Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 79 of 352
Found at i:24907288 original size:9 final size:9
Alignment explanation
Indices: 24907276--24907308 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 9
24907266 CTAATAACAA
24907276 ATTTAAAAT
1 ATTTAAAAT
24907285 ATTTAAAAT
1 ATTTAAAAT
24907294 ATTT-AAAT
1 ATTTAAAAT
24907302 A-TTAAAA
1 ATTTAAAA
24907309 AAGTAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
7 2 0.09
8 8 0.35
9 13 0.57
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (9 bp):
ATTTAAAAT
Found at i:24907303 original size:17 final size:17
Alignment explanation
Indices: 24907274--24907330 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 17
24907264 AACTAATAAC
24907274 AAAT-TTAAAATATTTA
1 AAATATTAAAATATTTA
*
24907290 AAATATTTAAATA-TTA
1 AAATATTAAAATATTTA
* *
24907306 AAAAAGT--AATATTTA
1 AAATATTAAAATATTTA
24907321 AAAT-TTAAAA
1 AAATATTAAAA
24907331 AAGTAATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 8
0.71 0.11 0.18
Matches are distributed among these distances:
14 5 0.16
15 6 0.19
16 14 0.44
17 7 0.22
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.39
Consensus pattern (17 bp):
AAATATTAAAATATTTA
Found at i:24907316 original size:68 final size:67
Alignment explanation
Indices: 24907211--24907337 Score: 161
Period size: 68 Copynumber: 1.9 Consensus size: 67
24907201 AATATCTTTA
*
24907211 AAAATAATTTAAAATATTATAAAACAAATTAAATAATATTTAAACATTTATAAAACTAATAACAA
1 AAAATAATTTAAAATATTATAAAACAAA-TAAATAATATTTAAA-ATTTAAAAAACTAATAACAA
24907276 ATTT
64 ATTT
* *
24907280 AAAAT-ATTTAAAATATT-TAAATATTAAA-AAAGTAATATTTAAAATTTAAAAAAGTAAT
1 AAAATAATTTAAAATATTATAAA-A-CAAATAAA-TAATATTTAAAATTTAAAAAACTAAT
24907338 TTCAAAATAT
Statistics
Matches: 52, Mismatches: 3, Indels: 8
0.83 0.05 0.13
Matches are distributed among these distances:
67 20 0.38
68 24 0.46
69 8 0.15
ACGTcount: A:0.60, C:0.03, G:0.02, T:0.35
Consensus pattern (67 bp):
AAAATAATTTAAAATATTATAAAACAAATAAATAATATTTAAAATTTAAAAAACTAATAACAAAT
TT
Found at i:24907318 original size:22 final size:22
Alignment explanation
Indices: 24907291--24907345 Score: 78
Period size: 22 Copynumber: 2.5 Consensus size: 22
24907281 AAATATTTAA
24907291 AATATTT-AAATATTAAAAAAGT
1 AATATTTAAAAT-TTAAAAAAGT
24907313 AATATTTAAAATTTAAAAAAGT
1 AATATTTAAAATTTAAAAAAGT
*
24907335 AAT-TTCAAAAT
1 AATATTTAAAAT
24907346 ATATATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
21 7 0.23
22 20 0.65
23 4 0.13
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.36
Consensus pattern (22 bp):
AATATTTAAAATTTAAAAAAGT
Found at i:24908793 original size:16 final size:16
Alignment explanation
Indices: 24908772--24908809 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
24908762 TATGATATAT
* *
24908772 ATAATATAAATTTTAA
1 ATAATAAAAATATTAA
24908788 ATAATAAAAATATTAA
1 ATAATAAAAATATTAA
24908804 A-AATAA
1 ATAATAA
24908810 TTTATTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 5 0.25
16 15 0.75
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
ATAATAAAAATATTAA
Found at i:24930251 original size:9 final size:9
Alignment explanation
Indices: 24930239--24930263 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
24930229 TTAAAATTTT
24930239 AAAAATTCA
1 AAAAATTCA
24930248 AAAAATTCA
1 AAAAATTCA
24930257 AAAAATT
1 AAAAATT
24930264 ATTTTTACAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
AAAAATTCA
Found at i:24933928 original size:21 final size:22
Alignment explanation
Indices: 24933902--24933948 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
24933892 CTCTGCTCAA
*
24933902 ACTCCACCTGCTGCGGAGTAC-
1 ACTCCACCTGCTGCGAAGTACT
24933923 ACTCCACCTGCTGCGAAGTACT
1 ACTCCACCTGCTGCGAAGTACT
24933945 ACTC
1 ACTC
24933949 ACTCCTTCTG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 20 0.83
22 4 0.17
ACGTcount: A:0.21, C:0.38, G:0.19, T:0.21
Consensus pattern (22 bp):
ACTCCACCTGCTGCGAAGTACT
Found at i:24939267 original size:24 final size:24
Alignment explanation
Indices: 24939214--24939267 Score: 56
Period size: 24 Copynumber: 2.3 Consensus size: 24
24939204 AAAAAGATAA
*
24939214 TTTATA-TTATATTAATTTAATAT
1 TTTATATTTATATTAATTAAATAT
* * * *
24939237 TTAATATTTTTATTTATTAAATTT
1 TTTATATTTATATTAATTAAATAT
24939261 TTTATAT
1 TTTATAT
24939268 AATCATATTA
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATATTTATATTAATTAAATAT
Found at i:24941393 original size:19 final size:19
Alignment explanation
Indices: 24941349--24941396 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
24941339 CTATCCATGT
* *
24941349 ATCTT-AAACACAAATCTA
1 ATCTTAAAACAAAAATATA
*
24941367 ATTTTTAAAACAAAAATATA
1 A-TCTTAAAACAAAAATATA
24941387 ATCTTAAAAC
1 ATCTTAAAAC
24941397 TTATTTCTAA
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 1 0.04
19 11 0.46
20 12 0.50
ACGTcount: A:0.54, C:0.15, G:0.00, T:0.31
Consensus pattern (19 bp):
ATCTTAAAACAAAAATATA
Found at i:24941842 original size:21 final size:21
Alignment explanation
Indices: 24941785--24941842 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
24941775 AATTGTGAAT
24941785 ACCTATTAAAAT-A-TTTTTC
1 ACCTATTAAAATAATTTTTTC
* * *
24941804 ATCTATTAAATTATTTTTTTC
1 ACCTATTAAAATAATTTTTTC
*
24941825 ACCTATTAAAGTAATTTT
1 ACCTATTAAAATAATTTT
24941843 AACTTGATAG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
19 10 0.32
21 21 0.68
ACGTcount: A:0.34, C:0.12, G:0.02, T:0.52
Consensus pattern (21 bp):
ACCTATTAAAATAATTTTTTC
Found at i:24945269 original size:18 final size:18
Alignment explanation
Indices: 24945246--24945286 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
24945236 TTCCATTAGG
*
24945246 TTAATTAAATTAGGTTAC
1 TTAATTAAATTAGGTTAA
* *
24945264 TTAATTTAATTAGTTTAA
1 TTAATTAAATTAGGTTAA
24945282 TTAAT
1 TTAAT
24945287 ATTCTAATTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.51
Consensus pattern (18 bp):
TTAATTAAATTAGGTTAA
Found at i:24947655 original size:50 final size:50
Alignment explanation
Indices: 24947575--24947673 Score: 144
Period size: 50 Copynumber: 2.0 Consensus size: 50
24947565 TACGAGTTAT
* ** * *
24947575 GAATCGGTATGCTCTCACGAGCTGTGAATCGGTAAGCTCATATGAGCTGA
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTGA
*
24947625 GAATCGTTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTG
1 GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTG
24947674 TGGTATGTCC
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.23
Consensus pattern (50 bp):
GAATCGGTAAGCTCTCACGAGCTGCAAATCGGTAAGCTCAAACGAGCTGA
Found at i:24947673 original size:25 final size:24
Alignment explanation
Indices: 24947576--24947673 Score: 97
Period size: 25 Copynumber: 4.0 Consensus size: 24
24947566 ACGAGTTATG
* * *
24947576 AATCGGTATGCTCTCACGAGCTGTG
1 AATCGGTAAGCTCACACGAGCTG-A
* *
24947601 AATCGGTAAGCTCATATGAGCTGA
1 AATCGGTAAGCTCACACGAGCTGA
* *
24947625 GAATCGTTAAGCTCTCACGAGCTGCA
1 -AATCGGTAAGCTCACACGAGCTG-A
*
24947651 AATCGGTAAGCTCAAACGAGCTG
1 AATCGGTAAGCTCACACGAGCTG
24947674 TGGTATGTCC
Statistics
Matches: 59, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
25 58 0.98
26 1 0.02
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (24 bp):
AATCGGTAAGCTCACACGAGCTGA
Found at i:24950842 original size:22 final size:22
Alignment explanation
Indices: 24950811--24950852 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
24950801 CTGTTGTGGT
24950811 TATCGCGATACCCAAACCTGGG
1 TATCGCGATACCCAAACCTGGG
* *
24950833 TATCGTGATACCTAAACCTG
1 TATCGCGATACCCAAACCTG
24950853 ACAAGTGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.24
Consensus pattern (22 bp):
TATCGCGATACCCAAACCTGGG
Found at i:24952545 original size:46 final size:47
Alignment explanation
Indices: 24952482--24952802 Score: 422
Period size: 46 Copynumber: 7.0 Consensus size: 47
24952472 TTCGACATGA
* * * * * * *
24952482 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
* * ** ** *
24952528 TGCCATGGTATCATTCAACCAAGGTCTTATTCA-TTTCCCCATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTT-CATATCAGGT
* *
24952575 TGCCATGGTATCTTTTAACCATGGTCTTAAACA-TTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
24952621 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
24952667 TGCTATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
24952713 TGCCATGGTATCTTTCAACCATGGTCTTACAC-GTTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
*
24952759 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTTC-TATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAG
24952803 AGAGCACACT
Statistics
Matches: 249, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 3 0.01
46 206 0.83
47 40 0.16
ACGTcount: A:0.22, C:0.24, G:0.16, T:0.39
Consensus pattern (47 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACAGTTTCATATCAGGT
Found at i:24954960 original size:11 final size:11
Alignment explanation
Indices: 24954944--24954995 Score: 52
Period size: 11 Copynumber: 4.7 Consensus size: 11
24954934 TATACTAAAT
24954944 AAATAATAATA
1 AAATAATAATA
*
24954955 AAATAAT-ATT
1 AAATAATAATA
* *
24954965 AAATATCTCATA
1 AAATA-ATAATA
*
24954977 AAATATTAATA
1 AAATAATAATA
24954988 AAATAATA
1 AAATAATA
24954996 TTTATCTAAT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
10 7 0.21
11 19 0.58
12 7 0.21
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (11 bp):
AAATAATAATA
Found at i:24958227 original size:12 final size:12
Alignment explanation
Indices: 24958206--24958249 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
24958196 TGTCATTAAC
24958206 ATATAAAACCAA
1 ATATAAAACCAA
*
24958218 ATATAGAACCTTAA
1 ATATAAAACC--AA
24958232 CATATAAAACCAA
1 -ATATAAAACCAA
24958245 ATATA
1 ATATA
24958250 GAACTTACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
12 14 0.52
13 2 0.07
14 2 0.07
15 9 0.33
ACGTcount: A:0.59, C:0.16, G:0.02, T:0.23
Consensus pattern (12 bp):
ATATAAAACCAA
Found at i:24958232 original size:27 final size:27
Alignment explanation
Indices: 24958201--24958253 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
24958191 CAATATGTCA
24958201 TTAACATATAAAACCAAATATAGAACC
1 TTAACATATAAAACCAAATATAGAACC
24958228 TTAACATATAAAACCAAATATAGAAC
1 TTAACATATAAAACCAAATATAGAAC
24958254 TTACTCCCAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.57, C:0.17, G:0.04, T:0.23
Consensus pattern (27 bp):
TTAACATATAAAACCAAATATAGAACC
Found at i:24958242 original size:15 final size:15
Alignment explanation
Indices: 24958201--24958242 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 15
24958191 CAATATGTCA
24958201 TTAACATATAAAACC
1 TTAACATATAAAACC
*
24958216 --AA-ATATAGAACC
1 TTAACATATAAAACC
24958228 TTAACATATAAAACC
1 TTAACATATAAAACC
24958243 AAATATAGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 6
0.73 0.07 0.20
Matches are distributed among these distances:
12 9 0.41
13 2 0.09
14 2 0.09
15 9 0.41
ACGTcount: A:0.55, C:0.19, G:0.02, T:0.24
Consensus pattern (15 bp):
TTAACATATAAAACC
Found at i:24958271 original size:15 final size:15
Alignment explanation
Indices: 24958251--24958286 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
24958241 CCAAATATAG
24958251 AACTTACTCCCACTA
1 AACTTACTCCCACTA
24958266 AACTTACTCCCACTA
1 AACTTACTCCCACTA
24958281 AACTTA
1 AACTTA
24958287 TGGTATAAAC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.36, C:0.36, G:0.00, T:0.28
Consensus pattern (15 bp):
AACTTACTCCCACTA
Found at i:24960056 original size:23 final size:23
Alignment explanation
Indices: 24960014--24960057 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
24960004 GTAAAATCGA
*
24960014 ATAATTGTCACATGTTTATTACC
1 ATAATTGTCACATGTATATTACC
24960037 ATAATTG-CACATGTAATATTA
1 ATAATTGTCACATGT-ATATTA
24960058 TTAACCTTCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 7 0.37
23 12 0.63
ACGTcount: A:0.36, C:0.14, G:0.09, T:0.41
Consensus pattern (23 bp):
ATAATTGTCACATGTATATTACC
Found at i:24963289 original size:40 final size:40
Alignment explanation
Indices: 24963245--24963378 Score: 157
Period size: 40 Copynumber: 3.4 Consensus size: 40
24963235 AAAACACACC
* *
24963245 AATTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAGT
1 AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
* * * *
24963285 AATTTGACACCCAGTGTCTCATCGGCTAAACCGAAGTA--
1 AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
* *
24963323 AA-TTGGCACCCAGTGCCTCATCGAATTAATCCAAAGTAGT
1 AATTTGACACCCAGTGCCTCATCGGA-TAATCCAAAGTAGT
*
24963363 AAATTGACACCCAGTG
1 AATTTGACACCCAGTG
24963379 TCTTATCGAC
Statistics
Matches: 77, Mismatches: 13, Indels: 7
0.79 0.13 0.07
Matches are distributed among these distances:
37 19 0.25
38 12 0.16
40 34 0.44
41 12 0.16
ACGTcount: A:0.32, C:0.25, G:0.19, T:0.25
Consensus pattern (40 bp):
AATTTGACACCCAGTGCCTCATCGGATAATCCAAAGTAGT
Found at i:24963374 original size:41 final size:40
Alignment explanation
Indices: 24963252--24963387 Score: 143
Period size: 41 Copynumber: 3.5 Consensus size: 40
24963242 ACCAATTTGG
* * *
24963252 CACCCAGTGCCTCATCGGATAATTCAAAGTAGTAATTTGA
1 CACCCAGTGCCTCATCGAATAATCCAAAGTAGTAAATTGA
* ** * * *
24963292 CACCCAGTGTCTCATCGGCTAAACC---GAAGTAAATTGG
1 CACCCAGTGCCTCATCGAATAATCCAAAGTAGTAAATTGA
24963329 CACCCAGTGCCTCATCGAATTAATCCAAAGTAGTAAATTGA
1 CACCCAGTGCCTCATCGAA-TAATCCAAAGTAGTAAATTGA
* *
24963370 CACCCAGTGTCTTATCGA
1 CACCCAGTGCCTCATCGA
24963388 CTTGAAGTCG
Statistics
Matches: 77, Mismatches: 15, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
37 25 0.32
38 5 0.06
40 21 0.27
41 26 0.34
ACGTcount: A:0.32, C:0.26, G:0.18, T:0.25
Consensus pattern (40 bp):
CACCCAGTGCCTCATCGAATAATCCAAAGTAGTAAATTGA
Found at i:24966001 original size:31 final size:31
Alignment explanation
Indices: 24965953--24966011 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
24965943 GTCATTAAAT
* *
24965953 TATTCAAAATTTTTTATTTATGTTACTGAAG
1 TATTCAAAAGTTTTTATTTAAGTTACTGAAG
*
24965984 TATTTAAAAGTTTTTATTTAAGTTACTG
1 TATTCAAAAGTTTTTATTTAAGTTACTG
24966012 GGCTATTAAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.32, C:0.05, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTCAAAAGTTTTTATTTAAGTTACTGAAG
Found at i:24976469 original size:15 final size:16
Alignment explanation
Indices: 24976442--24976471 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
24976432 ATTTTATTTT
24976442 AATAATGAATTTTAAC
1 AATAATGAATTTTAAC
24976458 AATAAT-AATTTTAA
1 AATAATGAATTTTAA
24976472 AATTTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.40
Consensus pattern (16 bp):
AATAATGAATTTTAAC
Found at i:24978001 original size:36 final size:38
Alignment explanation
Indices: 24977921--24978001 Score: 96
Period size: 36 Copynumber: 2.2 Consensus size: 38
24977911 AATAATTTGC
*
24977921 GGTTCTTTATTGTTTGTTATATGTTCTTTGAATATGCT
1 GGTTCTTTATTGTTTGTTATATGTTCTTTGAATATGAT
* *
24977959 GAGTTCTTTA-T-TTT-TTATTTGTTCTTTGAATGTGAT
1 G-GTTCTTTATTGTTTGTTATATGTTCTTTGAATATGAT
24977995 AGGTTCT
1 -GGTTCT
24978002 CTGTTTCTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
36 24 0.63
37 4 0.11
38 2 0.05
39 8 0.21
ACGTcount: A:0.16, C:0.07, G:0.19, T:0.58
Consensus pattern (38 bp):
GGTTCTTTATTGTTTGTTATATGTTCTTTGAATATGAT
Found at i:24982881 original size:19 final size:20
Alignment explanation
Indices: 24982857--24982894 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
24982847 TAATTAGATT
24982857 TTAATTAA-GTAAATTTAGC
1 TTAATTAAGGTAAATTTAGC
*
24982876 TTAATTAAGGTTAATTTAG
1 TTAATTAAGGTAAATTTAG
24982895 TGAAAGGACT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (20 bp):
TTAATTAAGGTAAATTTAGC
Found at i:24983099 original size:17 final size:17
Alignment explanation
Indices: 24983057--24983099 Score: 52
Period size: 17 Copynumber: 2.6 Consensus size: 17
24983047 ATGTATTTAC
*
24983057 TTATATAAT-AAGTAAA
1 TTATATTATAAAGTAAA
* *
24983073 TAATAATATAAAGTAAA
1 TTATATTATAAAGTAAA
24983090 TTATATTATA
1 TTATATTATA
24983100 TTATATAACT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.40
Consensus pattern (17 bp):
TTATATTATAAAGTAAA
Found at i:24983170 original size:31 final size:32
Alignment explanation
Indices: 24983133--24983198 Score: 98
Period size: 34 Copynumber: 2.0 Consensus size: 32
24983123 TAAATAAAGA
*
24983133 AGGAATAAAG-AAAATAAAAGAAATAAAACAT
1 AGGAATAAAGAAAAAAAAAAGAAATAAAACAT
24983164 AGGAATAAAGATAAAAAAAAAAGAAATAAAACAT
1 AGGAATAAAG--AAAAAAAAAAGAAATAAAACAT
24983198 A
1 A
24983199 AAGAAAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
31 10 0.32
34 21 0.68
ACGTcount: A:0.73, C:0.03, G:0.12, T:0.12
Consensus pattern (32 bp):
AGGAATAAAGAAAAAAAAAAGAAATAAAACAT
Found at i:24983191 original size:21 final size:22
Alignment explanation
Indices: 24983167--24983217 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
24983157 AAAACATAGG
24983167 AATAAAGATAAA-AAAAAAAGA
1 AATAAAGATAAAGAAAAAAAGA
* *
24983188 AATAAAACATAAAGAAAAAGAGA
1 AAT-AAAGATAAAGAAAAAAAGA
*
24983211 AAGAAAG
1 AATAAAG
24983218 GCACGAATAG
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 11 0.46
23 10 0.42
ACGTcount: A:0.76, C:0.02, G:0.14, T:0.08
Consensus pattern (22 bp):
AATAAAGATAAAGAAAAAAAGA
Found at i:24983208 original size:34 final size:34
Alignment explanation
Indices: 24983143--24983208 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
24983133 AGGAATAAAG
* *
24983143 AAAATAAAAGAAATAAAACATAGGAATAAAGATA
1 AAAAAAAAAGAAATAAAACATAAGAATAAAGATA
24983177 AAAAAAAAAGAAATAAAACATAAAGAA-AAAGA
1 AAAAAAAAAGAAATAAAACAT-AAGAATAAAGA
24983209 GAAAGAAAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 25 0.86
35 4 0.14
ACGTcount: A:0.76, C:0.03, G:0.11, T:0.11
Consensus pattern (34 bp):
AAAAAAAAAGAAATAAAACATAAGAATAAAGATA
Found at i:24985160 original size:22 final size:22
Alignment explanation
Indices: 24985105--24985160 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
24985095 CGGGTTAATG
* *
24985105 ACACGAGCGTGTCACATCAGCC
1 ACACGGGCGTGTCACACCAGCC
*
24985127 ATACGGGCGTGTCACACCAGCC
1 ACACGGGCGTGTCACACCAGCC
* *
24985149 ACATGGGTGTGT
1 ACACGGGCGTGT
24985161 GGTACTATTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.23, C:0.30, G:0.29, T:0.18
Consensus pattern (22 bp):
ACACGGGCGTGTCACACCAGCC
Found at i:24990545 original size:17 final size:18
Alignment explanation
Indices: 24990504--24990546 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24990494 TGTATTTACT
*
24990504 TATTATATAAGTACATAA
1 TATTATATAAGTAAATAA
* *
24990522 TAATATA-AAGTAAATTA
1 TATTATATAAGTAAATAA
24990539 TATTATAT
1 TATTATAT
24990547 TGTATAATTA
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.51, C:0.02, G:0.05, T:0.42
Consensus pattern (18 bp):
TATTATATAAGTAAATAA
Found at i:24993742 original size:24 final size:24
Alignment explanation
Indices: 24993714--24993765 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
24993704 TTAGTAAGTC
* *
24993714 AAATAAAATATGCTAATAAATGCT
1 AAATAAAATATACTAATAAATACT
* *
24993738 AAATATATTATACTAATAAATACT
1 AAATAAAATATACTAATAAATACT
24993762 AAAT
1 AAAT
24993766 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.08, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAAATATACTAATAAATACT
Found at i:25003401 original size:15 final size:15
Alignment explanation
Indices: 25003360--25003401 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
25003350 GTGTTGTTGG
*
25003360 ATTAAATTGAATGAA
1 ATTAATTTGAATGAA
*
25003375 ATTATGTTTGAATGAA
1 ATTA-ATTTGAATGAA
25003391 ATTAATTTGAA
1 ATTAATTTGAA
25003402 ATTGTATAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.14, T:0.40
Consensus pattern (15 bp):
ATTAATTTGAATGAA
Found at i:25005633 original size:20 final size:20
Alignment explanation
Indices: 25005610--25005649 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
25005600 CATGCCATAG
25005610 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
25005630 ATTGAAATTTGTCTCACCAT
1 ATTGAAATTTGTCTCACCAT
25005650 CGAACTTCTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.20, G:0.10, T:0.40
Consensus pattern (20 bp):
ATTGAAATTTGTCTCACCAT
Found at i:25008120 original size:15 final size:16
Alignment explanation
Indices: 25008100--25008130 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
25008090 AATATTATGA
25008100 TTTAAAATTT-TTATT
1 TTTAAAATTTATTATT
25008115 TTTAAAATTTATTATT
1 TTTAAAATTTATTATT
25008131 AAAATAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 10 0.67
16 5 0.33
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTAAAATTTATTATT
Found at i:25008948 original size:13 final size:15
Alignment explanation
Indices: 25008930--25008966 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
25008920 ATCAATCTAA
25008930 TAATTTTTA-T-AAT
1 TAATTTTTATTAAAT
25008943 TAATTTTTATTAAAT
1 TAATTTTTATTAAAT
*
25008958 TAATATTTA
1 TAATTTTTA
25008967 ATTTTAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 9 0.43
14 1 0.05
15 11 0.52
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TAATTTTTATTAAAT
Found at i:25010852 original size:21 final size:21
Alignment explanation
Indices: 25010826--25010868 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
25010816 TTGGGTGGAA
25010826 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
25010847 TCAGCTCTTATGAGCTTCTGT
1 TCAGCTCTTATGAGCTTCTGT
25010868 T
1 T
25010869 GGCATATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (21 bp):
TCAGCTCTTATGAGCTTCTGT
Found at i:25011122 original size:21 final size:21
Alignment explanation
Indices: 25011097--25011141 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 21
25011087 ATTTATATAG
*
25011097 TTAGTTCGGTAAGATTTTTGT
1 TTAGTTCAGTAAGATTTTTGT
*
25011118 TTAGTTTAGTAAGATTTTTGT
1 TTAGTTCAGTAAGATTTTTGT
25011139 TTA
1 TTA
25011142 TCTCGTGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.22, C:0.02, G:0.20, T:0.56
Consensus pattern (21 bp):
TTAGTTCAGTAAGATTTTTGT
Found at i:25014280 original size:18 final size:18
Alignment explanation
Indices: 25014225--25014282 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
25014215 GAAATTGTAG
25014225 CAAAATAATAAATAAA-AA
1 CAAAATAATAAA-AAACAA
25014243 -AACAATAATAAAATAACAA
1 CAA-AATAATAAAA-AACAA
*
25014262 CAAAATAGTAAAAAACAA
1 CAAAATAATAAAAAACAA
25014280 CAA
1 CAA
25014283 TAAAAACAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 3 0.09
18 19 0.54
19 11 0.31
20 2 0.06
ACGTcount: A:0.74, C:0.10, G:0.02, T:0.14
Consensus pattern (18 bp):
CAAAATAATAAAAAACAA
Found at i:25014293 original size:22 final size:21
Alignment explanation
Indices: 25014238--25014298 Score: 68
Period size: 22 Copynumber: 2.8 Consensus size: 21
25014228 AATAATAAAT
* *
25014238 AAAAAAACAATAATAAAATAAC
1 AAAAAAACAGTAA-AAAACAAC
* *
25014260 AACAAAATAGTAAAAAACAAC
1 AAAAAAACAGTAAAAAACAAC
25014281 AATAAAAACAGTAAAAAA
1 AA-AAAAACAGTAAAAAA
25014299 AGTCTTATTC
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 9 0.28
22 23 0.72
ACGTcount: A:0.75, C:0.10, G:0.03, T:0.11
Consensus pattern (21 bp):
AAAAAAACAGTAAAAAACAAC
Found at i:25015536 original size:51 final size:51
Alignment explanation
Indices: 25015468--25015571 Score: 208
Period size: 51 Copynumber: 2.0 Consensus size: 51
25015458 TCTATAATAA
25015468 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
1 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
25015519 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
1 CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
25015570 CA
1 CA
25015572 ACCTCTGTAG
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 53 1.00
ACGTcount: A:0.38, C:0.32, G:0.15, T:0.15
Consensus pattern (51 bp):
CATAGAAACGAGAGCTGTCACAAGGCATCACACCCCCAACTACATAATCTG
Found at i:25020829 original size:50 final size:51
Alignment explanation
Indices: 25020750--25020886 Score: 179
Period size: 50 Copynumber: 2.7 Consensus size: 51
25020740 TGTATAAATG
* * *
25020750 TTGATAGAAAGTATAAATATTGAAGGCTAAATTTATTAAATCAATATC-AA
1 TTGATAGAATGTGTAAATATTGAAGGCTAAATTTATTAAATCAAAATCAAA
* * *
25020800 TTGATAGGATGTGTAAATATTGCAA-GCTAAATTTATTAATTGAAAATCAAA
1 TTGATAGAATGTGTAAATATTG-AAGGCTAAATTTATTAAATCAAAATCAAA
* *
25020851 TTGATAGAATGTGTAAATTTTAAAGGCTAAATTTAT
1 TTGATAGAATGTGTAAATATTGAAGGCTAAATTTAT
25020887 CATTATATCA
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
50 41 0.55
51 34 0.45
ACGTcount: A:0.44, C:0.05, G:0.15, T:0.36
Consensus pattern (51 bp):
TTGATAGAATGTGTAAATATTGAAGGCTAAATTTATTAAATCAAAATCAAA
Found at i:25030142 original size:38 final size:38
Alignment explanation
Indices: 25030087--25030171 Score: 118
Period size: 38 Copynumber: 2.2 Consensus size: 38
25030077 AGTACATAGT
* *
25030087 CAACAGAAGCTCATAAGAGCTGGTCCTCCCGAAT-ACGC
1 CAACAGAAGCTCATAAGAGCTGATCCACCC-AATCACGC
*
25030125 CAACAGAAGCTCGTAAGAGCTGATCCACCCAATCACGC
1 CAACAGAAGCTCATAAGAGCTGATCCACCCAATCACGC
25030163 CAAACAGAA
1 C-AACAGAA
25030172 AGTAAAACAC
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
37 3 0.07
38 32 0.76
39 7 0.17
ACGTcount: A:0.36, C:0.32, G:0.19, T:0.13
Consensus pattern (38 bp):
CAACAGAAGCTCATAAGAGCTGATCCACCCAATCACGC
Found at i:25031815 original size:12 final size:14
Alignment explanation
Indices: 25031786--25031821 Score: 58
Period size: 12 Copynumber: 2.7 Consensus size: 14
25031776 CTCAAATTGT
25031786 AATTTATCATATTC
1 AATTTATCATATTC
25031800 AATTTATCA-A-TC
1 AATTTATCATATTC
25031812 AATTTATCAT
1 AATTTATCAT
25031822 TTCTTTACGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (14 bp):
AATTTATCATATTC
Found at i:25041282 original size:23 final size:22
Alignment explanation
Indices: 25041230--25041282 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
25041220 TCCACGTCTT
*
25041230 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
25041252 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
25041275 TTTCTTTT
1 TTTCTTTT
25041283 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:25043668 original size:6 final size:6
Alignment explanation
Indices: 25043657--25043682 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
25043647 ATAAATAAAT
25043657 AAATAA AAATAA AAATAA AAATAA AA
1 AAATAA AAATAA AAATAA AAATAA AA
25043683 CTTTACAACT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:25053150 original size:14 final size:15
Alignment explanation
Indices: 25053125--25053162 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
25053115 TAAGGTATAA
25053125 TATATTAT-TTTATT
1 TATATTATATTTATT
25053139 TATA-TATATTTATT
1 TATATTATATTTATT
25053153 TATATTATAT
1 TATATTATAT
25053163 AAAAATTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 3 0.14
14 14 0.64
15 5 0.23
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (15 bp):
TATATTATATTTATT
Found at i:25053151 original size:19 final size:18
Alignment explanation
Indices: 25053124--25053163 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
25053114 ATAAGGTATA
25053124 ATATATTATTT-TATTTAT
1 ATATATTATTTATA-TTAT
25053142 ATATATTTATTTATATTAT
1 ATATA-TTATTTATATTAT
25053161 ATA
1 ATA
25053164 AAAATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 5 0.25
19 13 0.65
20 2 0.10
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (18 bp):
ATATATTATTTATATTAT
Found at i:25053742 original size:13 final size:12
Alignment explanation
Indices: 25053712--25053760 Score: 50
Period size: 11 Copynumber: 4.2 Consensus size: 12
25053702 TAATTTATGA
*
25053712 AATTATATTTAT
1 AATTATATTAAT
25053724 AA--ATATTATAT
1 AATTATATTA-AT
*
25053735 AATTATATTAAA
1 AATTATATTAAT
25053747 AATT-TATTAAT
1 AATTATATTAAT
25053758 AAT
1 AAT
25053761 AATAAAAGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
10 5 0.16
11 13 0.42
12 7 0.23
13 6 0.19
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
AATTATATTAAT
Found at i:25053757 original size:20 final size:22
Alignment explanation
Indices: 25053712--25053767 Score: 62
Period size: 20 Copynumber: 2.6 Consensus size: 22
25053702 TAATTTATGA
*
25053712 AATTATATTTATAAATATTATAT
1 AATTATA-TTAAAAATATTATAT
25053735 AATTATATTAAAAAT-TTAT-T
1 AATTATATTAAAAATATTATAT
* *
25053755 AATAATAATAAAA
1 AATTATATTAAAA
25053768 GTAATTAATA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
20 12 0.40
21 4 0.13
22 7 0.23
23 7 0.23
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AATTATATTAAAAATATTATAT
Found at i:25060770 original size:40 final size:39
Alignment explanation
Indices: 25060739--25060909 Score: 227
Period size: 39 Copynumber: 4.3 Consensus size: 39
25060729 GGACTAAGAT
25060739 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
*
25060778 CCGAAGGCATTTGTGGGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * * *
25060817 CCAAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* * * *
25060857 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGATACTAAT-TCCGGGCTAAG-C
25060897 CCGAAGGCATTTG
1 CCGAAGGCATTTG
25060910 AACGAGTAGC
Statistics
Matches: 117, Mismatches: 13, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 72 0.62
40 45 0.38
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:25060916 original size:40 final size:39
Alignment explanation
Indices: 25060687--25060909 Score: 211
Period size: 39 Copynumber: 5.6 Consensus size: 39
25060677 TGAATGATGT
* * * *
25060687 CCGGGCTAAATCCCGAAGGC-TTTGTGCTAAGTAAC-CATA
1 CCGGGCT-AAGCCCGAAGGCATTTGTGC-GAGTTACTAATA
* * * *
25060726 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAATT
1 -CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAATA
* * *
25060767 CCGGGCTAAGCCCGAAGGCATTTGTGGGAGATACTAATT
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
*
25060806 CCGGGCTAAGCCCAAAGGCATTTGTGCGAGTTACTAA-A
1 CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
* *
25060844 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACT-ATAA
1 -CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAT-A
*
25060885 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAG-CCCGAAGGCATTTG
25060910 AACGAGTAGC
Statistics
Matches: 155, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
39 73 0.47
40 72 0.46
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAATA
Found at i:25060923 original size:40 final size:41
Alignment explanation
Indices: 25060686--25060909 Score: 241
Period size: 40 Copynumber: 5.6 Consensus size: 41
25060676 TTGAATGATG
* * * *
25060686 TCCGGGCTAAATCCCGAAGGC-TTTGTGCTAAGTAACCAT-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
25060726 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-AT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA
* * *
25060766 TCCGGGCTAAG-CCCGAAGGCATTTGTGGGAGATACTA-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25060805 TCCGGGCTAAG-CCCAAAGGCATTTGTGCGAGTTACTA-AA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
25060844 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
25060885 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
25060910 AACGAGTAGC
Statistics
Matches: 159, Mismatches: 19, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
39 71 0.45
40 78 0.49
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:25071318 original size:21 final size:21
Alignment explanation
Indices: 25071292--25071332 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
25071282 CCCCTGCCTA
25071292 TGGTCAAAATTGGGGGTCTCC
1 TGGTCAAAATTGGGGGTCTCC
*
25071313 TGGTCAAAATTGGTGGTCTC
1 TGGTCAAAATTGGGGGTCTC
25071333 ACGATCGGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.20, C:0.17, G:0.32, T:0.32
Consensus pattern (21 bp):
TGGTCAAAATTGGGGGTCTCC
Found at i:25082247 original size:10 final size:10
Alignment explanation
Indices: 25082226--25082287 Score: 61
Period size: 10 Copynumber: 6.1 Consensus size: 10
25082216 AATTAAATTC
25082226 TAAAAGATAAA
1 TAAAA-ATAAA
25082237 TAAAAATAAA
1 TAAAAATAAA
* *
25082247 TAAAGATAAT
1 TAAAAATAAA
* *
25082257 TAAAGATAGA
1 TAAAAATAAA
*
25082267 TAAAGATAAA
1 TAAAAATAAA
*
25082277 TGAAAATAAA
1 TAAAAATAAA
25082287 T
1 T
25082288 CCTAAATTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
10 39 0.89
11 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.23
Consensus pattern (10 bp):
TAAAAATAAA
Found at i:25082251 original size:20 final size:20
Alignment explanation
Indices: 25082228--25082287 Score: 84
Period size: 20 Copynumber: 3.0 Consensus size: 20
25082218 TTAAATTCTA
25082228 AAAGATAAATAAAAATAAAT
1 AAAGATAAATAAAAATAAAT
* * *
25082248 AAAGATAATTAAAGATAGAT
1 AAAGATAAATAAAAATAAAT
*
25082268 AAAGATAAATGAAAATAAAT
1 AAAGATAAATAAAAATAAAT
25082288 CCTAAATTTA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.68, C:0.00, G:0.10, T:0.22
Consensus pattern (20 bp):
AAAGATAAATAAAAATAAAT
Found at i:25082262 original size:30 final size:30
Alignment explanation
Indices: 25082228--25082285 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
25082218 TTAAATTCTA
25082228 AAAGATAAATAAAAATAAAT-AAAGATAATT
1 AAAGATAAATAAAAATAAATGAAA-ATAATT
* *
25082258 AAAGATAGATAAAGATAAATGAAAATAA
1 AAAGATAAATAAAAATAAATGAAAATAA
25082286 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 22 0.88
31 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (30 bp):
AAAGATAAATAAAAATAAATGAAAATAATT
Found at i:25086635 original size:34 final size:34
Alignment explanation
Indices: 25086592--25086677 Score: 154
Period size: 34 Copynumber: 2.5 Consensus size: 34
25086582 CGCATTCCTA
* *
25086592 AAAAATAAAAATAGAATTAAGATTTTCGATCTGG
1 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
25086626 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
1 AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
25086660 AAAAATAAAAACAGAATT
1 AAAAATAAAAACAGAATT
25086678 TTAAGTTGAA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
34 50 1.00
ACGTcount: A:0.56, C:0.07, G:0.12, T:0.26
Consensus pattern (34 bp):
AAAAATAAAAACAGAATTAAGATTTTCGATCTAG
Found at i:25087473 original size:10 final size:10
Alignment explanation
Indices: 25087446--25087505 Score: 68
Period size: 10 Copynumber: 6.0 Consensus size: 10
25087436 TTAAATTCTA
25087446 AAAGATAAAT
1 AAAGATAAAT
*
25087456 ACAA-ATAATT
1 A-AAGATAAAT
*
25087466 AAAGATAATT
1 AAAGATAAAT
*
25087476 AAAGATAGAT
1 AAAGATAAAT
25087486 AAAGATAAAT
1 AAAGATAAAT
*
25087496 AAAAATAAAT
1 AAAGATAAAT
25087506 CCTAAATTTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
9 2 0.05
10 39 0.91
11 2 0.05
ACGTcount: A:0.67, C:0.02, G:0.08, T:0.23
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:25090868 original size:18 final size:18
Alignment explanation
Indices: 25090823--25090860 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
25090813 TCTTAGGATA
*
25090823 AATATAATTAAATTACCT
1 AATATATTTAAATTACCT
25090841 AATATATTTAAATTACCT
1 AATATATTTAAATTACCT
25090859 AA
1 AA
25090861 ACTTTTTACC
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:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (18 bp):
AATATATTTAAATTACCT
Found at i:25093397 original size:59 final size:59
Alignment explanation
Indices: 25093332--25093451 Score: 195
Period size: 59 Copynumber: 2.0 Consensus size: 59
25093322 TCTTATTGAT
* *
25093332 TTCATGCCCTTGCCATCCAGCCCAAATAGACATTGGGTTTATTTGCCTTTTAAACCATC
1 TTCATGCCCTTGCCATCCAGCCCAAATAAACATTGGGTCTATTTGCCTTTTAAACCATC
* * *
25093391 TTCATGCCCTTGCCGTCCAGCCCAAATAAACCTTGGGTCTATTTGCCTTTTAAACCCTC
1 TTCATGCCCTTGCCATCCAGCCCAAATAAACATTGGGTCTATTTGCCTTTTAAACCATC
25093450 TT
1 TT
25093452 TCTTTTATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
59 56 1.00
ACGTcount: A:0.22, C:0.31, G:0.13, T:0.34
Consensus pattern (59 bp):
TTCATGCCCTTGCCATCCAGCCCAAATAAACATTGGGTCTATTTGCCTTTTAAACCATC
Found at i:25096703 original size:12 final size:12
Alignment explanation
Indices: 25096670--25096704 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
25096660 ATATTTTCAG
25096670 AAAATATTAATAA
1 AAAATA-TAATAA
*
25096683 AAAATATAATAT
1 AAAATATAATAA
25096695 AAAATATAAT
1 AAAATATAAT
25096705 TTGGATTTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
12 15 0.71
13 6 0.29
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATATAATAA
Found at i:25097152 original size:20 final size:22
Alignment explanation
Indices: 25097111--25097152 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
25097101 ATACATAACT
*
25097111 AATTCAAAAAATATTATTTAAA
1 AATTCAAAAAATATTATATAAA
25097133 AATT-AAAAAATA-TATATAAA
1 AATTCAAAAAATATTATATAAA
25097153 TAAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 7 0.37
21 8 0.42
22 4 0.21
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.33
Consensus pattern (22 bp):
AATTCAAAAAATATTATATAAA
Found at i:25097170 original size:17 final size:17
Alignment explanation
Indices: 25097129--25097171 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
25097119 AAATATTATT
25097129 TAAAAATTAAAAAATATA
1 TAAAAA-TAAAAAATATA
*
25097147 TATAAATAAAAAAT-TA
1 TAAAAATAAAAAATATA
25097163 TAGAAAATA
1 TA-AAAATA
25097172 TATAGAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
16 4 0.18
17 13 0.59
18 5 0.23
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
TAAAAATAAAAAATATA
Found at i:25097195 original size:29 final size:28
Alignment explanation
Indices: 25097133--25097195 Score: 67
Period size: 27 Copynumber: 2.2 Consensus size: 28
25097123 ATTATTTAAA
* *
25097133 AATTAAAAAATATATATAAATAAAAAAT
1 AATTAGAAAATATATAGAAATAAAAAAT
*
25097161 TA-TAGAAAATATATAGAAA-AACCAAAAT
1 AATTAGAAAATATATAGAAATAA--AAAAT
25097189 AATTAGA
1 AATTAGA
25097196 TGCTTTTAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
26 2 0.07
27 15 0.54
28 7 0.25
29 4 0.14
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.25
Consensus pattern (28 bp):
AATTAGAAAATATATAGAAATAAAAAAT
Found at i:25098234 original size:19 final size:18
Alignment explanation
Indices: 25098206--25098293 Score: 64
Period size: 19 Copynumber: 5.1 Consensus size: 18
25098196 TATATTATTA
* *
25098206 AATTACATTATTATCCTT
1 AATTATATTATTACCCTT
25098224 AATATATATTATTAACCCTT
1 AAT-TATATTATT-ACCCTT
25098244 --TTATATTATTA-----
1 AATTATATTATTACCCTT
*
25098255 AATTACATTATTACCCTT
1 AATTATATTATTACCCTT
*
25098273 AATATATATTATTAACCTT
1 AAT-TATATTATTACCCTT
25098292 AA
1 AA
25098294 ATTTAATTAT
Statistics
Matches: 55, Mismatches: 5, Indels: 19
0.70 0.06 0.24
Matches are distributed among these distances:
13 10 0.18
16 1 0.02
17 9 0.16
18 7 0.13
19 23 0.42
20 5 0.09
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.48
Consensus pattern (18 bp):
AATTATATTATTACCCTT
Found at i:25098255 original size:49 final size:49
Alignment explanation
Indices: 25098192--25098289 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
25098182 CCTTATTGAG
*
25098192 CTTTTATATTATTAAATTACATTATTATCCTTAATATATATTATTAACC
1 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
25098241 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
1 CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
25098290 TTAAATTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (49 bp):
CTTTTATATTATTAAATTACATTATTACCCTTAATATATATTATTAACC
Found at i:25098302 original size:19 final size:20
Alignment explanation
Indices: 25098252--25098304 Score: 58
Period size: 19 Copynumber: 2.8 Consensus size: 20
25098242 TTTTATATTA
*
25098252 TTAAA-TTACATTATTACCC
1 TTAAATTTACATTATTAACC
* *
25098271 TT-AATATATATTATTAACC
1 TTAAATTTACATTATTAACC
25098290 TTAAATTTA-ATTATT
1 TTAAATTTACATTATT
25098305 GAGCCAAGTT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 2 0.07
19 21 0.75
20 5 0.18
ACGTcount: A:0.40, C:0.11, G:0.00, T:0.49
Consensus pattern (20 bp):
TTAAATTTACATTATTAACC
Found at i:25100418 original size:16 final size:16
Alignment explanation
Indices: 25100394--25100427 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25100384 GGAGAAAGAA
* *
25100394 GTTCGATTTTTTTTTT
1 GTTCAATTTATTTTTT
25100410 GTTCAATTTATTTTTT
1 GTTCAATTTATTTTTT
25100426 GT
1 GT
25100428 AAATTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.06, G:0.12, T:0.71
Consensus pattern (16 bp):
GTTCAATTTATTTTTT
Found at i:25106247 original size:14 final size:15
Alignment explanation
Indices: 25106228--25106259 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
25106218 GTGGTTATAG
25106228 TTAAAATA-ATAAAA
1 TTAAAATAGATAAAA
25106242 TTAAAATAGATAAAA
1 TTAAAATAGATAAAA
25106257 TTA
1 TTA
25106260 TGATGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.66, C:0.00, G:0.03, T:0.31
Consensus pattern (15 bp):
TTAAAATAGATAAAA
Found at i:25110960 original size:23 final size:22
Alignment explanation
Indices: 25110933--25110982 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
25110923 TGCCTAAAAT
*
25110933 GACACACGAGGTGCCTG-ATAC
1 GACACACGAGGTCCCTGAATAC
25110954 GACACACGAGGTCCCTGAAATAC
1 GACACACGAGGTCCCTG-AATAC
25110977 GACACA
1 GACACA
25110983 TAAAGTGCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
21 16 0.62
23 10 0.38
ACGTcount: A:0.34, C:0.30, G:0.24, T:0.12
Consensus pattern (22 bp):
GACACACGAGGTCCCTGAATAC
Found at i:25110993 original size:23 final size:23
Alignment explanation
Indices: 25110908--25110994 Score: 74
Period size: 21 Copynumber: 4.0 Consensus size: 23
25110898 CCTGATCAGT
*
25110908 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* * *
25110930 A-ATGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* * *
25110950 ATACGACACACGAGGTCCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
25110973 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
25110995 TCGATAAAGC
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
20 1 0.02
21 31 0.61
22 1 0.02
23 18 0.35
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:25111391 original size:15 final size:15
Alignment explanation
Indices: 25111366--25111423 Score: 89
Period size: 15 Copynumber: 3.8 Consensus size: 15
25111356 TCATATATAT
25111366 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
25111382 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
25111397 AATAATTTCAATCAA
1 TATAAATTCAATCAA
25111412 TATAAATTCAAT
1 TATAAATTCAAT
25111424 AAATTCATCG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
15 34 0.89
16 4 0.11
ACGTcount: A:0.52, C:0.12, G:0.00, T:0.36
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:25112711 original size:5 final size:5
Alignment explanation
Indices: 25112701--25112734 Score: 50
Period size: 5 Copynumber: 6.4 Consensus size: 5
25112691 TTACTTATTT
25112701 ATATA ATATAA TATATA ATATA ATATA ATATA AT
1 ATATA ATAT-A -ATATA ATATA ATATA ATATA AT
25112735 TAAAACATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
5 21 0.78
6 2 0.07
7 4 0.15
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (5 bp):
ATATA
Found at i:25112717 original size:12 final size:12
Alignment explanation
Indices: 25112700--25112727 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
25112690 TTTACTTATT
25112700 TATATAATATAA
1 TATATAATATAA
25112712 TATATAATATAA
1 TATATAATATAA
25112724 TATA
1 TATA
25112728 ATATAATTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
TATATAATATAA
Found at i:25114983 original size:134 final size:133
Alignment explanation
Indices: 25114717--25115087 Score: 365
Period size: 134 Copynumber: 2.8 Consensus size: 133
25114707 TCATTCATTC
* * * *
25114717 AAAAATTCTTCAAAATGAAGACGAGATTCGATGTTTGACAATTCGCGGAATCGTGCCCTAACGTG
1 AAAAATTCTTTAAAACGAAGACGAAATTCGATGTTTGACAATTCGCGGAATAGTGCCCTAACGTG
* * * * * *
25114782 TTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCGAATGTCCCTTCAAGATTTCCCTCATGCCTT
66 TTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAAATTCACTCATACATT
25114847 TTA
131 TTA
* * *
25114850 AAAGAATTCTTTAAAACGAAGGCGAAATTCGATATTTTG-CAATTCGCGGAATAGTGCCTTAACG
1 AAA-AATTCTTTAAAACGAAGACGAAATTCGAT-GTTTGACAATTCGCGGAATAGTGCCCTAACG
* * * * * * *
25114914 TGTTGGGTTGCAATTTCGTGTTTGCTTAAAATGATCGAGTATCCCTTCAAAAATTCATTCATATA
64 TGTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAAATTCACTCATACA
25114979 TTTTA
129 TTTTA
* ** * *
25114984 AAAAATTATTTAAAACGAA-A-GCAATATTCGGCGTTTGACAATTCG-AGAATCA-TGCCCTATC
1 AAAAATTCTTTAAAACGAAGACG-AA-ATTCGATGTTTGACAATTCGCGGAAT-AGTGCCCTAAC
* * ** * * **
25115045 GTGCTGGGTTGTGATTTCTCGTTTGTTCAAAACGATCGAATAT
63 GTGTTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCGAATAT
25115088 TCTTTCGTAT
Statistics
Matches: 195, Mismatches: 37, Indels: 13
0.80 0.15 0.05
Matches are distributed among these distances:
131 1 0.01
132 51 0.26
133 31 0.16
134 108 0.55
135 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.33
Consensus pattern (133 bp):
AAAAATTCTTTAAAACGAAGACGAAATTCGATGTTTGACAATTCGCGGAATAGTGCCCTAACGTG
TTGGGTGGCAATTTCGCGTTTGCTCAAAATAATCGAATATCCCTTCAAAAATTCACTCATACATT
TTA
Found at i:25125663 original size:6 final size:6
Alignment explanation
Indices: 25125652--25125711 Score: 61
Period size: 6 Copynumber: 9.7 Consensus size: 6
25125642 CCAATCTTTC
*
25125652 TTTTTA TTTTTA TTTTTA TTATTTA TTATTTA TTATCTT- CTTTTA TTTTTA
1 TTTTTA TTTTTA TTTTTA TT-TTTA TT-TTTA TT-T-TTA TTTTTA TTTTTA
25125703 -TTTTA TTTT
1 TTTTTA TTTT
25125712 AGTTAAATAT
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
5 7 0.15
6 23 0.48
7 16 0.33
8 2 0.04
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:25128763 original size:13 final size:13
Alignment explanation
Indices: 25128724--25128763 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
25128714 TCAAACTATA
25128724 TTATATTATTATT
1 TTATATTATTATT
*
25128737 TTAGATT-TTAATT
1 TTATATTATT-ATT
25128750 TTATATTATTATT
1 TTATATTATTATT
25128763 T
1 T
25128764 ACTCTAATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
12 2 0.09
13 19 0.83
14 2 0.09
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (13 bp):
TTATATTATTATT
Found at i:25136847 original size:19 final size:19
Alignment explanation
Indices: 25136823--25136860 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
25136813 TGTGATGTTA
* *
25136823 TTAAAATGAGAAATATTTT
1 TTAAAATAAAAAATATTTT
25136842 TTAAAATAAAAAATATTTT
1 TTAAAATAAAAAATATTTT
25136861 CTCAACCACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
TTAAAATAAAAAATATTTT
Found at i:25137468 original size:21 final size:22
Alignment explanation
Indices: 25137404--25137468 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 22
25137394 TAAATTAAAT
* *
25137404 TTTATATTAA-ATTTTTTATCA
1 TTTAAATTAATATTTTTTATAA
*
25137425 -TAAAATTAAT-TTTTTTA-AGA
1 TTTAAATTAATATTTTTTATA-A
25137445 TTTAAA-TAATATTTTTTATAA
1 TTTAAATTAATATTTTTTATAA
25137466 TTT
1 TTT
25137469 TATAAAATAC
Statistics
Matches: 35, Mismatches: 4, Indels: 10
0.71 0.08 0.20
Matches are distributed among these distances:
20 19 0.54
21 15 0.43
22 1 0.03
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (22 bp):
TTTAAATTAATATTTTTTATAA
Found at i:25141837 original size:17 final size:17
Alignment explanation
Indices: 25141795--25141905 Score: 72
Period size: 17 Copynumber: 6.5 Consensus size: 17
25141785 TCAAAAATAA
*
25141795 TAATATTTTAA-TAAATT
1 TAATA-TTTAATTTAATT
25141812 TAATATTTAATTTAATT
1 TAATATTTAATTTAATT
*
25141829 TAATATTT-ATCCTAA--
1 TAATATTTAAT-TTAATT
*
25141844 TAATATTTTA-TTAATT
1 TAATATTTAATTTAATT
*
25141860 TAATATTAAAGTGATT-ATCT
1 TAATATTTAA-T--TTAAT-T
* *
25141880 TAATATTAAATTTAATC
1 TAATATTTAATTTAATT
25141897 TAATATTTA
1 TAATATTTA
25141906 TCTTGATAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 22
0.72 0.07 0.21
Matches are distributed among these distances:
14 3 0.04
15 8 0.11
16 16 0.21
17 31 0.41
18 2 0.03
19 3 0.04
20 13 0.17
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (17 bp):
TAATATTTAATTTAATT
Found at i:25141883 original size:68 final size:69
Alignment explanation
Indices: 25141811--25141945 Score: 191
Period size: 68 Copynumber: 2.0 Consensus size: 69
25141801 TTTAATAAAT
* * **
25141811 TTAATATTTAATTTAATTTAATATTTATCCTAATAA-TATTTTATTAATTTAATATTAAAGTGAT
1 TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
25141875 TATC
66 TATC
* * * *
25141879 TTAATATTAAATTTAATCTAATATTTATCTTGATAAGTATTACATTAATTTAATTTTAAAGTTAT
1 TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
25141944 TA
66 TA
25141946 AGTTTAATCA
Statistics
Matches: 58, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
68 32 0.55
69 26 0.45
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (69 bp):
TTAATATTAAATTTAATCTAATATTTATCCTAATAAGTATTACATTAATTTAATATTAAAGTGAT
TATC
Found at i:25142780 original size:31 final size:31
Alignment explanation
Indices: 25142742--25142805 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
25142732 TTTTTAAAAG
25142742 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
1 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
25142773 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
1 CAGGCAAGCTTACTTTTCCTAAGCACACCCA
25142804 CA
1 CA
25142806 CTTTCAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.36, G:0.12, T:0.22
Consensus pattern (31 bp):
CAGGCAAGCTTACTTTTCCTAAGCACACCCA
Found at i:25151152 original size:8 final size:8
Alignment explanation
Indices: 25151139--25151170 Score: 64
Period size: 8 Copynumber: 4.0 Consensus size: 8
25151129 ATTTGATTGT
25151139 ATGAAGAA
1 ATGAAGAA
25151147 ATGAAGAA
1 ATGAAGAA
25151155 ATGAAGAA
1 ATGAAGAA
25151163 ATGAAGAA
1 ATGAAGAA
25151171 GCAAGGGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (8 bp):
ATGAAGAA
Found at i:25170324 original size:99 final size:96
Alignment explanation
Indices: 25170143--25170324 Score: 242
Period size: 96 Copynumber: 1.9 Consensus size: 96
25170133 AAGGTGTAAT
*
25170143 GCTGATGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTTAATGCCATGTCCCAG
1 GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTTAATGCCATGTCCCAG
25170208 ACATGATCTTACACTGACTATCAAAATCGAG
66 ACATGATCTTACACTGACTATCAAAATCGAG
* * ** *
25170239 GCTGACGCCATGTCCTAGACATGGTCTTACACTGGCTC-TCACATCTCCG-TACCCATGGCATGT
1 GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGTTA---ATGCCATGT
*
25170302 CCCAGACATGGTCTTACACTGAC
61 CCCAGACATGATCTTACACTGAC
25170325 ACATCTCATA
Statistics
Matches: 74, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
95 2 0.03
96 41 0.55
97 1 0.01
99 30 0.41
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (96 bp):
GCTGACGCCACGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTTAATGCCATGTCCCAG
ACATGATCTTACACTGACTATCAAAATCGAG
Found at i:25170375 original size:46 final size:48
Alignment explanation
Indices: 25170247--25170458 Score: 203
Period size: 46 Copynumber: 4.5 Consensus size: 48
25170237 AGGCTGACGC
* * *
25170247 CATGTCCTAGACATGGTCTTACACTGGCTCTCACATCTCCGTA--CCCATGG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCT-ACATCT-CATAGGCCGAT-G
*
25170297 CATGTCCCAGACATGGTCTTACACT-G-AC-ACATCTCATA-GCCGATG
1 CATGTCCCAGACAT-GTCTTACACTGGCTCTACATCTCATAGGCCGATG
*
25170342 CATGTCCCAGACATGTCTTACACTGGCT-TACATCT--TGAGGCCTATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCAT-AGGCCGATG
* * * *
25170388 CATGTCCCAGACGTGTCTTACATTAGCTCT-CATCTCA-ATGCCGATG
1 CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCATAGGCCGATG
25170434 CCATGTCCCAGACATGTCTTACACT
1 -CATGTCCCAGACATGTCTTACACT
25170459 AGCGCACAAA
Statistics
Matches: 139, Mismatches: 13, Indels: 23
0.79 0.07 0.13
Matches are distributed among these distances:
44 11 0.08
45 20 0.14
46 59 0.42
47 23 0.17
48 1 0.01
49 1 0.01
50 24 0.17
ACGTcount: A:0.23, C:0.32, G:0.17, T:0.28
Consensus pattern (48 bp):
CATGTCCCAGACATGTCTTACACTGGCTCTACATCTCATAGGCCGATG
Found at i:25173587 original size:16 final size:14
Alignment explanation
Indices: 25173566--25173599 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
25173556 AACATTTTTT
25173566 TTATAAATGTTATATA
1 TTATAAAT-TT-TATA
25173582 TTATAAATTTTATA
1 TTATAAATTTTATA
25173596 TTAT
1 TTAT
25173600 TTTGTACTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.44
15 2 0.11
16 8 0.44
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (14 bp):
TTATAAATTTTATA
Found at i:25176004 original size:17 final size:17
Alignment explanation
Indices: 25175967--25176005 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
25175957 CTATTAAGAT
*
25175967 AAATATTAAATCAAATC
1 AAATATTAAATCAAATA
* *
25175984 AAATATTAAATCTATTA
1 AAATATTAAATCAAATA
25176001 AAATA
1 AAATA
25176006 ATATTGTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.59, C:0.08, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATTAAATCAAATA
Found at i:25177855 original size:18 final size:18
Alignment explanation
Indices: 25177832--25177868 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
25177822 AAAACACTAA
25177832 AATTTTAAAATTAAAACC
1 AATTTTAAAATTAAAACC
25177850 AATTTTAAAATTAAAACC
1 AATTTTAAAATTAAAACC
25177868 A
1 A
25177869 TCATGATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.32
Consensus pattern (18 bp):
AATTTTAAAATTAAAACC
Found at i:25186933 original size:16 final size:16
Alignment explanation
Indices: 25186912--25186945 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
25186902 CGTTATTCGA
25186912 GCTCTGTGCCTAGCAG
1 GCTCTGTGCCTAGCAG
* *
25186928 GCTCTGTGTCTAGTAG
1 GCTCTGTGCCTAGCAG
25186944 GC
1 GC
25186946 ATTGTGCCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.26, G:0.32, T:0.29
Consensus pattern (16 bp):
GCTCTGTGCCTAGCAG
Found at i:25186989 original size:38 final size:38
Alignment explanation
Indices: 25186928--25187061 Score: 162
Period size: 38 Copynumber: 3.5 Consensus size: 38
25186918 TGCCTAGCAG
* * * *
25186928 GCTCTGTGT-CTAGTAGGCATTGTGCCGATGATATTCGT
1 GCTCTGT-TCCTAGCAGGCTTTGTGCCGGTGATATTCGA
*
25186966 GCTCTGTTCCTAGCTGGCTTTGTGCCGGTGATATTCGA
1 GCTCTGTTCCTAGCAGGCTTTGTGCCGGTGATATTCGA
* * *
25187004 GCTCTGTTCCTAGCAGGTTTTGTGCTGGTGATATTCGG
1 GCTCTGTTCCTAGCAGGCTTTGTGCCGGTGATATTCGA
* *
25187042 GCTCTGTGCCTAGAAGGCTT
1 GCTCTGTTCCTAGCAGGCTT
25187062 CGCGCCGATC
Statistics
Matches: 83, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
37 1 0.01
38 82 0.99
ACGTcount: A:0.13, C:0.21, G:0.30, T:0.37
Consensus pattern (38 bp):
GCTCTGTTCCTAGCAGGCTTTGTGCCGGTGATATTCGA
Found at i:25187084 original size:25 final size:25
Alignment explanation
Indices: 25187056--25187113 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
25187046 TGTGCCTAGA
25187056 AGGCTTCGCGCCGATCTATTATATC
1 AGGCTTCGCGCCGATCTATTATATC
* * * * *
25187081 AGGCTTTGTGCTGATGTGTTATATC
1 AGGCTTCGCGCCGATCTATTATATC
*
25187106 AGGTTTCG
1 AGGCTTCG
25187114 AGCTTGGCAA
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.38
Consensus pattern (25 bp):
AGGCTTCGCGCCGATCTATTATATC
Found at i:25190939 original size:27 final size:27
Alignment explanation
Indices: 25190898--25190963 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 27
25190888 TAAAGTTCAA
* *
25190898 TTTGAATCAATGACTTGATTTTATGA-T
1 TTTGAAACAAAGACTTGATTTTAT-ACT
25190925 TTTGAAACAAAGACTTGATTTTATACT
1 TTTGAAACAAAGACTTGATTTTATACT
25190952 TTTGAAACAAAG
1 TTTGAAACAAAG
25190964 GCATGAGTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
26 1 0.03
27 35 0.97
ACGTcount: A:0.36, C:0.09, G:0.14, T:0.41
Consensus pattern (27 bp):
TTTGAAACAAAGACTTGATTTTATACT
Found at i:25190976 original size:27 final size:27
Alignment explanation
Indices: 25190924--25190976 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
25190914 GATTTTATGA
* * *
25190924 TTTTGAAACAAAGACTTGATTTTATAC
1 TTTTGAAACAAAGACATGAGTGTATAC
*
25190951 TTTTGAAACAAAGGCATGAGTGTATA
1 TTTTGAAACAAAGACATGAGTGTATA
25190977 AAACTGGCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (27 bp):
TTTTGAAACAAAGACATGAGTGTATAC
Found at i:25191834 original size:27 final size:28
Alignment explanation
Indices: 25191796--25191848 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
25191786 TTTCAATTTC
25191796 AAGTCATAAAATAT-TTTGAAAACAACT
1 AAGTCATAAAATATATTTGAAAACAACT
* *
25191823 AAGTGCAT-AAATTTATTTGAACACAA
1 AAGT-CATAAAATATATTTGAAAACAA
25191849 TATCATGGCA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
27 9 0.41
28 13 0.59
ACGTcount: A:0.49, C:0.11, G:0.09, T:0.30
Consensus pattern (28 bp):
AAGTCATAAAATATATTTGAAAACAACT
Found at i:25202655 original size:40 final size:38
Alignment explanation
Indices: 25202584--25202681 Score: 126
Period size: 40 Copynumber: 2.5 Consensus size: 38
25202574 ACCATCTCTG
* *
25202584 TCCAACCCAACACACCATGTAGGGATAAAATCAACCCAC
1 TCCAACCCTACACACCAAGTAGGGATAAAATCAACCC-C
* *
25202623 -CCAGCCCTACACACCAAGTATGGGGATGAAATCAACCCC
1 TCCAACCCTACACACCAAGTA--GGGATAAAATCAACCCC
25202662 TCCAACCCTACACACCAAGT
1 TCCAACCCTACACACCAAGT
25202682 GGTGGCATGT
Statistics
Matches: 51, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
38 17 0.33
39 1 0.02
40 33 0.65
ACGTcount: A:0.37, C:0.38, G:0.12, T:0.13
Consensus pattern (38 bp):
TCCAACCCTACACACCAAGTAGGGATAAAATCAACCCC
Found at i:25204775 original size:26 final size:26
Alignment explanation
Indices: 25204744--25204812 Score: 95
Period size: 26 Copynumber: 2.7 Consensus size: 26
25204734 CTTATGAACG
*
25204744 TCCCGA-TATATGGCTCTTTGTGAGCT
1 TCCCGATTA-ATGGCTCTTTGTGAGCC
*
25204770 TCCCGATTAAAGGCTCTTTGTGAGCC
1 TCCCGATTAATGGCTCTTTGTGAGCC
*
25204796 TCCTGATTAATGGCTCT
1 TCCCGATTAATGGCTCT
25204813 CCAGAGCTAC
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
26 36 0.95
27 2 0.05
ACGTcount: A:0.17, C:0.25, G:0.22, T:0.36
Consensus pattern (26 bp):
TCCCGATTAATGGCTCTTTGTGAGCC
Found at i:25204870 original size:25 final size:25
Alignment explanation
Indices: 25204842--25204907 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
25204832 TTCGTTAGAA
25204842 CTTCCCGATATATGGCTATCTGAAG
1 CTTCCCGATATATGGCTATCTGAAG
* * *
25204867 CTTCCTGAT-TAATGGCTCTTTGAAG
1 CTTCCCGATAT-ATGGCTATCTGAAG
* *
25204892 CTACCCGTTAT-TGGCT
1 CTTCCCGATATATGGCT
25204908 CGCATGAACT
Statistics
Matches: 33, Mismatches: 6, Indels: 5
0.75 0.14 0.11
Matches are distributed among these distances:
24 6 0.18
25 26 0.79
26 1 0.03
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.36
Consensus pattern (25 bp):
CTTCCCGATATATGGCTATCTGAAG
Found at i:25213436 original size:11 final size:11
Alignment explanation
Indices: 25213420--25213444 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
25213410 AGAAAAAAGA
25213420 AAAATCAAAAT
1 AAAATCAAAAT
25213431 AAAATCAAAAT
1 AAAATCAAAAT
25213442 AAA
1 AAA
25213445 GGACAGGGAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (11 bp):
AAAATCAAAAT
Found at i:25216315 original size:22 final size:22
Alignment explanation
Indices: 25216289--25216333 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
25216279 TTTTGAAACC
*
25216289 ATAACTTTAAATTCCAAACCTA
1 ATAACTTCAAATTCCAAACCTA
25216311 ATAACTTCAAATTCCAAACCTA
1 ATAACTTCAAATTCCAAACCTA
25216333 A
1 A
25216334 CTCGTCATAG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.24, G:0.00, T:0.29
Consensus pattern (22 bp):
ATAACTTCAAATTCCAAACCTA
Found at i:25217869 original size:19 final size:20
Alignment explanation
Indices: 25217832--25217869 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
25217822 TAGTTTTTTA
*
25217832 ATTGATTTAAAAAATGTTTC
1 ATTGAGTTAAAAAATGTTTC
25217852 ATTGAGTTAAAAAA-GTTT
1 ATTGAGTTAAAAAATGTTT
25217870 AAACCAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.42, C:0.03, G:0.13, T:0.42
Consensus pattern (20 bp):
ATTGAGTTAAAAAATGTTTC
Found at i:25220013 original size:15 final size:16
Alignment explanation
Indices: 25219984--25220018 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
25219974 TTGTTGAGTT
25219984 TAAAAAATTACAAAGA
1 TAAAAAATTACAAAGA
25220000 TAAAAAATTA-AAAGA
1 TAAAAAATTACAAAGA
25220015 -AAAA
1 TAAAA
25220019 GAAAAAATAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 4 0.21
15 5 0.26
16 10 0.53
ACGTcount: A:0.74, C:0.03, G:0.06, T:0.17
Consensus pattern (16 bp):
TAAAAAATTACAAAGA
Found at i:25235164 original size:29 final size:29
Alignment explanation
Indices: 25235132--25235201 Score: 79
Period size: 29 Copynumber: 2.4 Consensus size: 29
25235122 TAATTAATTA
* *
25235132 ATTTTTTAAATTTAAAAAATATAGAACAT
1 ATTTTTTAAATTTAAAAAATATAAAAAAT
* ** *
25235161 ATTTTTAAAAAATAAAAAGTATAAAAAAT
1 ATTTTTTAAATTTAAAAAATATAAAAAAT
25235190 A-TTTTTAAATTT
1 ATTTTTTAAATTT
25235202 TTAATTTTTA
Statistics
Matches: 32, Mismatches: 9, Indels: 1
0.76 0.21 0.02
Matches are distributed among these distances:
28 8 0.25
29 24 0.75
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (29 bp):
ATTTTTTAAATTTAAAAAATATAAAAAAT
Found at i:25239098 original size:289 final size:289
Alignment explanation
Indices: 25238579--25239149 Score: 1061
Period size: 289 Copynumber: 2.0 Consensus size: 289
25238569 GTAGGTTACA
* * *
25238579 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGGAAAGACAAAGTTGTCGACGAATAACTA
1 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGACAACGAATAACTA
*
25238644 ATTTGGTTTCTGCTCTGATAATTCGAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
66 ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
25238709 ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACATATATACTTAATTATGT
131 ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACATATATACTTAATTATGT
*
25238774 GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTGGTGATATATGATCATTA
196 GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
25238839 ATCATGAATTTTCCCTATTAACGTTGTCG
261 ATCATGAATTTTCCCTATTAACGTTGTCG
25238868 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGACAACGAATAACTA
1 TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGACAACGAATAACTA
25238933 ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
66 ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
* * *
25238998 ATGTTCCATATTGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACGTATATATTTAATTATGT
131 ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACATATATACTTAATTATGT
*
25239063 GGTTTGCAATAATTGGTATGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
196 GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
25239128 ATCATGAATTTTCCCTATTAAC
261 ATCATGAATTTTCCCTATTAAC
25239150 ATTTTCGGAT
Statistics
Matches: 273, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
289 273 1.00
ACGTcount: A:0.33, C:0.11, G:0.18, T:0.38
Consensus pattern (289 bp):
TGATTAAAGACGATGCCAGGACATCGAAAAGCAAAAGAAAAGACAAAGTTGACAACGAATAACTA
ATTTGGTTTCTGCTCTGATAATTCAAGTTCATTATATATTTATATGTATATGTTCAACTCGTTAA
ATGTTCCATAATGGTAAACTATCAGTGTGATTGTATTTGAAAGGTACATATATACTTAATTATGT
GGTTTGCAATAATTGGTAAGTGATTTGTATATGTATATTGCTTGTGTAGTGATATATGATCATTA
ATCATGAATTTTCCCTATTAACGTTGTCG
Found at i:25241193 original size:39 final size:39
Alignment explanation
Indices: 25241104--25241273 Score: 220
Period size: 39 Copynumber: 4.4 Consensus size: 39
25241094 TGCGATTTTA
* ** *
25241104 TTCAGTATAATCAGTGGGTAAT-ATTCGTTTGAGCA-ACT
1 TTCAGTAGAATCAGTGGGT-ATGGCTCGATTGAGCATACT
* *
25241142 TTCAGTACAATCAGTGGGTATGGCTCAATTGAGCATACT
1 TTCAGTAGAATCAGTGGGTATGGCTCGATTGAGCATACT
25241181 TTCAGTAGAATCAGTGGGTATGGCTCGATTGAGCATACT
1 TTCAGTAGAATCAGTGGGTATGGCTCGATTGAGCATACT
* * *
25241220 TTTAGGAGAATCAGTAGGTATGGC-CTGATTGAGCATACT
1 TTCAGTAGAATCAGTGGGTATGGCTC-GATTGAGCATACT
25241259 TTCAGTAGAATCAGT
1 TTCAGTAGAATCAGT
25241274 ATCCCATTTT
Statistics
Matches: 117, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
37 2 0.02
38 28 0.24
39 87 0.74
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (39 bp):
TTCAGTAGAATCAGTGGGTATGGCTCGATTGAGCATACT
Found at i:25243239 original size:22 final size:23
Alignment explanation
Indices: 25243213--25243257 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
25243203 TAGATAAGTT
*
25243213 GGTCTCAAGACAAT-CCCATCAA
1 GGTCTCAAGACAATGCACATCAA
25243235 GGTCTCAAGACAATGCACATCAA
1 GGTCTCAAGACAATGCACATCAA
25243258 AGCTAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 14 0.67
23 7 0.33
ACGTcount: A:0.38, C:0.29, G:0.16, T:0.18
Consensus pattern (23 bp):
GGTCTCAAGACAATGCACATCAA
Found at i:25243963 original size:21 final size:21
Alignment explanation
Indices: 25243949--25244046 Score: 97
Period size: 21 Copynumber: 4.7 Consensus size: 21
25243939 AAACAAAAAT
*
25243949 ACAATCAATTTAAACACATGA
1 ACAATCAATTTAAACACAAGA
* *
25243970 ACAATCGATTTAAACATAAGA
1 ACAATCAATTTAAACACAAGA
* * *
25243991 ACAATCAATTTAAACATATGG
1 ACAATCAATTTAAACACAAGA
* * *
25244012 ACAATCGATTTAAAAATAAGA
1 ACAATCAATTTAAACACAAGA
* *
25244033 GCAATCGATTTAAA
1 ACAATCAATTTAAA
25244047 AGACGTTGTA
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 66 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (21 bp):
ACAATCAATTTAAACACAAGA
Found at i:25243998 original size:42 final size:42
Alignment explanation
Indices: 25243949--25244046 Score: 151
Period size: 42 Copynumber: 2.3 Consensus size: 42
25243939 AAACAAAAAT
*
25243949 ACAATCAATTTAAACACATGAACAATCGATTTAAACATAAGA
1 ACAATCAATTTAAACACATGAACAATCGATTTAAAAATAAGA
* *
25243991 ACAATCAATTTAAACATATGGACAATCGATTTAAAAATAAGA
1 ACAATCAATTTAAACACATGAACAATCGATTTAAAAATAAGA
* *
25244033 GCAATCGATTTAAA
1 ACAATCAATTTAAA
25244047 AGACGTTGTA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.51, C:0.14, G:0.09, T:0.26
Consensus pattern (42 bp):
ACAATCAATTTAAACACATGAACAATCGATTTAAAAATAAGA
Found at i:25251154 original size:86 final size:87
Alignment explanation
Indices: 25251042--25251235 Score: 239
Period size: 87 Copynumber: 2.2 Consensus size: 87
25251032 ATTTTTTTTT
* * * *
25251042 AAAAAAGCAATTAAGCCTCTCC-TTTTTTTGCATTCAATTGAGCACTTAAACTTTTAAAATGTAT
1 AAAAAAGCAATTAAGCC-CTCCTTTTTTTTGCACTCAATTAAGCACTTAAACTTTCAAAATGCAT
*
25251106 CAAAAAGACCCTCAAAC-TTTAA
65 AAAAAAGACCCTCAAACTTTTAA
* *
25251128 AAAAAAGCAATTAAGCCCTACCTTTTTTTTGCACTCAATTAAGTACTTGAACTTTCAAAATGCAT
1 AAAAAAGCAATTAAGCCCT-CCTTTTTTTTGCACTCAATTAAGCACTTAAACTTTCAAAATGCAT
** * *
25251193 AAAAAAGACGTTGAAACTTTTTTCA
65 AAAAAAGACCCTCAAAC--TTTTAA
25251218 AAAAAAGCAATTAAGCCC
1 AAAAAAGCAATTAAGCCC
25251236 CTGCTTTTAT
Statistics
Matches: 92, Mismatches: 11, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
85 2 0.02
86 19 0.21
87 49 0.53
90 22 0.24
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (87 bp):
AAAAAAGCAATTAAGCCCTCCTTTTTTTTGCACTCAATTAAGCACTTAAACTTTCAAAATGCATA
AAAAAGACCCTCAAACTTTTAA
Found at i:25251346 original size:27 final size:26
Alignment explanation
Indices: 25251298--25251349 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
25251288 AGCTATAAAT
*
25251298 ATTATTAAATTTTAATAAAAAATTAA
1 ATTATTAAAATTTAATAAAAAATTAA
*
25251324 ATTATTAAAAATTTATTAAAAAATTA
1 ATTATT-AAAATTTAATAAAAAATTA
25251350 GAAAAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 6 0.26
27 17 0.74
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (26 bp):
ATTATTAAAATTTAATAAAAAATTAA
Found at i:25251356 original size:9 final size:9
Alignment explanation
Indices: 25251340--25251407 Score: 86
Period size: 9 Copynumber: 7.6 Consensus size: 9
25251330 AAAAATTTAT
25251340 TAAAAAAT-
1 TAAAAAATA
25251348 TAGAAAAATA
1 TA-AAAAATA
*
25251358 TAAAAAATG
1 TAAAAAATA
25251367 TAAAAAATA
1 TAAAAAATA
25251376 TAAAAAATA
1 TAAAAAATA
*
25251385 T-ATAAATA
1 TAAAAAATA
25251393 TAAAAAAATA
1 T-AAAAAATA
25251403 TAAAA
1 TAAAA
25251408 TTTTATAAAG
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
8 9 0.17
9 34 0.65
10 9 0.17
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.24
Consensus pattern (9 bp):
TAAAAAATA
Found at i:25251363 original size:18 final size:17
Alignment explanation
Indices: 25251313--25251399 Score: 79
Period size: 18 Copynumber: 4.9 Consensus size: 17
25251303 TAAATTTTAA
**
25251313 TAAAAAAT-TAAATTAT
1 TAAAAAATATAAAAAAT
*
25251329 TAAAAATTTATTAAAAAAT
1 TAAAAA-ATA-TAAAAAAT
25251348 TAGAAAAATATAAAAAAT
1 TA-AAAAATATAAAAAAT
25251366 GTAAAAAATATAAAAAA-
1 -TAAAAAATATAAAAAAT
*
25251383 TATATAAATATAAAAAA
1 TA-AAAAATATAAAAAA
25251400 ATATAAAATT
Statistics
Matches: 60, Mismatches: 5, Indels: 11
0.79 0.07 0.14
Matches are distributed among these distances:
16 8 0.13
17 14 0.23
18 22 0.37
19 12 0.20
20 4 0.07
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (17 bp):
TAAAAAATATAAAAAAT
Found at i:25251370 original size:27 final size:26
Alignment explanation
Indices: 25251342--25251407 Score: 71
Period size: 26 Copynumber: 2.5 Consensus size: 26
25251332 AAATTTATTA
* * *
25251342 AAAAATTAGAAAAATATAAAAAATGT
1 AAAAAATATAAAAATATAAAAAATAT
*
25251368 AAAAAATATAAAAA-ATATATAAATAT
1 AAAAAATATAAAAATATA-AAAAATAT
25251394 AAAAAAATATAAAA
1 -AAAAAATATAAAA
25251408 TTTTATAAAG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
25 3 0.09
26 18 0.53
27 13 0.38
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (26 bp):
AAAAAATATAAAAATATAAAAAATAT
Found at i:25251678 original size:36 final size:35
Alignment explanation
Indices: 25251612--25251683 Score: 92
Period size: 36 Copynumber: 2.0 Consensus size: 35
25251602 GGTGGTTAAT
**
25251612 TTTTTTATGATTTTTATAAAATTTTATATTTTTTA
1 TTTTTTATGATTTTTATAAAAAATTATATTTTTTA
*
25251647 TTTTTTACT-ATTTTTATAAAAAAATTCTATTTTTTA
1 TTTTTTA-TGATTTTTAT-AAAAAATTATATTTTTTA
25251683 T
1 T
25251684 AAATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
35 15 0.47
36 17 0.53
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.65
Consensus pattern (35 bp):
TTTTTTATGATTTTTATAAAAAATTATATTTTTTA
Found at i:25251697 original size:8 final size:8
Alignment explanation
Indices: 25251678--25251707 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
25251668 AAATTCTATT
25251678 TTTTATAAA
1 TTTTA-AAA
25251687 TTTTAAAA
1 TTTTAAAA
25251695 TTTTAAAA
1 TTTTAAAA
25251703 TTTTA
1 TTTTA
25251708 TTAAAATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (8 bp):
TTTTAAAA
Found at i:25251711 original size:19 final size:19
Alignment explanation
Indices: 25251689--25251736 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 19
25251679 TTTATAAATT
25251689 TTAAAATTTTAA-AATTTTA
1 TTAAAATTTTAATAA-TTTA
25251708 TTAAAA-TTTAATAATTTA
1 TTAAAATTTTAATAATTTA
25251726 TCTAAAATTTT
1 T-TAAAATTTT
25251737 TTATTTGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
18 10 0.38
19 13 0.50
20 3 0.12
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TTAAAATTTTAATAATTTA
Found at i:25251924 original size:87 final size:88
Alignment explanation
Indices: 25251774--25251994 Score: 259
Period size: 87 Copynumber: 2.5 Consensus size: 88
25251764 TTAATAAGAG
* * *
25251774 AAGGGGCGTAATTGC-TTTTTTGAAAAATTTTGAGGGTCTTTTTGATGCATTTTGAAAGTTCAAG
1 AAGGGGCTTAATTGCTTTTTTTGAAAAATTTTGAGGG-CTTTTTGATACATTTTGAAAGCTCAAG
* *
25251838 TACCCAATTGAGT-AAAAAAA-AG
65 TACCCAATCGAGTGAAAAAAATAA
* * * *
25251860 CAGGGGCTTAATTGCTTTTTTTGAAGAAGTTTGAGGGCCTTTTTGATATATTTTGAAAGCTCAAG
1 AAGGGGCTTAATTGCTTTTTTTGAAAAATTTTGAGGG-CTTTTTGATACATTTTGAAAGCTCAAG
* *
25251925 TGCTCAATCGAGTGAAAAAAATAA
65 TACCCAATCGAGTGAAAAAAATAA
* *
25251949 AAGGAAAGGTTTAATTGGTTTTTTTGAAAAATTTTGAGGGCTTTTT
1 AAGG---GGCTTAATTGCTTTTTTTGAAAAATTTTGAGGGCTTTTT
25251995 ACCCCCTTAA
Statistics
Matches: 112, Mismatches: 17, Indels: 7
0.82 0.12 0.05
Matches are distributed among these distances:
86 13 0.12
87 53 0.47
88 7 0.06
89 4 0.04
91 6 0.05
92 29 0.26
ACGTcount: A:0.32, C:0.09, G:0.23, T:0.37
Consensus pattern (88 bp):
AAGGGGCTTAATTGCTTTTTTTGAAAAATTTTGAGGGCTTTTTGATACATTTTGAAAGCTCAAGT
ACCCAATCGAGTGAAAAAAATAA
Found at i:25261787 original size:18 final size:18
Alignment explanation
Indices: 25261764--25261802 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
25261754 GGGTTTAGTT
25261764 CATAACTAAATAAGAAAA
1 CATAACTAAATAAGAAAA
25261782 CATAACTAAATAAGAAAA
1 CATAACTAAATAAGAAAA
25261800 CAT
1 CAT
25261803 CTCCGAAGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.64, C:0.13, G:0.05, T:0.18
Consensus pattern (18 bp):
CATAACTAAATAAGAAAA
Done.