Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 43 of 344
Found at i:14314516 original size:29 final size:29
Alignment explanation
Indices: 14314481--14314554 Score: 96
Period size: 29 Copynumber: 2.6 Consensus size: 29
14314471 GTTGTGAGAT
* *
14314481 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
14314510 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
*
14314539 TGGTACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
14314555 TGGTTGATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 5 0.12
29 35 0.88
ACGTcount: A:0.26, C:0.15, G:0.32, T:0.27
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:14314912 original size:40 final size:40
Alignment explanation
Indices: 14314864--14315006 Score: 180
Period size: 40 Copynumber: 3.6 Consensus size: 40
14314854 TCGAATGATG
* *
14314864 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATGTA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
*
14314904 TCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
** * * *
14314944 TCCGTG-CTAAACCCCGAAGAGCATTTGTGCTGGTGTTATA
1 TCCG-GACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
* *
14314984 TCCGGGCTAGGTCCCGAAGAGCA
1 TCCGGACTAAGTCCCGAAGAGCA
14315007 ATCATGCTGG
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
39 1 0.01
40 89 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TCCGGACTAAGTCCCGAAGAGCATTCGTGCTAGTGATATA
Found at i:14318863 original size:49 final size:47
Alignment explanation
Indices: 14318755--14319043 Score: 411
Period size: 47 Copynumber: 6.1 Consensus size: 47
14318745 GAAATGATAG
* *
14318755 TAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
14318802 TAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
14318851 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
14318898 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
14318944 TAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
* * * * * * *
14318993 -CAGGGCTGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGA
1 TAAGGCCT-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
14319040 TAAG
1 TAAG
14319044 TCCCGAAGGG
Statistics
Matches: 219, Mismatches: 16, Indels: 13
0.88 0.06 0.05
Matches are distributed among these distances:
46 45 0.21
47 88 0.40
48 7 0.03
49 79 0.36
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:14318945 original size:142 final size:143
Alignment explanation
Indices: 14318755--14319043 Score: 447
Period size: 142 Copynumber: 2.0 Consensus size: 143
14318745 GAAATGATAG
* *
14318755 TAAGGCCTAATGGCCGGTGTGATGAATGTGAAAGTGTATATACGTGATAGGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* *
14318820 GTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCT-AATGGCCGATGTGATGAATGTGAAA
66 GTGATGAATGTGAAAGTGTATATATATGTGA-AAGGCCTGAATGGCCAACGTGATGAATGTGAAA
*
14318884 GTGTATATACGTGA
130 GTGTATAAACGTGA
*
14318898 TAAGGCCTAATGG-CGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
* * * * *
14318962 GTGATGAATGTGGAAGTGTATATATATGTGACAGGGCTGAGTGGCCAACGTGATGGATGTGAAAG
66 GTGATGAATGTGAAAGTGTATATATATGTGAAAGGCCTGAATGGCCAACGTGATGAATGTGAAAG
*
14319027 TGTATAAATGTGA
131 TGTATAAACGTGA
14319040 TAAG
1 TAAG
14319044 TCCCGAAGGG
Statistics
Matches: 133, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
141 5 0.04
142 115 0.86
143 13 0.10
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.28
Consensus pattern (143 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATACGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATATGTGAAAGGCCTGAATGGCCAACGTGATGAATGTGAAAG
TGTATAAACGTGA
Found at i:14319216 original size:35 final size:36
Alignment explanation
Indices: 14319162--14319231 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 36
14319152 CCGAGCTCTA
* *
14319162 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
*
14319197 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGG
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGG
14319232 GTAGACTTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
35 20 0.65
36 11 0.35
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (36 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGT
Found at i:14323562 original size:20 final size:20
Alignment explanation
Indices: 14323537--14323585 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
14323527 AAGTTTATGT
14323537 TAAGTAAATGGAATCA-AAAG
1 TAAGTAAATGGAAT-AGAAAG
14323557 TAAGTAAATGGAATAGAAAG
1 TAAGTAAATGGAATAGAAAG
14323577 TAAGTAAAT
1 TAAGTAAAT
14323586 AGAGTGGTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
19 1 0.04
20 27 0.96
ACGTcount: A:0.55, C:0.02, G:0.20, T:0.22
Consensus pattern (20 bp):
TAAGTAAATGGAATAGAAAG
Found at i:14327877 original size:12 final size:12
Alignment explanation
Indices: 14327851--14327889 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14327841 CGCTGCTTCT
* *
14327851 TTACTTACTTTC
1 TTACTTGCTTAC
*
14327863 TTACTTGGTTAC
1 TTACTTGCTTAC
14327875 TTACTTGCTTAC
1 TTACTTGCTTAC
14327887 TTA
1 TTA
14327890 AATAACTCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.18, C:0.21, G:0.08, T:0.54
Consensus pattern (12 bp):
TTACTTGCTTAC
Found at i:14343210 original size:20 final size:21
Alignment explanation
Indices: 14343182--14343220 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
14343172 CTTTCTTGAT
14343182 CTAAATTAAT-ACACATTTCA
1 CTAAATTAATCACACATTTCA
*
14343202 CTAATTTAATCACACATTT
1 CTAAATTAATCACACATTT
14343221 AATCAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
CTAAATTAATCACACATTTCA
Found at i:14352111 original size:22 final size:22
Alignment explanation
Indices: 14352067--14352111 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
14352057 TTAATCATTA
* * *
14352067 TTATTTAGTATCAGTCCATCAT
1 TTATTCAGTAACAGTCCAACAT
*
14352089 TTATTCAGTAACAGTCTAACAT
1 TTATTCAGTAACAGTCCAACAT
14352111 T
1 T
14352112 CGGTAGCAGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.31, C:0.18, G:0.09, T:0.42
Consensus pattern (22 bp):
TTATTCAGTAACAGTCCAACAT
Found at i:14352486 original size:17 final size:18
Alignment explanation
Indices: 14352456--14352495 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14352446 TCAATAAACT
14352456 TTCAAATTTCAATTTC-A
1 TTCAAATTTCAATTTCAA
14352473 TTCATAATTT-AATTTCAA
1 TTCA-AATTTCAATTTCAA
14352491 TTCAA
1 TTCAA
14352496 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCAAATTTCAATTTCAA
Found at i:14359718 original size:24 final size:24
Alignment explanation
Indices: 14359690--14359750 Score: 88
Period size: 24 Copynumber: 2.5 Consensus size: 24
14359680 AACCGAATTT
* *
14359690 GCACACATAGTGCT-TATTACACTC
1 GCACACATAGTGCTATAGTAAAC-C
14359714 GCACACATAGTGCTATAGTAAACC
1 GCACACATAGTGCTATAGTAAACC
14359738 GCACACATAGTGC
1 GCACACATAGTGC
14359751 ATTGGATTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
24 28 0.82
25 6 0.18
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (24 bp):
GCACACATAGTGCTATAGTAAACC
Found at i:14363301 original size:40 final size:40
Alignment explanation
Indices: 14363243--14363500 Score: 369
Period size: 40 Copynumber: 6.5 Consensus size: 40
14363233 CGGATGATAA
* * *
14363243 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATA-T
*
14363283 CCAGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
14363323 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
14363363 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
14363403 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
* * * *
14363443 CTGGGCTAAGTCCCAAAGGCATTTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTA-CTATAT
**
14363483 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGCCCCGAAGG
14363501 TACTTGGTTT
Statistics
Matches: 202, Mismatches: 14, Indels: 5
0.91 0.06 0.02
Matches are distributed among these distances:
39 16 0.08
40 185 0.92
41 1 0.00
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:14365316 original size:17 final size:18
Alignment explanation
Indices: 14365286--14365325 Score: 57
Period size: 17 Copynumber: 2.3 Consensus size: 18
14365276 TCAATAAACT
14365286 TTCAAATTTCAATTTC-A
1 TTCAAATTTCAATTTCAA
14365303 TTCATAATTT-AATTTCAA
1 TTCA-AATTTCAATTTCAA
14365321 TTCAA
1 TTCAA
14365326 TTTAATACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
17 11 0.52
18 10 0.48
ACGTcount: A:0.38, C:0.15, G:0.00, T:0.47
Consensus pattern (18 bp):
TTCAAATTTCAATTTCAA
Found at i:14373141 original size:47 final size:47
Alignment explanation
Indices: 14373083--14373573 Score: 820
Period size: 47 Copynumber: 10.4 Consensus size: 47
14373073 CAGCCAAGAC
*
14373083 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14373130 AGTGTATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14373177 AGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14373224 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14373271 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14373318 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14373367 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14373414 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATTTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14373461 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
14373508 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14373555 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
14373574 TCCCGAAGGG
Statistics
Matches: 420, Mismatches: 22, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
47 374 0.89
49 46 0.11
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:14373502 original size:237 final size:237
Alignment explanation
Indices: 14373087--14373573 Score: 843
Period size: 237 Copynumber: 2.1 Consensus size: 237
14373077 CAAGACAGTG
14373087 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
* *
14373152 TAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
14373217 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * * * *
14373282 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTA
196 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
14373324 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
*
14373389 TAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
66 TAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
* *
14373454 ATTTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
131 ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
14373519 GTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCA
196 GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
14373561 TA-A-ATGTGATAAG
1 TATATATGTGATAAG
14373574 TCCCGAAGGG
Statistics
Matches: 237, Mismatches: 13, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
235 10 0.04
236 1 0.00
237 226 0.95
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (237 bp):
TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
TAATAGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGA
ATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
GTGACAAGGCCGAATGGCCAACGTGATGAATGTGAAAGTGCA
Found at i:14373748 original size:37 final size:37
Alignment explanation
Indices: 14373692--14373770 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
14373682 CCGAGCTCTA
* *
14373692 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
14373729 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
14373766 AAGAC
1 AAGAC
14373771 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:14375712 original size:29 final size:29
Alignment explanation
Indices: 14375677--14375750 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
14375667 GTTGTGAGAT
* *
14375677 TGGCACTAAGTGTGCGGGCTTGAAA-TGCG
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACG
*
14375706 TGGCACTAAGTGTGCGAGTTTAAAGTACG
1 TGGCACTAAGTGTGCGAGTTGAAAGTACG
14375735 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
14375751 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACG
Found at i:14376120 original size:40 final size:37
Alignment explanation
Indices: 14376060--14376179 Score: 122
Period size: 40 Copynumber: 3.2 Consensus size: 37
14376050 TATTTGAATG
* * *
14376060 ATATCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACC
1 ATATCCGGACTAAGTTCCGAAGGC-TTGTGCT-AGTGA-T
14376100 ATATCCGGACTAAGTTCCGAA--C--GTGCTAGTGAT
1 ATATCCGGACTAAGTTCCGAAGGCTTGTGCTAGTGAT
*
14376133 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGTGAT
1 ATATCCGGACTAAGTTCCGAAG-GC-TT-GTGCTAGTGAT
14376173 ATATCCG
1 ATATCCG
14376180 TGCTAAACCC
Statistics
Matches: 68, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
33 20 0.29
34 5 0.07
35 5 0.07
36 1 0.01
38 1 0.01
40 36 0.53
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.27
Consensus pattern (37 bp):
ATATCCGGACTAAGTTCCGAAGGCTTGTGCTAGTGAT
Found at i:14376247 original size:40 final size:40
Alignment explanation
Indices: 14376121--14376251 Score: 154
Period size: 40 Copynumber: 3.3 Consensus size: 40
14376111 AAGTTCCGAA
* * * *
14376121 CGTGCTAGTGATGTATCCGGACTAAGTTCCGAAGAGCATT
1 CGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* * **
14376161 CGTGCTAGTGATATATCCGTGCTAAACCCCGAAGAGCATT
1 CGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
* * *
14376201 CGTGCTGGTGTTATATCCGGGCTAGGTCCCGAAGAGCAAT
1 CGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
*
14376241 CATGCTGGTGA
1 CGTGCTGGTGA
14376252 CGTGCATTCG
Statistics
Matches: 76, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 76 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
CGTGCTGGTGATATATCCGGGCTAAGTCCCGAAGAGCATT
Found at i:14379845 original size:47 final size:47
Alignment explanation
Indices: 14379787--14380279 Score: 806
Period size: 47 Copynumber: 10.4 Consensus size: 47
14379777 CAGCCAAGAC
*
14379787 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14379834 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14379881 AGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14379928 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
14379977 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14380024 AGTGTATATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14380073 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14380120 AGTGTATATATGTAATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
14380167 AGTGTATATATGTGGTAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* * * * * * *
14380214 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAA
1 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
* *
14380261 AGTGCATAAATGTGATAAG
1 AGTGTATATATGTGATAAG
14380280 TCCCGAAGGG
Statistics
Matches: 420, Mismatches: 22, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
47 329 0.78
49 91 0.22
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
Found at i:14380081 original size:143 final size:141
Alignment explanation
Indices: 14379787--14380279 Score: 815
Period size: 143 Copynumber: 3.5 Consensus size: 141
14379777 CAGCCAAGAC
14379787 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
*
14379852 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
14379917 ATGAATGTGAA
131 ATGAATGTGAA
*
14379928 AGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
1 AGTG--TATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGAT
14379993 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATAGCCGA
64 AAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATAGCCGA
14380058 TGTGATGAATGTGAA
127 TGTGATGAATGTGAA
*
14380073 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
* *
14380138 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGGTAAGGCCTAATGGCCGATGTG
66 GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
14380203 ATGAATGTGAA
131 ATGAATGTGAA
* * * * * * * * * *
14380214 AGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGATAA
1 AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
14380279 G
66 G
14380280 TCCCGAAGGG
Statistics
Matches: 331, Mismatches: 17, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
141 100 0.30
143 185 0.56
145 46 0.14
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (141 bp):
AGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAA
GGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTG
ATGAATGTGAA
Found at i:14380454 original size:37 final size:37
Alignment explanation
Indices: 14380398--14380476 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
14380388 CCGAGCTCTA
* *
14380398 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
14380435 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
14380472 AAGAC
1 AAGAC
14380477 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:14382113 original size:15 final size:15
Alignment explanation
Indices: 14382093--14382123 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
14382083 GATTAAACAT
14382093 ACTGAATACCCATCC
1 ACTGAATACCCATCC
*
14382108 ACTGAATACCTATCC
1 ACTGAATACCCATCC
14382123 A
1 A
14382124 ATTTTAGCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.35, G:0.06, T:0.23
Consensus pattern (15 bp):
ACTGAATACCCATCC
Found at i:14382877 original size:22 final size:22
Alignment explanation
Indices: 14382832--14382877 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
14382822 TTAATCATTA
* *
14382832 TTATTCAGTATCAGTCAATCAT
1 TTATTCAGTAACAATCAATCAT
14382854 TTATTCAGTAACAATCCAAT-AT
1 TTATTCAGTAACAAT-CAATCAT
14382876 TT
1 TT
14382878 GGTAGCAGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 17 0.81
23 4 0.19
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (22 bp):
TTATTCAGTAACAATCAATCAT
Found at i:14383112 original size:51 final size:52
Alignment explanation
Indices: 14383016--14383133 Score: 132
Period size: 51 Copynumber: 2.2 Consensus size: 52
14383006 CCGTAGCGGT
* *
14383016 AACAATAACAGTAACAGTAGCGGTACACAGAGTACCTCATCGGAACAAATTCGA
1 AACAGTAACAGTAACAGTA-CGGTA-ACAGAGTACCTCATCGGAACAAATCCGA
* * * *
14383070 AACAGTAACAGTAACAGT-CAGGT-ACAGAGTACCTCTTTGGAACGAATCCGG
1 AACAGTAACAGTAACAGTAC-GGTAACAGAGTACCTCATCGGAACAAATCCGA
*
14383121 AACAGTCACAGTA
1 AACAGTAACAGTA
14383134 GTCGACAAGT
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
51 35 0.62
52 1 0.02
53 3 0.05
54 17 0.30
ACGTcount: A:0.40, C:0.22, G:0.20, T:0.18
Consensus pattern (52 bp):
AACAGTAACAGTAACAGTACGGTAACAGAGTACCTCATCGGAACAAATCCGA
Found at i:14384173 original size:2 final size:2
Alignment explanation
Indices: 14384166--14384195 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
14384156 TTACTTGTTT
*
14384166 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14384196 ATAACATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14384469 original size:5 final size:5
Alignment explanation
Indices: 14384461--14384491 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
14384451 AATTTATTTC
14384461 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
14384492 GAAATAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATAAT
Found at i:14387705 original size:26 final size:26
Alignment explanation
Indices: 14387676--14387783 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
14387666 TGGTACAAAT
14387676 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14387702 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14387728 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14387754 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14387780 TGAT
1 TGAT
14387784 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14390505 original size:16 final size:16
Alignment explanation
Indices: 14390484--14390515 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
14390474 AATGGGTTTA
*
14390484 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
14390500 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
14390516 ATAAAGAATG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:14394738 original size:26 final size:26
Alignment explanation
Indices: 14394709--14394794 Score: 154
Period size: 26 Copynumber: 3.3 Consensus size: 26
14394699 TGGTACAAAT
14394709 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14394735 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14394761 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14394787 TGATAATG
1 TGATAATG
14394795 TTTCATGTCT
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.34, C:0.07, G:0.24, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14401883 original size:8 final size:8
Alignment explanation
Indices: 14401870--14401898 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
14401860 TAAATATCTT
14401870 AAAAAATA
1 AAAAAATA
14401878 AAAAAATA
1 AAAAAATA
14401886 AAAAAATA
1 AAAAAATA
14401894 AAAAA
1 AAAAA
14401899 GAATGATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.90, C:0.00, G:0.00, T:0.10
Consensus pattern (8 bp):
AAAAAATA
Found at i:14403826 original size:3 final size:3
Alignment explanation
Indices: 14403818--14403852 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14403808 AATACCTTGC
14403818 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
14403853 ATTTTTGTAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:14409864 original size:21 final size:21
Alignment explanation
Indices: 14409812--14409870 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
14409802 TAGCCAATTG
*
14409812 TATTTATTTATTAAAATGC-ATT
1 TATTTATTT-TTATAAT-CTATT
14409834 TATTTATTTTTATAATCTATT
1 TATTTATTTTTATAATCTATT
14409855 TAATTT-TTTTTATAAT
1 T-ATTTATTTTTATAAT
14409871 ATTTCACTAA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
20 1 0.03
21 20 0.59
22 13 0.38
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTATTTTTATAATCTATT
Found at i:14410252 original size:30 final size:30
Alignment explanation
Indices: 14410180--14410264 Score: 91
Period size: 30 Copynumber: 2.8 Consensus size: 30
14410170 GAGATATATA
* *
14410180 ATATGGTAATTATATTAAATT-GAATATTAT
1 ATAT-GTAATTAAATTAAATTAAAATATTAT
* * *
14410210 ATCATGTGATTAAATAAAATTAAAATGTTAT
1 AT-ATGTAATTAAATTAAATTAAAATATTAT
*
14410241 ATATGTAATTAAATTAAGTTAAAA
1 ATATGTAATTAAATTAAATTAAAA
14410265 ATGGTCTAAT
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
30 34 0.76
31 11 0.24
ACGTcount: A:0.48, C:0.01, G:0.09, T:0.41
Consensus pattern (30 bp):
ATATGTAATTAAATTAAATTAAAATATTAT
Found at i:14410884 original size:32 final size:32
Alignment explanation
Indices: 14410848--14410918 Score: 90
Period size: 32 Copynumber: 2.2 Consensus size: 32
14410838 ATAAAATCTA
* *
14410848 AAAAAATATATAAAAATA-AAAAATAATTGTTG
1 AAAAAATATATAAAAACACAAAAAT-ATTGTTC
* *
14410880 AAAAAATATATAACAACACAAAAATATTTTTC
1 AAAAAATATATAAAAACACAAAAATATTGTTC
14410912 AAAAAAT
1 AAAAAAT
14410919 TAATAATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
32 28 0.82
33 6 0.18
ACGTcount: A:0.65, C:0.06, G:0.03, T:0.27
Consensus pattern (32 bp):
AAAAAATATATAAAAACACAAAAATATTGTTC
Found at i:14411892 original size:3 final size:3
Alignment explanation
Indices: 14411884--14411913 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
14411874 TGTAATTTAC
14411884 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
14411914 ATGTCAAGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:14412435 original size:16 final size:16
Alignment explanation
Indices: 14412400--14412449 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
14412390 GGGTGAATCT
*
14412400 AATAGGGTTATAAT-G
1 AATAGGATTATAATAG
14412415 AAATAGAGA-TATAATAG
1 -AATAG-GATTATAATAG
14412432 AATAGGATTATAATAG
1 AATAGGATTATAATAG
14412448 AA
1 AA
14412450 CAGAACTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 2 0.07
16 26 0.87
17 2 0.07
ACGTcount: A:0.52, C:0.00, G:0.20, T:0.28
Consensus pattern (16 bp):
AATAGGATTATAATAG
Found at i:14418793 original size:37 final size:37
Alignment explanation
Indices: 14418743--14418895 Score: 252
Period size: 37 Copynumber: 4.1 Consensus size: 37
14418733 TTATTACGAA
* *
14418743 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
* *
14418780 GTCTTACCCGGACAAAATCTCTACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
14418817 GTCTTACCCGGACATAATCTCCACACGTAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
14418854 TTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
14418891 GTCTT
1 GTCTT
14418896 TAGAGCTCGG
Statistics
Matches: 106, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 106 1.00
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:14435440 original size:39 final size:40
Alignment explanation
Indices: 14435397--14435564 Score: 141
Period size: 40 Copynumber: 4.2 Consensus size: 40
14435387 CTCGTTCAAG
* * * *
14435397 TGCCTTCGGGACATAGCCCGG-TTATAGTAACTCATAC-AA
1 TGCCTTCGGGACTTAACCCGGATTATA-AAACTCACACGAA
* *
14435436 TGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAA
1 TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
* * *
14435476 TGCCTTCGGGACTTAACCCGGAATTAGT--ATCTCGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTA-TAAAACTCACACGAA
* * *
14435516 GGCCTTCGGGACTTAACCCGGAATTA-ATAACT-AGCACAAA
1 TGCCTTCGGGACTTAACCCGG-ATTATAAAACTCA-CACGAA
14435556 TGCCTTCGG
1 TGCCTTCGG
14435565 ATCTTAGTCC
Statistics
Matches: 109, Mismatches: 13, Indels: 13
0.81 0.10 0.10
Matches are distributed among these distances:
39 26 0.24
40 79 0.72
41 3 0.03
42 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCCTTCGGGACTTAACCCGGATTATAAAACTCACACGAA
Found at i:14435558 original size:80 final size:80
Alignment explanation
Indices: 14435432--14435617 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
14435422 AGTAACTCAT
* * * *
14435432 ACAATGCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCG
1 ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTAGCACAAATGCCTTC-GGATCTTAACCCG
*
14435496 GA-ATTAGT-A-TCTCGC
65 GATA-TAGTCACT-TAGC
**
14435511 ACAAAGGCCTTCGGGACTTAACCCGGA-ATTAATAACTAGCACAAATGCCTTCGGATCTTAGTCC
1 ACAAA-GCCTTCGGGACTTAACCCGGATATTAA-AACTAGCACAAATGCCTTCGGATCTTAACCC
14435575 GGATATAGTCACTTAGC
64 GGATATAGTCACTTAGC
*
14435592 ACAAAGCCTTCGGGACTTAGCCCGGA
1 ACAAAGCCTTCGGGACTTAACCCGGA
14435618 CAGCATTCAA
Statistics
Matches: 93, Mismatches: 8, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 11 0.12
80 71 0.76
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (80 bp):
ACAAAGCCTTCGGGACTTAACCCGGATATTAAAACTAGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTCACTTAGC
Found at i:14435577 original size:40 final size:40
Alignment explanation
Indices: 14435434--14435617 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
14435424 TAACTCATAC
* * *
14435434 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTAGCACA
* * *
14435474 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTAGCACA
*
14435514 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTAGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTAGCACA
** * *
14435554 AATGCCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TAGCACA
*
14435595 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
14435618 CAGCATTCAA
Statistics
Matches: 124, Mismatches: 14, Indels: 11
0.83 0.09 0.07
Matches are distributed among these distances:
39 8 0.06
40 104 0.84
41 12 0.10
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTAGCACA
Found at i:14437778 original size:37 final size:37
Alignment explanation
Indices: 14437728--14437880 Score: 270
Period size: 37 Copynumber: 4.1 Consensus size: 37
14437718 TTATTACGAA
* *
14437728 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
14437765 GTCTTACCCGGACAAAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
*
14437802 GTCTTACCCGGACATAATCTCCACACGTAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
14437839 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
14437876 GTCTT
1 GTCTT
14437881 TAGAGCTCGG
Statistics
Matches: 110, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 110 1.00
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
Found at i:14438077 original size:47 final size:47
Alignment explanation
Indices: 14437999--14438448 Score: 701
Period size: 47 Copynumber: 9.6 Consensus size: 47
14437989 CCCTTCGGGA
* * * * * *
14437999 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
14438046 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14438093 CTTATCAAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14438140 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14438187 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14438236 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14438283 CTTATCACATATAT----TTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14438326 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
14438373 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14438422 CTTATCACATATATACACTTTCACATT
1 CTTATCACATATATACACTTTCACATT
14438449 TATTCAAATA
Statistics
Matches: 373, Mismatches: 22, Indels: 16
0.91 0.05 0.04
Matches are distributed among these distances:
43 42 0.11
47 241 0.65
49 90 0.24
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14438229 original size:96 final size:96
Alignment explanation
Indices: 14437999--14438448 Score: 731
Period size: 96 Copynumber: 4.8 Consensus size: 96
14437989 CCCTTCGGGA
* * * * * *
14437999 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438062 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* *
14438093 CTTATCA-A-ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438156 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
14438187 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438252 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
** *
14438283 CTTATCAC--ATATAT----TTTCACATTCATCACATCAGCCATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438342 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
14438373 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438438 ACTTTCACATT
66 ACTTTCACATT
14438449 TATTCAAATA
Statistics
Matches: 330, Mismatches: 16, Indels: 18
0.91 0.04 0.05
Matches are distributed among these distances:
90 81 0.25
92 6 0.02
93 2 0.01
94 95 0.29
95 1 0.00
96 145 0.44
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14438368 original size:186 final size:187
Alignment explanation
Indices: 14437999--14438448 Score: 780
Period size: 186 Copynumber: 2.4 Consensus size: 187
14437989 CCCTTCGGGA
* * * * * *
14437999 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAT
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438062 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATATACACTTTCACATTCATCACA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATAT--A-TTTCACATTCATCACA
*
14438127 TCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 TCAGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14438187 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
*
14438252 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-TTTCACATTCATCACATCA
66 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATATATTTCACATTCATCACATCA
14438316 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14438373 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
14438438 ACTTTCACATT
66 ACTTTCACATT
14438449 TATTCAAATA
Statistics
Matches: 252, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
186 151 0.60
188 10 0.04
189 1 0.00
190 90 0.36
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.33
Consensus pattern (187 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAAATATATATTTCACATTCATCACATCA
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14443106 original size:46 final size:46
Alignment explanation
Indices: 14443053--14443181 Score: 152
Period size: 46 Copynumber: 2.8 Consensus size: 46
14443043 GTGCGAATAA
* * * *
14443053 TACCTTGATTTAGCTACGGCCCATGGTATAGGTATTTAGAGA-GAGT
1 TACCTTGATTT-GCTACGGGCCATGGTATAGGTACTCAGAGATAAGT
* * *
14443099 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTT-GCTACGGGCCATGGTATAGGTACTCAGAGATAAGT
*
14443146 TACCTTGATTTGACTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTG-CTACGGGCCATGGTATAGGTACT
14443182 TATCAATTGT
Statistics
Matches: 71, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
46 36 0.51
47 35 0.49
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGCTACGGGCCATGGTATAGGTACTCAGAGATAAGT
Found at i:14443156 original size:47 final size:46
Alignment explanation
Indices: 14443053--14443181 Score: 159
Period size: 47 Copynumber: 2.8 Consensus size: 46
14443043 GTGCGAATAA
* * * * *
14443053 TACCTTGATTTAGCTACGGCCCATGGTATAGGTATTTAGAGAGAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAAAGT
* * *
14443099 TACCTTGATTTGGCTATGGGCCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGA-AAGT
* *
14443146 TACCTTGATTTGACTACGGGTCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
14443182 TATCAATTGT
Statistics
Matches: 71, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
46 35 0.49
47 36 0.51
ACGTcount: A:0.23, C:0.16, G:0.27, T:0.33
Consensus pattern (46 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCAGAGAAAGT
Found at i:14449926 original size:31 final size:31
Alignment explanation
Indices: 14449891--14449951 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
14449881 TACGTATGTG
14449891 ATACGTGCCAAAGAAGACACAGAGGCTCCAA
1 ATACGTGCCAAAGAAGACACAGAGGCTCCAA
** *
14449922 ATACGTGCCATGGAAGACGCAGAGGCTCCA
1 ATACGTGCCAAAGAAGACACAGAGGCTCCA
14449952 GATGTTATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.26, G:0.26, T:0.11
Consensus pattern (31 bp):
ATACGTGCCAAAGAAGACACAGAGGCTCCAA
Found at i:14452292 original size:47 final size:47
Alignment explanation
Indices: 14452238--14452475 Score: 325
Period size: 47 Copynumber: 5.1 Consensus size: 47
14452228 TTAGGATTTT
** * *
14452238 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
14452285 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
14452332 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
14452379 ATGTGATGAACGTGAACATGCATATATGTGATAAGGAAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
14452426 ATGTGATGAACGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
14452473 ATG
1 ATG
14452476 CGAAACGTGT
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
47 171 0.98
48 3 0.02
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:14452315 original size:25 final size:25
Alignment explanation
Indices: 14452286--14452363 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
14452276 GAATGGCCAA
14452286 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
14452311 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
14452333 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
14452358 TGTGAT
1 TGTGAT
14452364 AAGGCCGAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 9 0.22
23 8 0.20
24 8 0.20
25 15 0.38
ACGTcount: A:0.31, C:0.10, G:0.29, T:0.29
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:14452338 original size:22 final size:22
Alignment explanation
Indices: 14452311--14452385 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
14452301 CATGCATATG
14452311 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
14452333 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
14452356 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
14452380 TGTGAT
1 TGTGAT
14452386 GAACGTGAAC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 15 0.38
23 8 0.20
24 8 0.20
25 9 0.22
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:14452502 original size:46 final size:46
Alignment explanation
Indices: 14452449--14452539 Score: 137
Period size: 46 Copynumber: 2.0 Consensus size: 46
14452439 GGAAGTGTAT
* *
14452449 ATATGTGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
* * *
14452495 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATG
14452540 TGTATATATA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.34, C:0.09, G:0.31, T:0.26
Consensus pattern (46 bp):
ATATGTGGTAAAGCCAAATGGCTAATGCGAAACATGTATGAGATGG
Found at i:14453002 original size:72 final size:72
Alignment explanation
Indices: 14452885--14453031 Score: 294
Period size: 72 Copynumber: 2.0 Consensus size: 72
14452875 AGTTTATATG
14452885 TGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACT
1 TGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACT
14452950 ATTCCTA
66 ATTCCTA
14452957 TGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACT
1 TGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACT
14453022 ATTCCTA
66 ATTCCTA
14453029 TGA
1 TGA
14453032 TTATGTGACA
Statistics
Matches: 75, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
72 75 1.00
ACGTcount: A:0.32, C:0.14, G:0.21, T:0.33
Consensus pattern (72 bp):
TGAGCTTGATTTGAACTAAATCATAAGGTAGTTATGTGATGCATACGTGAGCAATCTATGAGACT
ATTCCTA
Found at i:14457320 original size:36 final size:36
Alignment explanation
Indices: 14457278--14457349 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
14457268 TCATCAAAGA
*
14457278 TCATTTGGACTTCATCTAGGAAGTCTTAAGATGTAT
1 TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
14457314 TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
1 TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
14457350 CGAGATCTCC
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.28, C:0.15, G:0.18, T:0.39
Consensus pattern (36 bp):
TCATTTGCACTTCATCTAGGAAGTCTTAAGATGTAT
Found at i:14459950 original size:14 final size:14
Alignment explanation
Indices: 14459927--14459966 Score: 62
Period size: 14 Copynumber: 2.9 Consensus size: 14
14459917 CGGGATAATC
14459927 TGCATGTATGAATT
1 TGCATGTATGAATT
*
14459941 TGCATCTATGAATT
1 TGCATGTATGAATT
*
14459955 CGCATGTATGAA
1 TGCATGTATGAA
14459967 ATCCACATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.30, C:0.12, G:0.20, T:0.38
Consensus pattern (14 bp):
TGCATGTATGAATT
Found at i:14459983 original size:14 final size:14
Alignment explanation
Indices: 14459947--14460039 Score: 87
Period size: 14 Copynumber: 6.6 Consensus size: 14
14459937 AATTTGCATC
* *
14459947 TATGAATTCGCATG
1 TATGAATCCACATG
*
14459961 TATGAAATCCACATA
1 TATG-AATCCACATG
** *
14459976 TATGAATCCGTATC
1 TATGAATCCACATG
*
14459990 TATGAATCCACACG
1 TATGAATCCACATG
*
14460004 TATGAATACACATG
1 TATGAATCCACATG
* *
14460018 TATGAATTCACATT
1 TATGAATCCACATG
14460032 TATGAATC
1 TATGAATC
14460040 TACAAAAGTT
Statistics
Matches: 63, Mismatches: 15, Indels: 2
0.79 0.19 0.03
Matches are distributed among these distances:
14 52 0.83
15 11 0.17
ACGTcount: A:0.37, C:0.18, G:0.13, T:0.32
Consensus pattern (14 bp):
TATGAATCCACATG
Found at i:14460021 original size:28 final size:28
Alignment explanation
Indices: 14459928--14460038 Score: 96
Period size: 28 Copynumber: 3.9 Consensus size: 28
14459918 GGGATAATCT
*** * *
14459928 GCATGTATGAATTTGCATCTATGAATTC
1 GCATGTATGAATCCACATATATGAATAC
*
14459956 GCATGTATGAAATCCACATATATGAATCC
1 GCATGTATG-AATCCACATATATGAATAC
* * **
14459985 GTATCTATGAATCCACACGTATGAATAC
1 GCATGTATGAATCCACATATATGAATAC
* * *
14460013 ACATGTATGAATTCACATTTATGAAT
1 GCATGTATGAATCCACATATATGAAT
14460039 CTACAAAAGT
Statistics
Matches: 66, Mismatches: 16, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
28 45 0.68
29 21 0.32
ACGTcount: A:0.35, C:0.17, G:0.14, T:0.33
Consensus pattern (28 bp):
GCATGTATGAATCCACATATATGAATAC
Found at i:14461388 original size:35 final size:35
Alignment explanation
Indices: 14461349--14461418 Score: 122
Period size: 35 Copynumber: 2.0 Consensus size: 35
14461339 CTATTGGCCA
* *
14461349 TCTAAAGAGTGCACCTACTATAGGATCCAATCACT
1 TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
14461384 TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
1 TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
14461419 AAGTTATGGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.36, C:0.27, G:0.13, T:0.24
Consensus pattern (35 bp):
TCTAAAAAGTGCACCCACTATAGGATCCAATCACT
Found at i:14466592 original size:85 final size:86
Alignment explanation
Indices: 14466444--14466606 Score: 213
Period size: 85 Copynumber: 1.9 Consensus size: 86
14466434 CAAACAAGTG
* * * *
14466444 GTGGCTCGTCCACAAAACCTAGTGACAATTTGTTTAATCTGTAAATATGTTGTGCACTCACAACA
1 GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
**
14466509 AGTGGTAGTAACTATAAATAT
66 AGTGACAGTAACTATAAATAT
* * * *
14466530 GTGGCTTGTCCAC-AAACCCAGTTG-CAATTTGTTTAATTTGCAACCATGTTATGCACTTACAAC
1 GTGGCTCGTCCACAAAACCCAG-TGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAAC
14466593 AAGTGACAGTAACT
65 AAGTGACAGTAACT
14466607 GCAAATGTTT
Statistics
Matches: 66, Mismatches: 10, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
85 52 0.79
86 14 0.21
ACGTcount: A:0.32, C:0.20, G:0.17, T:0.31
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAGTGACAATTTGTTTAATCTGCAAACATGTTATGCACTCACAACA
AGTGACAGTAACTATAAATAT
Found at i:14470086 original size:26 final size:27
Alignment explanation
Indices: 14470057--14470108 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
14470047 GTAATAGGTT
* *
14470057 TTTAAAC-CAATAAAGATACTTTAAAA
1 TTTAAACACAATAAAAATAATTTAAAA
*
14470083 TTTAAACATAATAAAAATAATTTAAA
1 TTTAAACACAATAAAAATAATTTAAA
14470109 TAATGAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (27 bp):
TTTAAACACAATAAAAATAATTTAAAA
Found at i:14472335 original size:24 final size:28
Alignment explanation
Indices: 14472303--14472362 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 28
14472293 AACTTATTTC
14472303 ATTAAATAA-AAA-A-ATTTAAAAC-AT
1 ATTAAATAACAAATACATTTAAAACAAT
14472327 ATTAAATAATCAAATACATTTAAAACAAAT
1 ATTAAATAA-CAAATACATTTAAAAC-AAT
14472357 ATTAAA
1 ATTAAA
14472363 ACAAGAAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 9 0.30
26 3 0.10
27 1 0.03
28 9 0.30
30 8 0.27
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (28 bp):
ATTAAATAACAAATACATTTAAAACAAT
Found at i:14472378 original size:28 final size:28
Alignment explanation
Indices: 14472347--14472420 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
14472337 CAAATACATT
14472347 TAAAACAA-ATATTAAAACAAGAAACAAA
1 TAAAA-AATATATTAAAACAAGAAACAAA
* *
14472375 TAAAAAATATATTAAAACAAGACACAAGT
1 TAAAAAATATATTAAAACAAGAAACAA-A
* *
14472404 TGAAAAATATAATAAAA
1 TAAAAAATATATTAAAA
14472421 ATTGATTATA
Statistics
Matches: 40, Mismatches: 4, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
27 2 0.05
28 23 0.57
29 15 0.38
ACGTcount: A:0.68, C:0.08, G:0.05, T:0.19
Consensus pattern (28 bp):
TAAAAAATATATTAAAACAAGAAACAAA
Found at i:14472419 original size:29 final size:28
Alignment explanation
Indices: 14472359--14472420 Score: 79
Period size: 29 Copynumber: 2.2 Consensus size: 28
14472349 AAACAAATAT
*
14472359 TAAAACAAGAAACAAATAAAAAATATAT
1 TAAAACAAGAAACAAATAAAAAATATAA
* * *
14472387 TAAAACAAGACACAAGTTGAAAAATATAA
1 TAAAACAAGAAACAA-ATAAAAAATATAA
14472416 TAAAA
1 TAAAA
14472421 ATTGATTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
28 14 0.48
29 15 0.52
ACGTcount: A:0.68, C:0.08, G:0.06, T:0.18
Consensus pattern (28 bp):
TAAAACAAGAAACAAATAAAAAATATAA
Found at i:14473792 original size:86 final size:86
Alignment explanation
Indices: 14473689--14473881 Score: 361
Period size: 86 Copynumber: 2.3 Consensus size: 86
14473679 CAGTTGTTCG
*
14473689 GAACATTGCTATTCTTGAAACACTGTTATTCAAAACAAGAGTTGTTTTGTATTTTGGTTGTTCTA
1 GAACATAGCTATTCTTGAAACACTGTTATTCAAAACAAGAGTTGTTTTGTATTTTGGTTGTTCTA
14473754 AAATGACCGCTAACTCTATTT
66 AAATGACCGCTAACTCTATTT
14473775 GAACATAGCTATTCTTGAAACACTGTTATTCAAAACAAGAGTTGTTTTGTATTTTGGTTGTTCTA
1 GAACATAGCTATTCTTGAAACACTGTTATTCAAAACAAGAGTTGTTTTGTATTTTGGTTGTTCTA
*
14473840 AAATGACCGCTTACTCTATTT
66 AAATGACCGCTAACTCTATTT
14473861 GAACATAGCTATTCTT-AAACA
1 GAACATAGCTATTCTTGAAACA
14473882 ACAATTGTTC
Statistics
Matches: 105, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
85 5 0.05
86 100 0.95
ACGTcount: A:0.31, C:0.16, G:0.15, T:0.39
Consensus pattern (86 bp):
GAACATAGCTATTCTTGAAACACTGTTATTCAAAACAAGAGTTGTTTTGTATTTTGGTTGTTCTA
AAATGACCGCTAACTCTATTT
Found at i:14473895 original size:16 final size:16
Alignment explanation
Indices: 14473869--14473914 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14473859 TTGAACATAG
14473869 CTATTCTTAAACAACAA
1 CTATTC-TAAACAACAA
* * *
14473886 TTGTTCTAAATAACAA
1 CTATTCTAAACAACAA
14473902 CTATTCTAAACAA
1 CTATTCTAAACAA
14473915 AGTTGTTTTT
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (16 bp):
CTATTCTAAACAACAA
Found at i:14480903 original size:24 final size:24
Alignment explanation
Indices: 14480875--14480926 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
14480865 TTAGTAGGTC
* *
14480875 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATACTAATAAATACT
*
14480899 AAATATATTATACTAATAAATACT
1 AAATAAATTATACTAATAAATACT
14480923 AAAT
1 AAAT
14480927 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:14481429 original size:35 final size:34
Alignment explanation
Indices: 14481370--14481442 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 34
14481360 CAACATAGAT
* * *
14481370 TTTCTTTAAAAATTCAGAACAACTTGTTATAGCA
1 TTTCCTTAAAAATGCAAAACAACTTGTTATAGCA
*
14481404 TTTCCTTAAAAATGCGAAAACAACTTGTTATAGTA
1 TTTCCTTAAAAATGC-AAAACAACTTGTTATAGCA
14481439 TTTC
1 TTTC
14481443 TAGAACAACT
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
34 13 0.38
35 21 0.62
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.38
Consensus pattern (34 bp):
TTTCCTTAAAAATGCAAAACAACTTGTTATAGCA
Found at i:14482640 original size:16 final size:15
Alignment explanation
Indices: 14482621--14482692 Score: 67
Period size: 14 Copynumber: 4.7 Consensus size: 15
14482611 TAATATAATT
*
14482621 TATAAATAAAATATAA
1 TATAAAT-ATATATAA
*
14482637 TATAAATCGTATAGTAA
1 TATAAAT-ATATA-TAA
* *
14482654 TAAAAATACATATAA
1 TATAAATATATATAA
14482669 TA-AAATATATATAA
1 TATAAATATATATAA
14482683 TAT-AATATAT
1 TATAAATATAT
14482693 GAGGAAAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
14 20 0.43
15 5 0.11
16 13 0.28
17 9 0.19
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.35
Consensus pattern (15 bp):
TATAAATATATATAA
Found at i:14482690 original size:14 final size:14
Alignment explanation
Indices: 14482610--14482692 Score: 59
Period size: 14 Copynumber: 6.0 Consensus size: 14
14482600 ATGGTGAAAC
14482610 ATAATATAAT-T-T
1 ATAATATAATATAT
14482622 ATAA-ATAA-A-AT
1 ATAATATAATATAT
*
14482633 ATAATATAAATCGTAT
1 ATAATAT-AAT-ATAT
* *
14482649 AGTAATAAAAATACAT
1 A-TAAT-ATAATATAT
*
14482665 ATAATAAAATATAT
1 ATAATATAATATAT
14482679 ATAATATAATATAT
1 ATAATATAATATAT
14482693 GAGGAAAAAT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
11 9 0.16
12 6 0.11
13 2 0.04
14 21 0.38
15 4 0.07
16 6 0.11
17 7 0.12
18 1 0.02
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.36
Consensus pattern (14 bp):
ATAATATAATATAT
Found at i:14482843 original size:17 final size:16
Alignment explanation
Indices: 14482820--14482858 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
14482810 TTTACAACAT
14482820 ATAAAAAATAATATATA
1 ATAAAAAAT-ATATATA
*
14482837 CT-AAAAATATATATA
1 ATAAAAAATATATATA
14482852 ATAAAAA
1 ATAAAAA
14482859 TATGAATAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
15 8 0.42
16 10 0.53
17 1 0.05
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (16 bp):
ATAAAAAATATATATA
Found at i:14482869 original size:15 final size:15
Alignment explanation
Indices: 14482823--14482861 Score: 60
Period size: 15 Copynumber: 2.5 Consensus size: 15
14482813 ACAACATATA
*
14482823 AAAAATAATATATACT
1 AAAAAT-ATATATAAT
14482839 AAAAATATATATAAT
1 AAAAATATATATAAT
14482854 AAAAATAT
1 AAAAATAT
14482862 GAATAATATA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.31
Consensus pattern (15 bp):
AAAAATATATATAAT
Found at i:14482870 original size:37 final size:37
Alignment explanation
Indices: 14482826--14482896 Score: 101
Period size: 37 Copynumber: 1.9 Consensus size: 37
14482816 ACATATAAAA
14482826 AATAATATATACTA-AA-AATATATATAATAAAAATATG
1 AATAATATATA-TATAATAA-ATATATAATAAAAATATG
*
14482863 AATAATATATATATAATAAATATATGATAAAAAT
1 AATAATATATATATAATAAATATATAATAAAAAT
14482897 TTAAAAATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
36 2 0.06
37 27 0.87
38 2 0.06
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (37 bp):
AATAATATATATATAATAAATATATAATAAAAATATG
Found at i:14482876 original size:15 final size:13
Alignment explanation
Indices: 14482829--14482896 Score: 72
Period size: 13 Copynumber: 5.2 Consensus size: 13
14482819 TATAAAAAAT
14482829 AATATATACTAA-A
1 AATATATA-TAATA
14482842 AATATATATAATA
1 AATATATATAATA
14482855 AA-A-ATATGAATA
1 AATATATAT-AATA
14482867 ATATATATATAATA
1 A-ATATATATAATA
14482881 AATATATGATAA-A
1 AATATAT-ATAATA
14482894 AAT
1 AAT
14482897 TTAAAAATAA
Statistics
Matches: 49, Mismatches: 0, Indels: 12
0.80 0.00 0.20
Matches are distributed among these distances:
11 4 0.08
12 9 0.18
13 22 0.45
14 10 0.20
15 4 0.08
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (13 bp):
AATATATATAATA
Found at i:14484373 original size:21 final size:21
Alignment explanation
Indices: 14484349--14484389 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14484339 ATAGCTACCA
14484349 TATCTCTGTCAAAAAGTATAT
1 TATCTCTGTCAAAAAGTATAT
* *
14484370 TATCTCTTTCTAAAAGTATA
1 TATCTCTGTCAAAAAGTATA
14484390 AAGAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.37, C:0.15, G:0.07, T:0.41
Consensus pattern (21 bp):
TATCTCTGTCAAAAAGTATAT
Found at i:14486368 original size:18 final size:18
Alignment explanation
Indices: 14486326--14486369 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
14486316 CACTGTTTGG
* *
14486326 CAAATTAATACAGTTCGC
1 CAAATTAATACAGATCAC
*
14486344 CATATTAATACAGATCAC
1 CAAATTAATACAGATCAC
14486362 CAAATTAA
1 CAAATTAA
14486370 CATACTTTGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.27
Consensus pattern (18 bp):
CAAATTAATACAGATCAC
Found at i:14486607 original size:15 final size:16
Alignment explanation
Indices: 14486575--14486607 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
14486565 CATTATCAAC
14486575 AAAATTCATATGTTATA
1 AAAATTCATA-GTTATA
14486592 AAAATTCATA-TTATA
1 AAAATTCATAGTTATA
14486607 A
1 A
14486608 TATTTATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 6 0.38
17 10 0.62
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (16 bp):
AAAATTCATAGTTATA
Found at i:14487339 original size:18 final size:18
Alignment explanation
Indices: 14487313--14487349 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14487303 CTCAAATCTC
14487313 ACTTATAAGCTTAGATTT
1 ACTTATAAGCTTAGATTT
*
14487331 ACTTCTAAGCTTAGATTT
1 ACTTATAAGCTTAGATTT
14487349 A
1 A
14487350 AACTTCATAC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ACTTATAAGCTTAGATTT
Found at i:14488190 original size:19 final size:21
Alignment explanation
Indices: 14488148--14488209 Score: 67
Period size: 19 Copynumber: 3.0 Consensus size: 21
14488138 AATTATTAAT
* *
14488148 TTTAATTATTATAATAT-TTTA
1 TTTAATTA-TATAATCTAATTA
*
14488169 TTTAATTA-ATTAT-TAATTA
1 TTTAATTATATAATCTAATTA
14488188 TTTAATTATATAATCTAATTA
1 TTTAATTATATAATCTAATTA
14488209 T
1 T
14488210 GGTTTTCGAG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
18 1 0.03
19 15 0.43
20 4 0.11
21 15 0.43
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (21 bp):
TTTAATTATATAATCTAATTA
Found at i:14488207 original size:32 final size:31
Alignment explanation
Indices: 14488142--14488208 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 31
14488132 ACCTAAAATT
* * *
14488142 ATTAATTTTAATTATTATAATATTTTATTTA
1 ATTAATTTTAATTATTATAATATATAATCTA
14488173 ATTAATTATTAATTATT-TAATTATATAATCTA
1 ATTAATT-TTAATTATTATAA-TATATAATCTA
14488205 ATTA
1 ATTA
14488209 TGGTTTTCGA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
31 10 0.32
32 21 0.68
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
ATTAATTTTAATTATTATAATATATAATCTA
Found at i:14488469 original size:31 final size:31
Alignment explanation
Indices: 14488434--14488499 Score: 89
Period size: 31 Copynumber: 2.1 Consensus size: 31
14488424 TTCAAAATAT
*
14488434 TCACTATACTATT-CAAAAGTTTATATTTACA
1 TCACTAAACTATTAC-AAAGTTTATATTTACA
* *
14488465 TCACTAAACTATTACAAAGTTTTTATTTAGA
1 TCACTAAACTATTACAAAGTTTATATTTACA
14488496 TCAC
1 TCAC
14488500 CGTGTTGTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
31 30 0.97
32 1 0.03
ACGTcount: A:0.38, C:0.17, G:0.05, T:0.41
Consensus pattern (31 bp):
TCACTAAACTATTACAAAGTTTATATTTACA
Found at i:14493318 original size:145 final size:145
Alignment explanation
Indices: 14493127--14493391 Score: 433
Period size: 145 Copynumber: 1.8 Consensus size: 145
14493117 CTTACTCCGT
*
14493127 ATTCTCTTCTACTCTCCATCAATTTCTAAAGCATAACAAGAAAGAATAAAAATTCATTTCTCAAC
1 ATTCTCTTCTACTCTCCAACAATTTCTAAAGCATAACAAGAAAGAATAAAAATTCATTTCTCAAC
** *
14493192 ACCTTCAACTCTCAATCAATTTCCGGAAGATAATAAAAAAAATAAAACTAAAACTCATTTCTTAA
66 ACCTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAAATAAAACTAAAACTCATTTCTTAA
14493257 TAATAGATCTGTAAA
131 TAATAGATCTGTAAA
*
14493272 ATTCTCTTCTACTCTCCAACAATTTCTAGAA-TATAACAAGAAAGAATAAAAATTCATTTCTCAA
1 ATTCTCTTCTACTCTCCAACAATTTCTA-AAGCATAACAAGAAAGAATAAAAATTCATTTCTCAA
* ** *
14493336 TAGTTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAACTAAAACTAAAACT
65 CACCTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAAATAAAACTAAAACT
14493392 AAAACTAAAA
Statistics
Matches: 110, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
145 108 0.98
146 2 0.02
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (145 bp):
ATTCTCTTCTACTCTCCAACAATTTCTAAAGCATAACAAGAAAGAATAAAAATTCATTTCTCAAC
ACCTTCAACTCTCAATCAATTTCCAAAAGATAACAAAAAAAATAAAACTAAAACTCATTTCTTAA
TAATAGATCTGTAAA
Found at i:14493385 original size:6 final size:6
Alignment explanation
Indices: 14493374--14493402 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14493364 AGATAACAAA
14493374 AAAACT AAAACT AAAACT AAAACT AAAAC
1 AAAACT AAAACT AAAACT AAAACT AAAAC
14493403 CCATTTCTTA
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:0.69, C:0.17, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAACT
Found at i:14494033 original size:22 final size:23
Alignment explanation
Indices: 14494008--14494062 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 23
14493998 TTTTAATGAT
14494008 AATTATATTAAGAATT-TTATTA
1 AATTATATTAAGAATTATTATTA
***
14494030 AATTAT-TTATTTATTATTATTA
1 AATTATATTAAGAATTATTATTA
14494052 AATTATATTAA
1 AATTATATTAA
14494063 AATATGATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 6 0.22
22 18 0.67
23 3 0.11
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (23 bp):
AATTATATTAAGAATTATTATTA
Found at i:14496129 original size:13 final size:13
Alignment explanation
Indices: 14496111--14496136 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14496101 TCATTTAGTG
14496111 TGGGTTTAAACGA
1 TGGGTTTAAACGA
14496124 TGGGTTTAAACGA
1 TGGGTTTAAACGA
14496137 GTAGTATAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (13 bp):
TGGGTTTAAACGA
Found at i:14496658 original size:17 final size:17
Alignment explanation
Indices: 14496616--14496658 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
14496606 CAACATATCC
14496616 AAAATAAAAATAAATTT
1 AAAATAAAAATAAATTT
* * *
14496633 AAATTTAAAATATATTTT
1 AAAATAAAAATA-AATTT
14496651 AAAATAAA
1 AAAATAAA
14496659 CTTTTAGTAC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (17 bp):
AAAATAAAAATAAATTT
Found at i:14502679 original size:26 final size:26
Alignment explanation
Indices: 14502650--14502753 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
14502640 TGGTACAAAT
*
14502650 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14502676 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14502702 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14502728 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14502754 CGATGGGCAT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 72 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14509789 original size:26 final size:26
Alignment explanation
Indices: 14509760--14509863 Score: 181
Period size: 26 Copynumber: 4.0 Consensus size: 26
14509750 TGGTACAAAT
14509760 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
14509786 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14509812 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
14509838 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
14509864 CGATGGGCAT
Statistics
Matches: 73, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:14513891 original size:78 final size:77
Alignment explanation
Indices: 14513786--14513950 Score: 278
Period size: 77 Copynumber: 2.1 Consensus size: 77
14513776 TATAATGATT
*
14513786 TTTTAAAA-AAAGGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACGATTTAAGATA
1 TTTTAAAATAAAAGGGACAACACAAAACAATTTAAAATAAATACTATGT-AAACGATTTAAGATA
14513850 AAGTAATACAAAA
65 AAGTAATACAAAA
* *
14513863 TTTTAAAATAAAAGGGACAACACAAAACAGTTTAAAATAAATACTATGTAAATGATTTAAGATAA
1 TTTTAAAATAAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAACGATTTAAGATAA
*
14513928 AGTAATACGAAA
66 AGTAATACAAAA
14513940 TTTTAAAATAA
1 TTTTAAAATAA
14513951 TAATATATGG
Statistics
Matches: 83, Mismatches: 4, Indels: 2
0.93 0.04 0.02
Matches are distributed among these distances:
77 45 0.54
78 38 0.46
ACGTcount: A:0.56, C:0.08, G:0.10, T:0.26
Consensus pattern (77 bp):
TTTTAAAATAAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAACGATTTAAGATAA
AGTAATACAAAA
Found at i:14516002 original size:44 final size:44
Alignment explanation
Indices: 14515952--14516147 Score: 157
Period size: 44 Copynumber: 4.4 Consensus size: 44
14515942 GCTCTACTGC
*
14515952 AACTTCAGAGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
1 AACTTCAGGGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
* * *
14515996 AACTTCAGGGAGATAA-GAT-CT-GCTATCTGCAGTCTACTCCACTAC
1 AACTTCAGGGAGATAAGGATGGTGGCT-T-TG-A-TCTGCTCCACTAT
* * * ** * * *
14516041 GACTTCAGGGATATAA-GACTTGTGTATTTTTATCCTGCTCTACTGT
1 AACTTCAGGGAGATAAGGA-TGGTG-GCTTTGAT-CTGCTCCACTAT
** * *
14516087 AACTTCAAAGAGATAAGGATGGTGGCTTCGATCTGCTCCACTGT
1 AACTTCAGGGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
14516131 AACTTCAGGGAGATAAG
1 AACTTCAGGGAGATAAG
14516148 ATCTGCTATC
Statistics
Matches: 116, Mismatches: 26, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
41 3 0.03
42 2 0.02
43 5 0.04
44 42 0.36
45 32 0.28
46 26 0.22
47 4 0.03
48 1 0.01
49 1 0.01
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (44 bp):
AACTTCAGGGAGATAAGGATGGTGGCTTTGATCTGCTCCACTAT
Found at i:14516091 original size:135 final size:135
Alignment explanation
Indices: 14515897--14516196 Score: 460
Period size: 135 Copynumber: 2.2 Consensus size: 135
14515887 TTTCAACTTG
** *
14515897 CTCCACTGA-AACTTTAGGGAGATAAGGTTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAGA
1 CTCCACT-ACAACTTTAGGGAGATAAGACTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAAA
*
14515961 GAGATAAGGATGGTGGCTTTGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATC-TG
65 GAGATAAGGATGGTGGCTTCGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATCGT-
14516025 CAGTCTA
129 CAGTCTA
* * * *
14516032 CTCCACTACGACTTCAGGGATATAAGACTTGTGTATTTTTATCCTGCTCTACTGTAACTTCAAAG
1 CTCCACTACAACTTTAGGGAGATAAGACTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAAAG
* *
14516097 AGATAAGGATGGTGGCTTCGATCTGCTCCACTGTAACTTCAGGGAGATAAGATCTGCTATCGTTA
66 AGATAAGGATGGTGGCTTCGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATCGTCA
*
14516162 GTCTG
131 GTCTA
*
14516167 CTCTACTACAACTTTAGGGAGATAAGACTT
1 CTCCACTACAACTTTAGGGAGATAAGACTT
14516197 TAACTTCAAC
Statistics
Matches: 148, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
134 1 0.01
135 146 0.99
136 1 0.01
ACGTcount: A:0.26, C:0.20, G:0.21, T:0.32
Consensus pattern (135 bp):
CTCCACTACAACTTTAGGGAGATAAGACTTGTGTATTTTTATCCTGCTCTACTGCAACTTCAAAG
AGATAAGGATGGTGGCTTCGATCTGCTCCACTATAACTTCAGGGAGATAAGATCTGCTATCGTCA
GTCTA
Found at i:14516401 original size:44 final size:45
Alignment explanation
Indices: 14516290--14516420 Score: 140
Period size: 45 Copynumber: 2.9 Consensus size: 45
14516280 TGTTTATTTA
*** *
14516290 TAGCTTCAATCTATTCCACTGCAACTTCAGGGAAATAAGATTCGC
1 TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
* * * * *
14516335 TATCTTCAGTCTGCTCCGCTGCAACTTCAGGGAGATAATACTT-G-
1 TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGA-TTCGC
* *
14516379 TGGCTTCAATCCGCTCCACTGCAACTTCAGGAAGATAAGATT
1 TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATT
14516421 TGCCATGATG
Statistics
Matches: 71, Mismatches: 14, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
43 2 0.03
44 33 0.46
45 34 0.48
46 2 0.03
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.29
Consensus pattern (45 bp):
TAGCTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTCGC
Found at i:14516870 original size:46 final size:46
Alignment explanation
Indices: 14516819--14516924 Score: 151
Period size: 46 Copynumber: 2.3 Consensus size: 46
14516809 AATTTGTGGT
*
14516819 TTCTTCCATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTA-C
1 TTCTTCAATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTATC
* * * *
14516864 TATCTTCAATCGATCCCACTGCAGCTCAGGGTTATAGGATTTGTATC
1 T-TCTTCAATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTATC
14516911 TTCTTCAATCCATC
1 TTCTTCAATCCATC
14516925 AATCTAGGTA
Statistics
Matches: 53, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
45 1 0.02
46 50 0.94
47 2 0.04
ACGTcount: A:0.24, C:0.26, G:0.16, T:0.34
Consensus pattern (46 bp):
TTCTTCAATCCATCCCAATGCAACTCAGGGGTATAGGATTTGTATC
Found at i:14528930 original size:78 final size:77
Alignment explanation
Indices: 14528842--14528998 Score: 278
Period size: 78 Copynumber: 2.0 Consensus size: 77
14528832 TTTTTTTTAA
14528842 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
1 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
14528907 GAAATTTTAAAAT
66 GAAA-TTTAAAAT
** *
14528920 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAATGATTTAAGATAAAGTAATAC
1 AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
14528985 GAAATTTAAAAT
66 GAAATTTAAAAT
14528997 AA
1 AA
14528999 TAATATATGG
Statistics
Matches: 76, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
77 10 0.13
78 66 0.87
ACGTcount: A:0.59, C:0.08, G:0.09, T:0.24
Consensus pattern (77 bp):
AAAAGGGACAACACAAAACAATTTAAAATAAATACTATGTAAAACAATTTAAAATAAAGTAATAC
GAAATTTAAAAT
Found at i:14529256 original size:25 final size:25
Alignment explanation
Indices: 14529225--14529274 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
14529215 AAAAGAGGAA
*
14529225 GTATAATAATAATAACAATCACATC
1 GTATAATAATAACAACAATCACATC
14529250 GTATAATAATAACAACAATCACATC
1 GTATAATAATAACAACAATCACATC
14529275 CACATTTCGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.52, C:0.18, G:0.04, T:0.26
Consensus pattern (25 bp):
GTATAATAATAACAACAATCACATC
Found at i:14530619 original size:15 final size:16
Alignment explanation
Indices: 14530592--14530621 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14530582 TAATTGGGCT
14530592 ATTTGGTTTGGGTTTA
1 ATTTGGTTTGGGTTTA
14530608 ATTTGG-TTGGGTTT
1 ATTTGGTTTGGGTTT
14530622 GGGGTGTAGG
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:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (16 bp):
ATTTGGTTTGGGTTTA
Found at i:14534606 original size:18 final size:18
Alignment explanation
Indices: 14534585--14534624 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
14534575 ATAATTTTTT
14534585 TAAAAAAATCTAAAAATA
1 TAAAAAAATCTAAAAATA
*
14534603 TAAAAAAATTTAAAAATA
1 TAAAAAAATCTAAAAATA
14534621 -AAAA
1 TAAAA
14534625 TAATAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 4 0.19
18 17 0.81
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (18 bp):
TAAAAAAATCTAAAAATA
Found at i:14538681 original size:18 final size:19
Alignment explanation
Indices: 14538658--14538695 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
14538648 CCCACCCATA
*
14538658 TTATTTTTT-TATATTTTT
1 TTATTTTTTACATATTTTT
14538676 TTATTTTTTACATATTTTT
1 TTATTTTTTACATATTTTT
14538695 T
1 T
14538696 AAATATATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.18, C:0.03, G:0.00, T:0.79
Consensus pattern (19 bp):
TTATTTTTTACATATTTTT
Found at i:14538905 original size:22 final size:22
Alignment explanation
Indices: 14538879--14538927 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
14538869 ATATCCAAAC
14538879 AATAATAATAAAATAGTAGCAA
1 AATAATAATAAAATAGTAGCAA
* * * *
14538901 CATAATAGTGAAATGGTAGCAA
1 AATAATAATAAAATAGTAGCAA
14538923 AATAA
1 AATAA
14538928 GCAGAAAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.57, C:0.06, G:0.14, T:0.22
Consensus pattern (22 bp):
AATAATAATAAAATAGTAGCAA
Found at i:14544017 original size:31 final size:31
Alignment explanation
Indices: 14543982--14544043 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
14543972 CCAAAATTTT
14543982 GAAAAACAAAGTAAAATTAATTTAAAATTAA
1 GAAAAACAAAGTAAAATTAATTTAAAATTAA
14544013 GAAAAACAAAGTAAAATTAATTTAAAATTAA
1 GAAAAACAAAGTAAAATTAATTTAAAATTAA
14544044 TAATTGAATA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.65, C:0.03, G:0.06, T:0.26
Consensus pattern (31 bp):
GAAAAACAAAGTAAAATTAATTTAAAATTAA
Found at i:14545602 original size:14 final size:14
Alignment explanation
Indices: 14545560--14545605 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14545550 CATATTATAA
14545560 AATAATTCATAA-T
1 AATAATTCATAATT
* *
14545573 AGTAATTTA-AAGTT
1 AATAATTCATAA-TT
14545587 AATAATTCATAATT
1 AATAATTCATAATT
14545601 AATAA
1 AATAA
14545606 AACCGTTGTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
12 2 0.08
13 7 0.27
14 15 0.58
15 2 0.08
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.39
Consensus pattern (14 bp):
AATAATTCATAATT
Found at i:14552712 original size:26 final size:26
Alignment explanation
Indices: 14552683--14552764 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
14552673 TGATACGAAT
14552683 TGATAATGGGTTAGGTAGATGTTCCA
1 TGATAATGGGTTAGGTAGATGTTCCA
14552709 TGATAATGGGTTAGGTAGATGTTCCA
1 TGATAATGGGTTAGGTAGATGTTCCA
* *
14552735 TGATAATGGGTTAGGTAAATGCTCCA
1 TGATAATGGGTTAGGTAGATGTTCCA
14552761 TGAT
1 TGAT
14552765 TGGAATTTCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.28, C:0.09, G:0.29, T:0.34
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAGATGTTCCA
Found at i:14557962 original size:110 final size:110
Alignment explanation
Indices: 14557793--14558012 Score: 404
Period size: 110 Copynumber: 2.0 Consensus size: 110
14557783 ATTTAGTTTC
* * *
14557793 CTGTTGTCAATACAAACTCTCCATTCTATGACTGTCCTTATTGGGATTGATTCATTCTTCTCGTC
1 CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
*
14557858 GGTCACAACCGTCATGCGTCCTTTCTTAGGGACAACCTGTACTGG
66 GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
14557903 CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
1 CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
14557968 GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
66 GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
14558013 ACTTACCCAA
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 106 1.00
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (110 bp):
CTGTAGTCAATACAAACTCTCCATCCTATGACTGTCCTTATTGGGATTAATTCATTCTTCTCGTC
GGTCACAACCGTCATGCCTCCTTTCTTAGGGACAACCTGTACTGG
Found at i:14576873 original size:55 final size:54
Alignment explanation
Indices: 14576735--14576873 Score: 154
Period size: 55 Copynumber: 2.5 Consensus size: 54
14576725 TGGCCGTGAG
* *
14576735 CGAACCTACCAAAACAACACAGGCGTGCGACACGCCCGTGCCTTAAAACCATGGC
1 CGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCC-TAAAACCATGGC
* ** * *
14576790 CGAACCTGTCAAATTAACACGGGCGTGCGACACGCCCGTGCC-AAGCAACCGTGGG
1 CGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCTAA--AACCATGGC
* * *
14576845 TGAACCTGCCAAAACAACATGGGTGTGCG
1 CGAACCTGCCAAAACAACACGGGCGTGCG
14576874 CCTTTCTACA
Statistics
Matches: 69, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
53 2 0.03
55 67 0.97
ACGTcount: A:0.29, C:0.32, G:0.25, T:0.13
Consensus pattern (54 bp):
CGAACCTGCCAAAACAACACGGGCGTGCGACACGCCCGTGCCTAAAACCATGGC
Found at i:14580781 original size:12 final size:12
Alignment explanation
Indices: 14580764--14580796 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
14580754 CCAATTCCAT
14580764 TTACCAAAATCA
1 TTACCAAAATCA
14580776 TTACCAAAA-CA
1 TTACCAAAATCA
*
14580787 TAACCAAAAT
1 TTACCAAAAT
14580797 GACCAAAGTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.55, C:0.24, G:0.00, T:0.21
Consensus pattern (12 bp):
TTACCAAAATCA
Found at i:14586074 original size:18 final size:18
Alignment explanation
Indices: 14586051--14586088 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
14586041 ACACAGTGTG
*
14586051 TAATCCTCACAGAAAACA
1 TAATCCCCACAGAAAACA
14586069 TAATCCCCACAGAAAACA
1 TAATCCCCACAGAAAACA
14586087 TA
1 TA
14586089 CATACAGATA
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:0.29, G:0.05, T:0.16
Consensus pattern (18 bp):
TAATCCCCACAGAAAACA
Found at i:14588218 original size:25 final size:25
Alignment explanation
Indices: 14588184--14588234 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
14588174 TGTAGCAATT
14588184 AAGTGCAAATGAAATGAAGAATAAG
1 AAGTGCAAATGAAATGAAGAATAAG
*
14588209 AAGTGTAAATGAAATGAAGAATAAG
1 AAGTGCAAATGAAATGAAGAATAAG
14588234 A
1 A
14588235 TAGAGAGGTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.18
Consensus pattern (25 bp):
AAGTGCAAATGAAATGAAGAATAAG
Found at i:14589195 original size:21 final size:21
Alignment explanation
Indices: 14589161--14589201 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14589151 GTCAGAATGG
* *
14589161 CCACACGGGCGTGTTGCCCTT
1 CCACACGAGCGTGTGGCCCTT
*
14589182 CCACACGAGTGTGTGGCCCT
1 CCACACGAGCGTGTGGCCCT
14589202 ATTTTATGAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.12, C:0.37, G:0.29, T:0.22
Consensus pattern (21 bp):
CCACACGAGCGTGTGGCCCTT
Found at i:14590409 original size:9 final size:9
Alignment explanation
Indices: 14590395--14590427 Score: 66
Period size: 9 Copynumber: 3.7 Consensus size: 9
14590385 TTCGCATCAT
14590395 TTTCTCTTA
1 TTTCTCTTA
14590404 TTTCTCTTA
1 TTTCTCTTA
14590413 TTTCTCTTA
1 TTTCTCTTA
14590422 TTTCTC
1 TTTCTC
14590428 GACAGTAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.09, C:0.24, G:0.00, T:0.67
Consensus pattern (9 bp):
TTTCTCTTA
Found at i:14601299 original size:49 final size:49
Alignment explanation
Indices: 14601245--14601378 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 49
14601235 TTAAATTTTT
14601245 TTATTTATTATTTATCTCTTATTATTTTAATTAATTAGAGATAAAATAA
1 TTATTTATTATTTATCTCTTATTATTTTAATTAATTAGAGATAAAATAA
* * *
14601294 TTATTTAATA-TTATCAT-TTAATTGA-TTTAATTAAATTAGTGATAATATAA
1 TTATTTATTATTTATC-TCTT-ATT-ATTTTAATT-AATTAGAGATAAAATAA
* * *
14601344 -AATTTTATTATTTATCACTTA--ATTTAAATTAATTA
1 TTA-TTTATTATTTATCTCTTATTATTTTAATTAATTA
14601379 AAGAAAACCA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
47 6 0.09
48 13 0.19
49 21 0.30
50 23 0.33
51 7 0.10
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (49 bp):
TTATTTATTATTTATCTCTTATTATTTTAATTAATTAGAGATAAAATAA
Found at i:14603348 original size:28 final size:30
Alignment explanation
Indices: 14603292--14603354 Score: 76
Period size: 28 Copynumber: 2.2 Consensus size: 30
14603282 TTCTTATGCA
*
14603292 ATTAAATTTTACCACTAAACTTTAAATTTT
1 ATTAAAATTTACCACTAAACTTTAAATTTT
* *
14603322 ATTAAAATTTGCCAC-AAA-TTTAGATTTT
1 ATTAAAATTTACCACTAAACTTTAAATTTT
*
14603350 TTTAA
1 ATTAA
14603355 TTAAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 13 0.45
29 3 0.10
30 13 0.45
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (30 bp):
ATTAAAATTTACCACTAAACTTTAAATTTT
Found at i:14610476 original size:19 final size:18
Alignment explanation
Indices: 14610437--14610482 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
14610427 CTTTGATTAA
**
14610437 TAACTAATTAATTATAAT
1 TAACTAATTAAACATAAT
*
14610455 TAACCTAATTAAACATAGT
1 TAA-CTAATTAAACATAAT
14610474 TAACTAATT
1 TAACTAATT
14610483 TTAAGCTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 9 0.38
19 15 0.62
ACGTcount: A:0.48, C:0.11, G:0.02, T:0.39
Consensus pattern (18 bp):
TAACTAATTAAACATAAT
Found at i:14615923 original size:17 final size:17
Alignment explanation
Indices: 14615890--14615923 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
14615880 GTCTATTCAA
*
14615890 TGAATTCAGGTTGCTAT
1 TGAATTCAGATTGCTAT
*
14615907 TGAATTCAGATTTCTAT
1 TGAATTCAGATTGCTAT
14615924 AAATAGCTGT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.26, C:0.12, G:0.18, T:0.44
Consensus pattern (17 bp):
TGAATTCAGATTGCTAT
Found at i:14616024 original size:18 final size:18
Alignment explanation
Indices: 14616001--14616037 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
14615991 AAATATAGAT
14616001 ATTTCAGAAATTGCTGCC
1 ATTTCAGAAATTGCTGCC
*
14616019 ATTTCATAAATTGCTGCC
1 ATTTCAGAAATTGCTGCC
14616037 A
1 A
14616038 CCCACAATCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.30, C:0.22, G:0.14, T:0.35
Consensus pattern (18 bp):
ATTTCAGAAATTGCTGCC
Found at i:14617364 original size:9 final size:8
Alignment explanation
Indices: 14617348--14617372 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14617338 ACTTGCACTC
14617348 TCTTTTTT
1 TCTTTTTT
14617356 TCTTTTTT
1 TCTTTTTT
14617364 TCTTTTTT
1 TCTTTTTT
14617372 T
1 T
14617373 GAGGCCTGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (8 bp):
TCTTTTTT
Found at i:14617667 original size:21 final size:21
Alignment explanation
Indices: 14617643--14617709 Score: 66
Period size: 21 Copynumber: 3.1 Consensus size: 21
14617633 TTTTAAAATT
14617643 TTTTAATTAATAAATATATTA
1 TTTTAATTAATAAATATATTA
* *
14617664 TTTTTAATTTTATAATTGATA-T-
1 -TTTTAA-TTAATAAAT-ATATTA
*
14617686 TTTTAATTAATAAATATTTTA
1 TTTTAATTAATAAATATATTA
14617707 TTT
1 TTT
14617710 ATATAAATAA
Statistics
Matches: 36, Mismatches: 5, Indels: 9
0.72 0.10 0.18
Matches are distributed among these distances:
19 2 0.06
20 8 0.22
21 9 0.25
22 6 0.17
23 8 0.22
24 3 0.08
ACGTcount: A:0.39, C:0.00, G:0.01, T:0.60
Consensus pattern (21 bp):
TTTTAATTAATAAATATATTA
Found at i:14617667 original size:22 final size:22
Alignment explanation
Indices: 14617642--14617709 Score: 79
Period size: 22 Copynumber: 3.1 Consensus size: 22
14617632 TTTTTAAAAT
14617642 TTTTTAATTAATAAATATATTA
1 TTTTTAATTAATAAATATATTA
*
14617664 TTTTTAATT-TTATAAT-TGA-TA
1 TTTTTAATTAATA-AATAT-ATTA
*
14617685 TTTTTAATTAATAAATATTTTA
1 TTTTTAATTAATAAATATATTA
14617707 TTT
1 TTT
14617710 ATATAAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
21 17 0.45
22 21 0.55
ACGTcount: A:0.38, C:0.00, G:0.01, T:0.60
Consensus pattern (22 bp):
TTTTTAATTAATAAATATATTA
Found at i:14617702 original size:17 final size:17
Alignment explanation
Indices: 14617686--14617718 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
14617676 TAATTGATAT
14617686 TTTTAATTA-ATAAATA
1 TTTTAATTATATAAATA
*
14617702 TTTTATTTATATAAATA
1 TTTTAATTATATAAATA
14617719 AAATAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (17 bp):
TTTTAATTATATAAATA
Found at i:14618170 original size:53 final size:57
Alignment explanation
Indices: 14618060--14618171 Score: 169
Period size: 58 Copynumber: 2.0 Consensus size: 57
14618050 AAAACACTTG
* *
14618060 AAAATAATATATTTATTAATTAAAAACATTAATTAGAAAATTTGAATAATTTTATTAT
1 AAAATAAAATATTTATTAATTAAAAACATTAA-TAGAAAATTTGAATAATTTCATTAT
14618118 AAAATAAAATATTTATTAATTAAAAA-ATTAA-A-AAAA-TTGAATAATTTCATTAT
1 AAAATAAAATATTTATTAATTAAAAACATTAATAGAAAATTTGAATAATTTCATTAT
14618171 A
1 A
14618172 GGTTCAACAC
Statistics
Matches: 52, Mismatches: 2, Indels: 5
0.88 0.03 0.08
Matches are distributed among these distances:
53 17 0.33
54 4 0.08
55 1 0.02
57 5 0.10
58 25 0.48
ACGTcount: A:0.55, C:0.02, G:0.03, T:0.40
Consensus pattern (57 bp):
AAAATAAAATATTTATTAATTAAAAACATTAATAGAAAATTTGAATAATTTCATTAT
Found at i:14619100 original size:16 final size:18
Alignment explanation
Indices: 14619079--14619114 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
14619069 ATTAAAATAG
14619079 AAATCTT-GTG-AGAAAA
1 AAATCTTAGTGAAGAAAA
14619095 AAATCTTAGTGAAGAAAA
1 AAATCTTAGTGAAGAAAA
14619113 AA
1 AA
14619115 GAGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.39
17 3 0.17
18 8 0.44
ACGTcount: A:0.56, C:0.06, G:0.17, T:0.22
Consensus pattern (18 bp):
AAATCTTAGTGAAGAAAA
Found at i:14621005 original size:40 final size:40
Alignment explanation
Indices: 14620961--14621040 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
14620951 TTTTTTTCTT
14620961 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
1 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
14621001 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
1 TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
14621041 GGCAAGCTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.38
Consensus pattern (40 bp):
TTTCCTCTCCATATTTTCCAACGTTTCGGTGATAAAAGAA
Done.