Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 143 of 284
Found at i:47972196 original size:27 final size:27
Alignment explanation
Indices: 47972118--47972270 Score: 89
Period size: 27 Copynumber: 5.7 Consensus size: 27
47972108 TGGTTTACAA
** *
47972118 AATTACCAAAATA-CCCTCGATCAGTAA
1 AATTACCAAAATACCCCT-GATTTGTAG
* **
47972145 AATTAACAAAATACCCCTGGCTTGTAG
1 AATTACCAAAATACCCCTGATTTGTAG
*
47972172 AATTACCAAAATACCCCTAATTTGT-G
1 AATTACCAAAATACCCCTGATTTGTAG
* * * *
47972198 AAATTATCAAAATACTCTTGATTTCTA-
1 -AATTACCAAAATACCCCTGATTTGTAG
* * * * **
47972225 AAATATCGAAATACCCTTGGA-GGGTAG
1 AATTACCAAAATACCCCT-GATTTGTAG
*
47972252 AATTACCGAAATACCCCTG
1 AATTACCAAAATACCCCTG
47972271 TAGGGTAGAA
Statistics
Matches: 97, Mismatches: 24, Indels: 11
0.73 0.18 0.08
Matches are distributed among these distances:
26 19 0.20
27 74 0.76
28 4 0.04
ACGTcount: A:0.39, C:0.22, G:0.12, T:0.27
Consensus pattern (27 bp):
AATTACCAAAATACCCCTGATTTGTAG
Found at i:47972275 original size:27 final size:27
Alignment explanation
Indices: 47972231--47972474 Score: 245
Period size: 27 Copynumber: 9.4 Consensus size: 27
47972221 TCTAAAATAT
* *
47972231 CGAAATACCCTTGGAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47972258 CGAAATACCCCTGTA-GG--G---TA-
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
47972278 -G-AATACCCTTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47972303 CAAAATACCCCTGTAGGGCAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47972330 CGAAATACCCCTGTTGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47972357 CGAAATACCCTTGTAGGATAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** * * *
47972384 TAAAATATCTCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
** *
47972411 TAAAATACCCCTGTAGGGTAGAATAAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47972438 CAAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
47972465 CGAGATACCC
1 CGAAATACCC
47972475 TTTTGGGATA
Statistics
Matches: 178, Mismatches: 30, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
18 11 0.06
19 3 0.02
21 3 0.02
24 3 0.02
26 2 0.01
27 156 0.88
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:47972284 original size:18 final size:18
Alignment explanation
Indices: 47972261--47972299 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
47972251 GAATTACCGA
47972261 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
*
47972279 AATACCCTTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
47972297 AAT
1 AAT
47972300 TACCAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (18 bp):
AATACCCCTGTAGGGTAG
Found at i:47972298 original size:45 final size:45
Alignment explanation
Indices: 47972234--47972326 Score: 159
Period size: 45 Copynumber: 2.1 Consensus size: 45
47972224 AAAATATCGA
* *
47972234 AATACCCTTGGAGGGTAGAATTACCGAAATACCCCTGTAGGGTAG
1 AATACCCTTGGAGGGTAGAATTACCAAAATACCCCTGTAGGGCAG
*
47972279 AATACCCTTGTAGGGTAGAATTACCAAAATACCCCTGTAGGGCAG
1 AATACCCTTGGAGGGTAGAATTACCAAAATACCCCTGTAGGGCAG
47972324 AAT
1 AAT
47972327 TACCGAAATA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (45 bp):
AATACCCTTGGAGGGTAGAATTACCAAAATACCCCTGTAGGGCAG
Found at i:47972484 original size:108 final size:107
Alignment explanation
Indices: 47972287--47972490 Score: 300
Period size: 108 Copynumber: 1.9 Consensus size: 107
47972277 AGAATACCCT
* * * **
47972287 TGTAGGGTAGAATTACCAAAATACCCCTGTAGGGCAGAATTACCGAAATACCCCTGTTGGGTAGA
1 TGTAAGGTAGAATTACCAAAATACCCCTGTAGGGCAGAATAACCAAAATACCCCTGTAAGGTAGA
*
47972352 ATTATCGAAATACCCTTGTAGGATAGAATTACTAAAATATCTC
66 ATTACCGAAATACCCTTGTAGGATA-AATTACTAAAATATCTC
* *
47972395 TGTAAGGTAGAATTACTAAAATACCCCTGTAGGGTAGAATAACCAAAATACCCCTGTAAGGTAGA
1 TGTAAGGTAGAATTACCAAAATACCCCTGTAGGGCAGAATAACCAAAATACCCCTGTAAGGTAGA
* * *
47972460 ATTACCGAGATACCCTTTTGGGATAAATTAC
66 ATTACCGAAATACCCTTGTAGGATAAATTAC
47972491 CACTTTGCCC
Statistics
Matches: 85, Mismatches: 11, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
107 6 0.07
108 79 0.93
ACGTcount: A:0.36, C:0.18, G:0.19, T:0.26
Consensus pattern (107 bp):
TGTAAGGTAGAATTACCAAAATACCCCTGTAGGGCAGAATAACCAAAATACCCCTGTAAGGTAGA
ATTACCGAAATACCCTTGTAGGATAAATTACTAAAATATCTC
Found at i:47972732 original size:25 final size:25
Alignment explanation
Indices: 47972694--47972763 Score: 122
Period size: 25 Copynumber: 2.8 Consensus size: 25
47972684 AGGAAATGCT
*
47972694 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCG
*
47972719 AAAAGGGCTTTGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACCG
47972744 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
47972764 ATTAAAAGAG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.26, C:0.26, G:0.24, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCG
Found at i:47975468 original size:81 final size:81
Alignment explanation
Indices: 47974948--47975449 Score: 941
Period size: 81 Copynumber: 6.2 Consensus size: 81
47974938 AAGTACCCTC
47974948 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
47975013 TTATCGTTTTACCATT
66 TTATCGTTTTACCATT
47975029 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
47975094 TTATCGTTTTACCATT
66 TTATCGTTTTACCATT
47975110 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
47975175 TTATCGTTTTACCATT
66 TTATCGTTTTACCATT
47975191 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
47975256 TTATCGTTTTACCATT
66 TTATCGTTTTACCATT
47975272 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
1 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
47975337 TTATCGTTTTACCATT
66 TTATCGTTTTACCATT
** *
47975353 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACCATTTTACCCTCGATTTACAGAA
1 GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
** * *
47975418 TTATTATTTTACCCTC
66 TTATCGTTTTACCATT
47975434 GATTTACAAAATTACT
1 GATTTACAAAATTACT
47975450 AAAATACCCT
Statistics
Matches: 414, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 414 1.00
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (81 bp):
GATTTACAAAATTACTGTTTTACCCTCAATTTACAGAATTACTGTTTTACCCTCGATTTACAAAA
TTATCGTTTTACCATT
Found at i:47976173 original size:27 final size:27
Alignment explanation
Indices: 47975427--47976255 Score: 466
Period size: 27 Copynumber: 30.7 Consensus size: 27
47975417 ATTATTATTT
** *
47975427 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47975454 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975481 TACCCTCGATCAGTAAAATTAACAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
47975508 TAGCCCT-GGCTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
** * ******
47975535 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975562 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47975589 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975616 TACCCTCGATCAGTAAAATTAACAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
47975643 TAGCCCT-GGCTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
** * ******
47975670 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975697 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47975724 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975751 TACCCTCGATCAGTAAAATTAACAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
47975778 TAGCCCT-GGCTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
** * ******
47975805 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975832 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47975859 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975886 TACCCTCGATCAGTAAAATTAACAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
47975913 TAGCCCT-GGCTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
** * ******
47975940 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47975967 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47975994 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47976021 TACCCTCGATCAGTAAAATTAACAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
47976048 TAGCCCT-GGCTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
** * ******
47976075 TACCCTCGATTTACAGAATTATTGTTT
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47976102 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * **
47976129 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** *
47976156 TACCCTCGATCAGTAAAATTAACAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
47976183 TAGCCCT-GGCTTGTAAAATTACCAAAA
1 TA-CCCTCGATTTGTAAAATTACCAAAA
* *
47976210 TACCC-CTGATTTGTGAAATTATCAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
*
47976237 TACTCTCGATTTGTAAAAT
1 TACCCTCGATTTGTAAAAT
47976256 ATCGAAATAC
Statistics
Matches: 607, Mismatches: 181, Indels: 28
0.74 0.22 0.03
Matches are distributed among these distances:
26 23 0.04
27 559 0.92
28 25 0.04
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:47976251 original size:54 final size:54
Alignment explanation
Indices: 47976143--47976270 Score: 136
Period size: 54 Copynumber: 2.4 Consensus size: 54
47976133 CTTGGTTTAC
*
47976143 AAAATTACCAAAATA-CCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGT
1 AAAATTACCAAAATACCCCT-GATCAGTAAAATTAACAAAATAGCCCTGACTTGT
** * * * *
47976197 AAAATTACCAAAATACCCCTGATTTGTGAAATTATCAAAATA-CTCTCGATTTGT
1 AAAATTACCAAAATACCCCTGATCAGTAAAATTAACAAAATAGCCCT-GACTTGT
* *
47976251 AAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
47976271 TAGGGTAGAA
Statistics
Matches: 63, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
53 17 0.27
54 42 0.67
55 4 0.06
ACGTcount: A:0.41, C:0.21, G:0.10, T:0.27
Consensus pattern (54 bp):
AAAATTACCAAAATACCCCTGATCAGTAAAATTAACAAAATAGCCCTGACTTGT
Found at i:47976255 original size:135 final size:135
Alignment explanation
Indices: 47975400--47976214 Score: 1621
Period size: 135 Copynumber: 6.0 Consensus size: 135
47975390 ATTACCATTT
*
47975400 TACCCTCGATTTACAGAATTATTATTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
47975465 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
66 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
47975530 CAAAA
131 CAAAA
47975535 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
47975600 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
66 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
47975665 CAAAA
131 CAAAA
47975670 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
47975735 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
66 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
47975800 CAAAA
131 CAAAA
47975805 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
47975870 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
66 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
47975935 CAAAA
131 CAAAA
47975940 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
47976005 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
66 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
47976070 CAAAA
131 CAAAA
47976075 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
1 TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
47976140 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
66 TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
47976205 CAAAA
131 CAAAA
47976210 TACCC
1 TACCC
47976215 CTGATTTGTG
Statistics
Matches: 679, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
135 679 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (135 bp):
TACCCTCGATTTACAGAATTATTGTTTTACCCTCGATTTACAAAATTACTAAAATACCCTTGGTT
TACAAAATTACCAAAATACCCTCGATCAGTAAAATTAACAAAATAGCCCTGGCTTGTAAAATTAC
CAAAA
Found at i:47976287 original size:27 final size:27
Alignment explanation
Indices: 47976258--47976706 Score: 677
Period size: 27 Copynumber: 17.0 Consensus size: 27
47976248 TGTAAAATAT
*
47976258 CGAAATACCCCTGTAGGGTAGAATTAT
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976285 CGAAATACCCCTGTA-GG--G---TA-
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976305 -G-AATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976330 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
47976357 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976384 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
47976411 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976438 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
47976465 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976492 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
47976519 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976546 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
47976573 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976600 CGAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
**
47976627 TAAAATACCCCTGTAGGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
*
47976654 CGAAATACCCCTGTAAGGTAGAATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
* *
47976681 CGAGATA-CCCTTTAGGGTA-AATTAC
1 CGAAATACCCCTGTAGGGTAGAATTAC
47976706 C
1 C
47976707 ATTTTGCCCC
Statistics
Matches: 385, Mismatches: 28, Indels: 20
0.89 0.06 0.05
Matches are distributed among these distances:
18 12 0.03
19 3 0.01
21 3 0.01
24 3 0.01
25 7 0.02
26 13 0.03
27 344 0.89
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
CGAAATACCCCTGTAGGGTAGAATTAC
Found at i:47976311 original size:18 final size:18
Alignment explanation
Indices: 47976288--47976326 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
47976278 GAATTATCGA
47976288 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
47976306 AATACCCCTGTAGGGTAG
1 AATACCCCTGTAGGGTAG
47976324 AAT
1 AAT
47976327 TACCGAAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.31, C:0.21, G:0.26, T:0.23
Consensus pattern (18 bp):
AATACCCCTGTAGGGTAG
Found at i:47977678 original size:56 final size:56
Alignment explanation
Indices: 47977590--47977765 Score: 307
Period size: 56 Copynumber: 3.1 Consensus size: 56
47977580 ACAAGGGATG
*
47977590 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
* ***
47977646 ATGGGCAAAATATGTCATGAAACATAACGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
47977702 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
47977758 ATGGGCAA
1 ATGGGCAA
47977766 TAAACTAATA
Statistics
Matches: 111, Mismatches: 9, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
56 111 1.00
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:47979030 original size:79 final size:81
Alignment explanation
Indices: 47978894--47979076 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
47978884 TCGAATGATG
* *
47978894 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
47978958 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * * **
47978973 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
47979035 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
47979053 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
47979077 TGAACGAGTA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 59 0.66
80 30 0.33
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:47979092 original size:40 final size:40
Alignment explanation
Indices: 47978895--47979078 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
47978885 CGAATGATGT
* * * *
47978895 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* *
47978935 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
*
47978975 CCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47979013 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
47979054 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
47979079 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:47979100 original size:79 final size:79
Alignment explanation
Indices: 47978947--47979111 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
47978937 GGACTAAGAT
* **
47978947 CCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
*
47979012 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
47979026 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGAAGGCATTGGAACGAGTTA-C
* *
47979089 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
47979105 CCGAAGG
1 CCGAAGG
47979112 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 49 0.65
80 24 0.32
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGCATTGGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:47983108 original size:12 final size:12
Alignment explanation
Indices: 47983091--47983115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47983081 CCTATAGGGT
47983091 AAAATGACCGCA
1 AAAATGACCGCA
47983103 AAAATGACCGCA
1 AAAATGACCGCA
47983115 A
1 A
47983116 TACCCTTATA
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:0.52, C:0.24, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAATGACCGCA
Found at i:47983108 original size:39 final size:39
Alignment explanation
Indices: 47983065--47983139 Score: 123
Period size: 39 Copynumber: 1.9 Consensus size: 39
47983055 AAAATTAATT
*
47983065 AAATGACCATAATACCCCTATAGGGTAAAATGACCGCAA
1 AAATGACCACAATACCCCTATAGGGTAAAATGACCGCAA
* *
47983104 AAATGACCGCAATACCCTTATAGGGTAAAATGACCG
1 AAATGACCACAATACCCCTATAGGGTAAAATGACCG
47983140 TAATACCCCT
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 33 1.00
ACGTcount: A:0.41, C:0.23, G:0.17, T:0.19
Consensus pattern (39 bp):
AAATGACCACAATACCCCTATAGGGTAAAATGACCGCAA
Found at i:47983144 original size:27 final size:27
Alignment explanation
Indices: 47983103--47983296 Score: 253
Period size: 27 Copynumber: 7.2 Consensus size: 27
47983093 AATGACCGCA
* *
47983103 AAAATGACCGCAATACCCTTATAGGGT
1 AAAATGACCGTAATACCCCTATAGGGT
*
47983130 AAAATGACCGTAATACCCCTGTAGGGT
1 AAAATGACCGTAATACCCCTATAGGGT
* * *
47983157 AAAATGGCCGTAATGCCCCTATAAGGT
1 AAAATGACCGTAATACCCCTATAGGGT
* * * * *
47983184 AAAATGATCATAATGCTCATATAGGGT
1 AAAATGACCGTAATACCCCTATAGGGT
*
47983211 AAAATGACCGTAATACCCCTGTAGGGT
1 AAAATGACCGTAATACCCCTATAGGGT
*
47983238 AAAATGACCGTAATGCCCCTATAGGGT
1 AAAATGACCGTAATACCCCTATAGGGT
* *
47983265 AAAATGACCGTAATACCCCTGTATGGT
1 AAAATGACCGTAATACCCCTATAGGGT
47983292 AAAAT
1 AAAAT
47983297 AATGATTATG
Statistics
Matches: 143, Mismatches: 24, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 143 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (27 bp):
AAAATGACCGTAATACCCCTATAGGGT
Found at i:47983293 original size:81 final size:81
Alignment explanation
Indices: 47983103--47983296 Score: 289
Period size: 81 Copynumber: 2.4 Consensus size: 81
47983093 AATGACCGCA
* * *
47983103 AAAATGACCGCAATACCCTTATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGGCCGT
1 AAAATGACCGTAATACCCATATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGT
47983168 AATGCCCCTATAAGGT
66 AATGCCCCTATAAGGT
* * * *
47983184 AAAATGATCATAATGCTCATATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGT
1 AAAATGACCGTAATACCCATATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGT
*
47983249 AATGCCCCTATAGGGT
66 AATGCCCCTATAAGGT
* * *
47983265 AAAATGACCGTAATACCCCTGTATGGTAAAAT
1 AAAATGACCGTAATACCCATATAGGGTAAAAT
47983297 AATGATTATG
Statistics
Matches: 98, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 98 1.00
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (81 bp):
AAAATGACCGTAATACCCATATAGGGTAAAATGACCGTAATACCCCTGTAGGGTAAAATGACCGT
AATGCCCCTATAAGGT
Found at i:47983485 original size:27 final size:26
Alignment explanation
Indices: 47983435--47983493 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
47983425 ATGGAGGAAG
*
47983435 TACTGTACTGGTGACTATGTCACAAT
1 TACTGTACTGGTGACTATGCCACAAT
* * *
47983461 TACTGATACTGGTGGCTTTGCCACATT
1 TACTG-TACTGGTGACTATGCCACAAT
47983488 TACTGT
1 TACTGT
47983494 TTCTGGCAGC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 6 0.21
27 22 0.79
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.37
Consensus pattern (26 bp):
TACTGTACTGGTGACTATGCCACAAT
Found at i:47984124 original size:37 final size:37
Alignment explanation
Indices: 47983979--47984123 Score: 236
Period size: 37 Copynumber: 3.9 Consensus size: 37
47983969 GGAAATATAT
47983979 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
47984016 TCCGGGTAAGTCCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
47984053 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * * *
47984090 TTCGGGTAAGACCCGATAACTTCGCGTGGAGATT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATT
47984124 TCATTTGAGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 101 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:47985764 original size:30 final size:30
Alignment explanation
Indices: 47985730--47985826 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
47985720 AGCTCACTCC
47985730 TAGCTCATA-TTTAGCTCACGAGCTAAACCT
1 TAGCTCA-ACTTTAGCTCACGAGCTAAACCT
* * * * * *
47985760 TAGCTCAACTTCAGCTTAGGAGTTTAGCCT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
* *
47985790 CAGCTCAACTTTAGCTCACGAGCTAAAACT
1 TAGCTCAACTTTAGCTCACGAGCTAAACCT
47985820 TAGCTCA
1 TAGCTCA
47985827 TTTTAGTTTA
Statistics
Matches: 51, Mismatches: 15, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
29 1 0.02
30 50 0.98
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (30 bp):
TAGCTCAACTTTAGCTCACGAGCTAAACCT
Found at i:47989356 original size:40 final size:40
Alignment explanation
Indices: 47989153--47989344 Score: 294
Period size: 40 Copynumber: 4.8 Consensus size: 40
47989143 GAGAATTGAG
*
47989153 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
47989193 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTTGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
47989233 AGTGATGTATCCGGACTAAGTCTCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
47989273 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
47989313 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATGTATCCGGGCTAAGTCCCGAAGAGCA
47989345 ATCATGCTGG
Statistics
Matches: 139, Mismatches: 13, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 139 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGTGATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:47993347 original size:47 final size:47
Alignment explanation
Indices: 47993293--47993392 Score: 137
Period size: 47 Copynumber: 2.1 Consensus size: 47
47993283 TTAGGATTTT
* * * *
47993293 ATGTGATGAATGTGAATATGTATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATATGAACATGCATATATGAGATAAAGCCGAATGGCCA
* * *
47993340 ATGTGATGAATATGAACATGCATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATATGAACATGCATATATGAGATAAAGCCGAATGGCCA
47993387 ATGTGA
1 ATGTGA
47993393 AATATATGTA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.09, G:0.27, T:0.28
Consensus pattern (47 bp):
ATGTGATGAATATGAACATGCATATATGAGATAAAGCCGAATGGCCA
Found at i:47993400 original size:47 final size:47
Alignment explanation
Indices: 47993305--47993447 Score: 135
Period size: 47 Copynumber: 3.0 Consensus size: 47
47993295 GTGATGAATG
* * * * * *
47993305 TGAATATGTATATATGAGATAAGGCCGAATGGCCAATGTGATGA-ATA
1 TGAACATGTATATATGTGGTAAAGCCGAATGGCTAATGTGA-AATATA
*
47993352 TGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATA
1 TGAACATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATA
* * * * *
47993399 TGTATGAGATATGTATATGTGGTAAAGCCGAATGGATAGTGTGAAATAT
1 TG-A--ACATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATAT
47993448 GTAGGCGATG
Statistics
Matches: 79, Mismatches: 13, Indels: 5
0.81 0.13 0.05
Matches are distributed among these distances:
46 1 0.01
47 40 0.51
48 1 0.01
50 37 0.47
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.29
Consensus pattern (47 bp):
TGAACATGTATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATA
Found at i:47994259 original size:33 final size:33
Alignment explanation
Indices: 47994216--47994280 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
47994206 GCATTACACT
* * * *
47994216 GTACTGTTACTGTATAGGTCTAAGGCCTAGACC
1 GTACTATTACTGAATAGGGCTAAGGCCCAGACC
*
47994249 GTACTATTACTGAATAGGGCTTAGGCCCAGAC
1 GTACTATTACTGAATAGGGCTAAGGCCCAGAC
47994281 TGTTACTGCA
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.26, C:0.22, G:0.25, T:0.28
Consensus pattern (33 bp):
GTACTATTACTGAATAGGGCTAAGGCCCAGACC
Found at i:47994320 original size:21 final size:21
Alignment explanation
Indices: 47994294--47994336 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
47994284 TACTGCATGC
47994294 ATTGTTTACTGTTTGACTGAT
1 ATTGTTTACTGTTTGACTGAT
47994315 ATTGTTTACTGTTTGACTGAT
1 ATTGTTTACTGTTTGACTGAT
47994336 A
1 A
47994337 GCAAATTACG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.21, C:0.09, G:0.19, T:0.51
Consensus pattern (21 bp):
ATTGTTTACTGTTTGACTGAT
Found at i:48009514 original size:16 final size:17
Alignment explanation
Indices: 48009478--48009521 Score: 58
Period size: 15 Copynumber: 2.7 Consensus size: 17
48009468 GATTGTTGTG
48009478 TTTTGTTTTTTTTTAAC
1 TTTTGTTTTTTTTTAAC
48009495 --TTGTTTTTTTTT-AC
1 TTTTGTTTTTTTTTAAC
48009509 TTTTGTTTGTTTT
1 TTTTGTTT-TTTT
48009522 CTTGGTATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
14 2 0.08
15 12 0.50
16 6 0.25
17 4 0.17
ACGTcount: A:0.07, C:0.05, G:0.09, T:0.80
Consensus pattern (17 bp):
TTTTGTTTTTTTTTAAC
Found at i:48010190 original size:10 final size:10
Alignment explanation
Indices: 48010175--48010199 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
48010165 TCAAATTTTA
48010175 AACTCCTAAT
1 AACTCCTAAT
48010185 AACTCCTAAT
1 AACTCCTAAT
48010195 AACTC
1 AACTC
48010200 TTAAAATGGG
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:0.40, C:0.32, G:0.00, T:0.28
Consensus pattern (10 bp):
AACTCCTAAT
Found at i:48010308 original size:55 final size:55
Alignment explanation
Indices: 48010224--48010335 Score: 206
Period size: 55 Copynumber: 2.0 Consensus size: 55
48010214 ATTGTATGGC
* *
48010224 AGCCTTGTATTTGAAATTTGAAATTCAAACACAAACTACTTGATCTTATCCTTGA
1 AGCCTCGTATTTGAAATTTGAAATTCAAACACAAACTACTTGAACTTATCCTTGA
48010279 AGCCTCGTATTTGAAATTTGAAATTCAAACACAAACTACTTGAACTTATCCTTGA
1 AGCCTCGTATTTGAAATTTGAAATTCAAACACAAACTACTTGAACTTATCCTTGA
48010334 AG
1 AG
48010336 TTGACGCCAA
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 55 1.00
ACGTcount: A:0.36, C:0.19, G:0.12, T:0.34
Consensus pattern (55 bp):
AGCCTCGTATTTGAAATTTGAAATTCAAACACAAACTACTTGAACTTATCCTTGA
Found at i:48014770 original size:128 final size:128
Alignment explanation
Indices: 48014537--48014797 Score: 450
Period size: 128 Copynumber: 2.0 Consensus size: 128
48014527 CCATACCAAG
*
48014537 GCTTTGGTTTGCTGGAATCGCTTGGATCTCGAATCCGTAGTGGCGGTTGTGGTGCTTGTTTCCTG
1 GCTTTGGTTTGCTGGAATCACTTGGATCTCGAATCCGTAGTGGCGGTTGTGGTGCTTGTTTCCTG
* *
48014602 GCATTGTTAGAAGTATACAATGGATTTGAAAAAGAATTAAATAGAGTATTACCTCGTGTAGAA
66 GCATTGTTAGAAATATACAATGGATTTGAAAAAGAATTAAATAGAGTATTACCTCGAGTAGAA
*
48014665 GCTTTGGTTTGCTGGATTCACTTGGATCTCGAATCCGTAGTGGCGGTTGTGGTGCTTGTTTCCTG
1 GCTTTGGTTTGCTGGAATCACTTGGATCTCGAATCCGTAGTGGCGGTTGTGGTGCTTGTTTCCTG
* * * *
48014730 GTATTGTTAGAAATATACAATGGATTTGAAAAATATTTAAATGGAGTATTACCTCGAGTAGAA
66 GCATTGTTAGAAATATACAATGGATTTGAAAAAGAATTAAATAGAGTATTACCTCGAGTAGAA
48014793 GCTTT
1 GCTTT
48014798 TCTATGTTGT
Statistics
Matches: 125, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 125 1.00
ACGTcount: A:0.25, C:0.13, G:0.26, T:0.36
Consensus pattern (128 bp):
GCTTTGGTTTGCTGGAATCACTTGGATCTCGAATCCGTAGTGGCGGTTGTGGTGCTTGTTTCCTG
GCATTGTTAGAAATATACAATGGATTTGAAAAAGAATTAAATAGAGTATTACCTCGAGTAGAA
Found at i:48024463 original size:29 final size:29
Alignment explanation
Indices: 48024428--48024501 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
48024418 GTTGTGAGAT
* *
48024428 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
48024457 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
48024486 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
48024502 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:48027282 original size:10 final size:9
Alignment explanation
Indices: 48027269--48027303 Score: 61
Period size: 9 Copynumber: 3.8 Consensus size: 9
48027259 CTTTTCCTTT
48027269 TTTTTTCATA
1 TTTTTTC-TA
48027279 TTTTTTCTA
1 TTTTTTCTA
48027288 TTTTTTCTA
1 TTTTTTCTA
48027297 TTTTTTC
1 TTTTTTC
48027304 ACTTTTATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 18 0.72
10 7 0.28
ACGTcount: A:0.11, C:0.11, G:0.00, T:0.77
Consensus pattern (9 bp):
TTTTTTCTA
Found at i:48030435 original size:52 final size:52
Alignment explanation
Indices: 48030357--48030460 Score: 208
Period size: 52 Copynumber: 2.0 Consensus size: 52
48030347 GAACTTACTA
48030357 TTGAGCTTGGAAAGCTTGAAAACTCTAGCCATGGCTTCCCCCATGCTAATTT
1 TTGAGCTTGGAAAGCTTGAAAACTCTAGCCATGGCTTCCCCCATGCTAATTT
48030409 TTGAGCTTGGAAAGCTTGAAAACTCTAGCCATGGCTTCCCCCATGCTAATTT
1 TTGAGCTTGGAAAGCTTGAAAACTCTAGCCATGGCTTCCCCCATGCTAATTT
48030461 CGGCCTCAAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 52 1.00
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (52 bp):
TTGAGCTTGGAAAGCTTGAAAACTCTAGCCATGGCTTCCCCCATGCTAATTT
Found at i:48034261 original size:47 final size:47
Alignment explanation
Indices: 48034210--48034375 Score: 212
Period size: 47 Copynumber: 3.5 Consensus size: 47
48034200 GTGTATATGA
48034210 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* *
48034257 GATAAGGCCGAATGGCCAATGTGATGAATATGAACATGCATATATGT
1 GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
* * *
48034304 GATAAGGCCGAATGGCTAATGTGA-AATATGTATGAGATATGCATATGTG-
1 GATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-ACATGCATATGTGT
* *
48034353 G-TAAAGCCGAATGGTCAATGTGA
1 GATAAGGCCGAATGGCCAATGTGA
48034376 AATATATATA
Statistics
Matches: 105, Mismatches: 10, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
46 1 0.01
47 70 0.67
48 19 0.18
49 4 0.04
50 11 0.10
ACGTcount: A:0.34, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
GATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGT
Found at i:48034390 original size:50 final size:48
Alignment explanation
Indices: 48034297--48034481 Score: 273
Period size: 48 Copynumber: 3.8 Consensus size: 48
48034287 TGAACATGCA
* *
48034297 TATATGTGATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
* *
48034345 CATATGTGGTAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AATGTG-AA-ATATGTATGAGATATG
* *
48034395 TATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
*
48034443 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTA
1 TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTA
48034482 GGCGATGTGC
Statistics
Matches: 124, Mismatches: 9, Indels: 8
0.88 0.06 0.06
Matches are distributed among these distances:
47 1 0.01
48 77 0.62
49 4 0.03
50 41 0.33
51 1 0.01
ACGTcount: A:0.35, C:0.08, G:0.27, T:0.31
Consensus pattern (48 bp):
TATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATG
Found at i:48034416 original size:98 final size:98
Alignment explanation
Indices: 48034201--48034478 Score: 297
Period size: 98 Copynumber: 2.9 Consensus size: 98
48034191 TGTGATTGTG
* * * * *
48034201 TGTATATGAGATAAGGCCGAATGGCCAATGTGATGA-ATG--TGA-ACATGCATATGTGTGATAA
1 TGTATATGTGATAAAGCCGAATGGCTAATGTGA-AATATGTATGAGATATGCATATGTG-G-TAA
* * * *
48034262 GGCCGAATGGCCAATGTG--AT-GA-ATATGA-ACA
63 AGCCGAATGGCTAATGTGAAATATATATATGAGATA
*
48034293 TGCATATATGTGATAAGGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAA
1 TG--TATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAA
48034358 GCCGAATGG-TCAATGTGAAATATATATATGAGATA
64 GCCGAATGGCT-AATGTGAAATATATATATGAGATA
* * * *
48034393 TGTATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAGATATGTATATGTGGTAAAGC
1 TGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGC
*
48034458 CGAATGGCTAGTGTGAAATAT
66 CGAATGGCTAATGTGAAATAT
48034479 GTAGGCGATG
Statistics
Matches: 159, Mismatches: 14, Indels: 20
0.82 0.07 0.10
Matches are distributed among these distances:
92 2 0.01
93 1 0.01
94 32 0.20
95 18 0.11
96 4 0.03
97 14 0.09
98 77 0.48
99 7 0.04
100 4 0.03
ACGTcount: A:0.35, C:0.09, G:0.27, T:0.29
Consensus pattern (98 bp):
TGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATGTATGAGATATGCATATGTGGTAAAGC
CGAATGGCTAATGTGAAATATATATATGAGATA
Found at i:48034672 original size:37 final size:37
Alignment explanation
Indices: 48034617--48034734 Score: 166
Period size: 37 Copynumber: 3.2 Consensus size: 37
48034607 ACATGAAACT
* * *
48034617 TGGAAATATATTCTGGGTAAGACTCGATGACTACGTG
1 TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
48034654 TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
1 TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
* * *
48034691 TGGAGAT-TTTGTCCGGGTAAGACCCGATAACTCCGTG
1 TGGAGATATAT-TCCGGGTAAGACCCGATGACTACGTG
48034728 TGGAGAT
1 TGGAGAT
48034735 TTTGTCTGAG
Statistics
Matches: 74, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
36 2 0.03
37 72 0.97
ACGTcount: A:0.26, C:0.17, G:0.30, T:0.27
Consensus pattern (37 bp):
TGGAGATATATTCCGGGTAAGACCCGATGACTACGTG
Found at i:48034735 original size:37 final size:37
Alignment explanation
Indices: 48034631--48034740 Score: 168
Period size: 37 Copynumber: 3.0 Consensus size: 37
48034621 AATATATTCT
* *
48034631 GGGTAAGACTCGATGACTACGTGTGGAGATATAT-TCC
1 GGGTAAGACCCGATGACTACGTGTGGAGAT-TTTGTCC
48034668 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
* *
48034705 GGGTAAGACCCGATAACTCCGTGTGGAGATTTTGTC
1 GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTC
48034741 TGAGCTAAAG
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
36 2 0.03
37 66 0.97
ACGTcount: A:0.24, C:0.18, G:0.31, T:0.27
Consensus pattern (37 bp):
GGGTAAGACCCGATGACTACGTGTGGAGATTTTGTCC
Found at i:48038781 original size:13 final size:15
Alignment explanation
Indices: 48038762--48038796 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
48038752 ATACAATCAT
48038762 CAGAATCAG-ATATA
1 CAGAATCAGAATATA
48038776 CA-AATCAGAATATA
1 CAGAATCAGAATATA
48038790 CAGAATC
1 CAGAATC
48038797 CTATCCCCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 6 0.32
14 9 0.47
15 4 0.21
ACGTcount: A:0.51, C:0.17, G:0.11, T:0.20
Consensus pattern (15 bp):
CAGAATCAGAATATA
Found at i:48039003 original size:12 final size:12
Alignment explanation
Indices: 48038986--48039015 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
48038976 TTCCCATTCC
48038986 AAAATAGATACA
1 AAAATAGATACA
48038998 AAAATAGATACA
1 AAAATAGATACA
*
48039010 GAAATA
1 AAAATA
48039016 ACATATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.67, C:0.07, G:0.10, T:0.17
Consensus pattern (12 bp):
AAAATAGATACA
Found at i:48041158 original size:39 final size:39
Alignment explanation
Indices: 48040996--48041148 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
48040986 ATTACCAGCA
* * * *
48040996 CCAGCACGAAGCTTGGGGGTCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
*
48041035 CCAGCACGAAGCCTGCGGGACTTTAGCCCGAATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
48041074 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
48041113 CCAGCACGAAGCCTGCGGGACTCTAACCCGGATACA
1 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACA
48041149 ATCTCAGCAC
Statistics
Matches: 106, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 106 1.00
ACGTcount: A:0.24, C:0.31, G:0.25, T:0.19
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:48058866 original size:40 final size:40
Alignment explanation
Indices: 48058822--48058913 Score: 134
Period size: 40 Copynumber: 2.3 Consensus size: 40
48058812 GCTCCTCGTT
*
48058822 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACATAACCCGGATT-TAGT-ATCTCGCA
*
48058862 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTATCTCGCA
48058902 CAAATGCCTTCG
1 CAAATGCCTTCG
48058914 AATCTTAGTC
Statistics
Matches: 48, Mismatches: 2, Indels: 4
0.89 0.04 0.07
Matches are distributed among these distances:
39 2 0.04
40 44 0.92
41 2 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTATCTCGCA
Found at i:48060636 original size:40 final size:40
Alignment explanation
Indices: 48060577--48060743 Score: 180
Period size: 40 Copynumber: 4.2 Consensus size: 40
48060567 TATCACAAAG
*
48060577 CCCGAAGGCAATT-GTGCGAGTTATTATACCCGGGCTAATT
1 CCCGAAGGC-ATTCGTGCGAGTTATTATATCCGGGCTAATT
* * * *
48060617 CCCAAAGGCATTCGTGCGAGTTATTATGTTCGGGCTAAGT
1 CCCGAAGGCATTCGTGCGAGTTATTATATCCGGGCTAATT
* *
48060657 CCCGAAGGCATTGGTGCGAGTTACTATATCCGGGCT-ATGT
1 CCCGAAGGCATTCGTGCGAGTTATTATATCCGGGCTAAT-T
* * * *
48060697 CCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAAT
1 CCCGAAGGCATTCGTGCGAGTTA-TTATATCCGGGCTAATT
48060736 CCCGAAGG
1 CCCGAAGG
48060744 TACTTGGCTT
Statistics
Matches: 108, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
39 18 0.17
40 90 0.83
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.26
Consensus pattern (40 bp):
CCCGAAGGCATTCGTGCGAGTTATTATATCCGGGCTAATT
Found at i:48066282 original size:39 final size:40
Alignment explanation
Indices: 48066227--48066402 Score: 202
Period size: 40 Copynumber: 4.5 Consensus size: 40
48066217 TGGATGATAA
* *
48066227 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-TAT
48066267 CCGGGC-AAGTCCCGAAGGCATTTGTG-TGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGTTACTATAT
* * *
48066306 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
* *
48066346 CCGGGCTAAGTCCTGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTA-CTATAT
**
48066385 CC-GGCTAAACCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
48066403 TACTTGGTTG
Statistics
Matches: 119, Mismatches: 12, Indels: 12
0.83 0.08 0.08
Matches are distributed among these distances:
38 17 0.14
39 41 0.34
40 61 0.51
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
Found at i:48066383 original size:79 final size:78
Alignment explanation
Indices: 48066228--48066402 Score: 203
Period size: 79 Copynumber: 2.2 Consensus size: 78
48066218 GGATGATAAC
* * *
48066228 CGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTTCCGGGCAAGTCCCGAAGGCATTTGTG
1 CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTACCGGGCAAGTCCCGAAGGCATTTGAG
*
48066293 TGAGTTACTATATT
66 TCAGTTACTATA-T
* * *
48066307 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAACCGGGCTAAGTCCTGAAGGCATTTG
1 CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGT-ACCGGGC-AAGTCCCGAAGGCATTTG
48066371 AG-CAG-TAGCTATAT
64 AGTCAGTTA-CTATAT
* **
48066385 CCGGCTAAACCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
48066403 TACTTGGTTG
Statistics
Matches: 83, Mismatches: 10, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
78 19 0.23
79 46 0.55
80 18 0.22
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (78 bp):
CGGGCTAAGTCCCGAAGGCATTTGCGCGAGTGACTAGTACCGGGCAAGTCCCGAAGGCATTTGAG
TCAGTTACTATAT
Found at i:48070911 original size:40 final size:40
Alignment explanation
Indices: 48070010--48070910 Score: 1662
Period size: 40 Copynumber: 22.5 Consensus size: 40
48070000 TACTTGCTCG
* * * *
48070010 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACC
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
* *
48070050 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070090 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070130 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070170 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070210 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070250 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070290 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070330 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070370 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070410 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070450 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070490 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070530 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070570 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070610 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070650 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070690 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070730 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
48070770 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
* *
48070810 AATGCCTTCAGGACTTAGCCCGGATATAGTAGCTCGCACA
1 AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
* * * *
48070850 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCA-CTAGCGCC
1 AATGCCTTCGGGACTTAGCCCAGATA-TAGT-AGCTCGCACA
48070890 AATGCCTTCGGGACTTAGCCC
1 AATGCCTTCGGGACTTAGCCC
48070911 GATTATCATC
Statistics
Matches: 849, Mismatches: 10, Indels: 4
0.98 0.01 0.00
Matches are distributed among these distances:
39 1 0.00
40 847 1.00
41 1 0.00
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCAGATATAGTAGCTCGCACA
Found at i:48074640 original size:12 final size:12
Alignment explanation
Indices: 48074625--48074653 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
48074615 TCTCATCCCA
48074625 AAATAGATACAG
1 AAATAGATACAG
48074637 AAATAGATACAG
1 AAATAGATACAG
48074649 AAATA
1 AAATA
48074654 ACATATTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.62, C:0.07, G:0.14, T:0.17
Consensus pattern (12 bp):
AAATAGATACAG
Found at i:48077494 original size:30 final size:30
Alignment explanation
Indices: 48077458--48077518 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48077448 TCCTTAACTC
48077458 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
48077488 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
48077518 A
1 A
48077519 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:48078413 original size:36 final size:37
Alignment explanation
Indices: 48078350--48078424 Score: 125
Period size: 36 Copynumber: 2.1 Consensus size: 37
48078340 GTGTGGGCCC
*
48078350 ACATGCCTAACTTGGCCTAGCCAATGTGGCCTACACG
1 ACATGCCCAACTTGGCCTAGCCAATGTGGCCTACACG
*
48078387 ACATGCCCAACTTGG-CTAGCCAATGTGGCCTGCACG
1 ACATGCCCAACTTGGCCTAGCCAATGTGGCCTACACG
48078423 AC
1 AC
48078425 CACACTCGAG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
36 22 0.61
37 14 0.39
ACGTcount: A:0.24, C:0.33, G:0.23, T:0.20
Consensus pattern (37 bp):
ACATGCCCAACTTGGCCTAGCCAATGTGGCCTACACG
Found at i:48078824 original size:29 final size:29
Alignment explanation
Indices: 48078780--48078835 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
48078770 TTCAACGCTC
*
48078780 ACCATCTTCTCCTACACCACAAATTGCTT
1 ACCACCTTCTCCTACACCACAAATTGCTT
* *
48078809 ACCACCTTCTCTTACACCATAAATTGC
1 ACCACCTTCTCCTACACCACAAATTGC
48078836 ATAAATTAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.29, C:0.38, G:0.04, T:0.30
Consensus pattern (29 bp):
ACCACCTTCTCCTACACCACAAATTGCTT
Found at i:48081171 original size:52 final size:51
Alignment explanation
Indices: 48081107--48081238 Score: 185
Period size: 50 Copynumber: 2.6 Consensus size: 51
48081097 ATGAACAAAT
* *
48081107 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAAC-TTAACTAACATGA
* *
48081159 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAACTTAACTAACATGA
1 GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
* * *
48081209 GAGTTACATAATGCATTACTTTATTAAATG
1 GAGTTACATAATGCATGACTTAATTTAATG
48081239 TAGAACACAT
Statistics
Matches: 70, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
50 33 0.47
51 14 0.20
52 23 0.33
ACGTcount: A:0.38, C:0.13, G:0.14, T:0.35
Consensus pattern (51 bp):
GAGTTACATAATGCATGACTTAATTTAATGATGCAAACTTAACTAACATGA
Found at i:48081217 original size:50 final size:52
Alignment explanation
Indices: 48081107--48081224 Score: 186
Period size: 50 Copynumber: 2.3 Consensus size: 52
48081097 ATGAACAAAT
* * *
48081107 GAGTTACTTAATGCATGACTTAATTTAATGATGCAAACTTTAACTAACATGG
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
*
48081159 GAGTTACATAATGCATGTCATAATTT-ATGATGCAAAC-TTAACTAACATGA
1 GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
48081209 GAGTTACATAATGCAT
1 GAGTTACATAATGCAT
48081225 TACTTTATTA
Statistics
Matches: 62, Mismatches: 4, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
50 28 0.45
51 11 0.18
52 23 0.37
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.33
Consensus pattern (52 bp):
GAGTTACATAATGCATGACATAATTTAATGATGCAAACTTTAACTAACATGA
Found at i:48087035 original size:19 final size:19
Alignment explanation
Indices: 48087011--48087048 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
48087001 TAGATAAAAT
48087011 AAAA-TTTAAATAATAGAAA
1 AAAATTTTAAATAAT-GAAA
48087030 AAAATTTTAAATAATGAAA
1 AAAATTTTAAATAATGAAA
48087049 TTGACAGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.66, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATTTTAAATAATGAAA
Found at i:48088710 original size:27 final size:27
Alignment explanation
Indices: 48088680--48088735 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
48088670 GGGCATAAAC
48088680 GTCATTCTAC-CATCCAAGGGTATTACG
1 GTCATTCTACGC-TCCAAGGGTATTACG
* * *
48088707 GTCATTTTACGCTGCAAGGGTATTTCG
1 GTCATTCTACGCTCCAAGGGTATTACG
48088734 GT
1 GT
48088736 AATTTTACAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.23, T:0.34
Consensus pattern (27 bp):
GTCATTCTACGCTCCAAGGGTATTACG
Found at i:48091101 original size:27 final size:27
Alignment explanation
Indices: 48091040--48091103 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
48091030 CATCACAAAA
* * *
48091040 ATAGTATCAGGTGGGCCTTAGCCCATT
1 ATAGAATCAGGTGGGCCTAAGCCCAAT
* *
48091067 AAAAAATCAGGTGGGCCTAAGCCCAAT
1 ATAGAATCAGGTGGGCCTAAGCCCAAT
48091094 ATAGAATCAG
1 ATAGAATCAG
48091104 TATCAAATGC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.34, C:0.20, G:0.23, T:0.22
Consensus pattern (27 bp):
ATAGAATCAGGTGGGCCTAAGCCCAAT
Found at i:48094298 original size:27 final size:27
Alignment explanation
Indices: 48094268--48094332 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
48094258 GGGCATAAAC
48094268 GTCATTCTAC-CATACAAGGGTATTACG
1 GTCATTCTACAC-TACAAGGGTATTACG
* *
48094295 GTCATTTTACACTACAAGGGTATTTCG
1 GTCATTCTACACTACAAGGGTATTACG
* *
48094322 GTAATTTTACA
1 GTCATTCTACA
48094333 AACTGGGGTC
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
27 33 0.97
28 1 0.03
ACGTcount: A:0.29, C:0.18, G:0.17, T:0.35
Consensus pattern (27 bp):
GTCATTCTACACTACAAGGGTATTACG
Found at i:48095607 original size:25 final size:25
Alignment explanation
Indices: 48095589--48095672 Score: 87
Period size: 25 Copynumber: 3.2 Consensus size: 25
48095579 ACAACTAAAC
48095589 AAGTAATTCCTCATTACAAAAATCA
1 AAGTAATTCCTCATTACAAAAATCA
* **
48095614 AAGTAATTCCTAAAAACGTAGAAGAATCA
1 AAGTAATTCCTCATTAC--A-AA-AATCA
* *
48095643 AAGTAATTCCTCATTATAAACATCA
1 AAGTAATTCCTCATTACAAAAATCA
48095668 AAGTA
1 AAGTA
48095673 TCTTACCACT
Statistics
Matches: 47, Mismatches: 8, Indels: 8
0.75 0.13 0.13
Matches are distributed among these distances:
25 23 0.49
26 2 0.04
27 2 0.04
28 2 0.04
29 18 0.38
ACGTcount: A:0.49, C:0.17, G:0.08, T:0.26
Consensus pattern (25 bp):
AAGTAATTCCTCATTACAAAAATCA
Found at i:48097776 original size:41 final size:41
Alignment explanation
Indices: 48097731--48097853 Score: 142
Period size: 40 Copynumber: 3.0 Consensus size: 41
48097721 AGTTATTATA
* *
48097731 ATCTTGCACACTAAGTGCC-TTTCACAGCCGAAGCTATCTCG
1 ATCTTGCACACTAAGTGCCATAT-ACAACCGAAGCTATCTCG
* * * *
48097772 ATCTTACACACTAAGTGCCATATATAACCGAAGTTATTTCG
1 ATCTTGCACACTAAGTGCCATATACAACCGAAGCTATCTCG
* * *
48097813 AT-ATGCACACTAAGTGCTATATATAACCGAAGCTATCTCG
1 ATCTTGCACACTAAGTGCCATATACAACCGAAGCTATCTCG
48097853 A
1 A
48097854 AACGAACACT
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
40 34 0.49
41 34 0.49
42 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (41 bp):
ATCTTGCACACTAAGTGCCATATACAACCGAAGCTATCTCG
Found at i:48097835 original size:40 final size:40
Alignment explanation
Indices: 48097778--48097871 Score: 134
Period size: 40 Copynumber: 2.4 Consensus size: 40
48097768 CTCGATCTTA
* * * *
48097778 CACACTAAGTGCCATATATAACCGAAGTTATTTCGATATG
1 CACACTAAGTGCCATATATAACCGAAGCTATCTCGAAACG
*
48097818 CACACTAAGTGCTATATATAACCGAAGCTATCTCGAAACG
1 CACACTAAGTGCCATATATAACCGAAGCTATCTCGAAACG
*
48097858 AACACTAAGTGCCA
1 CACACTAAGTGCCA
48097872 AACATAGTCG
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 47 1.00
ACGTcount: A:0.37, C:0.23, G:0.15, T:0.24
Consensus pattern (40 bp):
CACACTAAGTGCCATATATAACCGAAGCTATCTCGAAACG
Found at i:48100075 original size:16 final size:16
Alignment explanation
Indices: 48100050--48100091 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
48100040 ATTATAACTT
*
48100050 TATTCTATTTTAAACC
1 TATTCCATTTTAAACC
**
48100066 TATTCCATTTTATTCC
1 TATTCCATTTTAAACC
48100082 TATTCCATTT
1 TATTCCATTT
48100092 ATTTTAATCC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.24, C:0.21, G:0.00, T:0.55
Consensus pattern (16 bp):
TATTCCATTTTAAACC
Found at i:48100097 original size:20 final size:20
Alignment explanation
Indices: 48100072--48100111 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
48100062 AACCTATTCC
*
48100072 ATTTTATTCCTATTCCATTT
1 ATTTTAATCCTATTCCATTT
48100092 ATTTTAATCCTATTCCATTT
1 ATTTTAATCCTATTCCATTT
48100112 CAATGTGGCG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (20 bp):
ATTTTAATCCTATTCCATTT
Found at i:48103973 original size:5 final size:5
Alignment explanation
Indices: 48103963--48103987 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
48103953 AATTATCTAT
48103963 AATAA AATAA AATAA AATAA AATAA
1 AATAA AATAA AATAA AATAA AATAA
48103988 TGAAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:48105773 original size:11 final size:11
Alignment explanation
Indices: 48105757--48105785 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
48105747 TTGACAATAC
48105757 TCCAATCGTCT
1 TCCAATCGTCT
48105768 TCCAATCGTCT
1 TCCAATCGTCT
48105779 TCCAATC
1 TCCAATC
48105786 TTCACGAGTC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.21, C:0.38, G:0.07, T:0.34
Consensus pattern (11 bp):
TCCAATCGTCT
Found at i:48106786 original size:27 final size:27
Alignment explanation
Indices: 48106749--48106802 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
48106739 ATATCAGTAA
48106749 AAATAAATTATTAATACCTCATACTAT
1 AAATAAATTATTAATACCTCATACTAT
48106776 AAATAAATTATTAATACCTCATACTAT
1 AAATAAATTATTAATACCTCATACTAT
48106803 TCATTTCATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.15, G:0.00, T:0.37
Consensus pattern (27 bp):
AAATAAATTATTAATACCTCATACTAT
Found at i:48109102 original size:27 final size:26
Alignment explanation
Indices: 48109046--48109170 Score: 85
Period size: 26 Copynumber: 4.7 Consensus size: 26
48109036 TTTAGTTTCC
* *
48109046 TAAAATTACTGAAATACCCCCAGTTG
1 TAAAATTACTCAAATACCCCCAGTTA
48109072 TAAAATTAC-CAAAGTACCCCCAGTTTA
1 TAAAATTACTCAAA-TACCCCCAG-TTA
* * ** *
48109099 TAAAATTATTGAAATACCGAC-GATTG
1 TAAAATTACTCAAATACCCCCAG-TTA
* * * *
48109125 TAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTACTCAAATACCC-CCAGTTA
48109152 TAAAATTAC-CGAAATACCC
1 TAAAATTACTC-AAATACCC
48109171 TCAATTTGCA
Statistics
Matches: 79, Mismatches: 14, Indels: 11
0.76 0.13 0.11
Matches are distributed among these distances:
25 3 0.04
26 38 0.48
27 35 0.44
28 3 0.04
ACGTcount: A:0.42, C:0.21, G:0.10, T:0.28
Consensus pattern (26 bp):
TAAAATTACTCAAATACCCCCAGTTA
Found at i:48109126 original size:53 final size:53
Alignment explanation
Indices: 48109046--48109223 Score: 155
Period size: 53 Copynumber: 3.3 Consensus size: 53
48109036 TTTAGTTTCC
* *
48109046 TAAAATTACTGAAATACCCCCAGTTGTAAAATTAC-CAAAGTACCCCCAGTTTA
1 TAAAATTACTGAAATACCACCAGTTGTAAAATTACTCAAA-TACCCCCAATTTA
* * * * *
48109099 TAAAATTATTGAAATACCGACGA-TTGTAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTACTGAAATACC-ACCAGTTGTAAAATTACTCAAATACCCCCAATTTA
* * * * * * * *
48109152 TAAAATTACCGAAATACC-CTCAATTTGCAAAATTATTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCAC-C-AGTTGTAAAATTACTCAAATACCCCCAATTTA
*
48109206 TAAAATTATTGAAATACC
1 TAAAATTACTGAAATACC
48109224 CTTGTAGGGT
Statistics
Matches: 105, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
51 1 0.01
53 56 0.53
54 48 0.46
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.30
Consensus pattern (53 bp):
TAAAATTACTGAAATACCACCAGTTGTAAAATTACTCAAATACCCCCAATTTA
Found at i:48109171 original size:27 final size:27
Alignment explanation
Indices: 48109046--48109225 Score: 195
Period size: 27 Copynumber: 6.7 Consensus size: 27
48109036 TTTAGTTTCC
* *
48109046 TAAAATTACTGAAATACCC-CCAGTTG
1 TAAAATTACTGAAATACCCTCAATTTG
* * * *
48109072 TAAAATTAC-CAAAGTACCCCCAGTTTA
1 TAAAATTACTGAAA-TACCCTCAATTTG
* ** *
48109099 TAAAATTATTGAAATACCGACGA-TTG
1 TAAAATTACTGAAATACCCTCAATTTG
48109125 TAAAATTACTGAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTCAATTTG
*
48109152 TAAAATTACCGAAATACCCTCAATTTG
1 TAAAATTACTGAAATACCCTCAATTTG
* * *
48109179 CAAAATTATTGAAATACCCTCGATTTG
1 TAAAATTACTGAAATACCCTCAATTTG
*
48109206 TAAAATTATTGAAATACCCT
1 TAAAATTACTGAAATACCCT
48109226 TGTAGGGTAG
Statistics
Matches: 128, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
25 3 0.02
26 35 0.27
27 87 0.68
28 3 0.02
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
TAAAATTACTGAAATACCCTCAATTTG
Found at i:48109274 original size:27 final size:27
Alignment explanation
Indices: 48109216--48109618 Score: 495
Period size: 27 Copynumber: 15.0 Consensus size: 27
48109206 TAAAATTATT
* *
48109216 GAAATACCCTTGTAGGGTAG-ATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48109242 AAAATACCACTATAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109269 GAAATACACTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109296 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACC
**
48109323 GAAATACCCCTGTAGGGTAGAATTATT
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109350 AAAATACCCCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109377 GAAATACCCCTGTAGGGTAGAACTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48109404 AAAATACCTCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109431 GAAATACCCCTGTAGGGTAGAACTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
* * *
48109458 AAAATACCTCTGTAAGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109485 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48109512 GAAATACCCCTGTAAGGTAG-ATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
48109538 GAAATACCCCTATAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
48109565 GAAATACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
48109592 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
48109619 ATTTTGCCCC
Statistics
Matches: 319, Mismatches: 56, Indels: 3
0.84 0.15 0.01
Matches are distributed among these distances:
26 39 0.12
27 280 0.88
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:48109885 original size:27 final size:26
Alignment explanation
Indices: 48109842--48109924 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
48109832 TGGAGGAAGC
48109842 GTTCTGGTGACTATGCCACAAATATCT
1 GTTCTGGTGACTATGCCAC-AATATCT
* *
48109869 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGACTATGCCACAATATCT
* *
48109895 GTATCTGGTGACTTTGTCACAATATCT
1 GT-TCTGGTGACTATGCCACAATATCT
48109922 GTT
1 GTT
48109925 GATCGATCGA
Statistics
Matches: 50, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
26 10 0.20
27 40 0.80
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.37
Consensus pattern (26 bp):
GTTCTGGTGACTATGCCACAATATCT
Found at i:48110154 original size:98 final size:98
Alignment explanation
Indices: 48109975--48110165 Score: 294
Period size: 98 Copynumber: 1.9 Consensus size: 98
48109965 TGTGTGCCGT
* *
48109975 TATTGTAGGCTTCGTGCTGATTATAAACCCGTTATCAATGGATGAGTGCCGATCATGTTACAGAA
1 TATTATAGGCTTCGTGCCGATTATAAACCCGTTATCAATGGATGAGTGCCGATCATGTTACAGAA
*
48110040 GGCTATGTGCCATTATTGTGGGATTCGTATCGA
66 GGCTATGTACCATTATTGTGGGATTCGTATCGA
* *
48110073 TATTATAGGCTTCGTGCCGATTATAGACCCGTTATCAATGGCTGAGTGCCGATCATGTTATC-GA
1 TATTATAGGCTTCGTGCCGATTATAAACCCGTTATCAATGGATGAGTGCCGATCATGTTA-CAGA
* * *
48110137 AGGCTGTGTACCGTTATTGTGGGCTTCGT
65 AGGCTATGTACCATTATTGTGGGATTCGT
48110166 GCCGATTATA
Statistics
Matches: 84, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
98 83 0.99
99 1 0.01
ACGTcount: A:0.22, C:0.18, G:0.26, T:0.34
Consensus pattern (98 bp):
TATTATAGGCTTCGTGCCGATTATAAACCCGTTATCAATGGATGAGTGCCGATCATGTTACAGAA
GGCTATGTACCATTATTGTGGGATTCGTATCGA
Found at i:48110235 original size:25 final size:26
Alignment explanation
Indices: 48110189--48110263 Score: 64
Period size: 27 Copynumber: 2.8 Consensus size: 26
48110179 ACGTTATCGA
48110189 TGGCTTTGTACCAC-TTATTCTGTT-AAG
1 TGGCTTTG--CCACATTA-TCTGTTCAAG
**
48110216 TGGCTTTGCCACATTATCTGATTCTGG
1 TGGCTTTGCCACATTATCTG-TTCAAG
* *
48110243 TGGCTCTGCCACAATATCTGT
1 TGGCTTTGCCACATTATCTGT
48110264 ATCTAGTGAC
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
25 8 0.20
26 6 0.15
27 27 0.66
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.40
Consensus pattern (26 bp):
TGGCTTTGCCACATTATCTGTTCAAG
Found at i:48110276 original size:27 final size:27
Alignment explanation
Indices: 48110222--48110287 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
48110212 TAAGTGGCTT
* * *
48110222 TGCCACATTATCTGATTCTGGTGGCTC
1 TGCCACAATATCTGATTCTAGTGACTC
48110249 TGCCACAATATCTG-TATCTAGTGACTC
1 TGCCACAATATCTGAT-TCTAGTGACTC
*
48110276 TGTCACAATATC
1 TGCCACAATATC
48110288 AGTTCTGGCA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
26 1 0.03
27 33 0.97
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.35
Consensus pattern (27 bp):
TGCCACAATATCTGATTCTAGTGACTC
Found at i:48112480 original size:41 final size:39
Alignment explanation
Indices: 48112435--48112512 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 39
48112425 AATGAGTTAA
* *
48112435 TGCATGACTTAATTTAATGATTCAAACTTTAACTAACATAG
1 TGCATGACATAATTT-ATGATGCAAAC-TTAACTAACATAG
* *
48112476 TGCATGTCATAATTTATGATGCAAACTTAACTTACAT
1 TGCATGACATAATTTATGATGCAAACTTAACTAACAT
48112513 GAGAGTTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
39 10 0.30
40 10 0.30
41 13 0.39
ACGTcount: A:0.37, C:0.15, G:0.10, T:0.37
Consensus pattern (39 bp):
TGCATGACATAATTTATGATGCAAACTTAACTAACATAG
Found at i:48112611 original size:39 final size:39
Alignment explanation
Indices: 48112552--48112626 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
48112542 ATGCAGAACA
* *
48112552 CATATTAATGATGTTCAAACTATGACATAATTAAAGACT
1 CATACTAATGATGTTCAAACTATAACATAATTAAAGACT
48112591 CATACTAATGATGTTCAAACTATAACATAATTAAAG
1 CATACTAATGATGTTCAAACTATAACATAATTAAAG
48112627 GCACAAACTA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.45, C:0.13, G:0.09, T:0.32
Consensus pattern (39 bp):
CATACTAATGATGTTCAAACTATAACATAATTAAAGACT
Found at i:48112637 original size:39 final size:39
Alignment explanation
Indices: 48112557--48112637 Score: 126
Period size: 39 Copynumber: 2.1 Consensus size: 39
48112547 GAACACATAT
* * *
48112557 TAATGATGTTCAAACTATGACATAATTAAAGACTCATAC
1 TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
*
48112596 TAATGATGTTCAAACTATAACATAATTAAAGGCACAAAC
1 TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
48112635 TAA
1 TAA
48112638 AATAACTAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.47, C:0.15, G:0.10, T:0.28
Consensus pattern (39 bp):
TAATGATGTTCAAACTATAACATAATTAAAGACACAAAC
Found at i:48115683 original size:15 final size:15
Alignment explanation
Indices: 48115663--48115695 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
48115653 ATGAGAATAT
*
48115663 CATCAAAATATAAAA
1 CATCAAAATAAAAAA
48115678 CATCAAAATAAAAAA
1 CATCAAAATAAAAAA
48115693 CAT
1 CAT
48115696 GATTCATGAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.15, G:0.00, T:0.18
Consensus pattern (15 bp):
CATCAAAATAAAAAA
Found at i:48117516 original size:10 final size:10
Alignment explanation
Indices: 48117501--48117535 Score: 61
Period size: 10 Copynumber: 3.5 Consensus size: 10
48117491 ATTCTTTTGC
48117501 TTTTTCTCTT
1 TTTTTCTCTT
48117511 TTTTTCTCTT
1 TTTTTCTCTT
*
48117521 TTTTTCTATT
1 TTTTTCTCTT
48117531 TTTTT
1 TTTTT
48117536 AAACAGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 24 1.00
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.83
Consensus pattern (10 bp):
TTTTTCTCTT
Found at i:48119479 original size:12 final size:12
Alignment explanation
Indices: 48119462--48119486 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48119452 AGCATTACAT
48119462 TGATACATAACA
1 TGATACATAACA
48119474 TGATACATAACA
1 TGATACATAACA
48119486 T
1 T
48119487 TCTCTTTTTG
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:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (12 bp):
TGATACATAACA
Found at i:48121506 original size:30 final size:30
Alignment explanation
Indices: 48121472--48121532 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
48121462 TCCTTAACTC
48121472 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
48121502 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
48121532 A
1 A
48121533 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:48123703 original size:92 final size:93
Alignment explanation
Indices: 48123581--48123756 Score: 230
Period size: 92 Copynumber: 1.9 Consensus size: 93
48123571 TAGCATATTT
* * *
48123581 ATGCTAATGCCATGTCCTAGAGATGGTCTTACACTGACACATC-T-CGTAGCCGATGCATGTCCC
1 ATGCTAATGCCATGTCCCAGACATGATCTTACACTGACAC-TCATACGTAGCCGATGCATGTCCC
48123644 AGACATGTCTTACACTAGCACTCGTCTCA
65 AGACATGTCTTACACTAGCACTCGTCTCA
* * * * * * *
48123673 ATGCTGATGCCATGTCCCAGACATGATCTTACACTGGCTCTCATAATGTGGCCGATGTATGTCCT
1 ATGCTAATGCCATGTCCCAGACATGATCTTACACTGACACTCAT-ACGTAGCCGATGCATGTCCC
48123738 AGACATGTCTTACACTAGC
65 AGACATGTCTTACACTAGC
48123757 TCATAATAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 4
0.84 0.12 0.05
Matches are distributed among these distances:
91 2 0.03
92 35 0.49
94 34 0.48
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.28
Consensus pattern (93 bp):
ATGCTAATGCCATGTCCCAGACATGATCTTACACTGACACTCATACGTAGCCGATGCATGTCCCA
GACATGTCTTACACTAGCACTCGTCTCA
Found at i:48124152 original size:30 final size:30
Alignment explanation
Indices: 48124094--48124152 Score: 91
Period size: 30 Copynumber: 2.0 Consensus size: 30
48124084 AATTTTGTAT
* *
48124094 CTTTGGTAAAATGACCATTTTGCCCCTAGA
1 CTTTGATAAAATGACCATTTTACCCCTAGA
*
48124124 CTTTGATAAAATGACCATTTTACTCCTAG
1 CTTTGATAAAATGACCATTTTACCCCTAG
48124153 GTCCGAAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.29, C:0.22, G:0.14, T:0.36
Consensus pattern (30 bp):
CTTTGATAAAATGACCATTTTACCCCTAGA
Found at i:48127769 original size:84 final size:84
Alignment explanation
Indices: 48127628--48127795 Score: 300
Period size: 84 Copynumber: 2.0 Consensus size: 84
48127618 GTTATAAGAT
* *
48127628 AAAATTTATATGCTTAGACTCCTTAATGAGTCTAGTTTCAAATGACATCAAATAGAACACATTTT
1 AAAATTTATATGCTTAGACTCCTTAATGAGTATAGTTTCAAATGAAATCAAATAGAACACATTTT
48127693 GAATTCTGTACAATGAAAA
66 GAATTCTGTACAATGAAAA
*
48127712 AAAATTTATATGCTTAGACTCCTTAATGAGTATAGTTTCAAATTAAATCAAATAGAACACATTTT
1 AAAATTTATATGCTTAGACTCCTTAATGAGTATAGTTTCAAATGAAATCAAATAGAACACATTTT
*
48127777 GAATTTTGTACAATGAAAA
66 GAATTCTGTACAATGAAAA
48127796 TTTTGATTCG
Statistics
Matches: 80, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 80 1.00
ACGTcount: A:0.42, C:0.12, G:0.11, T:0.35
Consensus pattern (84 bp):
AAAATTTATATGCTTAGACTCCTTAATGAGTATAGTTTCAAATGAAATCAAATAGAACACATTTT
GAATTCTGTACAATGAAAA
Found at i:48135521 original size:28 final size:28
Alignment explanation
Indices: 48135481--48135536 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
48135471 AATAAAAGAA
48135481 AACAATGGTTGTTAAATAATGCTTGCTG
1 AACAATGGTTGTTAAATAATGCTTGCTG
48135509 AACAATGGTTGTTAAATAATGCTTGCTG
1 AACAATGGTTGTTAAATAATGCTTGCTG
48135537 TCCAGATTGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (28 bp):
AACAATGGTTGTTAAATAATGCTTGCTG
Found at i:48136990 original size:46 final size:47
Alignment explanation
Indices: 48136905--48137048 Score: 191
Period size: 47 Copynumber: 3.1 Consensus size: 47
48136895 GAAATGATAG
48136905 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
* *
48136952 TAAGGCCTAATGGACGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * *
48136998 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
48137045 TAAG
1 TAAG
48137049 TCCCGAAGGG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
46 39 0.48
47 43 0.52
ACGTcount: A:0.33, C:0.10, G:0.31, T:0.26
Consensus pattern (47 bp):
TAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:48137223 original size:37 final size:37
Alignment explanation
Indices: 48137167--48137245 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
48137157 CCGAGCTCTA
* *
48137167 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
48137204 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
48137241 AAGAC
1 AAGAC
48137246 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:48141868 original size:40 final size:40
Alignment explanation
Indices: 48141817--48141973 Score: 242
Period size: 40 Copynumber: 3.9 Consensus size: 40
48141807 ATAACCGCAA
* * * *
48141817 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
48141857 GCACGAATGCCTTCGGGTCTTAGCCCGGATATATCAACTT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
* *
48141897 GCATAATTGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
48141937 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAA
48141974 ATGCTCATGC
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 105 1.00
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.27
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
Found at i:48141924 original size:80 final size:80
Alignment explanation
Indices: 48141821--48141973 Score: 270
Period size: 80 Copynumber: 1.9 Consensus size: 80
48141811 CCGCAAGCAC
* *
48141821 AATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGA
1 AATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
48141886 TATATCAACTTGCAT
66 TATATCAACTTGCAT
* *
48141901 AATTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
1 AATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
48141966 TATATCAA
66 TATATCAA
48141974 ATGCTCATGC
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (80 bp):
AATTGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCACAAATGCCTTCGGGTCTTAGCCCGGA
TATATCAACTTGCAT
Found at i:48150915 original size:43 final size:42
Alignment explanation
Indices: 48150859--48151028 Score: 164
Period size: 43 Copynumber: 4.0 Consensus size: 42
48150849 ATATCGTACA
* * *
48150859 ATGCCAACGTCCCAGACGTGGTCTTCCATGTA-ATCACATATCG
1 ATGCC-ACATCCCAGACGTGGTCTTACATG-AGAACACATATCG
* * *
48150902 ATGCCACTATCCCATACAG-AGTCTTACACGAGAACACATATCG
1 ATGCCAC-ATCCCAGAC-GTGGTCTTACATGAGAACACATATCG
* *
48150945 ATGCCAACATCCCAGACATGGTCTTACATGAGAACACATATCA
1 ATGCC-ACATCCCAGACGTGGTCTTACATGAGAACACATATCG
* * * *
48150988 ATGCTAACGTCCCAGACGTGGTCTTATACGAGAACACATAT
1 ATGC-CACATCCCAGACGTGGTCTTACATGAGAACACATAT
48151029 AGGAATCCTA
Statistics
Matches: 105, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
42 3 0.03
43 99 0.94
44 3 0.03
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.23
Consensus pattern (42 bp):
ATGCCACATCCCAGACGTGGTCTTACATGAGAACACATATCG
Found at i:48151525 original size:10 final size:10
Alignment explanation
Indices: 48151510--48151548 Score: 78
Period size: 10 Copynumber: 3.9 Consensus size: 10
48151500 TGTTAGTCAT
48151510 GTTCATACAA
1 GTTCATACAA
48151520 GTTCATACAA
1 GTTCATACAA
48151530 GTTCATACAA
1 GTTCATACAA
48151540 GTTCATACA
1 GTTCATACA
48151549 TTTCATTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 29 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (10 bp):
GTTCATACAA
Found at i:48152191 original size:14 final size:15
Alignment explanation
Indices: 48152174--48152202 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
48152164 ACACGAAAAT
48152174 TTCACACAT-ATAAA
1 TTCACACATAATAAA
48152188 TTCACACATAATAAA
1 TTCACACATAATAAA
48152203 CATAGAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.52, C:0.21, G:0.00, T:0.28
Consensus pattern (15 bp):
TTCACACATAATAAA
Found at i:48157971 original size:16 final size:17
Alignment explanation
Indices: 48157940--48157972 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
48157930 TTCATAAGTA
48157940 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
48157957 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
48157973 GCTCTATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:48158328 original size:46 final size:46
Alignment explanation
Indices: 48158258--48158761 Score: 731
Period size: 46 Copynumber: 11.0 Consensus size: 46
48158248 TTTGACATGA
* * * * * *
48158258 TGCCATAGTGTCTTTTAACTATGGTCTTACTCATTTTC-TATCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCAGGT
* ** * ***
48158304 TGCCATGGTATATTTCAACCATGGTCTTATTCATTTCATGTCACAC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *** *
48158350 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCCTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
** *
48158396 TGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
48158442 TGCCATGGCATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
48158488 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
*
48158534 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
48158580 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
48158626 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* *
48158672 TGCCATGGTATCTTTCAACCATGGTCTTATACATTTCATATTAGGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
* * *
48158718 TGCCATGGTATCTTTCAACCATGGTCTTCCTCGTTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
48158762 AGAGCACACT
Statistics
Matches: 422, Mismatches: 35, Indels: 2
0.92 0.08 0.00
Matches are distributed among these distances:
45 4 0.01
46 418 0.99
ACGTcount: A:0.22, C:0.24, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGT
Found at i:48161610 original size:26 final size:29
Alignment explanation
Indices: 48161573--48161626 Score: 78
Period size: 27 Copynumber: 2.0 Consensus size: 29
48161563 TTGAAATCAT
48161573 CTTTTCCAAAA-CCAAATTTT-AGAAAAA
1 CTTTTCCAAAACCCAAATTTTGAGAAAAA
*
48161600 CTTTT-CAAAACCCTAATTTTGAGAAAA
1 CTTTTCCAAAACCCAAATTTTGAGAAAA
48161627 GATTTCAGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 5 0.21
27 13 0.54
28 6 0.25
ACGTcount: A:0.44, C:0.19, G:0.06, T:0.31
Consensus pattern (29 bp):
CTTTTCCAAAACCCAAATTTTGAGAAAAA
Found at i:48162663 original size:27 final size:27
Alignment explanation
Indices: 48162633--48162693 Score: 122
Period size: 27 Copynumber: 2.3 Consensus size: 27
48162623 CTCATCGATT
48162633 AGGGGTAAAATAGTAATTTTACCCCTC
1 AGGGGTAAAATAGTAATTTTACCCCTC
48162660 AGGGGTAAAATAGTAATTTTACCCCTC
1 AGGGGTAAAATAGTAATTTTACCCCTC
48162687 AGGGGTA
1 AGGGGTA
48162694 TTTTAATCAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.33, C:0.16, G:0.23, T:0.28
Consensus pattern (27 bp):
AGGGGTAAAATAGTAATTTTACCCCTC
Found at i:48166012 original size:13 final size:14
Alignment explanation
Indices: 48165992--48166026 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
48165982 CAAATAAAAA
*
48165992 ATAAACATATCAAT
1 ATAAACATATAAAT
48166006 A-AAACATATAAAT
1 ATAAACATATAAAT
48166019 ATAAACAT
1 ATAAACAT
48166027 GGTCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAACATATAAAT
Found at i:48170008 original size:27 final size:27
Alignment explanation
Indices: 48169972--48170041 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 27
48169962 GTCGTTAAGA
*
48169972 CCCTGATTTGTAAAATTACCAAAATAC
1 CCCTTATTTGTAAAATTACCAAAATAC
* *
48169999 CCCTTATTTGTAAAATTATCGAAATAC
1 CCCTTATTTGTAAAATTACCAAAATAC
48170026 CCC-TAGTTTGTAAAAT
1 CCCTTA-TTTGTAAAAT
48170042 GACTGTAATA
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
26 2 0.05
27 37 0.95
ACGTcount: A:0.37, C:0.20, G:0.09, T:0.34
Consensus pattern (27 bp):
CCCTTATTTGTAAAATTACCAAAATAC
Found at i:48170051 original size:27 final size:26
Alignment explanation
Indices: 48169994--48170098 Score: 95
Period size: 27 Copynumber: 3.9 Consensus size: 26
48169984 AAATTACCAA
* *
48169994 AATACCCCTTATTTGTAAAATTA-TCGA
1 AATACCCC-TATTTGTAAAATGACT-GT
48170021 AATACCCCTAGTTTGTAAAATGACTGT
1 AATACCCCTA-TTTGTAAAATGACTGT
* ** *
48170048 AATACCCTTATAGGATAAAATGACCGT
1 AATACCCCTATTTG-TAAAATGACTGT
*
48170075 AATACCCCTGTTTGGTAAAATGAC
1 AATACCCCTATTT-GTAAAATGAC
48170099 AATTATGCCC
Statistics
Matches: 64, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
26 4 0.06
27 58 0.91
28 2 0.03
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.31
Consensus pattern (26 bp):
AATACCCCTATTTGTAAAATGACTGT
Found at i:48182803 original size:14 final size:13
Alignment explanation
Indices: 48182783--48182814 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
48182773 AATATTTGAC
48182783 TTGTTCTTAATTA
1 TTGTTCTTAATTA
48182796 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
48182810 TTGTT
1 TTGTT
48182815 TTGATATTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:48186052 original size:13 final size:14
Alignment explanation
Indices: 48186032--48186066 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
48186022 CAATTAAAAA
*
48186032 ATAAACATATCAAT
1 ATAAACATATAAAT
48186046 A-AAACATATAAAT
1 ATAAACATATAAAT
48186059 ATAAACAT
1 ATAAACAT
48186067 GGTCAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.63, C:0.11, G:0.00, T:0.26
Consensus pattern (14 bp):
ATAAACATATAAAT
Found at i:48187421 original size:43 final size:43
Alignment explanation
Indices: 48187308--48187435 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
48187298 ATATCATACA
* * * *
48187308 ATGCCAACG-TCCTAGACGTGGTCTTACATGTA-ATCACATATCG
1 ATGCCAACGTTCCT-GACATGTTCTTACACG-AGAACACATATCG
* * *
48187351 ATGCC-ACTGTCCCAGACAGGGTT-TTACACGAGAACACATATCG
1 ATGCCAAC-GTTCCTGACA-TGTTCTTACACGAGAACACATATCG
*
48187394 ATGCCAACGTTCCTGACATGTTCTTACACAAGAACACATATC
1 ATGCCAACGTTCCTGACATGTTCTTACACGAGAACACATATC
48187436 AGAAATCCTA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
42 6 0.09
43 56 0.82
44 6 0.09
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
ATGCCAACGTTCCTGACATGTTCTTACACGAGAACACATATCG
Found at i:48192210 original size:47 final size:47
Alignment explanation
Indices: 48192156--48193375 Score: 1855
Period size: 47 Copynumber: 26.0 Consensus size: 47
48192146 TTAGGATTTT
** *
48192156 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192203 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192250 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192297 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192344 ATGTGGTGAATATGAACATGTATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192391 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192438 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192485 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192532 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192579 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192626 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192673 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192720 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192767 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192814 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192861 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48192908 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48192955 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48193002 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48193049 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48193096 ATGTGGTGAATATGAACATGCATATATGTGATAAGGCCGAATGGCCT
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48193143 ATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48193190 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
48193237 ATGTGATGAATGTGAGCATGCATATATATGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
48193284 ATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATAGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * *
48193331 ATGTGGTGAATATGAACATGCATATATGTGGTAAAGCCGAATGGC
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGC
48193376 TAGTGTGAAA
Statistics
Matches: 1064, Mismatches: 109, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 1064 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:48192394 original size:22 final size:22
Alignment explanation
Indices: 48192369--48192491 Score: 60
Period size: 22 Copynumber: 5.3 Consensus size: 22
48192359 ACATGTATAT
48192369 ATGTGATAAGGCCGAATGGCCA
1 ATGTGATAAGGCCGAATGGCCA
* *
48192391 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
48192413 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
* *
48192438 ATGTGATGAATGTG-AGCAT-G-CA
1 ATGTGAT-AA-G-GCCGAATGGCCA
48192460 TATGTGTGATAAGGCCGAATGGCCA
1 -A--TGTGATAAGGCCGAATGGCCA
48192485 ATGTGAT
1 ATGTGAT
48192492 GAATGTGAGC
Statistics
Matches: 75, Mismatches: 8, Indels: 36
0.63 0.07 0.30
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 16 0.21
25 18 0.24
ACGTcount: A:0.30, C:0.13, G:0.32, T:0.25
Consensus pattern (22 bp):
ATGTGATAAGGCCGAATGGCCA
Found at i:48193383 original size:141 final size:141
Alignment explanation
Indices: 48192155--48193375 Score: 2055
Period size: 141 Copynumber: 8.7 Consensus size: 141
48192145 TTTAGGATTT
** *
48192155 TATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
* *
48192220 ATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAACATGTATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48192285 GCCGAATGGCC
131 GCCGAATGGCC
* * * * * * * * *
48192296 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCTGAATGGCCAATGTGGTGAATATGAAC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
* * * * * *
48192361 ATGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATGTGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48192426 GCCGAATGGCC
131 GCCGAATGGCC
* * * * *
48192437 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
48192502 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48192567 GCCGAATGGCC
131 GCCGAATGGCC
48192578 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
48192643 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48192708 GCCGAATGGCC
131 GCCGAATGGCC
48192719 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
48192784 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48192849 GCCGAATGGCC
131 GCCGAATGGCC
48192860 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
48192925 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48192990 GCCGAATGGCC
131 GCCGAATGGCC
48193001 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
48193066 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48193131 GCCGAATGGCC
131 GCCGAATGGCC
48193142 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
* * * * * *
48193207 ATGCATATATATGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCATGCATATATATGATAAG
66 ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
48193272 GCCGAATGGCC
131 GCCGAATGGCC
* * * * * * * * *
48193283 AATGTGATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATAGCCAATGTGGTGAATATGAAC
1 TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
* * *
48193348 ATGCATATATGTGGTAAAGCCGAATGGC
66 ATGCATATGTGTGATAAGGCCGAATGGC
48193376 TAGTGTGAAA
Statistics
Matches: 1029, Mismatches: 51, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
141 1029 1.00
ACGTcount: A:0.32, C:0.12, G:0.30, T:0.27
Consensus pattern (141 bp):
TATGTGATGAATGTGAACATGTATATATGTGATGAGGCCGAATGGCCAATGTGATGAATGTGAGC
ATGCATATGTGTGATAAGGCCGAATGGCCAATGTGGTGAATATGAACATGCATATATGTGATAAG
GCCGAATGGCC
Found at i:48193644 original size:37 final size:37
Alignment explanation
Indices: 48193538--48193652 Score: 167
Period size: 37 Copynumber: 3.1 Consensus size: 37
48193528 GGAAATATAT
* * *
48193538 TCCGGGTGAGACCCGATGACTACGTGTGGAGAGTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48193575 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * * *
48193612 TCCGGGTAAGACCCGATAACTTCGTGTAGAGATTTCG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
48193649 TCCG
1 TCCG
48193653 AGCTAAAGGT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 71 1.00
ACGTcount: A:0.22, C:0.21, G:0.32, T:0.25
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:48196601 original size:49 final size:50
Alignment explanation
Indices: 48196440--48196623 Score: 181
Period size: 50 Copynumber: 3.7 Consensus size: 50
48196430 AAAACTATAC
* ** * * * **
48196440 GTACTAAGTGCAGGCTACTATGCATACCCGATAACTTCGATCATGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAA-TTAGGTCACATGTGTA
* * ** **
48196491 GTACTAAGTGTAGGCTACTACGTGTATCAGATGGTTAGGTCATGTGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTA
* *
48196541 GTACTAAGTGCAGGCTACTACGTGTACCGGATAATT-GGTCGCATGTGTA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTA
* * *
48196590 GTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 GTACTAAGTGCAGGCTACTACGTGTACCAGATAA
48196624 CCTTGTCTAC
Statistics
Matches: 111, Mismatches: 22, Indels: 2
0.82 0.16 0.01
Matches are distributed among these distances:
49 40 0.36
50 45 0.41
51 26 0.23
ACGTcount: A:0.26, C:0.18, G:0.26, T:0.30
Consensus pattern (50 bp):
GTACTAAGTGCAGGCTACTACGTGTACCAGATAATTAGGTCACATGTGTA
Found at i:48198870 original size:40 final size:39
Alignment explanation
Indices: 48198772--48198994 Score: 225
Period size: 40 Copynumber: 5.6 Consensus size: 39
48198762 TCCTCGTTCA
* * * ** *
48198772 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
*
48198811 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
48198850 GAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
** *
48198890 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
* * * * *
48198930 AAAGGCCTTC-GGATCTTAATCCGGATATATTC-ACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTA-ACAAC-TCGCAC
* *
48198971 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
48198995 CAGCATTCAA
Statistics
Matches: 159, Mismatches: 20, Indels: 9
0.85 0.11 0.05
Matches are distributed among these distances:
39 37 0.23
40 114 0.72
41 8 0.05
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCAC
Found at i:48198994 original size:120 final size:119
Alignment explanation
Indices: 48198772--48198994 Score: 272
Period size: 120 Copynumber: 1.9 Consensus size: 119
48198762 TCCTCGTTCA
* * * *
48198772 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
* *
48198837 TAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
66 TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
* * * * *
48198891 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAATCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGA-CATAACCCGGA
* *
48198955 TATATTC-ACTTAGCAC-AAAGCCTTCGGGACTTAGCCCGGA
64 TATA-ACAAC-TAGCACGAAAGCCTTCGGGACTTAACCCGGA
48198995 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 13, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
119 37 0.43
120 44 0.51
121 6 0.07
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (119 bp):
AATGCCTTCGGGACATAACCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATA
TAACAACTAGCACGAAAGCCTTCGGGACTTAACCCGGATTTAACAACTCGCACG
Found at i:48206147 original size:40 final size:40
Alignment explanation
Indices: 48206047--48206218 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
48206037 GCTCCTCGTT
* * *
48206047 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
48206087 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
48206126 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
48206166 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
48206206 CAAATGCCTTCGG
1 CAAATGCCTTCGG
48206219 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:48209518 original size:47 final size:47
Alignment explanation
Indices: 48209400--48209528 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 47
48209390 GTGTGAATAA
* * **
48209400 TACCTTGATTTGGCTACGGGCCATGATATAGGTATTTTGAGAGAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
* * * * *
48209447 TA-TTTTATTTGGCTACGGGTCATGGTATAGGTACTCCGGGATAAGT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
*
48209493 TACCTTGATTTGGGTACGGGCCATGGTATAGGTACT
1 TACCTTGATTTGGCTACGGGCCATGGTATAGGTACT
48209529 TATCAATTGT
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
46 37 0.54
47 31 0.46
ACGTcount: A:0.22, C:0.14, G:0.29, T:0.35
Consensus pattern (47 bp):
TACCTTGATTTGGCTACGGGCCATGGTATAGGTACTCCGAGAGAAGT
Found at i:48212403 original size:37 final size:35
Alignment explanation
Indices: 48212338--48212445 Score: 144
Period size: 37 Copynumber: 3.0 Consensus size: 35
48212328 AGCTCAGACG
* * *
48212338 AAATCTCCACATGAAGTTATCGAGTCTTACCCGGAC
1 AAATCTCCACACGTAGTCATCG-GTCTTACCCGGAC
48212374 AAAATCTCCACACGTAGTCATCGGCTCTTACCCGGAC
1 -AAATCTCCACACGTAGTCATCGG-TCTTACCCGGAC
*
48212411 GAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATC-GGTCTTACCCGGA
48212446 ATATATTTCC
Statistics
Matches: 65, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
36 32 0.49
37 33 0.51
ACGTcount: A:0.27, C:0.31, G:0.19, T:0.23
Consensus pattern (35 bp):
AAATCTCCACACGTAGTCATCGGTCTTACCCGGAC
Found at i:48212642 original size:46 final size:46
Alignment explanation
Indices: 48212589--48213193 Score: 153
Period size: 47 Copynumber: 12.9 Consensus size: 46
48212579 TATATATACA
* * *
48212589 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * *
48212635 CATCTCATACACGTTTCGCATTAGCCATTCGGCCTTACCACATAT-
1 CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
* * * *
48212680 -AT-TCATGTTCACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCA--TACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48212730 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48212777 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48212824 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48212871 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48212918 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48212965 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * * *
48213012 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCTCATATATG
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* *
48213059 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACACATA-C
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * *
48213105 GCATGT--T-CACATCCATCACATTGGCCATTCGGCCTTATCACACATATG
1 -CATCTCATACACAT-C-TCACATTAGCCATTCGGCCTTA-C-CACATATC
* * *
48213153 CATGT--T-CACATTCATCACATTGGCCATTCGGCCTTATCACA
1 CATCTCATACACA-TC-TCACATTAGCCATTCGGCCTTACCACA
48213194 CATACACATG
Statistics
Matches: 529, Mismatches: 17, Indels: 27
0.92 0.03 0.05
Matches are distributed among these distances:
43 3 0.01
44 2 0.00
45 8 0.02
46 41 0.08
47 463 0.88
48 3 0.01
49 6 0.01
51 2 0.00
52 1 0.00
ACGTcount: A:0.24, C:0.29, G:0.12, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATCTCACATTAGCCATTCGGCCTTACCACATATC
Found at i:48212715 original size:47 final size:47
Alignment explanation
Indices: 48212653--48213219 Score: 999
Period size: 47 Copynumber: 12.1 Consensus size: 47
48212643 ACACGTTTCG
* * * *
48212653 CATTAGCCATTCGGCCTTACCACATATATTCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212700 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212747 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212794 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212841 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212888 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212935 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48212982 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48213029 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
* * * *
48213076 CATTGGCCATTCGGCCTTATCACACATACGCATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
* *
48213123 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
* * ** *
48213170 CATTGGCCATTCGGCCTTATCACACATACACATGTTCACATCCATCA
1 CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
48213217 CAT
1 CAT
48213220 AAAATCCTAA
Statistics
Matches: 507, Mismatches: 13, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
47 507 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCTCATATATGCATGTTCACATTCATCA
Found at i:48213146 original size:22 final size:22
Alignment explanation
Indices: 48213119--48213193 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
48213109 GTTCACATCC
48213119 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
48213141 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
48213165 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
48213188 ATCACA
1 ATCACA
48213194 CATACACATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:48217133 original size:40 final size:40
Alignment explanation
Indices: 48217101--48217292 Score: 312
Period size: 40 Copynumber: 4.8 Consensus size: 40
48217091 CCAGCATGAT
* * * *
48217101 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
48217141 TGCTCCTCGGGACTTAGCCTGGATATGTCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
48217181 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
48217221 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
48217261 TGCTCTTCAGGACTTAGCCCGGATATATCACT
1 TGCTCCTCGGGACTTAGCCCGGATATATCACT
48217293 CTCAATTCTC
Statistics
Matches: 142, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 142 1.00
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.23
Consensus pattern (40 bp):
TGCTCCTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:48218130 original size:35 final size:35
Alignment explanation
Indices: 48218084--48218153 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
48218074 TGTAGCTTCG
*
48218084 CAATGAGATCTATAAAATAGAGAAAACAAAGTAAA
1 CAATGAGATCTATAAAACAGAGAAAACAAAGTAAA
48218119 CAATGAGATCTATAAAACAGAGAAAACAAAGTAAA
1 CAATGAGATCTATAAAACAGAGAAAACAAAGTAAA
48218154 TGGAGTAAGC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.60, C:0.10, G:0.14, T:0.16
Consensus pattern (35 bp):
CAATGAGATCTATAAAACAGAGAAAACAAAGTAAA
Found at i:48224634 original size:46 final size:46
Alignment explanation
Indices: 48224584--48224758 Score: 314
Period size: 46 Copynumber: 3.8 Consensus size: 46
48224574 TGGTTGAGCA
48224584 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
48224630 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*
48224676 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
48224722 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
48224759 GCGGGTTACA
Statistics
Matches: 125, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 125 1.00
ACGTcount: A:0.20, C:0.21, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:48226743 original size:46 final size:46
Alignment explanation
Indices: 48226693--48226811 Score: 166
Period size: 46 Copynumber: 2.6 Consensus size: 46
48226683 ACATATCTCA
* *
48226693 CATTAGCCATTTGGCTTTACCACATATCCATATCATACACGTTTAG
1 CATTAGCCATTCGGCTTTACCACATATCCATATCATACACATTTAG
* * * *
48226739 CATTAGCCATTCGGCTTTACCTCATATCTATCTCATACACATTTCG
1 CATTAGCCATTCGGCTTTACCACATATCCATATCATACACATTTAG
* *
48226785 CATTAGCCATTCGACCTTACCACATAT
1 CATTAGCCATTCGGCTTTACCACATAT
48226812 ATACATGTTC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 64 1.00
ACGTcount: A:0.27, C:0.29, G:0.09, T:0.34
Consensus pattern (46 bp):
CATTAGCCATTCGGCTTTACCACATATCCATATCATACACATTTAG
Found at i:48226916 original size:94 final size:94
Alignment explanation
Indices: 48226785--48227019 Score: 416
Period size: 94 Copynumber: 2.5 Consensus size: 94
48226775 ACACATTTCG
* * * * **
48226785 CATTAGCCATTCGACCTTACCACATATATACATGTTCACATTCATCAAATTGGCCATTCGGCCTT
1 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCAAATTGGCCATTCGGCCTT
48226850 ATCTCATATATGAATGTTCACATTCATCA
66 ATCTCATATATGAATGTTCACATTCATCA
48226879 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCAAATTGGCCATTCGGCCTT
1 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCAAATTGGCCATTCGGCCTT
48226944 ATCTCATATATGAATGTTCACATTCATCA
66 ATCTCATATATGAATGTTCACATTCATCA
48226973 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCA
1 CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCA
48227020 CATAAAATCC
Statistics
Matches: 135, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 135 1.00
ACGTcount: A:0.29, C:0.27, G:0.11, T:0.33
Consensus pattern (94 bp):
CATTGGCCATTCGAACTTATCACACATACGCATGTTCACATTCATCAAATTGGCCATTCGGCCTT
ATCTCATATATGAATGTTCACATTCATCA
Done.