Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
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: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 53 of 253
Found at i:14497723 original size:23 final size:22
Alignment explanation
Indices: 14497693--14497765 Score: 92
Period size: 23 Copynumber: 3.2 Consensus size: 22
14497683 AGATTTTTCC
*
14497693 TAAATATTATCACTAAATAATCT
1 TAAATATTATCATTAAATAAT-T
14497716 TAAATATTATCAATTAAATAATT
1 TAAATATTATC-ATTAAATAATT
* *
14497739 CTGAATATTATTATTAAATAATT
1 -TAAATATTATCATTAAATAATT
14497762 TAAA
1 TAAA
14497766 ATTTAAAAAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
22 3 0.07
23 23 0.52
24 18 0.41
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.42
Consensus pattern (22 bp):
TAAATATTATCATTAAATAATT
Found at i:14505110 original size:58 final size:58
Alignment explanation
Indices: 14505041--14505156 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
14505031 AAAAATTAAG
14505041 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
1 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
14505099 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
1 CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
14505157 GTTAGACTCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (58 bp):
CTCTTCTTGCTCCATTTGATAATACCACAATTGTGCCTTTCCCGTCAAGTGAAAACCA
Found at i:14509387 original size:24 final size:23
Alignment explanation
Indices: 14509334--14509387 Score: 54
Period size: 24 Copynumber: 2.3 Consensus size: 23
14509324 GAGTTTAGGG
* ** *
14509334 TTTTTTAGGGTTGGGGTTTTTGA
1 TTTTTTAGGATTAAGGTTTTAGA
14509357 TTGTTTTAGGATTAAGGTTTTAGTA
1 TT-TTTTAGGATTAAGGTTTTAG-A
14509382 TTTTTT
1 TTTTTT
14509388 TAAGGAAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 2 0.08
24 20 0.80
25 3 0.12
ACGTcount: A:0.15, C:0.00, G:0.26, T:0.59
Consensus pattern (23 bp):
TTTTTTAGGATTAAGGTTTTAGA
Found at i:14509442 original size:143 final size:142
Alignment explanation
Indices: 14509232--14509644 Score: 465
Period size: 142 Copynumber: 2.8 Consensus size: 142
14509222 TGGTTTAGGA
* **
14509232 TTTTAGTGTTTTTTAAGGGGAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACT
1 TTTTAGTTTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACT
* * * * ** *
14509297 ATGGAAATAAAAAAATTAATTAAATTAGAGTTTAGGGTTTTTTAGGGTTGGGGTTTTTGATTGTT
66 ATGAAAATAAAAAAATCAATTAAATTAGAGTTTAAGGTTTTTTAGGGTTAGAATTTTTAATTGTT
14509362 TTAGGATTAA-GG
131 TTAGGA-TAAGGG
*
14509374 TTTTAGTATTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTTAGGGTTAATTAATTAAATTAAC
1 TTTTAGT-TTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAAC
* * *
14509439 TATGAAAAT-AAAAAATCAATTAAATTAGGGTTTAAGGTTTTTGAAGGTTAGAATTTTTAATTGT
65 TATGAAAATAAAAAAATCAATTAAATTAGAGTTTAAGGTTTTTTAGGGTTAGAATTTTTAATTGT
14509503 TTTAGGATAAGGG
130 TTTAGGATAAGGG
* *
14509516 TTTTAGTGGTTTAGGGTTTTAATGTTTTTTAAGAGAAATTAATTTAATTAGAGTTGATGGTTAAT
1 TTTTAGT--TTT----TTTTAA-G-----GAA-A-AAATTAATTTAATTAGAGTTGAGGGTTAAT
* *
14509581 TAATTAAATTAACTATTAAATTAAAAAAGATCAATTAAATTA-AGGTTTATA-GTTTTTTAGGGT
52 TAATTAAATTAACTATGAAAATAAAAAA-ATCAATTAAATTAGA-GTTTA-AGGTTTTTTAGGGT
14509644 T
114 T
14509645 TATTAATTAA
Statistics
Matches: 229, Mismatches: 23, Indels: 23
0.83 0.08 0.08
Matches are distributed among these distances:
141 3 0.01
142 69 0.30
143 64 0.28
147 6 0.03
148 1 0.00
153 2 0.01
154 1 0.00
155 48 0.21
156 5 0.02
157 29 0.13
158 1 0.00
ACGTcount: A:0.37, C:0.01, G:0.19, T:0.44
Consensus pattern (142 bp):
TTTTAGTTTTTTTTAAGGAAAAAATTAATTTAATTAGAGTTGAGGGTTAATTAATTAAATTAACT
ATGAAAATAAAAAAATCAATTAAATTAGAGTTTAAGGTTTTTTAGGGTTAGAATTTTTAATTGTT
TTAGGATAAGGG
Found at i:14509977 original size:126 final size:126
Alignment explanation
Indices: 14509707--14510098 Score: 508
Period size: 126 Copynumber: 3.1 Consensus size: 126
14509697 TATTGCCATG
* * * *
14509707 GTAGTATCTGAAAAAATAAATTTGAGAAGATGTTTCTAAACAAATAATGTCAAAAAAGCTTCAAG
1 GTAGTATCTGATAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
* *
14509772 AAGGATGCACT-TCAGCAAAATTATAGAAAAAAA-CT-TC-CATATAGACCCTCTTTTGCTACA
66 AAGGATGCACTGTCAGCAAAATTACA-AAAAAAAGCTCTCAC-T-TAGACACTCTTTTGCTACA
* * *
14509832 GTAGTATCTGATAAAATAATTTTGAGAAGATATTTCTGAATAAACT-GTGTCAAAAACGCTTCAA
1 GTAGTATCTGATAAAATAATTTTGAGAAGATGTTTCTAAACAAA-TAGTGTCAAAAACGCTTCAA
**
14509896 GAAGGATGCACTGTCAGCAAAATTACAAAAAAAAGCTCTCACTTAGATGCTCTTTTGCTACA
65 GAAGGATGCACTGTCAGCAAAATTACAAAAAAAAGCTCTCACTTAGACACTCTTTTGCTACA
* *
14509958 GTAGTATCTGATAAAATAATGTTGAGAAAATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
1 GTAGTATCTGATAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
* * * * * * * * *
14510023 AAGGACGCATTGTCAGTAAAATTACGAAAAAAAGTTCCCACGTGGACACTTTTTTGCTACA
66 AAGGATGCACTGTCAGCAAAATTACAAAAAAAAGCTCTCACTTAGACACTCTTTTGCTACA
14510084 GTAGTATCTGA-AAAA
1 GTAGTATCTGATAAAA
14510099 GCCTTAGACT
Statistics
Matches: 235, Mismatches: 26, Indels: 12
0.86 0.10 0.04
Matches are distributed among these distances:
125 79 0.34
126 152 0.65
127 3 0.01
128 1 0.00
ACGTcount: A:0.41, C:0.15, G:0.16, T:0.28
Consensus pattern (126 bp):
GTAGTATCTGATAAAATAATTTTGAGAAGATGTTTCTAAACAAATAGTGTCAAAAACGCTTCAAG
AAGGATGCACTGTCAGCAAAATTACAAAAAAAAGCTCTCACTTAGACACTCTTTTGCTACA
Found at i:14513829 original size:30 final size:30
Alignment explanation
Indices: 14513790--14513850 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
14513780 TGTTGGCACA
*
14513790 GGTGGTTGTGTGGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
14513820 GGTGATTGTGTGGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
14513850 G
1 G
14513851 CGTCGTCATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.08, C:0.16, G:0.46, T:0.30
Consensus pattern (30 bp):
GGTGATTGTGTGGGCACTGTTGATGGGCCC
Found at i:14514362 original size:7 final size:7
Alignment explanation
Indices: 14514347--14514378 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14514337 TTATATAAGT
14514347 AATACTA
1 AATACTA
*
14514354 AATAATA
1 AATACTA
14514361 AATACTA
1 AATACTA
14514368 AATACTA
1 AATACTA
14514375 AATA
1 AATA
14514379 GGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:14518360 original size:9 final size:9
Alignment explanation
Indices: 14518330--14518361 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
14518320 ATTTATATTT
14518330 TATTAAAAA
1 TATTAAAAA
*
14518339 TATAAAAAA
1 TATTAAAAA
14518348 TATTAAAAA
1 TATTAAAAA
14518357 TATTA
1 TATTA
14518362 CCGTAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (9 bp):
TATTAAAAA
Found at i:14519050 original size:30 final size:30
Alignment explanation
Indices: 14519011--14519071 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
14519001 TGTTGGCACA
*
14519011 GGTGGTTGTGTGGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
*
14519041 GGTGATTGTGTTGGCACTGTTGATGGGCCC
1 GGTGATTGTGTGGGCACTGTTGATGGGCCC
14519071 G
1 G
14519072 CGTCGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.08, C:0.16, G:0.44, T:0.31
Consensus pattern (30 bp):
GGTGATTGTGTGGGCACTGTTGATGGGCCC
Found at i:14519583 original size:7 final size:7
Alignment explanation
Indices: 14519568--14519599 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14519558 TTATATAAGT
14519568 AATACTA
1 AATACTA
*
14519575 AATAATA
1 AATACTA
14519582 AATACTA
1 AATACTA
14519589 AATACTA
1 AATACTA
14519596 AATA
1 AATA
14519600 GGAAACGACT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:14523566 original size:9 final size:9
Alignment explanation
Indices: 14523552--14523582 Score: 62
Period size: 9 Copynumber: 3.4 Consensus size: 9
14523542 ATTTATATTT
14523552 TATTAAAAA
1 TATTAAAAA
14523561 TATTAAAAA
1 TATTAAAAA
14523570 TATTAAAAA
1 TATTAAAAA
14523579 TATT
1 TATT
14523583 TCCGTATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (9 bp):
TATTAAAAA
Found at i:14532128 original size:48 final size:48
Alignment explanation
Indices: 14532060--14532238 Score: 268
Period size: 48 Copynumber: 3.7 Consensus size: 48
14532050 TTGCGCTAAA
* * *
14532060 TGTGCCTGTGTAAGACCATGTATGGGACATGGCATCGGCGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
* *
14532108 TGTGCCTGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATA
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
* * **
14532156 TGTGCCAGTGTAAGACCATGTCTGGGCCATGGCATCAACGATGATATG
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
*
14532204 TGTCCCAGTGTAAGACCATGTCTAGGACATGGCAT
1 TGTGCCAGTGTAAGACCATGTCTAGGACATGGCAT
14532239 TGGTACTTTA
Statistics
Matches: 119, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 119 1.00
ACGTcount: A:0.25, C:0.20, G:0.30, T:0.26
Consensus pattern (48 bp):
TGTGCCAGTGTAAGACCATGTCTAGGACATGGCATCGGCGATGATATG
Found at i:14532223 original size:96 final size:96
Alignment explanation
Indices: 14532059--14532238 Score: 297
Period size: 96 Copynumber: 1.9 Consensus size: 96
14532049 ATTGCGCTAA
* ** * *
14532059 ATGTGCCTGTGTAAGACCATGTATGGGACATGGCATCGGCGATGATATGTGTGCCTGTGTAAGAC
1 ATGTGCCAGTGTAAGACCATGTATGGGACATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
14532124 CATGTCTAGGACATGGCATCGGCGATGATAT
66 CATGTCTAGGACATGGCATCGGCGATGATAT
* *
14532155 ATGTGCCAGTGTAAGACCATGTCTGGGCCATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
1 ATGTGCCAGTGTAAGACCATGTATGGGACATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
14532220 CATGTCTAGGACATGGCAT
66 CATGTCTAGGACATGGCAT
14532239 TGGTACTTTA
Statistics
Matches: 77, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
96 77 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.26
Consensus pattern (96 bp):
ATGTGCCAGTGTAAGACCATGTATGGGACATGGCATCAACGATGATATGTGTCCCAGTGTAAGAC
CATGTCTAGGACATGGCATCGGCGATGATAT
Found at i:14533511 original size:19 final size:18
Alignment explanation
Indices: 14533483--14533518 Score: 63
Period size: 19 Copynumber: 1.9 Consensus size: 18
14533473 TACACGGCCT
14533483 AGGGACACAGGCGTGTCA
1 AGGGACACAGGCGTGTCA
14533501 AGGGCACACAGGCGTGTC
1 AGGG-ACACAGGCGTGTC
14533519 GTTGTATCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.11
Consensus pattern (18 bp):
AGGGACACAGGCGTGTCA
Found at i:14541861 original size:48 final size:48
Alignment explanation
Indices: 14541785--14542057 Score: 361
Period size: 48 Copynumber: 5.7 Consensus size: 48
14541775 TCGCTCTAAA
* * *
14541785 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * *
14541833 TGTGCTTGTGTAAGACCATATCTAGGACATGGCATCGGCGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* * * *
14541881 TGTGCTTCTGTAAGACCATGTTTGGGACATGGCATCGGTGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* *
14541929 TGTGCCTCTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
* *
14541977 TGTGCCAATGGAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
1 TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
**
14542025 TG-GATTCATGTAAGACCATGT-TGGAGACATGGC
1 TGTGCCT-ATGTAAGACCATGTCTGG-GACATGGC
14542058 TTGGTACTTT
Statistics
Matches: 203, Mismatches: 20, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
47 4 0.02
48 199 0.98
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (48 bp):
TGTGCCTATGTAAGACCATGTCTGGGACATGGCATCGGCGATGATATG
Found at i:14542045 original size:144 final size:144
Alignment explanation
Indices: 14541785--14542057 Score: 415
Period size: 144 Copynumber: 1.9 Consensus size: 144
14541775 TCGCTCTAAA
* * *** *
14541785 TGTGCCTGTGTAAGACCATGTCTGGGACATGGCATCAGTGATGATATGTGTGCTTGTGTAAGACC
1 TGTGCCTCTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCAATGGAAGACC
*
14541850 ATATCTAGGACATGGCATCGGCGATGATATGTGTGCTTCTGTAAGACCATGTTTGG-GACATGGC
66 ATATCTAGGACATGGCATCGGCGATGATATGTGTGATTCTGTAAGACCATG-TTGGAGACATGGC
14541914 ATCGGTGATGATATG
130 ATCGGTGATGATATG
* *
14541929 TGTGCCTCTGTAAGACCATGTTTGGGACATGGCATCGGCGATGATATGTGTGCCAATGGAAGACC
1 TGTGCCTCTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCAATGGAAGACC
* *
14541994 ATGTCTGGGACATGGCATCGGCGATGATATGTG-GATTCATGTAAGACCATGTTGGAGACATGGC
66 ATATCTAGGACATGGCATCGGCGATGATATGTGTGATTC-TGTAAGACCATGTTGGAGACATGGC
14542058 TTGGTACTTT
Statistics
Matches: 116, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
143 8 0.07
144 108 0.93
ACGTcount: A:0.23, C:0.17, G:0.31, T:0.29
Consensus pattern (144 bp):
TGTGCCTCTGTAAGACCATGTCTGGGACATGGCATCAGCGATGATATGTGTGCCAATGGAAGACC
ATATCTAGGACATGGCATCGGCGATGATATGTGTGATTCTGTAAGACCATGTTGGAGACATGGCA
TCGGTGATGATATG
Found at i:14543967 original size:36 final size:36
Alignment explanation
Indices: 14543925--14543996 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
14543915 ATATACTTGG
*
14543925 CCACAATTTATTTATAAACATCTAGTTCAATACCAT
1 CCACAATTCATTTATAAACATCTAGTTCAATACCAT
14543961 CCACAATTCATTTATAAACATCTAGTTCAATACCAT
1 CCACAATTCATTTATAAACATCTAGTTCAATACCAT
14543997 TTCCAAAACA
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:0.39, C:0.24, G:0.03, T:0.35
Consensus pattern (36 bp):
CCACAATTCATTTATAAACATCTAGTTCAATACCAT
Found at i:14544625 original size:20 final size:19
Alignment explanation
Indices: 14544581--14544629 Score: 64
Period size: 20 Copynumber: 2.5 Consensus size: 19
14544571 TAAACCACTC
14544581 CATTTACTTACTTTCTATT
1 CATTTACTTACTTTCTATT
14544600 CAATTTACTTACTTT-TCATTT
1 C-ATTTACTTACTTTCT-A-TT
14544621 CATTTACTT
1 CATTTACTT
14544630 GGCATAAGCT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
19 2 0.07
20 22 0.81
21 3 0.11
ACGTcount: A:0.22, C:0.20, G:0.00, T:0.57
Consensus pattern (19 bp):
CATTTACTTACTTTCTATT
Found at i:14557787 original size:48 final size:48
Alignment explanation
Indices: 14557729--14557841 Score: 199
Period size: 48 Copynumber: 2.4 Consensus size: 48
14557719 ATATACACAC
*
14557729 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14557777 ATCTCATACATATTTCACACTAGCCATTTGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14557825 ATCTCATATATATTTCA
1 ATCTCATACATATTTCA
14557842 GCAATAGCTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.31, C:0.27, G:0.05, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:14570110 original size:43 final size:43
Alignment explanation
Indices: 14570049--14570138 Score: 144
Period size: 43 Copynumber: 2.1 Consensus size: 43
14570039 AGTTCGATGT
* * *
14570049 AATTCTAGGTATGGATTGGTTGATGCTACATAATTCTATTGTG
1 AATTCTAGGTATGGATTGGTTGATGCAACATAATGCCATTGTG
*
14570092 AATTCTAGGTCTGGATTGGTTGATGCAACATAATGCCATTGTG
1 AATTCTAGGTATGGATTGGTTGATGCAACATAATGCCATTGTG
14570135 AATT
1 AATT
14570139 GTAGACAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.27, C:0.11, G:0.23, T:0.39
Consensus pattern (43 bp):
AATTCTAGGTATGGATTGGTTGATGCAACATAATGCCATTGTG
Found at i:14576797 original size:52 final size:52
Alignment explanation
Indices: 14576683--14576860 Score: 231
Period size: 51 Copynumber: 3.5 Consensus size: 52
14576673 ACTAGTGACT
* *
14576683 CAAGTGTGGTACTATGTGAAGGCCACTTTGTG-A-ACAGATAGC-TTGGTTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* *
14576732 CAAGTGTGGTACTATGTTAAGGTCACTTTGTGAAGAAAGATAGCTTTGGTCA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
* * *
14576784 CAAGTGTGGTACTATGTGAATGCCACTTTGTGAAG-AAGGTAGCTTT-GACTA
1 CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTC-A
* *
14576835 CAAGGGTGGTACTATGTGCAGGCCAC
1 CAAGTGTGGTACTATGTGAAGGCCAC
14576861 GGGGTATCCG
Statistics
Matches: 113, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
49 30 0.27
50 3 0.03
51 42 0.37
52 38 0.34
ACGTcount: A:0.27, C:0.15, G:0.29, T:0.30
Consensus pattern (52 bp):
CAAGTGTGGTACTATGTGAAGGCCACTTTGTGAAGAAAGATAGCTTTGGTCA
Found at i:14582419 original size:48 final size:48
Alignment explanation
Indices: 14582242--14582419 Score: 214
Period size: 48 Copynumber: 3.7 Consensus size: 48
14582232 GCAGTACATA
* *
14582242 TGATCCTATGTAAGACCATTTCTGGGACATGGCATTGG-ATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* *
14582289 TGATCCCACGTAAGACCATGTTTGGGACATGGCATTGGCATCGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
* * * * *
14582337 TGGTCCCATGTAAGACCATATCTGGGATAAGGCATTGGCATTGATATG
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
**** * *
14582385 TGATTTTGTGTAAGACCACGTCTAGGACATGGCAT
1 TGATCCCATGTAAGACCATGTCTGGGACATGGCAT
14582420 CGATATGAGA
Statistics
Matches: 109, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
47 34 0.31
48 75 0.69
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (48 bp):
TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGATATG
Found at i:14583900 original size:43 final size:41
Alignment explanation
Indices: 14583814--14583939 Score: 146
Period size: 43 Copynumber: 3.0 Consensus size: 41
14583804 CATAGACTTA
* * *
14583814 TGATTTACGTGTAAGACCATGTCTGGGACATCGGCATCGTATT
1 TGATTT-CATGTAAGACCCTGTCTGGGACAT-GGCATTGTATT
*
14583857 TGATTTCATGTAAGACCCTGTCTGGGATAGTGGCATTGATATT
1 TGATTTCATGTAAGACCCTGTCTGGGACA-TGGCATTG-TATT
*
14583900 TGATTACATGTAAGACCAC-GTCTGGGACATTGGCATTGTA
1 TGATTTCATGTAAGACC-CTGTCTGGGACA-TGGCATTGTA
14583940 CGAGCTTTCT
Statistics
Matches: 73, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
42 28 0.38
43 44 0.60
44 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (41 bp):
TGATTTCATGTAAGACCCTGTCTGGGACATGGCATTGTATT
Found at i:14594976 original size:37 final size:37
Alignment explanation
Indices: 14594926--14595004 Score: 140
Period size: 37 Copynumber: 2.1 Consensus size: 37
14594916 TTATTACGAA
*
14594926 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
*
14594963 GTCTTACCCGGACATAATCTCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
14595000 GTCTT
1 GTCTT
14595005 TAGAGCTCGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 40 1.00
ACGTcount: A:0.24, C:0.30, G:0.19, T:0.27
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTCATCGG
Found at i:14595201 original size:47 final size:47
Alignment explanation
Indices: 14595123--14595695 Score: 941
Period size: 47 Copynumber: 12.1 Consensus size: 47
14595113 CCCTTCGGGA
* * * * * * *
14595123 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
* *
14595170 CCTGTCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
*
14595217 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
*
14595266 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
14595315 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
*
14595362 CTTATCACGTATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
*
14595409 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
*
14595456 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
*
14595503 CTTATCACATATATAGACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
14595550 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
*
14595597 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
14595644 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATAT--ACTTTCACATTCATCACATCGGCCATTAGGC
14595692 CTTA
1 CTTA
14595696 CTATCATTTC
Statistics
Matches: 503, Mismatches: 18, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
46 13 0.03
47 361 0.72
48 32 0.06
49 97 0.19
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14599066 original size:40 final size:40
Alignment explanation
Indices: 14599022--14599133 Score: 154
Period size: 40 Copynumber: 2.8 Consensus size: 40
14599012 GAATACACGT
* * *
14599022 CACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATAA
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
* * *
14599062 CACCAGCACGAATGCTCTTCGGAACTTAGCCCGGATACAT
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
*
14599102 CACTAGCATGAATGCTCTTC-GGACTTAGCCCG
1 CACCAGCATGAATGCTCTTCGGGACTTAGCCCG
14599134 ATTTAGTAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
39 11 0.17
40 52 0.83
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.22
Consensus pattern (40 bp):
CACCAGCATGAATGCTCTTCGGGACTTAGCCCGGATACAA
Found at i:14599155 original size:39 final size:39
Alignment explanation
Indices: 14599067--14599251 Score: 155
Period size: 40 Copynumber: 4.7 Consensus size: 39
14599057 TATAACACCA
** * *
14599067 GCACGAATGCTCTTCGGAACTTAGCCCGGATACA-TCACTA
1 GCACGAATGC-CTTCGG-ACTTAGCCCGGATTTAGTAACTC
*
14599107 GCATGAATGCTCTTCGGACTTAGCCC-GATTTAGTAACTC
1 GCACGAATGC-CTTCGGACTTAGCCCGGATTTAGTAACTC
* *
14599146 GCACCAATGCCTTCGG-CTTAGCCCGGA-TTAGTATCTC
1 GCACGAATGCCTTCGGACTTAGCCCGGATTTAGTAACTC
* * * * * *
14599183 GCACAAATGCCTTCGGATCTTAGTCCGGATATGGTCACTTA
1 GCACGAATGCCTTCGGA-CTTAGCCCGGATTTAGTAAC-TC
*
14599224 GCAC-AAAGCCTTCGGGACTTAGCCCGGA
1 GCACGAATGCCTTC-GGACTTAGCCCGGA
14599252 CATCATTCGA
Statistics
Matches: 121, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
37 32 0.26
38 12 0.10
39 31 0.26
40 38 0.31
41 8 0.07
ACGTcount: A:0.24, C:0.29, G:0.22, T:0.25
Consensus pattern (39 bp):
GCACGAATGCCTTCGGACTTAGCCCGGATTTAGTAACTC
Found at i:14599598 original size:29 final size:29
Alignment explanation
Indices: 14599559--14599637 Score: 113
Period size: 29 Copynumber: 2.7 Consensus size: 29
14599549 CTTAATAATC
* *
14599559 AACCACGCACACTTAGTGCCATGTATTTTA
1 AACC-CGCACACTTAGTGCCATGCATTTCA
*
14599589 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
14599618 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
14599638 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 41 0.93
30 3 0.07
ACGTcount: A:0.28, C:0.32, G:0.15, T:0.25
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:14601458 original size:37 final size:37
Alignment explanation
Indices: 14601408--14601523 Score: 187
Period size: 37 Copynumber: 3.1 Consensus size: 37
14601398 TTATTACGAA
*
14601408 GTCTTACCCGGACATAATCTCCGCACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
14601445 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
* * * *
14601482 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
14601519 GTCTT
1 GTCTT
14601524 TAGAGCTCGG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 74 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
Found at i:14601862 original size:47 final size:47
Alignment explanation
Indices: 14601642--14602119 Score: 807
Period size: 47 Copynumber: 10.1 Consensus size: 47
14601632 CCCTTCGGGA
* * * * * *
14601642 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14601689 C-TGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14601735 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14601784 C-TATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14601832 CTTATCACATATATATACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14601879 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14601926 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14601973 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14602020 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
14602067 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
14602116 CTTA
1 CTTA
14602120 CTATCATTTC
Statistics
Matches: 413, Mismatches: 12, Indels: 10
0.95 0.03 0.02
Matches are distributed among these distances:
46 39 0.09
47 238 0.58
48 48 0.12
49 88 0.21
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:14612968 original size:54 final size:54
Alignment explanation
Indices: 14612877--14612988 Score: 154
Period size: 54 Copynumber: 2.1 Consensus size: 54
14612867 AGCATGGCTG
*
14612877 CCAGAACAGACAATGTGACAGAGTCACCACATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGACAATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
* * * * *
14612931 CCAGAACAGATATATGTGGCAGAGCCACCAGAT-CAGATAATTGTGGCATAGCCA
1 CCAGAACAGACA-ATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
14612985 CCAG
1 CCAG
14612989 GACGCTTCCT
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 34 0.67
55 17 0.33
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (54 bp):
CCAGAACAGACAATGTGACAGAGCCACCACATACAGATAATCGTGGCAGAGCCA
Found at i:14612988 original size:27 final size:27
Alignment explanation
Indices: 14612877--14612988 Score: 120
Period size: 27 Copynumber: 4.1 Consensus size: 27
14612867 AGCATGGCTG
* * * *
14612877 CCAGAACAGACAA-TGTGACAGAGTCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
* *
14612903 CCACATACAGATAATCGTGGCAGAGCCA
1 CCAGAT-CAGATAATTGTGGCAGAGCCA
*
14612931 CCAGAACAGAT-ATATGTGGCAGAGCCA
1 CCAGATCAGATAAT-TGTGGCAGAGCCA
*
14612958 CCAGATCAGATAATTGTGGCATAGCCA
1 CCAGATCAGATAATTGTGGCAGAGCCA
14612985 CCAG
1 CCAG
14612989 GACGCTTCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 6 0.08
27 49 0.69
28 16 0.23
ACGTcount: A:0.37, C:0.25, G:0.23, T:0.15
Consensus pattern (27 bp):
CCAGATCAGATAATTGTGGCAGAGCCA
Found at i:14613156 original size:28 final size:26
Alignment explanation
Indices: 14613094--14613156 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
14613084 AAAGTAACCC
** * *
14613094 TAGGGGTATAATGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTCCACA
14613120 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTCC--ACA
14613148 TAGGGGTAT
1 TAGGGGTAT
14613157 TCAAGTAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 20 0.65
28 11 0.35
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTCCACA
Found at i:14615102 original size:68 final size:65
Alignment explanation
Indices: 14614988--14615237 Score: 231
Period size: 68 Copynumber: 3.8 Consensus size: 65
14614978 TAGATGGTAT
* * * *
14614988 GTAGCTAGGTCACATGTGTAATAC-AGGATGTATACCATGTGTACAAGAGAGCTACGAGACATTA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAG--A-TA
14615052 TGAA
63 -GAA
*
14615056 GTAGCTAGGTCGCATGGGTGATACTATG-TGTACACCATGTAG-ACAAGAGAGCTACGAGATAGA
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGT-GTACAAGAGAGCTACGAGATAGA
*
14615119 T
65 A
** * * * * * * ** *
14615120 GTAGCTAGGTTGCATGTGTGGTTCCAGGTGAAGGACACCATGTAAATAAGAGAGCTACGAGATA-
1 GTAGCTAGGTCACATGGGTGATACTA--TGATGTACACCATGTGTACAAGAGAGCTACGAGATAG
14615184 AA
64 AA
* *
14615186 GTGGCTAGGTCACATGGGTGATACTATG-CGTACACCATGTGTACAAGAGAGC
1 GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGC
14615238 CAAAATTATG
Statistics
Matches: 148, Mismatches: 28, Indels: 17
0.77 0.15 0.09
Matches are distributed among these distances:
63 19 0.13
64 25 0.17
65 2 0.01
66 23 0.16
67 28 0.19
68 48 0.32
69 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.29, T:0.24
Consensus pattern (65 bp):
GTAGCTAGGTCACATGGGTGATACTATGATGTACACCATGTGTACAAGAGAGCTACGAGATAGAA
Found at i:14616673 original size:93 final size:93
Alignment explanation
Indices: 14616561--14616731 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
14616551 GCCCATAAGA
*
14616561 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
14616625 ACGAGTTCGGATGCCTAGTTACATCTCAC
65 ACGAGTTCGGATGCCTAGTTACATCTCAC
*
14616654 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
14616719 CGAGTTCGGATGC
66 CGAGTTCGGATGC
14616732 TCAATCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14616726 original size:46 final size:46
Alignment explanation
Indices: 14616553--14616728 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
14616543 TGTAACCCGC
* * *
14616553 CCATAAGAGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
*
14616599 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
14616649 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
14616692 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14616729 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:14621256 original size:37 final size:37
Alignment explanation
Indices: 14621203--14621338 Score: 245
Period size: 37 Copynumber: 3.7 Consensus size: 37
14621193 CGAATAGTCC
* *
14621203 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
14621240 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
*
14621277 CCACACGTAGTCATCGGGTCTTACCCAGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
14621314 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
14621339 GGAATATATT
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 96 1.00
ACGTcount: A:0.25, C:0.32, G:0.18, T:0.24
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
Found at i:14621540 original size:48 final size:48
Alignment explanation
Indices: 14621482--14621867 Score: 700
Period size: 48 Copynumber: 8.0 Consensus size: 48
14621472 ATATACACAC
*
14621482 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14621530 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14621578 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14621626 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14621674 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
14621722 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
14621770 ATCTCATACATATTTCACACTAGACATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
14621818 ATCTCATACGTATTTCACATTAGCCATTCGGCTTTACCACATATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
14621866 AT
1 AT
14621868 TTATCTTGTA
Statistics
Matches: 326, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 326 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:14629053 original size:13 final size:13
Alignment explanation
Indices: 14629035--14629062 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
14629025 CCGTGTCAGG
14629035 CACACGGCCTGTT
1 CACACGGCCTGTT
14629048 CACACGGCCTGTT
1 CACACGGCCTGTT
14629061 CA
1 CA
14629063 TATGGGCGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.39, G:0.21, T:0.21
Consensus pattern (13 bp):
CACACGGCCTGTT
Found at i:14629435 original size:17 final size:18
Alignment explanation
Indices: 14629399--14629437 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
14629389 TTTCATTTGC
*
14629399 ATAATATAAAGCATAAGT
1 ATAATATAAACCATAAGT
*
14629417 ATAATATAATCCA-AAGT
1 ATAATATAAACCATAAGT
14629434 ATAA
1 ATAA
14629438 GCTTGGAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.56, C:0.08, G:0.08, T:0.28
Consensus pattern (18 bp):
ATAATATAAACCATAAGT
Found at i:14634204 original size:8 final size:8
Alignment explanation
Indices: 14634191--14634215 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
14634181 CAGCACCTGG
14634191 ATCACAAT
1 ATCACAAT
14634199 ATCACAAT
1 ATCACAAT
14634207 ATCACAAT
1 ATCACAAT
14634215 A
1 A
14634216 ACCCCTAATG
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:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (8 bp):
ATCACAAT
Found at i:14634247 original size:236 final size:235
Alignment explanation
Indices: 14633835--14634306 Score: 863
Period size: 236 Copynumber: 2.0 Consensus size: 235
14633825 TCAACGGGCC
14633835 TGCTCACACAAGCTATGGATCAAGACGTAGATACACGGTGCTACTCACACAAGCTGTAAGTAACC
1 TGCTCACACAAGCTATGGATCAAGACGTAGATACACGGTGCTACTCACACAAGCTGTAAGTAACC
14633900 ACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATAT
66 ACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATAT
*
14633965 CATAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGACC
131 CACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGACC
* *
14634030 GGGGTTTTCACGTTTGTCGAATCATCGTCGAACATGTCCA
196 GGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
* * *
14634070 TGCTCACACAAGCTATGGGTTAAGACGTAGATACATGGTGCTACTCACACAAGCTGTCAAGTAAC
1 TGCTCACACAAGCTATGGATCAAGACGTAGATACACGGTGCTACTCACACAAGCTGT-AAGTAAC
* *
14634135 CGCAACACATGATAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATA
65 CACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATA
14634200 TCACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGAC
130 TCACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGAC
14634265 CGGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
195 CGGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
14634306 T
1 T
14634307 AGTCTCATAT
Statistics
Matches: 228, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
235 54 0.24
236 174 0.76
ACGTcount: A:0.33, C:0.26, G:0.17, T:0.25
Consensus pattern (235 bp):
TGCTCACACAAGCTATGGATCAAGACGTAGATACACGGTGCTACTCACACAAGCTGTAAGTAACC
ACAACACATGACAGTATACTTAGCCACAGGTAGGACATACAGGACCAGCACCTGGATCACAATAT
CACAATATCACAATAACCCCTAATGACATGTCATTCATATCCTAATCTATTCCTAAGGTTCGACC
GGGATTTTCACGTTTGTCGAATCATCATCGAACATGTCCA
Found at i:14634634 original size:27 final size:25
Alignment explanation
Indices: 14634586--14634638 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 25
14634576 GTTTTATTTT
14634586 ATTAACCTTAATAAATAAATTACTAA
1 ATTAACCTTAATAAATAAATTA-TAA
14634612 ATTAACCTTTAATAAA-AACATTATAA
1 ATTAACC-TTAATAAATAA-ATTATAA
14634638 A
1 A
14634639 ACATCTAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
26 13 0.52
27 12 0.48
ACGTcount: A:0.55, C:0.11, G:0.00, T:0.34
Consensus pattern (25 bp):
ATTAACCTTAATAAATAAATTATAA
Found at i:14636270 original size:19 final size:19
Alignment explanation
Indices: 14636242--14636297 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 19
14636232 CATAACCAAT
14636242 GAAC-AAAAATAAATAAAA
1 GAACAAAAAATAAATAAAA
*
14636260 GAACAAAAAATAAATTTAAA
1 GAACAAAAAATAAA-TAAAA
*
14636280 GTA-AAAAAATAAATAAAA
1 GAACAAAAAATAAATAAAA
14636298 TAAAATCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
18 8 0.24
19 19 0.58
20 6 0.18
ACGTcount: A:0.75, C:0.04, G:0.05, T:0.16
Consensus pattern (19 bp):
GAACAAAAAATAAATAAAA
Found at i:14638670 original size:46 final size:48
Alignment explanation
Indices: 14638582--14638853 Score: 173
Period size: 46 Copynumber: 5.9 Consensus size: 48
14638572 TGGGTAAGGT
*
14638582 GCCGATGACATGTCCCAGACATGGTCTTACACT-AGCACTCATC-C-TT
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCGTA
* * *
14638628 GTCGATGCCATATCCCATACATGGTCTTACACTGA-CTA-TCATCTCGTA
1 GCCGATG-CATGTCCCAGACATGGTCTTACACTGAGC-ACTCATCTCGTA
* * *
14638676 GCCGATGCATGTCCCAGACAT-GTCTTACACTG-GC-TTACGTCTC-AA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACT-CATCTCGTA
* * ** * * *
14638721 GGTCAATGCATGTCCTGGACAT-GTCTTATACT-AGCCCTCGTCTCG-A
1 -GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCGTA
* * * *
14638767 TGCCGATGCCAT-TCCCAGACATGGTCTTACACTG-GCTCTCATAAT-ATG
1 -GCCGATG-CATGTCCCAGACATGGTCTTACACTGAGCACTCAT-CTCGTA
* *
14638815 GCTGATGCATGTCCCAGACAT-GTCTTACACT-AGCCCTCA
1 GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACTCA
14638854 ATAACCCATA
Statistics
Matches: 179, Mismatches: 29, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
45 2 0.01
46 119 0.66
47 50 0.28
48 8 0.04
ACGTcount: A:0.23, C:0.31, G:0.18, T:0.28
Consensus pattern (48 bp):
GCCGATGCATGTCCCAGACATGGTCTTACACTGAGCACTCATCTCGTA
Found at i:14638835 original size:93 final size:92
Alignment explanation
Indices: 14638580--14638853 Score: 260
Period size: 93 Copynumber: 3.0 Consensus size: 92
14638570 CGTGGGTAAG
* * * * *
14638580 GTGCCGATGACATGTCCCAGACATGGTCTTACACTAGCACTCATCCT-TGTC-GATGCCATATCC
1 GTGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCTGATG-CATGTCC
* **
14638643 CATACATGGTCTTACACT-GACTATCATCTC
64 CAGACAT-GTCTTACACTAG-CCCTCATCTC
*
14638673 GTAGCCGATGCATGTCCCAGACAT-GTCTTACACTGGCTTACGTC-TCA-A-GG-TCAATGCATG
1 GT-GCCGATGCATGTCCCAGACATGGTCTTACACTGGC-T-C-TCATCATATGGCT-GATGCATG
** * *
14638733 TCCTGGACATGTCTTATACTAGCCCTCGTCTC
61 TCCCAGACATGTCTTACACTAGCCCTCATCTC
*
14638765 GATGCCGATGCCAT-TCCCAGACATGGTCTTACACTGGCTCTCATAATATGGCTGATGCATGTCC
1 G-TGCCGATG-CATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCTGATGCATGTCC
14638829 CAGACATGTCTTACACTAGCCCTCA
64 CAGACATGTCTTACACTAGCCCTCA
14638854 ATAACCCATA
Statistics
Matches: 147, Mismatches: 19, Indels: 30
0.75 0.10 0.15
Matches are distributed among these distances:
90 2 0.01
91 3 0.02
92 48 0.33
93 78 0.53
94 14 0.10
95 2 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (92 bp):
GTGCCGATGCATGTCCCAGACATGGTCTTACACTGGCTCTCATCATATGGCTGATGCATGTCCCA
GACATGTCTTACACTAGCCCTCATCTC
Found at i:14641312 original size:40 final size:40
Alignment explanation
Indices: 14641267--14641538 Score: 350
Period size: 40 Copynumber: 6.8 Consensus size: 40
14641257 ATAACCACAA
* * * *
14641267 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
14641307 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
14641347 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* * * * * *
14641387 GCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
14641427 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* * * *
14641467 GCACAAATGCCTTCAGGTCTTAGCCCGAATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATATCAACTC
* *
14641507 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
14641539 CATTCAAATG
Statistics
Matches: 201, Mismatches: 28, Indels: 7
0.85 0.12 0.03
Matches are distributed among these distances:
39 4 0.02
40 189 0.94
41 8 0.04
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:14641464 original size:120 final size:120
Alignment explanation
Indices: 14641247--14641534 Score: 470
Period size: 120 Copynumber: 2.4 Consensus size: 120
14641237 TCTTCGGAAT
* * *
14641247 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
*
14641311 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCAGGTC
* *
14641366 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCTGGGTATAGCAACTTGCAC
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
14641431 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCAGGTC
66 AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCAGGTC
* * * * *
14641486 TTAGCCCGAATAAAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGG
1 TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGG
14641535 ATATCATTCA
Statistics
Matches: 156, Mismatches: 12, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
119 4 0.03
120 152 0.97
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (120 bp):
TTAGCCCGGATAAAATCACTAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
AAATGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCAGGTC
Found at i:14644088 original size:20 final size:19
Alignment explanation
Indices: 14644052--14644122 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
14644042 TATACATAAC
14644052 ATATA-ATAATAATAAAAT
1 ATATATATAATAATAAAAT
* *
14644070 GTATATATAATATTAAAA-
1 ATATATATAATAATAAAAT
*
14644088 ATATATATACATAAT-ATAT
1 ATATATATA-ATAATAAAAT
14644107 ATAATATATACATAAT
1 AT-ATATATA-ATAAT
14644123 TAGTATTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
18 14 0.32
19 17 0.39
20 13 0.30
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (19 bp):
ATATATATAATAATAAAAT
Found at i:14644104 original size:11 final size:11
Alignment explanation
Indices: 14644038--14644154 Score: 81
Period size: 11 Copynumber: 11.1 Consensus size: 11
14644028 TGATATTAAA
14644038 AATATATACAT
1 AATATATACAT
*
14644049 AACATATA-AT
1 AATATATACAT
14644059 AATA-ATA-A-
1 AATATATACAT
* *
14644067 AATGTATATAT
1 AATATATACAT
* *
14644078 AATAT-TAAAA
1 AATATATACAT
14644088 ATATATATACAT
1 A-ATATATACAT
14644100 AATATAT--AT
1 AATATATACAT
14644109 AATATATACAT
1 AATATATACAT
14644120 AATTAGTATTA-A-
1 AA-TA-TA-TACAT
14644132 AATATATACAT
1 AATATATACAT
*
14644143 AACATATACAT
1 AATATATACAT
14644154 A
1 A
14644155 TTAGAAATGA
Statistics
Matches: 85, Mismatches: 9, Indels: 24
0.72 0.08 0.20
Matches are distributed among these distances:
8 3 0.04
9 18 0.21
10 13 0.15
11 38 0.45
12 8 0.09
13 3 0.04
14 2 0.02
ACGTcount: A:0.56, C:0.06, G:0.02, T:0.36
Consensus pattern (11 bp):
AATATATACAT
Found at i:14644104 original size:27 final size:26
Alignment explanation
Indices: 14643960--14644144 Score: 82
Period size: 25 Copynumber: 7.6 Consensus size: 26
14643950 TAACAAAGAC
* *
14643960 AAAAATATATGCATAATATAGTATT-
1 AAAAATATATACATAATATAATATTA
* * * *
14643985 GAAAGTATTTACATGGA-ATAATA-TA
1 AAAAATATATACAT-AATATAATATTA
* * *
14644010 AAAAATGTATGA-ATAATGTGATATT-
1 AAAAATATAT-ACATAATATAATATTA
*
14644035 AAAAATATATACATAACATATAATAATA
1 AAAAATATATACAT-A-ATATAATATTA
* *
14644063 ATAAA-ATGT--AT-ATATAATATTA
1 AAAAATATATACATAATATAATATTA
14644085 AAAATATATATACATAATAT-ATA-T-
1 AAAA-ATATATACATAATATAATATTA
*
14644109 ---AATATATACATAAT-TAGTATT-
1 AAAAATATATACATAATATAATATTA
14644130 A-AAATATATACATAA
1 AAAAATATATACATAA
14644145 CATATACATA
Statistics
Matches: 119, Mismatches: 23, Indels: 38
0.66 0.13 0.21
Matches are distributed among these distances:
19 1 0.01
20 15 0.13
21 2 0.02
22 13 0.11
23 14 0.12
24 6 0.05
25 41 0.34
26 9 0.08
27 14 0.12
28 4 0.03
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.35
Consensus pattern (26 bp):
AAAAATATATACATAATATAATATTA
Found at i:14644284 original size:25 final size:26
Alignment explanation
Indices: 14644256--14644331 Score: 82
Period size: 27 Copynumber: 2.8 Consensus size: 26
14644246 TAAGAGTATG
*
14644256 TACATAATATAATGTT-AAAAATACA
1 TACATAATATAATATTAAAAAATACA
* *
14644281 TACATAATATAGTTATTAAAAAATATA
1 TACATAATATA-ATATTAAAAAATACA
*
14644308 TACATAAGATAATATGTAAGAAAA
1 TACATAATATAATAT-TAA-AAAA
14644332 ATATAATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
25 11 0.26
26 6 0.14
27 21 0.50
28 4 0.10
ACGTcount: A:0.57, C:0.05, G:0.07, T:0.32
Consensus pattern (26 bp):
TACATAATATAATATTAAAAAATACA
Found at i:14644919 original size:3 final size:3
Alignment explanation
Indices: 14644902--14645041 Score: 58
Period size: 3 Copynumber: 46.7 Consensus size: 3
14644892 AATGATATGA
* *
14644902 AAT AAT -AT AAT -AT AAT AA- AAA AAT AAT GA- AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * *
14644946 -AT GAAG ATT AAT AAT AGT AAT AGT AAC CAT AAT GAT AAT ATAT ACGT
1 AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT A-AT
* * **
14644993 ACAT GAAT AGT ATT AAT AAT AAT AAT AA- AAT AAAT AAT TTT AAT AAT
1 A-AT -AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT AAT AAT
14645040 AA
1 AA
14645042 AGTAATTAAA
Statistics
Matches: 100, Mismatches: 27, Indels: 20
0.68 0.18 0.14
Matches are distributed among these distances:
2 11 0.11
3 75 0.75
4 13 0.13
5 1 0.01
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14644959 original size:21 final size:19
Alignment explanation
Indices: 14644902--14644967 Score: 64
Period size: 19 Copynumber: 3.4 Consensus size: 19
14644892 AATGATATGA
14644902 AATAATAT-AATATAATAA-
1 AATAATATGAA-ATAATAAT
*
14644920 AAAAATAATGAAATAATAAT
1 AATAAT-ATGAAATAATAAT
14644940 AATAATATGAAGATTAATAAT
1 AATAATATGAA-A-TAATAAT
*
14644961 AGTAATA
1 AATAATA
14644968 GTAACCATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
18 5 0.12
19 14 0.35
20 8 0.20
21 13 0.32
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (19 bp):
AATAATATGAAATAATAAT
Found at i:14648999 original size:21 final size:21
Alignment explanation
Indices: 14648960--14649000 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14648950 TGTGTTAGAC
*
14648960 TAAATTGAATATGAATTATAT
1 TAAATTGAATATAAATTATAT
14648981 TAAATTGAAT-TAAATT-TAT
1 TAAATTGAATATAAATTATAT
14649000 T
1 T
14649001 CGTATAGATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 4 0.21
20 5 0.26
21 10 0.53
ACGTcount: A:0.46, C:0.00, G:0.07, T:0.46
Consensus pattern (21 bp):
TAAATTGAATATAAATTATAT
Found at i:14652165 original size:204 final size:204
Alignment explanation
Indices: 14651815--14652216 Score: 777
Period size: 204 Copynumber: 2.0 Consensus size: 204
14651805 TTTCATTATA
*
14651815 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGGATTGATAGT
1 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGAATTGATAGT
14651880 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
66 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
14651945 TAAATTCTTTATTATTACATTACTGATGAATACAAATTCACGAAAATATTTGACGAAGATTTGGC
131 TAAATTCTTTATTATTACATTACTGATGAATACAAATTCACGAAAATATTTGACGAAGATTTGGC
14652010 AACTTCAGG
196 AACTTCAGG
*
14652019 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAGCAAAATAGTGAATTGATAGT
1 AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGAATTGATAGT
14652084 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
66 TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
*
14652149 TAAATTCTTTATTATTACATTACTGATGAATACAACTTCACGAAAATATTTGACGAAGATTTGGC
131 TAAATTCTTTATTATTACATTACTGATGAATACAAATTCACGAAAATATTTGACGAAGATTTGGC
14652214 AAC
196 AAC
14652217 GTGTGAAATC
Statistics
Matches: 195, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
204 195 1.00
ACGTcount: A:0.38, C:0.12, G:0.17, T:0.33
Consensus pattern (204 bp):
AATAGATCAACAAAAGCAACGTTCAAATTTAGATTGAGGGAAAAACAAAATAGTGAATTGATAGT
TCGATTCTCTCTGTGTAAATTCGAGGTAAGTTCGTATGTTAATAAGCCTTAAGGTAATTGTATAT
TAAATTCTTTATTATTACATTACTGATGAATACAAATTCACGAAAATATTTGACGAAGATTTGGC
AACTTCAGG
Found at i:14653831 original size:30 final size:30
Alignment explanation
Indices: 14653796--14653861 Score: 123
Period size: 30 Copynumber: 2.2 Consensus size: 30
14653786 GGGTTGTTCG
*
14653796 TGTGTCACACACGGCCTAGACACATGCCCA
1 TGTGTCACACACAGCCTAGACACATGCCCA
14653826 TGTGTCACACACAGCCTAGACACATGCCCA
1 TGTGTCACACACAGCCTAGACACATGCCCA
14653856 TGTGTC
1 TGTGTC
14653862 TACCCATGTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.26, C:0.35, G:0.20, T:0.20
Consensus pattern (30 bp):
TGTGTCACACACAGCCTAGACACATGCCCA
Found at i:14657000 original size:3 final size:3
Alignment explanation
Indices: 14656985--14657181 Score: 96
Period size: 3 Copynumber: 65.0 Consensus size: 3
14656975 AGAAATATAT
* * * ** * * *
14656985 ATA ATA GTA ATA ATA AAA ATA ATG GCA GTA ATG ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
14657033 ATA GTA ATA ATAA ACA ACA ACA ACA ACA ATA ATA ATA ATA ATA ATTA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
* * * * **
14657080 ATG ATA ATA AAA ATA ATA GTA A-A GAAA ATA A-A GGCA A-A ATTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA -ATA ATA ATA -ATA ATA A-TA ATA
* * * *
14657125 ATA ATA GTA ATA ATA ATA ACA ATA ATA ATG GTA ATA ATA ATA A-A AGTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA
14657173 ATA ATA ATA
1 ATA ATA ATA
14657182 TGTTAAGTTT
Statistics
Matches: 149, Mismatches: 35, Indels: 20
0.73 0.17 0.10
Matches are distributed among these distances:
2 6 0.04
3 132 0.89
4 11 0.07
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (3 bp):
ATA
Found at i:14658795 original size:44 final size:45
Alignment explanation
Indices: 14658746--14659033 Score: 138
Period size: 44 Copynumber: 6.5 Consensus size: 45
14658736 AATTCGACCT
* *
14658746 ACTGCAACTTCAGAGG-TATAGGACTTA-TCA-CTTTAATCTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGA-TTACT-AGCTTCAATCTGCTCC
* *
14658790 ACTGCAACTTTA-AGGAGATAGGATTACTAGCTTCAATTTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGATTACTAGCTTCAATCTGCTCC
* * * ** * *
14658834 GCTGCAACTTCAG-GGAGATAAGACTT-GTAATTTCAACCTACTCC
1 ACTGCAACTTCAGAGGAGATAGGA-TTACTAGCTTCAATCTGCTCC
* * * *
14658878 ACTACAACTTCAG-GGAGATAAGG-TT--T-GTTTTAATCTGCTCT
1 ACTGCAACTTCAGAGGAGAT-AGGATTACTAGCTTCAATCTGCTCC
* * *
14658919 ACTGCAACTTCATA-GAGATAAGATCTGTAATTA-TAGCTTCAATTTGTTCC
1 ACTGCAACTTCAGAGGAGAT-AG----G--ATTACTAGCTTCAATCTGCTCC
* * * * * * *
14658969 ACTACAACTCCAG-GGAAATAAGATTCGCTATCTTCAGTCTGCTCC
1 ACTGCAACTTCAGAGGAGATAGGATT-ACTAGCTTCAATCTGCTCC
14659014 ACTGCAACTTCAG-GGAGATA
1 ACTGCAACTTCAGAGGAGATA
14659034 AGACTTATGA
Statistics
Matches: 184, Mismatches: 41, Indels: 37
0.70 0.16 0.14
Matches are distributed among these distances:
41 29 0.16
42 1 0.01
43 12 0.07
44 78 0.42
45 36 0.20
48 2 0.01
49 2 0.01
50 24 0.13
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (45 bp):
ACTGCAACTTCAGAGGAGATAGGATTACTAGCTTCAATCTGCTCC
Found at i:14662237 original size:23 final size:20
Alignment explanation
Indices: 14662205--14662246 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 20
14662195 CATGTGTGAA
14662205 AATTTCATGTTTGAATTTAGTC
1 AATTTCATG--TGAATTTAGTC
14662227 AATTTGCATGTGAATTTAGT
1 AATTT-CATGTGAATTTAGT
14662247 TAATAGGACT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 10 0.53
22 5 0.26
23 4 0.21
ACGTcount: A:0.29, C:0.07, G:0.17, T:0.48
Consensus pattern (20 bp):
AATTTCATGTGAATTTAGTC
Found at i:14664901 original size:45 final size:46
Alignment explanation
Indices: 14664804--14664912 Score: 150
Period size: 45 Copynumber: 2.3 Consensus size: 46
14664794 AGCTTAAGAT
*
14664804 CGAATGGCCAATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGC
1 CGAATGGCCAATGTGATGAATGTGAAAG-GTGAATATGTGATAAGGC
*
14664851 CGAATGGCCAATGTGAT-ATATGTGTAA-GTGAATATGTGATAAGGC
1 CGAATGGCCAATGTGATGA-ATGTGAAAGGTGAATATGTGATAAGGC
*
14664896 CGAATGACCAATTGTGA
1 CGAATGGCCAA-TGTGA
14664913 AAAGTGTGCA
Statistics
Matches: 57, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
45 27 0.47
46 6 0.11
47 24 0.42
ACGTcount: A:0.33, C:0.10, G:0.29, T:0.28
Consensus pattern (46 bp):
CGAATGGCCAATGTGATGAATGTGAAAGGTGAATATGTGATAAGGC
Found at i:14675578 original size:3 final size:3
Alignment explanation
Indices: 14675570--14675798 Score: 110
Period size: 3 Copynumber: 74.7 Consensus size: 3
14675560 TATCAATTAG
* ** * * * **
14675570 TAA TAA TAA AAA TAA TGG CAA TAA TGA TAA TAC TAA TAA TAA TTG TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * *
14675618 TAA TAAA CAA TAA TAA TAA TAA TTAA TGA TAA TAA AAA TAA TAG TAA
1 TAA T-AA TAA TAA TAA TAA TAA -TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
14675665 -AGA AAA TAA -AGA CAA -AA TTAA TAA TGA TAC TAA TGAA T-G TAA GTAA
1 TA-A TAA TAA TA-A TAA TAA -TAA TAA TAA TAA TAA T-AA TAA TAA -TAA
** *
14675711 TAA TAA TAA TAA TAA TGG TAA TAA TAA TAA -AA GTAA TAA TAA TACGT
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA -TAA TAA TAA TA--A
* * *
14675758 TAA GTTA TAA TAG TAA -AA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
14675799 TATTAAATTA
Statistics
Matches: 166, Mismatches: 43, Indels: 34
0.68 0.18 0.14
Matches are distributed among these distances:
2 9 0.05
3 136 0.82
4 19 0.11
5 2 0.01
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:14675637 original size:19 final size:19
Alignment explanation
Indices: 14675588--14675660 Score: 58
Period size: 19 Copynumber: 3.9 Consensus size: 19
14675578 AAAATAATGG
* *
14675588 CAATAATGATAATACT-AA
1 CAATAATAATAATAATAAA
* **
14675606 TAATAATTGTAATAATAAA
1 CAATAATAATAATAATAAA
*
14675625 CAATAATAATAATAATTAA
1 CAATAATAATAATAATAAA
** *
14675644 TGATAATAAAAATAATA
1 CAATAATAATAATAATA
14675661 GTAAAGAAAA
Statistics
Matches: 42, Mismatches: 12, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
18 12 0.29
19 30 0.71
ACGTcount: A:0.60, C:0.04, G:0.04, T:0.32
Consensus pattern (19 bp):
CAATAATAATAATAATAAA
Found at i:14679217 original size:29 final size:29
Alignment explanation
Indices: 14679176--14679238 Score: 110
Period size: 29 Copynumber: 2.2 Consensus size: 29
14679166 TGTGGCAAAG
*
14679176 TCTAT-TGAATTCTTCCTCCACTGTTGTT
1 TCTATCTGAATTCTTCCTCCACTGTCGTT
14679204 TCTATCTGAATTCTTCCTCCACTGTCGTT
1 TCTATCTGAATTCTTCCTCCACTGTCGTT
14679233 TCTATC
1 TCTATC
14679239 AAACAAATGA
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
28 5 0.15
29 28 0.85
ACGTcount: A:0.14, C:0.29, G:0.10, T:0.48
Consensus pattern (29 bp):
TCTATCTGAATTCTTCCTCCACTGTCGTT
Found at i:14681668 original size:90 final size:92
Alignment explanation
Indices: 14681543--14681710 Score: 268
Period size: 90 Copynumber: 1.8 Consensus size: 92
14681533 GCCCCTAAGT
* * * *
14681543 GAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTG-A-CGGACTCAACTCAAT
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCGGACTCAACTCAAC
14681606 GAGTTCGGATGCCTAGTTACATCTCAC
66 GAGTTCGGATGCCTAGTTACATCTCAC
*
14681633 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAC-CGGACTCAACTCAA
14681698 CGAGTTCGGATGC
65 CGAGTTCGGATGC
14681711 TCAACCATCC
Statistics
Matches: 70, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
90 43 0.61
91 1 0.01
93 26 0.37
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (92 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACCGGACTCAACTCAAC
GAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14681698 original size:46 final size:46
Alignment explanation
Indices: 14681538--14681707 Score: 174
Period size: 46 Copynumber: 3.7 Consensus size: 46
14681528 AACCCGCCCC
* * * *
14681538 TAAGTGAACTCGGACTCAACTCAATGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
14681584 TAAGTG-A--CGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
14681629 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
14681674 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
14681708 TGCTCAACCA
Statistics
Matches: 102, Mismatches: 10, Indels: 24
0.75 0.07 0.18
Matches are distributed among these distances:
42 2 0.02
43 26 0.25
44 3 0.03
45 6 0.06
46 37 0.36
47 26 0.25
48 2 0.02
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:14681726 original size:46 final size:45
Alignment explanation
Indices: 14681633--14681718 Score: 129
Period size: 46 Copynumber: 1.9 Consensus size: 45
14681623 TACATCTCAC
* *
14681633 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGA-ATGCGCAACCATAAGT
*
14681679 GAACTCGGACTCAACTCAACGAGTTCGG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCAT
14681719 CCTAGTGACA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
44 9 0.24
46 28 0.76
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGAATGCGCAACCATAAGT
Found at i:14689228 original size:93 final size:95
Alignment explanation
Indices: 14689121--14689294 Score: 298
Period size: 93 Copynumber: 1.8 Consensus size: 95
14689111 GCCCCTAAGT
* *
14689121 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGC-ATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCGATCCATAAGTGAACTCGGACTCAACTCA
14689185 A-CGAGTTCGGATGCCTAGTTACATCTCAC
66 ACCGAGTTCGGATGCCTAGTTACATCTCAC
*
14689214 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCGATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCGATCCATAAGTGAACTCGGACTCAACTCA
14689279 ACGCGAGTTCGGATGC
66 AC-CGAGTTCGGATGC
14689295 TCAACCCATC
Statistics
Matches: 75, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
93 33 0.44
94 29 0.39
96 13 0.17
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (95 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCGATCCATAAGTGAACTCGGACTCAACTCA
ACCGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:14689265 original size:47 final size:46
Alignment explanation
Indices: 14689116--14689291 Score: 198
Period size: 47 Copynumber: 3.7 Consensus size: 46
14689106 AACCCGCCCC
* * *
14689116 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
*
14689162 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
14689210 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCGATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-ATCCA
14689256 TAAGTGAACTCGGACTCAACTCAACGCGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAA--CGAGTTCGGA
14689292 TGCTCAACCC
Statistics
Matches: 109, Mismatches: 9, Indels: 21
0.78 0.06 0.15
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 3 0.03
45 1 0.01
46 34 0.31
47 48 0.44
48 2 0.02
49 12 0.11
50 3 0.03
51 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:14689749 original size:30 final size:30
Alignment explanation
Indices: 14689715--14689774 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14689705 ATTTAATACG
14689715 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
14689745 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
14689775 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:14691991 original size:15 final size:15
Alignment explanation
Indices: 14691971--14692000 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
14691961 CTTGTAGAGA
*
14691971 TTAAATATAACTAAT
1 TTAAATAAAACTAAT
14691986 TTAAATAAAACTAAT
1 TTAAATAAAACTAAT
14692001 ACAATTAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.00, T:0.37
Consensus pattern (15 bp):
TTAAATAAAACTAAT
Found at i:14696419 original size:26 final size:26
Alignment explanation
Indices: 14696331--14696419 Score: 61
Period size: 26 Copynumber: 3.2 Consensus size: 26
14696321 AATTCATATT
14696331 TTAATAATAATTATATTAAGAATTTTATTAAA
1 TTAATAATAATTATATTAA-AA---TA-T-AA
* * * * * *
14696363 TTATATATTATTTTTATTAAATTGTAT
1 TTA-ATAATAATTATATTAAAATATAA
14696390 TTAATAATAATTATATTAAAATATAA
1 TTAATAATAATTATATTAAAATATAA
14696416 TTAA
1 TTAA
14696420 ATTAGTTATT
Statistics
Matches: 44, Mismatches: 12, Indels: 8
0.69 0.19 0.12
Matches are distributed among these distances:
26 21 0.48
27 4 0.09
28 1 0.02
29 1 0.02
32 4 0.09
33 13 0.30
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (26 bp):
TTAATAATAATTATATTAAAATATAA
Found at i:14696457 original size:58 final size:59
Alignment explanation
Indices: 14696333--14696448 Score: 152
Period size: 58 Copynumber: 2.0 Consensus size: 59
14696323 TTCATATTTT
* * * *
14696333 AATAATAATTATATTAAGAATTTTATTAAATTATATATTATTTTTATTAAATTGTATTT
1 AATAATAATTATATTAAGAATATAATTAAATTATATATTATTTTTATTAAATTCTATTA
14696392 AATAATAATTATATTAA-AATATAATTAAATTAGT-TATTA-TTTT-TT-AATTCTATTA
1 AATAATAATTATATTAAGAATATAATTAAATTA-TATATTATTTTTATTAAATTCTATTA
14696447 AA
1 AA
14696449 ATTTAATAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
55 10 0.19
56 2 0.04
57 4 0.08
58 18 0.35
59 18 0.35
ACGTcount: A:0.45, C:0.01, G:0.03, T:0.52
Consensus pattern (59 bp):
AATAATAATTATATTAAGAATATAATTAAATTATATATTATTTTTATTAAATTCTATTA
Found at i:14696624 original size:16 final size:16
Alignment explanation
Indices: 14696600--14696634 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14696590 ATTATTTATC
* *
14696600 ACAGTTCTATTCTATT
1 ACAGCTCTATTCCATT
14696616 ACAGCTCTATTCCATT
1 ACAGCTCTATTCCATT
14696632 ACA
1 ACA
14696635 ATCTTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (16 bp):
ACAGCTCTATTCCATT
Found at i:14696902 original size:24 final size:24
Alignment explanation
Indices: 14696858--14696906 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
14696848 TAAATATTGA
* *
14696858 TTATTTTTTGTTTTTAATAAAAAT
1 TTATTTTTTGTTATAAATAAAAAT
14696882 TTATTTTTT-TTATAAACTAAAAAT
1 TTATTTTTTGTTATAAA-TAAAAAT
14696906 T
1 T
14696907 ATAAAATATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 5 0.23
24 17 0.77
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATTTTTTGTTATAAATAAAAAT
Found at i:14696910 original size:14 final size:15
Alignment explanation
Indices: 14696891--14696928 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
14696881 TTTATTTTTT
*
14696891 TTATAAACTA-AAAA
1 TTATAAAATACAAAA
14696905 TTATAAAATATCAAAA
1 TTATAAAATA-CAAAA
14696921 TTATAAAA
1 TTATAAAA
14696929 AAATTTAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.43
16 12 0.57
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.32
Consensus pattern (15 bp):
TTATAAAATACAAAA
Found at i:14698657 original size:39 final size:38
Alignment explanation
Indices: 14698591--14698674 Score: 114
Period size: 39 Copynumber: 2.2 Consensus size: 38
14698581 TTGCATTAAA
* * * *
14698591 ATTATATATGTGCAATATCTTATATGATTTTTACAATC
1 ATTATAAATCTGCAATATCATAGATGATTTTTACAATC
*
14698629 ATGTATAAATCTGCAATATCATAGATGATTTTTACTATC
1 AT-TATAAATCTGCAATATCATAGATGATTTTTACAATC
14698668 ATTATAA
1 ATTATAA
14698675 TATCATTCAT
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
38 7 0.17
39 33 0.82
ACGTcount: A:0.37, C:0.11, G:0.08, T:0.44
Consensus pattern (38 bp):
ATTATAAATCTGCAATATCATAGATGATTTTTACAATC
Found at i:14700730 original size:381 final size:382
Alignment explanation
Indices: 14699792--14700933 Score: 2206
Period size: 381 Copynumber: 3.0 Consensus size: 382
14699782 AATCTGATCA
*
14699792 AATAAATAT--AAAAAAAAAATCTTTTCCAAAGAAAAGGAACTAATAACAAAGTTGGTTAATTTA
1 AATAAATATAAAAAAAAAAAATCTTTTCCAAAGAAAAGTAACTAATAACAAAGTTGGTTAATTTA
14699855 ACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCATG
66 ACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCATG
*
14699920 ACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGACAATTATCCTTTCACTTTCTC
131 ACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGCCAATTATCCTTTCACTTTCTC
14699985 AGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTCC
196 AGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTCC
14700050 AAAGGGAAAAAAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCT
261 AAAGGG-AAAAAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCT
14700115 GGCCCGGACTTGGTAGCAGAGGCATCTGATGCTGTTTTTACCTGTAGTGGTCTTATCC
325 GGCCCGGACTTGGTAGCAGAGGCATCTGATGCTGTTTTTACCTGTAGTGGTCTTATCC
14700173 AATAAATATAAAAAAAAAAAAATCTTTTCCAAAGAAAAGTAACTAATAACAAAGTTGGTTAATTT
1 AATAAATAT-AAAAAAAAAAAATCTTTTCCAAAGAAAAGTAACTAATAACAAAGTTGGTTAATTT
14700238 AACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCAT
65 AACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCAT
14700303 GACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGCCAATTATCCTTTCACTTTCT
130 GACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGCCAATTATCCTTTCACTTTCT
14700368 CAGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTC
195 CAGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTC
14700433 CAAAGGGAAAAAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCT
260 CAAAGGGAAAAAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCT
14700498 GGCCCGGACTTGGTAGCAGAGGCATCTGATGCTG-TTTTACCTGTAGTGGTCTTATCC
325 GGCCCGGACTTGGTAGCAGAGGCATCTGATGCTGTTTTTACCTGTAGTGGTCTTATCC
14700555 AATAAATATAAAAAAAAAAAATCTTTTCCAAAGAAAAGTAACTAATAACAAAGTTGGTTAATTTA
1 AATAAATATAAAAAAAAAAAATCTTTTCCAAAGAAAAGTAACTAATAACAAAGTTGGTTAATTTA
14700620 ACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCATG
66 ACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCATG
14700685 ACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGCCAATTATCCTTTCACTTTCTC
131 ACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGCCAATTATCCTTTCACTTTCTC
14700750 AGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTCC
196 AGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTCC
14700815 AAAGGG---AAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCTG
261 AAAGGGAAAAAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCTG
14700877 GCCCGGACTTGGTAGCAGAGGCATCTGATGCTGTTTTTACCTGTAGTGGTCTTATCC
326 GCCCGGACTTGGTAGCAGAGGCATCTGATGCTGTTTTTACCTGTAGTGGTCTTATCC
14700934 CCTTATCTAA
Statistics
Matches: 755, Mismatches: 2, Indels: 10
0.98 0.00 0.01
Matches are distributed among these distances:
378 89 0.12
379 23 0.03
381 266 0.35
382 32 0.04
383 92 0.12
384 253 0.34
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.26
Consensus pattern (382 bp):
AATAAATATAAAAAAAAAAAATCTTTTCCAAAGAAAAGTAACTAATAACAAAGTTGGTTAATTTA
ACCAACATTCAACTTTGAAGAACCAAAACGGGAGAAAGAGGCAAAGGGCCAACAACAAGCGCATG
ACACTGCAAAGACATCCCCACCTCATCCTCTCACTCACCTTTGCCAATTATCCTTTCACTTTCTC
AGACAAGGCCAAAATAATATCTCAAATACCAATAATGCCAATTTTCCTTTCATTATTTTTTCTCC
AAAGGGAAAAAAAAAAAAAGTCAACCGTCAAACTCACACTGAGTTTGAGCCTGTACCTGTCCCTG
GCCCGGACTTGGTAGCAGAGGCATCTGATGCTGTTTTTACCTGTAGTGGTCTTATCC
Found at i:14709642 original size:29 final size:29
Alignment explanation
Indices: 14709603--14709663 Score: 77
Period size: 29 Copynumber: 2.1 Consensus size: 29
14709593 CATAACATAT
*
14709603 ATAAAAAATAATAAGTAATATAGAATAAA
1 ATAAAAAATAATAAATAATATAGAATAAA
* ** *
14709632 ATAAAATATAATAAATGTTATATAATAAA
1 ATAAAAAATAATAAATAATATAGAATAAA
14709661 ATA
1 ATA
14709664 TAAGTTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.30
Consensus pattern (29 bp):
ATAAAAAATAATAAATAATATAGAATAAA
Found at i:14709794 original size:13 final size:13
Alignment explanation
Indices: 14709747--14709823 Score: 50
Period size: 13 Copynumber: 5.6 Consensus size: 13
14709737 ATATATATAA
14709747 ATAATTAATAAATAT
1 ATAA-TAAT-AATAT
*
14709762 ATAATACAAGTAAAAT
1 ATAAT--AA-TAATAT
14709778 ATAATAATAATAT
1 ATAATAATAATAT
*
14709791 ATAAAAATAATGAT
1 ATAATAATAAT-AT
**
14709805 GGAA-AATAATA-
1 ATAATAATAATAT
14709816 ATAATAAT
1 ATAATAAT
14709824 TTGTGAAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
11 2 0.04
12 4 0.08
13 21 0.42
14 7 0.14
15 4 0.08
16 11 0.22
17 1 0.02
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.31
Consensus pattern (13 bp):
ATAATAATAATAT
Found at i:14709821 original size:22 final size:22
Alignment explanation
Indices: 14709786--14709839 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
14709776 ATATAATAAT
*
14709786 AATATATAAAAATAATGATG-GAA
1 AATA-ATAATAATAAT-ATGTGAA
*
14709809 AATAATAATAATAATTTGTGAA
1 AATAATAATAATAATATGTGAA
14709831 AA-AATAATA
1 AATAATAATA
14709840 TACGATAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
21 9 0.32
22 15 0.54
23 4 0.14
ACGTcount: A:0.61, C:0.00, G:0.09, T:0.30
Consensus pattern (22 bp):
AATAATAATAATAATATGTGAA
Found at i:14709880 original size:22 final size:21
Alignment explanation
Indices: 14709833--14709874 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
14709823 TTTGTGAAAA
14709833 AATA-ATATACGATAAATAAT
1 AATATATATACGATAAATAAT
*
14709853 AATATATATATGATAAAATAAT
1 AATATATATACGAT-AAATAAT
14709875 CTTATAGTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 4 0.21
21 8 0.42
22 7 0.37
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (21 bp):
AATATATATACGATAAATAAT
Found at i:14711974 original size:206 final size:205
Alignment explanation
Indices: 14711639--14712284 Score: 979
Period size: 206 Copynumber: 3.1 Consensus size: 205
14711629 TCTAATCATA
* * * * *
14711639 TGAAGGCCAAATCTA-CTATGTCTTTGATTTGTTCTTTGTAAGCATAAGGATGCCAAATCATCTT
1 TGAAAGCCAAATC-AGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTT
* *
14711703 GGATCTTGCTTAAGTCTAATCATCTGAAGGCCAGATCTGCTATATGTCTGCCCTCCGTCGAAGTG
65 GGATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTG
*
14711768 GAGATGCCAGACTTCGATTTGCTCTCCGCCAATACAGAGATGCCGAATCATCTTAGATTTGCTTC
130 GAGATGCCAGACTTCGATTTGCTCTCTGCCAATACAGAGATGCC-AATCATCTTAGATTTGCTTC
14711833 ATCGTAAACACG
194 ATCGTAAACACG
14711845 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
* *
14711910 GATCTTGCTTCAGTCTAATCATTTGAAGGCCAGATCTGCTATGCGTCTGCCCTCCGTCGAAGTGG
66 GATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
*
14711975 AGATGCCAGACTTCGATTTGCTCTCTGCCAATACAGAAATGCCAAATCATCTTAGATTTGCTTCA
131 AGATGCCAGACTTCGATTTGCTCTCTGCCAATACAGAGATGCC-AATCATCTTAGATTTGCTTCA
14712040 TCGTAAACACG
195 TCGTAAACACG
*
14712051 TGAAAGCCAAATTAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
1 TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
* * * * * * *
14712116 GATCTTGCTTCAGTCTAATCACCTGAAGGTCAGATCTGCTATGTATCTACTCTCCATTGAAGTGG
66 GATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
* * ** * *** * *
14712181 AGATGCCAGACTTCGATTTGTTCTTTAACAATACAAAGACAACAATCATCTTAGTTTTTACTTCA
131 AGATGCCAGACTTCGATTTGCTCTCTGCCAATACAGAGATGCCAATCATCTTAG-ATTTGCTTCA
14712246 TCGTAAACACG
195 TCGTAAACACG
*
14712257 TGAAAGCCAAATCAGCTATATCTTCGAT
1 TGAAAGCCAAATCAGCTATGTCTTCGAT
14712285 CTGCTCCCCG
Statistics
Matches: 403, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
205 12 0.03
206 391 0.97
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (205 bp):
TGAAAGCCAAATCAGCTATGTCTTCGATTTGTTCCTTATAAGCACAAGGATGCCAAATCATCTTG
GATCTTGCTTCAGTCTAATCATCTGAAGGCCAGATCTGCTATGTGTCTGCCCTCCGTCGAAGTGG
AGATGCCAGACTTCGATTTGCTCTCTGCCAATACAGAGATGCCAATCATCTTAGATTTGCTTCAT
CGTAAACACG
Found at i:14731516 original size:11 final size:11
Alignment explanation
Indices: 14731502--14731546 Score: 54
Period size: 11 Copynumber: 3.9 Consensus size: 11
14731492 AGATAAATAT
14731502 TATTTTATTAA
1 TATTTTATTAA
*
14731513 TATTTTAATAAGA
1 TATTTT-ATTA-A
*
14731526 TATTTTATTAT
1 TATTTTATTAA
14731537 TATTTTATTA
1 TATTTTATTA
14731547 GTATATAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
11 16 0.55
12 6 0.21
13 7 0.24
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:14733442 original size:46 final size:46
Alignment explanation
Indices: 14733390--14733709 Score: 399
Period size: 46 Copynumber: 7.0 Consensus size: 46
14733380 GCTCTCTGAA
*
14733390 ATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* *
14733436 ATGAAATGTGTAAGACCATGGTTGAAAGATACCCTGGCAACATGAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * * * *
14733482 ATGAAATGTGTAAGACCATAGCTGAGAGATACCATGGGAACATGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
** * * * *
14733528 GGGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAGCGTGAC
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
14733574 ATGAAATGAATAAGACCATGGTTGAAAGATACCATGGCAACGTGAA
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * *
14733620 ATGAAAAGAATAAGACCATGGTTGAAAGATACCATGGCAACATAAT
1 ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
* * * *
14733666 A-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCATCATG
1 ATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATG
14733710 TCAAAGATAA
Statistics
Matches: 241, Mismatches: 32, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
45 1 0.00
46 240 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.21
Consensus pattern (46 bp):
ATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACATGAT
Found at i:14735987 original size:43 final size:43
Alignment explanation
Indices: 14735922--14736087 Score: 174
Period size: 43 Copynumber: 3.9 Consensus size: 43
14735912 AGCTCGTACA
* * * * *
14735922 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCA-TATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATA-CG
* * * * *
14735964 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATAATACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
* *
14736007 ATGCCAATGTCCCAGACATGGTTTTACACGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
* * *
14736050 ATGCCAATTTCCCAGATATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACA
14736088 TCTCGATAAC
Statistics
Matches: 102, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
42 5 0.05
43 94 0.92
44 3 0.03
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGTAATCACAATACG
Found at i:14736584 original size:28 final size:28
Alignment explanation
Indices: 14736530--14736588 Score: 91
Period size: 28 Copynumber: 2.1 Consensus size: 28
14736520 GCTAGCCGAA
* *
14736530 TTTTGTATAGCTTCATAGTAGGGCATAT
1 TTTTGTATAGCTTCATAGGAGCGCATAT
*
14736558 TTTTGTATAGCTTCATAGGAGCTCATAT
1 TTTTGTATAGCTTCATAGGAGCGCATAT
14736586 TTT
1 TTT
14736589 CATTTATTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.46
Consensus pattern (28 bp):
TTTTGTATAGCTTCATAGGAGCGCATAT
Found at i:14743716 original size:43 final size:43
Alignment explanation
Indices: 14743651--14743823 Score: 174
Period size: 43 Copynumber: 4.0 Consensus size: 43
14743641 AGCTCGCACA
* * * *
14743651 ATGCC-ATATCCCAGATATGGTCTTACATGTTATCATATATCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
* * * *
14743693 ATGCCACTGTCCCAGACAAGGTCTTACACT-AAATCATAATAT-G
1 ATGCCAATGTCCCAGACATGGTCTTACA-TGTAATCA-CATATCG
* * *
14743736 ATGCCAATGTCCCAGACATGGTTTTACACGTAATCACA-ATACA
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATAT-CG
* *
14743779 ATGCCAATGTCTCAGACATGGTCTTACATGTAATCACATCTCG
1 ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
14743822 AT
1 AT
14743824 AACCTAATGT
Statistics
Matches: 105, Mismatches: 19, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
41 2 0.02
42 6 0.06
43 91 0.87
44 6 0.06
ACGTcount: A:0.32, C:0.24, G:0.14, T:0.29
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACATGTAATCACATATCG
Found at i:14744804 original size:20 final size:20
Alignment explanation
Indices: 14744775--14744825 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
14744765 AACAAAGTGT
*
14744775 TGAG-AATGTGTCCTTAACA
1 TGAGAAATGTGTCATTAACA
*
14744794 TGTGAAATGTGTCATTAACA
1 TGAGAAATGTGTCATTAACA
14744814 TGAGAAAT-TGTC
1 TGAGAAATGTGTC
14744826 TTCTTCACGC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
19 7 0.25
20 21 0.75
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (20 bp):
TGAGAAATGTGTCATTAACA
Found at i:14747016 original size:21 final size:21
Alignment explanation
Indices: 14746964--14747017 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
14746954 ATTAATTACG
*
14746964 TTAATTTTTAATAATATAAATGA
1 TTAATTTTT--TAATATAAATCA
* *
14746987 ATAAATTTTTAATATAAATCA
1 TTAATTTTTTAATATAAATCA
14747008 TTAATTTTTT
1 TTAATTTTTT
14747018 CTTTAATTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 19 0.73
23 7 0.27
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (21 bp):
TTAATTTTTTAATATAAATCA
Found at i:14747028 original size:30 final size:32
Alignment explanation
Indices: 14746994--14747056 Score: 76
Period size: 30 Copynumber: 2.0 Consensus size: 32
14746984 TGAATAAATT
*
14746994 TTTAATATAAAT-CATTAATTTT-TTCTTTAA
1 TTTAATATAAATAAATTAATTTTATTCTTTAA
* * *
14747024 TTTAATGTATATAAATTAATTTTATTTTTTAA
1 TTTAATATAAATAAATTAATTTTATTCTTTAA
14747056 T
1 T
14747057 AAAAAGATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 10 0.37
31 9 0.33
32 8 0.30
ACGTcount: A:0.37, C:0.03, G:0.02, T:0.59
Consensus pattern (32 bp):
TTTAATATAAATAAATTAATTTTATTCTTTAA
Found at i:14749357 original size:31 final size:31
Alignment explanation
Indices: 14749291--14749358 Score: 75
Period size: 31 Copynumber: 2.2 Consensus size: 31
14749281 ATTTTAAAAT
* * * *
14749291 TTAAAAAATATAAAAATTAAAATTGACTAAC
1 TTAAAAAATACAAAAACTAAAATTAACTAAA
*
14749322 TTAAAAAATACATAAACTAAAATTAA-TCAAA
1 TTAAAAAATACAAAAACTAAAATTAACT-AAA
14749353 TTAAAA
1 TTAAAA
14749359 TATAAATACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
30 1 0.03
31 30 0.97
ACGTcount: A:0.63, C:0.07, G:0.01, T:0.28
Consensus pattern (31 bp):
TTAAAAAATACAAAAACTAAAATTAACTAAA
Found at i:14753312 original size:115 final size:115
Alignment explanation
Indices: 14753179--14753468 Score: 415
Period size: 115 Copynumber: 2.5 Consensus size: 115
14753169 TTTTCAGGTT
* * * * *
14753179 ATTTTCATTTTGGAGAAAATCATAGTCATTTCCAAATGATTCCATTTCTACACTTTCATTTTCAT
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTTCACTTTCAT
* * *
14753244 TTTGGAGAAAACCATAGTCATTTCTAAATGA-TT-CTATTTCTCCATTTTTC
66 TTTGAAGAAAACCATAATCATTTC-AAATGATTTCCCATTTCTCCA-TTTTC
* *
14753294 ATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCCATTTCTCCATTTTCACTTTCAT
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTTCACTTTCAT
14753359 TTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
66 TTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
* *
14753409 ATTTTTATTTTGAAGAAAACCATAATCA-TTCCAAATGATTTTCCATTTCTCCATTTTCAC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA--TTCCATTTCTCCATTTTCAC
14753469 CATTTTTATT
Statistics
Matches: 157, Mismatches: 14, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
114 14 0.09
115 113 0.72
116 30 0.19
ACGTcount: A:0.30, C:0.20, G:0.07, T:0.44
Consensus pattern (115 bp):
ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTTCACTTTCAT
TTTGAAGAAAACCATAATCATTTCAAATGATTTCCCATTTCTCCATTTTC
Found at i:14753316 original size:58 final size:57
Alignment explanation
Indices: 14753179--14753467 Score: 402
Period size: 58 Copynumber: 5.0 Consensus size: 57
14753169 TTTTCAGGTT
* * * *
14753179 ATTTTCATTTTGGAGAAAATCATAGTCATTTCCAAATGATTCCATTTCTACACTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTTC
* * *
14753236 ATTTTCATTTTGGAGAAAACCATAGTCATTTCTAAATGATTCTATTTCTCCATTTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCA-TTTTC
* *
14753294 ATTTTCATTTTGGAGAAAACCATAATCATTTTCAAATGTTTCCATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTTC
* *
14753351 ACTTTCATTTTGAAGAAAACCATAATCATTT-CAAATGATTTCCCATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA-TT-CCATTTCTCCATTTTC
* *
14753409 ATTTTTATTTTGAAGAAAACCATAATCA-TTCCAAATGATTTTCCATTTCTCCATTTTC
1 ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGA--TTCCATTTCTCCATTTTC
14753467 A
1 A
14753468 CCATTTTTAT
Statistics
Matches: 212, Mismatches: 15, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
56 6 0.03
57 86 0.41
58 117 0.55
59 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.07, T:0.44
Consensus pattern (57 bp):
ATTTTCATTTTGGAGAAAACCATAATCATTTCCAAATGATTCCATTTCTCCATTTTC
Found at i:14755734 original size:24 final size:24
Alignment explanation
Indices: 14755681--14755770 Score: 83
Period size: 24 Copynumber: 3.8 Consensus size: 24
14755671 CTAGAACGCT
* * *
14755681 ATGAGTGGTTTGTCCATAATGTAA
1 ATGAGTGGTTTGACCACAATATAA
*
14755705 ACGAGTGGTTTGACCACAACTAT-A
1 ATGAGTGGTTTGACCACAA-TATAA
* * * * *
14755729 TTGAGTTGCTTGGCCACAATGTAA
1 ATGAGTGGTTTGACCACAATATAA
14755753 ATGAGTGGTTTGACCACA
1 ATGAGTGGTTTGACCACA
14755771 CCATAGAACT
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
23 2 0.04
24 46 0.92
25 2 0.04
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.31
Consensus pattern (24 bp):
ATGAGTGGTTTGACCACAATATAA
Found at i:14756728 original size:229 final size:229
Alignment explanation
Indices: 14756338--14756797 Score: 884
Period size: 229 Copynumber: 2.0 Consensus size: 229
14756328 AATAAAATTT
*
14756338 GATTGTTTAAATTTTCAACATTTTATCAAGTAACGATTTATAATCAGTGTACAAGATTTTTGTTA
1 GATTGTTTAAATTTTCAACATTTTATCAAGTAACAATTTATAATCAGTGTACAAGATTTTTGTTA
14756403 AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
66 AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
*
14756468 AGTTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
131 AATTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
14756533 AGCAAATCAATACACTGAGTTTTAAATAAAAGGA
196 AGCAAATCAATACACTGAGTTTTAAATAAAAGGA
14756567 GATTGTTTAAATTTTCAACATTTTATCAAGTAACAATTTATAATCAGTGTACAAGATTTTTGTTA
1 GATTGTTTAAATTTTCAACATTTTATCAAGTAACAATTTATAATCAGTGTACAAGATTTTTGTTA
*
14756632 GATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
66 AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
14756697 AATTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
131 AATTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
*
14756762 AGCAAATCAATACACTGAGTTTTAAATAAAGGGA
196 AGCAAATCAATACACTGAGTTTTAAATAAAAGGA
14756796 GA
1 GA
14756798 ACGATTGTCG
Statistics
Matches: 227, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
229 227 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.40
Consensus pattern (229 bp):
GATTGTTTAAATTTTCAACATTTTATCAAGTAACAATTTATAATCAGTGTACAAGATTTTTGTTA
AATTTTCTACTGTGACAGTTTCAAATTAACACGTTACTTTAAACCCTCAAAATTAGACTTTTCAA
AATTATTTGATTTTTTTGAAAATATCTTTCCAAGAATTTCAAAAGATTTACCTTAGTTTTCCTCA
AGCAAATCAATACACTGAGTTTTAAATAAAAGGA
Found at i:14772345 original size:46 final size:45
Alignment explanation
Indices: 14772177--14772346 Score: 209
Period size: 46 Copynumber: 3.7 Consensus size: 45
14772167 GGTTGAGCAT
* *
14772177 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * * * * *
14772222 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAATGTA-ACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT-TATGGATGCAACGC
14772266 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
14772314 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
14772347 GGGGCGGGTT
Statistics
Matches: 105, Mismatches: 14, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
44 4 0.04
45 32 0.30
46 64 0.61
47 2 0.02
48 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:14779892 original size:46 final size:45
Alignment explanation
Indices: 14779728--14779898 Score: 204
Period size: 46 Copynumber: 3.7 Consensus size: 45
14779718 GGTTGAGCAT
* *
14779728 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
* * * *
14779773 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATGTAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAC---GC
14779818 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGC-AACGC
*
14779866 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
14779899 GGGGCGGGTT
Statistics
Matches: 106, Mismatches: 11, Indels: 17
0.79 0.08 0.13
Matches are distributed among these distances:
42 5 0.05
44 2 0.02
45 29 0.27
46 32 0.30
47 28 0.26
48 4 0.04
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.29
Consensus pattern (45 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAACGC
Found at i:14787101 original size:49 final size:49
Alignment explanation
Indices: 14787033--14787280 Score: 221
Period size: 49 Copynumber: 5.2 Consensus size: 49
14787023 TGTGTGTGCT
* * *
14787033 AGTGTAAGTCCT-TCTGGGACATGACATCGGCACTGATAGATGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACTGATAGATGAGAGTC
* * * *
14787081 AGTGTAAAACCTGTCTGGGACATGGCATC-G-ACT--T-GAGGAGTGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACTGATAGATGAGAGTC
* * *
14787125 AGTGTAAGACCTGTCTGGGACATGGCATCGACACAGATAAATGAGAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACTGATAGATGAGAGTC
* * **
14787174 AGTGTAAGACCTATCTGGGACATCGCATCGGCTTTGAT-GTATG-GAAGTC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACTGATAG-ATGAG-AGTC
* * * * *
14787223 AGTGTAAGACCTATTTGGGACATGGCAT-TG-ACTGAGATG-TGAGAGCC
1 AGTGTAAGACCTGTCTGGGACATGGCATCGGCACTGATA-GATGAGAGTC
14787270 AGTGTAAGACC
1 AGTGTAAGACC
14787281 ATATTTGGAA
Statistics
Matches: 161, Mismatches: 28, Indels: 23
0.76 0.13 0.11
Matches are distributed among these distances:
44 34 0.21
45 1 0.01
46 2 0.01
47 22 0.14
48 15 0.09
49 87 0.54
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGGCACTGATAGATGAGAGTC
Found at i:14792790 original size:63 final size:63
Alignment explanation
Indices: 14792604--14792822 Score: 192
Period size: 63 Copynumber: 3.5 Consensus size: 63
14792594 GGTATTTTTA
* * * * * *
14792604 CTGCAATATTGAGTGGTTTGGCCACAACGTTATTGAGTGGCTTGACCATAA-CATGTAGCTTGT
1 CTGCAATATTAAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGA-GTAACTTGT
* ** * * * * *
14792667 TTGTGATATTCAA-TGGCTTGACCATAATGTTATTAAGTGGCTTGACCACAATGTGCAACTTGT
1 CTGCAATATT-AAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGAGTAACTTGT
* * * * *
14792730 CTGCGATATTAAGTGGCTTGACCACAACGTTATTCAGTGGTTTGACTATAATGAGTAACTTCT
1 CTGCAATATTAAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGAGTAACTTGT
* * *
14792793 CCGCAATA-TACAGTGGTTTGACCATAACGT
1 CTGCAATATTA-AGTGGCTTGACCACAACGT
14792823 GGAGTGTTAT
Statistics
Matches: 123, Mismatches: 29, Indels: 8
0.77 0.18 0.05
Matches are distributed among these distances:
62 4 0.03
63 118 0.96
64 1 0.01
ACGTcount: A:0.26, C:0.18, G:0.22, T:0.34
Consensus pattern (63 bp):
CTGCAATATTAAGTGGCTTGACCACAACGTTATTAAGTGGCTTGACCATAATGAGTAACTTGT
Found at i:14795725 original size:34 final size:35
Alignment explanation
Indices: 14795661--14795727 Score: 91
Period size: 36 Copynumber: 1.9 Consensus size: 35
14795651 TGATCTATGG
* * *
14795661 ATTTGCATGTTGAGCATGCCCTATTCTGAAAATCTA
1 ATTTGCATGATAAGCATG-CCTATTATGAAAATCTA
14795697 ATTTGCATGATAAGCATG-CTATTATGAAAAT
1 ATTTGCATGATAAGCATGCCTATTATGAAAAT
14795728 ATATATGAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 12 0.43
36 16 0.57
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (35 bp):
ATTTGCATGATAAGCATGCCTATTATGAAAATCTA
Found at i:14795736 original size:12 final size:12
Alignment explanation
Indices: 14795719--14795744 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14795709 AGCATGCTAT
14795719 TATGAAAATATA
1 TATGAAAATATA
14795731 TATGAAAATATA
1 TATGAAAATATA
14795743 TA
1 TA
14795745 AGATTTGATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TATGAAAATATA
Found at i:14806367 original size:30 final size:30
Alignment explanation
Indices: 14806333--14806399 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 30
14806323 CTTCTCACAT
*
14806333 TCTTTTTCACTCTCAAACTCTTTTTCATTC
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
*** *
14806363 TCTTTTTCAATCTCATTTTCTTTTTCATTT
1 TCTTTTTCAATCTCAAACTCTTTTTCATTC
14806393 TCTTTTT
1 TCTTTTT
14806400 GTTTTTCAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.00, T:0.63
Consensus pattern (30 bp):
TCTTTTTCAATCTCAAACTCTTTTTCATTC
Found at i:14806399 original size:18 final size:18
Alignment explanation
Indices: 14806357--14806408 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 18
14806347 AAACTCTTTT
*
14806357 TCATTCTCTTTTTCAATC
1 TCATTTTCTTTTTCAATC
* *
14806375 TCATTTTCTTTTTCATTT
1 TCATTTTCTTTTTCAATC
* *
14806393 TCTTTTTGTTTTTCAA
1 TCATTTTCTTTTTCAA
14806409 AGGCTTTTTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.13, C:0.19, G:0.02, T:0.65
Consensus pattern (18 bp):
TCATTTTCTTTTTCAATC
Found at i:14806406 original size:12 final size:12
Alignment explanation
Indices: 14806375--14806399 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
14806365 TTTTTCAATC
14806375 TCATTTTCTTTT
1 TCATTTTCTTTT
14806387 TCATTTTCTTTT
1 TCATTTTCTTTT
14806399 T
1 T
14806400 GTTTTTCAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (12 bp):
TCATTTTCTTTT
Found at i:14806507 original size:17 final size:15
Alignment explanation
Indices: 14806468--14806527 Score: 52
Period size: 16 Copynumber: 3.9 Consensus size: 15
14806458 CTTTTGCGTC
*
14806468 TCTTTTCTTTTTATT
1 TCTTTTCTTTTTTTT
* *
14806483 TC-ATT-TTTTTTGT
1 TCTTTTCTTTTTTTT
14806496 TCTTTTGCTTTTTCTTT
1 TCTTTT-CTTTTT-TTT
14806513 TCTTTTCTTTGTTTT
1 TCTTTTCTTT-TTTT
14806528 CTCGTTACAA
Statistics
Matches: 35, Mismatches: 5, Indels: 9
0.71 0.10 0.18
Matches are distributed among these distances:
13 8 0.23
14 4 0.11
15 2 0.06
16 11 0.31
17 10 0.29
ACGTcount: A:0.03, C:0.13, G:0.05, T:0.78
Consensus pattern (15 bp):
TCTTTTCTTTTTTTT
Found at i:14806518 original size:29 final size:28
Alignment explanation
Indices: 14806468--14806525 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 28
14806458 CTTTTGCGTC
*
14806468 TCTTTTCTTTTTATTTCATTTTTTTTGT
1 TCTTTTCTTTTTATTTCATTTTCTTTGT
*
14806496 TCTTTTGCTTTTTCTTTTC-TTTTCTTTGT
1 TCTTTT-CTTTTT-ATTTCATTTTCTTTGT
14806525 T
1 T
14806526 TTCTCGTTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
28 6 0.23
29 16 0.62
30 4 0.15
ACGTcount: A:0.03, C:0.14, G:0.05, T:0.78
Consensus pattern (28 bp):
TCTTTTCTTTTTATTTCATTTTCTTTGT
Found at i:14809725 original size:40 final size:40
Alignment explanation
Indices: 14809643--14809864 Score: 304
Period size: 40 Copynumber: 5.6 Consensus size: 40
14809633 AACCTAAGTA
* * * *
14809643 CCTTCGGGATTTAG-CCGGATAT-AGCAACTCGCGCAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAA-TAGCACAAATG
* * *
14809682 CCTTCGGGTCTTAGCCCGGATATAGTCAATAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
14809722 CCTTCGGGACTTAGCCCGGATATAATCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
14809762 CCTTCGGGACTTAGCTCGGATATAATCAATAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
* * *
14809802 CCTTCGAGACTTAGCCCGGATATAATCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
*
14809842 CCTTCGGGACTTAACCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
14809865 CATTCGAATA
Statistics
Matches: 162, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 12 0.07
40 147 0.91
41 3 0.02
ACGTcount: A:0.29, C:0.26, G:0.21, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAATCAATAGCACAAATG
Found at i:14813235 original size:13 final size:13
Alignment explanation
Indices: 14813222--14813271 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
14813212 AAACAGAATT
*
14813222 AGATATACAGATT
1 AGATATACAGATC
*
14813235 AAATATACAGATC
1 AGATATACAGATC
14813248 AGATATACAGATC
1 AGATATACAGATC
*
14813261 AGACATACAGA
1 AGATATACAGA
14813272 ATCCTACCCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 33 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.22
Consensus pattern (13 bp):
AGATATACAGATC
Found at i:14814305 original size:10 final size:10
Alignment explanation
Indices: 14814290--14814314 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
14814280 AATAACCCCA
14814290 AAATCTCTAC
1 AAATCTCTAC
14814300 AAATCTCTAC
1 AAATCTCTAC
14814310 AAATC
1 AAATC
14814315 CCTTATTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.28, G:0.00, T:0.28
Consensus pattern (10 bp):
AAATCTCTAC
Found at i:14820035 original size:30 final size:30
Alignment explanation
Indices: 14820001--14820061 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
14819991 TCTTTAATAC
*
14820001 AAACTTTGGAAAAATTACATTTTTTCCCCT
1 AAACTTTGGAAAAATTACACTTTTTCCCCT
* *
14820031 AAACTTTTGAATAATTACACTTTTTCCCCT
1 AAACTTTGGAAAAATTACACTTTTTCCCCT
14820061 A
1 A
14820062 GGCTCAGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTTCCCCT
Found at i:14824087 original size:15 final size:15
Alignment explanation
Indices: 14824067--14824098 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
14824057 GGAACACTTA
14824067 ACCACTGAAGCAGAT
1 ACCACTGAAGCAGAT
14824082 ACCACTGAAGCAGAT
1 ACCACTGAAGCAGAT
14824097 AC
1 AC
14824099 ATATTTGTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.41, C:0.28, G:0.19, T:0.12
Consensus pattern (15 bp):
ACCACTGAAGCAGAT
Found at i:14837558 original size:28 final size:28
Alignment explanation
Indices: 14837526--14837652 Score: 141
Period size: 28 Copynumber: 4.4 Consensus size: 28
14837516 ACATACATGC
14837526 ATATGGCCCA-CTTGGCCCAATCTCATTT
1 ATATGGCCCATC-TGGCCCAATCTCATTT
* * *
14837554 ATATGGCCCATCAGGCCCAATTTATATTT
1 ATATGGCCCATCTGGCCCAATCT-CATTT
* *
14837583 CATATGGCCCATCTGGCCCAAATCACCTTT
1 -ATATGGCCCATCTGGCCC-AATCTCATTT
*
14837613 ATATGGCCCAT-TAGGCCCAATATCATTT
1 ATATGGCCCATCT-GGCCCAATCTCATTT
14837641 ATATGGCCCATC
1 ATATGGCCCATC
14837653 CGACTCAAAT
Statistics
Matches: 82, Mismatches: 11, Indels: 11
0.79 0.11 0.11
Matches are distributed among these distances:
28 38 0.46
29 21 0.26
30 20 0.24
31 3 0.04
ACGTcount: A:0.25, C:0.30, G:0.14, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATCTGGCCCAATCTCATTT
Found at i:14837670 original size:28 final size:28
Alignment explanation
Indices: 14837526--14837672 Score: 120
Period size: 28 Copynumber: 5.1 Consensus size: 28
14837516 ACATACATGC
* *
14837526 ATATGGCCCA-CTTGGCCCAATCTCA-TTT
1 ATATGGCCCATC-AGGCCCAA-ATCACTTT
* * *
14837554 ATATGGCCCATCAGGCCCAATTTATATTT
1 ATATGGCCCATCAGGCCCAAATCA-CTTT
*
14837583 CATATGGCCCATCTGGCCCAAATCACCTTT
1 -ATATGGCCCATCAGGCCCAAATCA-CTTT
*
14837613 ATATGGCCCATTAGGCCCAATATCA-TTT
1 ATATGGCCCATCAGGCCCAA-ATCACTTT
* * * *
14837641 ATATGGCCCATCCGACTCAAATCACATT
1 ATATGGCCCATCAGGCCCAAATCACTTT
14837669 ATAT
1 ATAT
14837673 TCATGCTCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 12
0.78 0.12 0.10
Matches are distributed among these distances:
27 6 0.06
28 42 0.43
29 22 0.22
30 28 0.29
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.31
Consensus pattern (28 bp):
ATATGGCCCATCAGGCCCAAATCACTTT
Found at i:14853010 original size:42 final size:43
Alignment explanation
Indices: 14852954--14853048 Score: 113
Period size: 42 Copynumber: 2.2 Consensus size: 43
14852944 TTGTTTTATG
* *
14852954 TGTAAGACCATGTCTGGGACA-TCAGCATCG-TATCTGATTTCA
1 TGTAAGACCATGTCTAGGACAGT-AGCATCGATATCTGATTACA
* * * *
14852996 TGTAAGACCCTGTCTAGGACAGTGGCATCGATGTTTGATTACA
1 TGTAAGACCATGTCTAGGACAGTAGCATCGATATCTGATTACA
14853039 TGTAAGACCA
1 TGTAAGACCA
14853049 CATTTCGGAT
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
42 25 0.57
43 19 0.43
ACGTcount: A:0.27, C:0.20, G:0.23, T:0.29
Consensus pattern (43 bp):
TGTAAGACCATGTCTAGGACAGTAGCATCGATATCTGATTACA
Found at i:14854087 original size:55 final size:56
Alignment explanation
Indices: 14854002--14854108 Score: 162
Period size: 55 Copynumber: 1.9 Consensus size: 56
14853992 CTAAAATTGT
* * *
14854002 AAGTCAGGCTCGAGCACGGCCAAGGCACACAGGCGTGTCTTGTGGTCGTGTGGCCC
1 AAGTCAGGCTCGACCACGGCCAAGGCACACAGGCGTGTCTTATGGCCGTGTGGCCC
* *
14854058 AAGTCAGTCTCGACCA-TGCCAAGGCACACAGGCGTGTCTTATGGCCGTGTG
1 AAGTCAGGCTCGACCACGGCCAAGGCACACAGGCGTGTCTTATGGCCGTGTG
14854109 AGCAAGTCAG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
55 32 0.70
56 14 0.30
ACGTcount: A:0.20, C:0.28, G:0.33, T:0.20
Consensus pattern (56 bp):
AAGTCAGGCTCGACCACGGCCAAGGCACACAGGCGTGTCTTATGGCCGTGTGGCCC
Found at i:14863913 original size:31 final size:31
Alignment explanation
Indices: 14863840--14863913 Score: 112
Period size: 32 Copynumber: 2.4 Consensus size: 31
14863830 GTTTAAAGTA
* *
14863840 CTCTCCCCTAACTGATTACAAGTTGTTATTT
1 CTCTCCCCTAACTCATTACAAGTTATTATTT
*
14863871 TTCTTCCCCTAACTCATTACAAGTTATTATTT
1 CTC-TCCCCTAACTCATTACAAGTTATTATTT
14863903 CTCTCCCCTAA
1 CTCTCCCCTAA
14863914 TGTTGGGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 10 0.26
32 28 0.74
ACGTcount: A:0.23, C:0.30, G:0.05, T:0.42
Consensus pattern (31 bp):
CTCTCCCCTAACTCATTACAAGTTATTATTT
Found at i:14867728 original size:40 final size:40
Alignment explanation
Indices: 14867684--14867830 Score: 208
Period size: 40 Copynumber: 3.7 Consensus size: 40
14867674 ATTTGATGTG
*
14867684 TGTATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
14867724 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* * *
14867764 TCTATCCGGGTTTAAAGACCCGCAAGCT-TCGTGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTAT-ATGCTGGAAT
* * *
14867804 GGAATCCGGG-TTAAAGACCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
14867831 CGTGTTAGAA
Statistics
Matches: 97, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
39 16 0.16
40 81 0.84
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:14875411 original size:40 final size:40
Alignment explanation
Indices: 14875367--14875553 Score: 252
Period size: 40 Copynumber: 4.7 Consensus size: 40
14875357 ATTTGATGTG
* *
14875367 TGTATTCGGGCTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
14875407 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
*
14875447 TGTATCCGGGTTTAAAGACCCACAGGCTATATGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
* ** *
14875487 TCTATCCGGGTTTAAAGACTTGTAGGCT-TAGTGCTGGAAT
1 TGTATCCGGGTTTAAAGACCCGCAGGCTATA-TGCTGGAAT
* * * *
14875527 GGAATCAGGG-TTAAAGACCCGTAGGCT
1 TGTATCCGGGTTTAAAGACCCGCAGGCT
14875554 CGTGTTAGAA
Statistics
Matches: 132, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 17 0.13
40 115 0.87
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (40 bp):
TGTATCCGGGTTTAAAGACCCGCAGGCTATATGCTGGAAT
Found at i:14878349 original size:13 final size:13
Alignment explanation
Indices: 14878331--14878364 Score: 59
Period size: 13 Copynumber: 2.6 Consensus size: 13
14878321 CAGAGACACG
*
14878331 GCCGTGTGTCTAA
1 GCCGTGTATCTAA
14878344 GCCGTGTATCTAA
1 GCCGTGTATCTAA
14878357 GCCGTGTA
1 GCCGTGTA
14878365 GAAGATAGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.18, C:0.24, G:0.29, T:0.29
Consensus pattern (13 bp):
GCCGTGTATCTAA
Done.