039--84078 Score: 71
Period size: 15 Copynumber: 2.7 Consensus size: 15
84029 CCGACCCGAC
84039 CCGTTGACCCGTTGA
1 CCGTTGACCCGTTGA
*
84054 CCGTTGACTCGTTGA
1 CCGTTGACCCGTTGA
84069 CCGTTGACCC
1 CCGTTGACCC
84079 ACGTTGACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.12, C:0.35, G:0.25, T:0.28
Consensus pattern (15 bp):
CCGTTGACCCGTTGA
Found at i:89083 original size:20 final size:20
Alignment explanation
Indices: 89068--89106 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
89058 AATAATTCTT
89068 ATGATCTTGGTCTAATTTTG
1 ATGATCTTGGTCTAATTTTG
89088 ATGATCTTGGTCTAATTTT
1 ATGATCTTGGTCTAATTTT
89107 TTAGTGGGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.21, C:0.10, G:0.18, T:0.51
Consensus pattern (20 bp):
ATGATCTTGGTCTAATTTTG
Found at i:89819 original size:23 final size:23
Alignment explanation
Indices: 89789--89848 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
89779 ATTGTTCGTG
* *
89789 AACATGTTCGTTTAATGTTCACA
1 AACATGTTCATTTAACGTTCACA
*
89812 AACGTGTTCATTTAACGTTCACA
1 AACATGTTCATTTAACGTTCACA
89835 AACATGTTCATTTA
1 AACATGTTCATTTA
89849 GTATTTGTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.32, C:0.18, G:0.12, T:0.38
Consensus pattern (23 bp):
AACATGTTCATTTAACGTTCACA
Found at i:90469 original size:19 final size:19
Alignment explanation
Indices: 90445--90503 Score: 75
Period size: 19 Copynumber: 3.1 Consensus size: 19
90435 TGTAAATCAC
90445 ACTGAATTTCATATTCGCA
1 ACTGAATTTCATATTCGCA
*
90464 ACTGAATTTCAAATTCGCA
1 ACTGAATTTCATATTCGCA
* *
90483 ACGCGAATTTAAT-TTCGCA
1 AC-TGAATTTCATATTCGCA
90502 AC
1 AC
90504 AGGTTTTAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
19 28 0.80
20 7 0.20
ACGTcount: A:0.34, C:0.22, G:0.12, T:0.32
Consensus pattern (19 bp):
ACTGAATTTCATATTCGCA
Found at i:90492 original size:20 final size:20
Alignment explanation
Indices: 90376--90503 Score: 81
Period size: 20 Copynumber: 6.6 Consensus size: 20
90366 AAATAACCAA
*
90376 CAAATTCGCAACGCGAATTC
1 CAAATTCGCAACGCGAATTT
* * *
90396 CAATTTCGCAACTC-AGTTTT
1 CAAATTCGCAACGCGA-ATTT
* *
90416 CAATTTCACAACGCGAATATGT
1 CAAATTCGCAACGCGAAT-T-T
* *
90438 -AAA-TCAC-AC-TGAATTT
1 CAAATTCGCAACGCGAATTT
* *
90454 CATATTCGCAAC-TGAATTT
1 CAAATTCGCAACGCGAATTT
90473 CAAATTCGCAACGCGAATTT
1 CAAATTCGCAACGCGAATTT
*
90493 -AATTTCGCAAC
1 CAAATTCGCAAC
90504 AGGTTTTAGT
Statistics
Matches: 86, Mismatches: 14, Indels: 17
0.74 0.12 0.15
Matches are distributed among these distances:
16 1 0.01
17 3 0.03
18 7 0.08
19 33 0.38
20 37 0.43
21 4 0.05
22 1 0.01
ACGTcount: A:0.34, C:0.24, G:0.12, T:0.30
Consensus pattern (20 bp):
CAAATTCGCAACGCGAATTT
Found at i:91269 original size:12 final size:12
Alignment explanation
Indices: 91248--91281 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
91238 ACCACATTTT
*
91248 CAATACCAAACA
1 CAATATCAAACA
91260 CAATATCAAACA
1 CAATATCAAACA
*
91272 CAATCTCAAA
1 CAATATCAAA
91282 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:91434 original size:24 final size:24
Alignment explanation
Indices: 91407--91460 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
91397 GTATTCGAAA
91407 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
91431 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
91455 TTTGAT
1 TTTGAT
91461 GATGTGATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:93602 original size:64 final size:64
Alignment explanation
Indices: 93517--93676 Score: 198
Period size: 64 Copynumber: 2.5 Consensus size: 64
93507 TTGTTTAAGG
* * ** *
93517 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
93580 A
64 A
* * *
93581 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
* *
93645 TGCACCGATGCACAAGTAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
93677 ACATTCATTG
Statistics
Matches: 83, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
63 2 0.02
64 74 0.89
65 7 0.08
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:94377 original size:31 final size:30
Alignment explanation
Indices: 94338--94427 Score: 83
Period size: 31 Copynumber: 3.0 Consensus size: 30
94328 GTCGAGGGTT
94338 TTACCTATGTCTTTTGAGACATATGGACAA
1 TTACCTATGTCTTTTGAGACATATGGACAA
*** *
94368 TATACCTATGTTCTAAGGA-ACATATGGACAG
1 T-TACCTATG-TCTTTTGAGACATATGGACAA
* * * *
94399 TTACCTAGGTTTTTTGGGACCTATGGACA
1 TTACCTATGTCTTTTGAGACATATGGACA
94428 GTTGCCTAGG
Statistics
Matches: 46, Mismatches: 11, Indels: 6
0.73 0.17 0.10
Matches are distributed among these distances:
29 3 0.07
30 18 0.39
31 20 0.43
32 5 0.11
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (30 bp):
TTACCTATGTCTTTTGAGACATATGGACAA
Found at i:94424 original size:30 final size:30
Alignment explanation
Indices: 94359--94463 Score: 95
Period size: 30 Copynumber: 3.5 Consensus size: 30
94349 TTTTGAGACA
* * * *
94359 TATGGACAATATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCTAGGTTCTTTAGG-ACC
* *
94390 TATGGACAGTTACCTAGGTTTTTTGGGACC
1 TATGGACAGTTACCTAGGTTCTTTAGGACC
* *
94420 TATGGACAGTTGCCTAGGTTCTTTATGACC
1 TATGGACAGTTACCTAGGTTCTTTAGGACC
* *
94450 TCTGGATAGTTACC
1 TATGGACAGTTACC
94464 AGGGTCTGTG
Statistics
Matches: 60, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
30 48 0.80
31 12 0.20
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (30 bp):
TATGGACAGTTACCTAGGTTCTTTAGGACC
Found at i:97382 original size:64 final size:64
Alignment explanation
Indices: 97292--97451 Score: 180
Period size: 64 Copynumber: 2.5 Consensus size: 64
97282 TTGTTTAAGG
* * ** *
97292 TGCATCGATGCACATGCAGTGCATCGATGCAT-GATTTTAAATAGAAAACATCGAATAGGA-TTT
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATA-AAAACATCGAAT-GCATTTT
97355 A
64 A
* * * *
97356 TGCATCGATGCATAAGGAGTGAATCGATGCATCCCCATTAAATAAAAACATCGAATGCATTTTA
1 TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
* **
97420 TGCACCGATGCACAAATAGTGCATCGATGCAT
1 TGCATCGATGCACAAGCAGTGCATCGATGCAT
97452 ACATTCATTG
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
63 2 0.03
64 71 0.89
65 7 0.09
ACGTcount: A:0.36, C:0.19, G:0.19, T:0.26
Consensus pattern (64 bp):
TGCATCGATGCACAAGCAGTGCATCGATGCATCCACATTAAATAAAAACATCGAATGCATTTTA
Found at i:97962 original size:16 final size:18
Alignment explanation
Indices: 97941--97974 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
97931 ATTTACATGA
97941 ATACATGT-ATAT-ATAT
1 ATACATGTGATATGATAT
97957 ATACATGTGATATGATAT
1 ATACATGTGATATGATAT
97975 GATATATGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.50
17 4 0.25
18 4 0.25
ACGTcount: A:0.41, C:0.06, G:0.12, T:0.41
Consensus pattern (18 bp):
ATACATGTGATATGATAT
Found at i:98146 original size:31 final size:30
Alignment explanation
Indices: 98107--98199 Score: 100
Period size: 30 Copynumber: 3.1 Consensus size: 30
98097 GTCGAGGGTT
98107 TTACCTATG-TCTTTCGAGACATATGGACAG
1 TTACCTATGTTCTTT-GAGACATATGGACAG
**
98137 TATACCTATGTTCTAAG-GAACATATGGACAG
1 T-TACCTATGTTCTTTGAG-ACATATGGACAG
* * *
98168 TTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTACCTATGTTCTTTGAGACATATGGACAG
98198 TT
1 TT
98200 GCCGAGGTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
30 27 0.51
31 23 0.43
32 3 0.06
ACGTcount: A:0.27, C:0.18, G:0.22, T:0.33
Consensus pattern (30 bp):
TTACCTATGTTCTTTGAGACATATGGACAG
Found at i:98180 original size:30 final size:30
Alignment explanation
Indices: 98125--98210 Score: 100
Period size: 30 Copynumber: 2.8 Consensus size: 30
98115 GTCTTTCGAG
*
98125 ACATATGGACAGTATACCTATGTTCTAAGGA
1 ACATATGGACAGT-TACCTAGGTTCTAAGGA
** *
98156 ACATATGGACAGTTACCTAGGTTCTTTGGG
1 ACATATGGACAGTTACCTAGGTTCTAAGGA
* * *
98186 ACCTATGGACAGTTGCCGAGGTTCT
1 ACATATGGACAGTTACCTAGGTTCT
98211 TTATGACCTC
Statistics
Matches: 48, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
30 35 0.73
31 13 0.27
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (30 bp):
ACATATGGACAGTTACCTAGGTTCTAAGGA
Found at i:98219 original size:30 final size:30
Alignment explanation
Indices: 98128--98233 Score: 97
Period size: 30 Copynumber: 3.5 Consensus size: 30
98118 TTTCGAGACA
* * * *
98128 TATGGACAGTATACCTATGTTC-TAAGGAACA
1 TATGGACAGT-TACCGAGGTTCTTTAGG-ACC
* *
98159 TATGGACAGTTACCTAGGTTCTTTGGGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
98189 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTTAGGACC
* *
98219 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
98234 GGGTCTGTGT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
30 50 0.79
31 13 0.21
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (30 bp):
TATGGACAGTTACCGAGGTTCTTTAGGACC
Found at i:100386 original size:20 final size:20
Alignment explanation
Indices: 100324--100391 Score: 73
Period size: 20 Copynumber: 3.4 Consensus size: 20
100314 AATCGCAAAC
* *
100324 CGAATTTGACTTTCGCATTG
1 CGAATTTAACTTTCGCGTTG
* * * *
100344 TGAATTTGACTATCGCGTAG
1 CGAATTTAACTTTCGCGTTG
*
100364 CGAATTTAACTTTCGTGTTG
1 CGAATTTAACTTTCGCGTTG
100384 CGAATTTA
1 CGAATTTA
100392 CCTTCAACAT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.24, C:0.16, G:0.21, T:0.40
Consensus pattern (20 bp):
CGAATTTAACTTTCGCGTTG
Found at i:100869 original size:18 final size:18
Alignment explanation
Indices: 100848--100884 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
100838 GTAATTGGAG
100848 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
100866 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
100884 T
1 T
100885 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:100891 original size:24 final size:24
Alignment explanation
Indices: 100840--100892 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
100830 TTTCATATGT
* * *
100840 AATTGGAGTTTGAATTTAAATTTC
1 AATTTGAGTTTGAATTTAAATATA
*
100864 AATTTGAGTTTGAATTTCAATATA
1 AATTTGAGTTTGAATTTAAATATA
100888 AATTT
1 AATTT
100893 CGGCTCCACT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.36, C:0.04, G:0.13, T:0.47
Consensus pattern (24 bp):
AATTTGAGTTTGAATTTAAATATA
Found at i:101244 original size:39 final size:39
Alignment explanation
Indices: 101194--101280 Score: 147
Period size: 39 Copynumber: 2.2 Consensus size: 39
101184 TCTGATGCTC
*
101194 ATCAAAATCCAAATCTCATATGGTGCCAAGAAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGAAAAAGGAA
* *
101233 ATCAGAATCCAAATCTCATATGATGCCAAGCAAAAGGAA
1 ATCAAAATCCAAATCTCATATGATGCCAAGAAAAAGGAA
101272 ATCAAAATC
1 ATCAAAATC
101281 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.20, G:0.14, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAATCTCATATGATGCCAAGAAAAAGGAA
Found at i:101548 original size:20 final size:20
Alignment explanation
Indices: 101523--101564 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
101513 ACCGAAAATT
* *
101523 GCGTTGTGAATTTGACTTTC
1 GCGTTGCGAATTTGACTATC
101543 GCGTTGCGAATTTGACTATC
1 GCGTTGCGAATTTGACTATC
101563 GC
1 GC
101565 AACGCTTATT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (20 bp):
GCGTTGCGAATTTGACTATC
Found at i:101820 original size:60 final size:61
Alignment explanation
Indices: 101669--101808 Score: 174
Period size: 66 Copynumber: 2.2 Consensus size: 61
101659 TTTTAGAAAC
* * *
101669 AACAAATCAACTTTTACAAATCAATTAAACAAGCAAAAAAATAATTCTTATTTACAAATCAAATT
1 AACAAATCAACTTTTACAAATAAATT----AATC-AAAAAATAAATCTTATTTACAAATCAAATT
101734 A
61 A
* **
101735 AACAAATCAACTTTTACAAATAAATTAATCAAAAAATAAATCTTATTTCCTCATC-AATTA
1 AACAAATCAACTTTTACAAATAAATTAATCAAAAAATAAATCTTATTTACAAATCAAATTA
101795 AACAAATCAACTTT
1 AACAAATCAACTTT
101809 CAATATAAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
60 19 0.28
61 21 0.31
62 3 0.04
66 25 0.37
ACGTcount: A:0.52, C:0.16, G:0.01, T:0.31
Consensus pattern (61 bp):
AACAAATCAACTTTTACAAATAAATTAATCAAAAAATAAATCTTATTTACAAATCAAATTA
Found at i:103212 original size:21 final size:21
Alignment explanation
Indices: 103168--103263 Score: 65
Period size: 21 Copynumber: 4.6 Consensus size: 21
103158 GGCGGGACCA
*
103168 CTTGAACGATGATAGAGGCCT
1 CTTGAACGATGAGAGAGGCCT
* * *
103189 CTTGAACGGTGAGAGGGGCTT
1 CTTGAACGATGAGAGAGGCCT
*
103210 CTTCG-ATGATGAGAG-GTGCCT
1 CTT-GAACGATGAGAGAG-GCCT
*
103231 CTTGAATGAT-AG-GAGGCGCCT
1 CTTGAACGATGAGAGA-G-GCCT
*
103252 CTTGAATGATGA
1 CTTGAACGATGA
103264 TAGGTGCATC
Statistics
Matches: 61, Mismatches: 8, Indels: 11
0.76 0.10 0.14
Matches are distributed among these distances:
19 1 0.02
20 4 0.07
21 54 0.89
22 2 0.03
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (21 bp):
CTTGAACGATGAGAGAGGCCT
Found at i:105160 original size:20 final size:20
Alignment explanation
Indices: 105126--105172 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
105116 AATCGCAATG
105126 CGATTTT-AGTTTCGCGTTA
1 CGATTTTCAGTTTCGCGTTA
*
105145 CGATTTTCATTTTCGCGTTA
1 CGATTTTCAGTTTCGCGTTA
*
105165 TGATTTTC
1 CGATTTTC
105173 GTGTTGCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 7 0.28
20 18 0.72
ACGTcount: A:0.15, C:0.17, G:0.17, T:0.51
Consensus pattern (20 bp):
CGATTTTCAGTTTCGCGTTA
Found at i:105460 original size:20 final size:22
Alignment explanation
Indices: 105435--105479 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
105425 TCTGAGAGAT
*
105435 GGAAAT-A-GACGGATTTTGTC
1 GGAAATGATGACGGATTTCGTC
105455 GGAAATGATGACGGATTTCGTC
1 GGAAATGATGACGGATTTCGTC
105477 GGA
1 GGA
105480 GATGGGGACG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
21 1 0.05
22 15 0.68
ACGTcount: A:0.29, C:0.11, G:0.33, T:0.27
Consensus pattern (22 bp):
GGAAATGATGACGGATTTCGTC
Found at i:105489 original size:22 final size:22
Alignment explanation
Indices: 105435--105492 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
105425 TCTGAGAGAT
*
105435 GGAAAT-A-GACGGATTTTGTC
1 GGAAATGAGGACGGATTTCGTC
*
105455 GGAAATGATGACGGATTTCGTC
1 GGAAATGAGGACGGATTTCGTC
* *
105477 GGAGATGGGGACGGAT
1 GGAAATGAGGACGGAT
105493 GTCGCCGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
20 6 0.19
21 1 0.03
22 25 0.78
ACGTcount: A:0.28, C:0.10, G:0.38, T:0.24
Consensus pattern (22 bp):
GGAAATGAGGACGGATTTCGTC
Found at i:105645 original size:20 final size:20
Alignment explanation
Indices: 105620--105724 Score: 124
Period size: 20 Copynumber: 5.2 Consensus size: 20
105610 GCGTAAAAAC
105620 ATTTGACTTTCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
*
105640 ATTTGACTATT-GCGTTACGA
1 ATTTGACT-TTCGCGTTGCGA
*
105660 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
** *
105680 ATTTGAC-TTCTATGTTGTGA
1 ATTTGACTTTC-GCGTTGCGA
*
105700 ATTTGACTATCGCGTTGCGA
1 ATTTGACTTTCGCGTTGCGA
105720 ATTTG
1 ATTTG
105725 GAAAATCGCA
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
19 3 0.04
20 63 0.90
21 4 0.06
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (20 bp):
ATTTGACTTTCGCGTTGCGA
Found at i:105675 original size:40 final size:40
Alignment explanation
Indices: 105620--105724 Score: 149
Period size: 40 Copynumber: 2.6 Consensus size: 40
105610 GCGTAAAAAC
* *
105620 ATTTGACTTTCGCGTTGCGAATTTGACTAT-TGCGTTACGA
1 ATTTGACTATCGCGTTGCGAATTTGACT-TCTACGTTACGA
* **
105660 ATTTGACTATCGCGTTGCGAATTTGACTTCTATGTTGTGA
1 ATTTGACTATCGCGTTGCGAATTTGACTTCTACGTTACGA
105700 ATTTGACTATCGCGTTGCGAATTTG
1 ATTTGACTATCGCGTTGCGAATTTG
105725 GAAAATCGCA
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
39 1 0.02
40 58 0.98
ACGTcount: A:0.20, C:0.16, G:0.23, T:0.41
Consensus pattern (40 bp):
ATTTGACTATCGCGTTGCGAATTTGACTTCTACGTTACGA
Found at i:105685 original size:60 final size:61
Alignment explanation
Indices: 105620--105761 Score: 153
Period size: 60 Copynumber: 2.3 Consensus size: 61
105610 GCGTAAAAAC
* * ** ***
105620 ATTTGACTTTCGCGTTGCGAATTTGACTATTGCGTTACGAATTT-GACTATCGCGTTGCGA
1 ATTTGACTTTCACGTTGCGAATTTGACTATCGCGTTACGAATTTGGAAAATCGCAACGCGA
* * *
105680 ATTTGAC-TTCTATGTTGTGAATTTGACTATCGCGTTGCGAATTTGGAAAATCGCAACGCGA
1 ATTTGACTTTC-ACGTTGCGAATTTGACTATCGCGTTACGAATTTGGAAAATCGCAACGCGA
* *
105741 ATTTGACTATCTCGTTGCGAA
1 ATTTGACTTTCACGTTGCGAA
105762 ATTGGAAACT
Statistics
Matches: 65, Mismatches: 14, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
59 3 0.05
60 35 0.54
61 25 0.38
62 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.37
Consensus pattern (61 bp):
ATTTGACTTTCACGTTGCGAATTTGACTATCGCGTTACGAATTTGGAAAATCGCAACGCGA
Found at i:112915 original size:7 final size:7
Alignment explanation
Indices: 112903--112939 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
112893 GTCAAAGAAA
112903 GTCAACG
1 GTCAACG
112910 GTCAACG
1 GTCAACG
112917 GTC-ACG
1 GTCAACG
112923 GTCAACG
1 GTCAACG
112930 GTCAACG
1 GTCAACG
112937 GTC
1 GTC
112940 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:112925 original size:13 final size:14
Alignment explanation
Indices: 112903--112939 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
112893 GTCAAAGAAA
112903 GTCAACGGTCAACG
1 GTCAACGGTCAACG
112917 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
112930 GTCAACGGTC
1 GTCAACGGTC
112940 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:112968 original size:19 final size:19
Alignment explanation
Indices: 112946--113054 Score: 148
Period size: 19 Copynumber: 5.7 Consensus size: 19
112936 GGTCGGGTCG
*
112946 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
112965 GGTCAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
112984 GGTTAAACCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
113003 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAG-ACC
* * *
113022 GGTCAAACTGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
113042 GGTCAAACCGGTT
1 GGTCAAACCGGTT
113055 TTCCAGCAGC
Statistics
Matches: 80, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
18 1 0.01
19 65 0.81
20 14 0.17
ACGTcount: A:0.27, C:0.28, G:0.26, T:0.19
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:113021 original size:10 final size:9
Alignment explanation
Indices: 112948--113037 Score: 69
Period size: 10 Copynumber: 9.4 Consensus size: 9
112938 TCGGGTCGGG
112948 TCAACCCGGT
1 TCAA-CCGGT
112958 TCAGACCGG-
1 TCA-ACCGGT
112967 TCAAACCGGT
1 TC-AACCGGT
112977 TCAGACCGGT
1 TCA-ACCGGT
*
112987 TAAACCGGT
1 TCAACCGGT
112996 TCAGACCGG-
1 TCA-ACCGGT
113005 TCAAACCGGT
1 TC-AACCGGT
113015 TCGAACCGG-
1 TC-AACCGGT
*
113024 TCAAACTGGT
1 TC-AACCGGT
113034 TCAA
1 TCAA
113038 AACTGGTCAA
Statistics
Matches: 67, Mismatches: 5, Indels: 17
0.75 0.06 0.19
Matches are distributed among these distances:
9 32 0.48
10 34 0.51
11 1 0.01
ACGTcount: A:0.27, C:0.30, G:0.24, T:0.19
Consensus pattern (9 bp):
TCAACCGGT
Found at i:113038 original size:10 final size:10
Alignment explanation
Indices: 112948--113054 Score: 107
Period size: 9 Copynumber: 11.1 Consensus size: 10
112938 TCGGGTCGGG
*
112948 TCAACCCGGT
1 TCAAACCGGT
*
112958 TCAGACCGG-
1 TCAAACCGGT
112967 TCAAACCGGT
1 TCAAACCGGT
*
112977 TCAGACCGGT
1 TCAAACCGGT
112987 T-AAACCGGT
1 TCAAACCGGT
*
112996 TCAGACCGG-
1 TCAAACCGGT
113005 TCAAACCGGT
1 TCAAACCGGT
*
113015 TCGAACCGG-
1 TCAAACCGGT
*
113024 TCAAACTGGT
1 TCAAACCGGT
*
113034 TCAAAACTGG-
1 TC-AAACCGGT
113044 TCAAACCGGT
1 TCAAACCGGT
113054 T
1 T
113055 TTCCAGCAGC
Statistics
Matches: 80, Mismatches: 11, Indels: 12
0.78 0.11 0.12
Matches are distributed among these distances:
9 37 0.46
10 36 0.45
11 7 0.09
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:120256 original size:13 final size:14
Alignment explanation
Indices: 120234--120270 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
120224 GTCAAAGAAA
120234 GTCAACGGTCAACG
1 GTCAACGGTCAACG
120248 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
120261 GTCAACGGTC
1 GTCAACGGTC
120271 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:120282 original size:17 final size:17
Alignment explanation
Indices: 120260--120317 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
120250 CACGGTCAAC
120260 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
120277 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
120294 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
120311 GGTCAAC
1 GGTCAAC
120318 CCGGTTCAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.16, C:0.24, G:0.43, T:0.17
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:120287 original size:7 final size:7
Alignment explanation
Indices: 120234--120270 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
120224 GTCAAAGAAA
120234 GTCAACG
1 GTCAACG
120241 GTCAACG
1 GTCAACG
120248 GTC-ACG
1 GTCAACG
120254 GTCAACG
1 GTCAACG
120261 GTCAACG
1 GTCAACG
120268 GTC
1 GTC
120271 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:120335 original size:19 final size:19
Alignment explanation
Indices: 120311--120381 Score: 97
Period size: 19 Copynumber: 3.7 Consensus size: 19
120301 AGTCGGGTCG
*
120311 GGTCAACCCGGTTCAGACC
1 GGTCAAACCGGTTCAGACC
*
120330 GGTCAAACCAGTTCAGACC
1 GGTCAAACCGGTTCAGACC
* *
120349 GGTCAAACCGGTTCAAAACT
1 GGTCAAACCGGTTC-AGACC
120369 GGTCAAACCGGTT
1 GGTCAAACCGGTT
120382 TTCCAGCAGC
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
19 30 0.65
20 16 0.35
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (19 bp):
GGTCAAACCGGTTCAGACC
Found at i:120360 original size:9 final size:9
Alignment explanation
Indices: 120311--120380 Score: 59
Period size: 9 Copynumber: 7.3 Consensus size: 9
120301 AGTCGGGTCG
*
120311 GGTCAACCC
1 GGTCAAACC
*
120320 GGTTCAGACC
1 GG-TCAAACC
120330 GGTCAAACC
1 GGTCAAACC
* *
120339 AGTTCAGACC
1 -GGTCAAACC
120349 GGTCAAACC
1 GGTCAAACC
*
120358 GGTTCAAAACT
1 GG-TC-AAACC
120369 GGTCAAACC
1 GGTCAAACC
120378 GGT
1 GGT
120381 TTTCCAGCAG
Statistics
Matches: 48, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
9 24 0.50
10 18 0.38
11 6 0.12
ACGTcount: A:0.29, C:0.30, G:0.24, T:0.17
Consensus pattern (9 bp):
GGTCAAACC
Found at i:125449 original size:20 final size:20
Alignment explanation
Indices: 125424--125468 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
125414 ATCATCCAAT
*
125424 TTTTTAAACCTCATACCGGA
1 TTTTTAAACCTCAGACCGGA
125444 TTTTTAAACCTCAGACCGGA
1 TTTTTAAACCTCAGACCGGA
125464 TTTTT
1 TTTTT
125469 TTCCAGATAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (20 bp):
TTTTTAAACCTCAGACCGGA
Found at i:125607 original size:20 final size:20
Alignment explanation
Indices: 125567--125608 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
125557 CGGTTATACT
* * *
125567 ATCCGGTTTTAAAATATCCG
1 ATCCGGTTTAAAAAAAACCG
125587 ATCCGGTTTAAAAAAAACCG
1 ATCCGGTTTAAAAAAAACCG
125607 AT
1 AT
125609 TTTTCCCGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (20 bp):
ATCCGGTTTAAAAAAAACCG
Found at i:126027 original size:2 final size:2
Alignment explanation
Indices: 126020--126052 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
126010 ATCCTATCCC
126020 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
126053 AATACTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:126475 original size:16 final size:18
Alignment explanation
Indices: 126454--126486 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
126444 CATAATAAGA
126454 ATTATGA-AT-ATTTTTT
1 ATTATGAGATCATTTTTT
126470 ATTATGAGATCATTTTT
1 ATTATGAGATCATTTTT
126487 CGTATCGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 2 0.13
18 6 0.40
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (18 bp):
ATTATGAGATCATTTTTT
Found at i:129153 original size:3 final size:3
Alignment explanation
Indices: 129145--129268 Score: 176
Period size: 3 Copynumber: 40.7 Consensus size: 3
129135 TTTATCCATT
* * * *
129145 TTA TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TCA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
129193 TTA TTA TTA TTA TTA TTA TTA TTA ATA TTTA TTA TTA TTA TTA ATA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA
129239 TTA TATA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT
129269 TAATAAATAA
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
3 102 0.95
4 5 0.05
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:130445 original size:19 final size:19
Alignment explanation
Indices: 130407--130442 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
130397 CAATTTAGTC
130407 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
130426 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
130443 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:142299 original size:19 final size:20
Alignment explanation
Indices: 142266--142307 Score: 68
Period size: 19 Copynumber: 2.1 Consensus size: 20
142256 TTTAAGTTCA
*
142266 ATTTATTGGAGATTCAATTT
1 ATTTATTGGAAATTCAATTT
142286 ATTT-TTGGAAATTCAATTT
1 ATTTATTGGAAATTCAATTT
142305 ATT
1 ATT
142308 CTTTTCTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 17 0.81
20 4 0.19
ACGTcount: A:0.31, C:0.05, G:0.12, T:0.52
Consensus pattern (20 bp):
ATTTATTGGAAATTCAATTT
Found at i:142942 original size:52 final size:52
Alignment explanation
Indices: 142864--143388 Score: 984
Period size: 52 Copynumber: 10.1 Consensus size: 52
142854 TATGTGCTCA
*
142864 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
142916 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
142968 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
143019 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGAACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
*
143071 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTAGA-AGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143122 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143174 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143226 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143278 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
143330 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAATC
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAA-C
143383 A-AGCAT
1 ATAGCAT
143389 TGAATTTAGA
Statistics
Matches: 463, Mismatches: 7, Indels: 6
0.97 0.01 0.01
Matches are distributed among these distances:
51 99 0.21
52 362 0.78
53 2 0.00
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (52 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTGGACAGAAC
Found at i:144204 original size:113 final size:113
Alignment explanation
Indices: 144006--144909 Score: 1565
Period size: 113 Copynumber: 8.0 Consensus size: 113
143996 TTTAGCAAAG
* * *
144006 ACCTGAATCCATCATTTGGTGGATCAACATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
144071 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
144119 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
144184 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
* *
144232 ACCTGAATCCATCATTTGGTGGATCATCATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
144297 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
* *
144345 ACCTGAATCCATCATTTGGTGGATCATCATTACCAGAGAAGGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
144410 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
144458 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
144523 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
144571 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
144636 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*
144684 ACCTGAATCCATCATTTGGTGGATCATCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
* *
144749 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACTTTTT
66 GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
*** * * * * ** *
144797 GTTTAAATTCATCATTTGATGGATCAACATGGCCAAAGAAAGTTCATGAATGAGAAGAACTCATC
1 ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCAT-AATGAGAAGAACTCATC
* **
144862 TGAAGAAGGAAGAAGAAGTTCATAATGAGAGGAGCTTGTTCAACCTTT
65 TGAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTT
144910 GTTTGATATC
Statistics
Matches: 764, Mismatches: 26, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
113 702 0.92
114 62 0.08
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
ACCTGAATCCATCATTTGGTGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCT
GAAGAAGGAAGAAGAAGTTCATAATGAGAAGAATTTGTTCAACCTTTT
Found at i:145214 original size:3 final size:3
Alignment explanation
Indices: 145206--145323 Score: 164
Period size: 3 Copynumber: 38.7 Consensus size: 3
145196 TTTATCCATT
* * * *
145206 TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TCA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
145254 TTA TTA TTA TTA TTA TTA TTA ATA TTTA TTA TTA TTA TTA ATA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA
145300 TATA TTA TTA TTA TTA TTA TTA TT
1 T-TA TTA TTA TTA TTA TTA TTA TT
145324 TAATAAATAA
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
3 96 0.95
4 5 0.05
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:146048 original size:13 final size:13
Alignment explanation
Indices: 146030--146058 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
146020 ACCACCGTTA
146030 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
146043 CGGTGGCCGGCGG
1 CGGTGGCCGGCGG
146056 CGG
1 CGG
146059 AGTACGGTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.31, G:0.62, T:0.07
Consensus pattern (13 bp):
CGGTGGCCGGCGG
Found at i:146517 original size:19 final size:19
Alignment explanation
Indices: 146479--146514 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
146469 CAATTTAGTC
146479 ATTTATTTTATATGTTTTA
1 ATTTATTTTATATGTTTTA
146498 ATTTATTTTAT-TGTTTT
1 ATTTATTTTATATGTTTT
146515 TAAATATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.22, C:0.00, G:0.06, T:0.72
Consensus pattern (19 bp):
ATTTATTTTATATGTTTTA
Found at i:156261 original size:5 final size:5
Alignment explanation
Indices: 156247--156290 Score: 61
Period size: 5 Copynumber: 8.8 Consensus size: 5
156237 GTCCGTCCGT
* * *
156247 CTCGT CTCGG CTCGG CACGG CACGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
156291 TGGTCGTGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
5 36 1.00
ACGTcount: A:0.05, C:0.41, G:0.36, T:0.18
Consensus pattern (5 bp):
CTCGG
Found at i:156299 original size:6 final size:6
Alignment explanation
Indices: 156288--156372 Score: 125
Period size: 6 Copynumber: 14.2 Consensus size: 6
156278 TCGGCTCGGC
* * * * *
156288 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TCGAGG TCGAGG TCGAGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
156336 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG T
156373 AATACGTGTC
Statistics
Matches: 77, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 77 1.00
ACGTcount: A:0.06, C:0.16, G:0.49, T:0.28
Consensus pattern (6 bp):
TCGTGG
Found at i:156672 original size:22 final size:22
Alignment explanation
Indices: 156647--156701 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
156637 TCAGGAGTTA
* *
156647 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
156669 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
156691 CGGGAGTTATA
1 CAGGAGTTATA
156702 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Found at i:162224 original size:5 final size:5
Alignment explanation
Indices: 162210--162258 Score: 62
Period size: 5 Copynumber: 9.8 Consensus size: 5
162200 GTCCGTCCGT
* * * *
162210 CTCGT CTCGG CTCGG CACGG CACGG CACGG CTCGG CTCGG CTCGG CTCG
1 CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCGG CTCG
162259 TGGTCGTGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 41 1.00
ACGTcount: A:0.06, C:0.41, G:0.37, T:0.16
Consensus pattern (5 bp):
CTCGG
Found at i:162267 original size:6 final size:6
Alignment explanation
Indices: 162256--162313 Score: 77
Period size: 6 Copynumber: 10.2 Consensus size: 6
162246 TCGGCTCGGC
* *
162256 TCGTGG TCGTGG TCGTGG TCGAGG TCGAGG TC---G TCGTGG TCGTGG
1 TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG TCGTGG
162301 TCGTGG TCGTGG T
1 TCGTGG TCGTGG T
162314 AATACGTGTC
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
3 3 0.06
6 45 0.94
ACGTcount: A:0.03, C:0.17, G:0.48, T:0.31
Consensus pattern (6 bp):
TCGTGG
Found at i:162293 original size:21 final size:21
Alignment explanation
Indices: 162267--162310 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
162257 CGTGGTCGTG
162267 GTCGTGGTCGAGGTCGAGGTC
1 GTCGTGGTCGAGGTCGAGGTC
* *
162288 GTCGTGGTCGTGGTCGTGGTC
1 GTCGTGGTCGAGGTCGAGGTC
162309 GT
1 GT
162311 GGTAATACGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.05, C:0.18, G:0.48, T:0.30
Consensus pattern (21 bp):
GTCGTGGTCGAGGTCGAGGTC
Found at i:162609 original size:22 final size:22
Alignment explanation
Indices: 162584--162638 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 22
162574 TCAGGAGTTA
* *
162584 CAGGAGTTATTTGATTTAATTC
1 CAGGAGTTATATGATATAATTC
* * *
162606 CAGGGGTTACATGATATAATTT
1 CAGGAGTTATATGATATAATTC
*
162628 CGGGAGTTATA
1 CAGGAGTTATA
162639 ACAGCTGAAT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (22 bp):
CAGGAGTTATATGATATAATTC
Done.