Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 169 of 373
Found at i:56543212 original size:54 final size:54
Alignment explanation
Indices: 56543130--56543404 Score: 325
Period size: 54 Copynumber: 5.1 Consensus size: 54
56543120 AACATCCTAG
** * * *
56543130 GGGTAAAATGGTACTTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * **
56543184 GGGTAAAACAATAATTTTGTAAATCGAGGGTAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * * * * *
56543238 GGGTAAAATAGTAATTCTATCAATCGAGGATAAAACGGTAATTCTATAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
** * * *
56543292 ACGTAAAATAGTAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
* * ** *
56543346 GGGTAAAACGGTAATTTTCTAAATCGAGGGTAAAACAATAATTTTGTAATTCGA
1 GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
56543400 GGGTA
1 GGGTA
56543405 CTTTGATAGT
Statistics
Matches: 189, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
54 189 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (54 bp):
GGGTAAAACAGTAATTTTATAAATCGAGGGTAAAACGGTAATTTTGTAAATCGA
Found at i:56543242 original size:81 final size:81
Alignment explanation
Indices: 56543130--56543404 Score: 352
Period size: 81 Copynumber: 3.4 Consensus size: 81
56543120 AACATCCTAG
* * **
56543130 GGGTAAAATGGTACTTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACAA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
*
56543195 TAATTTTGTAAATCGA
66 TAATTTTATAAATCGA
* * * * *
56543211 GGGTAAAATAGTAATTTTGTAAATCGAGGGTAAAATAGTAATTCTATCAATCGAGGATAAAACGG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
*
56543276 TAATTCTATAAATCGA
66 TAATTTTATAAATCGA
** * * * *
56543292 ACGTAAAATAGTAATTCTATCAATCGAGGGTAAAACGGTAATTTTGTAAATCGAGGGTAAAACGG
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
*
56543357 TAATTTTCTAAATCGA
66 TAATTTTATAAATCGA
* * * *
56543373 GGGTAAAACAATAATTTTGTAATTCGAGGGTA
1 GGGTAAAATAGTAATTTTATAAATCGAGGGTA
56543405 CTTTGATAGT
Statistics
Matches: 162, Mismatches: 32, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
81 162 1.00
ACGTcount: A:0.40, C:0.09, G:0.21, T:0.30
Consensus pattern (81 bp):
GGGTAAAATAGTAATTTTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAACGG
TAATTTTATAAATCGA
Found at i:56543444 original size:27 final size:27
Alignment explanation
Indices: 56543329--56543550 Score: 103
Period size: 27 Copynumber: 8.3 Consensus size: 27
56543319 GGGTAAAACG
** *** *
56543329 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTTTACAAATCGAGGGTATTTCA
***
56543356 GTAATTTT-CTAAATCGAGGGTAAAACA
1 GTAATTTTAC-AAATCGAGGGTATTTCA
* ** * *
56543383 ATAATTTTGTAATTCGAGGGTACTTTGA
1 GTAATTTTACAAATCGAGGGTA-TTTCA
* *
56543411 -TAGTTTTACAAGTCGAGGGTATTTCA
1 GTAATTTTACAAATCGAGGGTATTTCA
* *
56543437 GTAATTTTACAAA-CTGGGGGTATTTCT
1 GTAATTTTACAAATC-GAGGGTATTTCA
* * **
56543464 GTTATTTTACAAATCGAGGATATTTGG
1 GTAATTTTACAAATCGAGGGTATTTCA
* * * * *
56543491 GTGATTTTATAAACCGCGGGTACTTT-G
1 GTAATTTTACAAATCGAGGGTA-TTTCA
* * *
56543518 GTAATTTTACAACT-GGGGGTATTTTA
1 GTAATTTTACAAATCGAGGGTATTTCA
56543544 GTAATTT
1 GTAATTT
56543551 GGTAAACTAA
Statistics
Matches: 153, Mismatches: 34, Indels: 17
0.75 0.17 0.08
Matches are distributed among these distances:
25 3 0.02
26 18 0.12
27 127 0.83
28 5 0.03
ACGTcount: A:0.30, C:0.09, G:0.23, T:0.38
Consensus pattern (27 bp):
GTAATTTTACAAATCGAGGGTATTTCA
Found at i:56543458 original size:54 final size:53
Alignment explanation
Indices: 56543400--56543550 Score: 142
Period size: 54 Copynumber: 2.8 Consensus size: 53
56543390 TGTAATTCGA
* * *
56543400 GGGTACTTTGATAGTTTTACAAGTCGAGGGTATTTCAGTAATTTTACAAACTGG
1 GGGTACTTTGATA-TTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCGC
* * * ** * *
56543454 GGGTATTTCTGTTATTTTACAAATCGAGGATATTTGGGTGATTTTATAAACCGC
1 GGGTACTT-TGATATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCGC
* * * *
56543508 GGGTACTTTGGTAATTTTACAACT-GGGGGTATTTTAGTAATTT
1 GGGTACTTTGAT-ATTTTACAAATCGAGGGTATTTCAGTAATTT
56543551 GGTAAACTAA
Statistics
Matches: 77, Mismatches: 18, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
53 17 0.22
54 56 0.73
55 4 0.05
ACGTcount: A:0.26, C:0.10, G:0.24, T:0.40
Consensus pattern (53 bp):
GGGTACTTTGATATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAACCGC
Found at i:56545778 original size:27 final size:27
Alignment explanation
Indices: 56545748--56545929 Score: 186
Period size: 27 Copynumber: 6.7 Consensus size: 27
56545738 ATGGGTTTAC
*
56545748 AAAATTACCAAAATACCCTTTGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* **
56545775 AAAATTACCAAAATACCCTTGGTTTAC
1 AAAATTACCAAAATACCCTTAGTTTGT
* *
56545802 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
**
56545829 AAAATTACCAAAATACCCTTAGTTTAC
1 AAAATTACCAAAATACCCTTAGTTTGT
* * *
56545856 AAAATTGCCAAAATACCCCTAATTTGT
1 AAAATTACCAAAATACCCTTAGTTTGT
* ** **
56545883 GAAATTACTGAAATACCCTT-GTAGGGT
1 AAAATTACCAAAATACCCTTAGT-TTGT
* *
56545910 AGAATTACCGAAATACCCTT
1 AAAATTACCAAAATACCCTT
56545930 GTAGGGTAGA
Statistics
Matches: 128, Mismatches: 26, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
26 1 0.01
27 127 0.99
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAGTTTGT
Found at i:56545800 original size:54 final size:54
Alignment explanation
Indices: 56545741--56545903 Score: 245
Period size: 54 Copynumber: 3.0 Consensus size: 54
56545731 AGAATACATG
* *
56545741 GGTTTACAAAATTACCAAAATACCCTTTGTTTGTAAAATTACCAAAATACCCTT
1 GGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTT
*
56545795 GGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTT
1 GGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTT
* * * * **
56545849 AGTTTACAAAATTGCCAAAATACCCCTAATTTGTGAAATTACTGAAATACCCTT
1 GGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTT
56545903 G
1 G
56545904 TAGGGTAGAA
Statistics
Matches: 99, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
54 99 1.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.31
Consensus pattern (54 bp):
GGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTT
Found at i:56545930 original size:27 final size:27
Alignment explanation
Indices: 56545885--56545999 Score: 158
Period size: 27 Copynumber: 4.3 Consensus size: 27
56545875 TAATTTGTGA
*
56545885 AATTACTGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
56545912 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** *
56545939 AATTATTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
56545966 AATTACCGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
56545993 AATTACC
1 AATTACC
56546000 ATTTTGCCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:56550329 original size:40 final size:40
Alignment explanation
Indices: 56550278--56550422 Score: 263
Period size: 40 Copynumber: 3.6 Consensus size: 40
56550268 GCTACCTGCT
* *
56550278 CAAATGCCTTCGGGACTTAGCACAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
56550318 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
56550358 CAAATGCCTTTGGGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
56550398 CAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
56550423 TTATCATCCG
Statistics
Matches: 101, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.28, C:0.27, G:0.23, T:0.23
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:56558651 original size:22 final size:22
Alignment explanation
Indices: 56558620--56558681 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
56558610 AATATGATTT
*
56558620 GCACAAAGCCATAATCAACATA
1 GCACAGAGCCATAATCAACATA
* * *** *
56558642 GCACAGAGCCATATTTAGGTTG
1 GCACAGAGCCATAATCAACATA
56558664 GCACAGAGCCATAATCAA
1 GCACAGAGCCATAATCAA
56558682 ATTAAGCAGC
Statistics
Matches: 30, Mismatches: 10, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.40, C:0.24, G:0.18, T:0.18
Consensus pattern (22 bp):
GCACAGAGCCATAATCAACATA
Found at i:56559068 original size:27 final size:27
Alignment explanation
Indices: 56559038--56559089 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
56559028 TCATTTCACC
56559038 CTACAGAAG-TATTTCGGTAATTTTACA
1 CTACA-AAGATATTTCGGTAATTTTACA
* *
56559065 CTACAAGGATATTTTGGTAATTTTA
1 CTACAAAGATATTTCGGTAATTTTA
56559090 TAAATCAGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 2 0.09
27 20 0.91
ACGTcount: A:0.33, C:0.12, G:0.15, T:0.40
Consensus pattern (27 bp):
CTACAAAGATATTTCGGTAATTTTACA
Found at i:56559103 original size:53 final size:54
Alignment explanation
Indices: 56559046--56559174 Score: 154
Period size: 53 Copynumber: 2.4 Consensus size: 54
56559036 CCCTACAGAA
* *** *
56559046 GTATTTCGGTAATTTTACACTACAAGGA-TATTTTGGTAATTTTATAAATC-AGG
1 GTATTTCGGTAATTTTACA-AACAAGGAGTATTTCAATAATTTTACAAATCGAGG
* **
56559099 GTATTTCGATAATTTTACAAACTGGGAGTATTTCAATAATTTTACAAATCGAGG
1 GTATTTCGGTAATTTTACAAACAAGGAGTATTTCAATAATTTTACAAATCGAGG
*
56559153 GTATTTTGGTAATTTTACAAAC
1 GTATTTCGGTAATTTTACAAAC
56559175 TGGCGTCTTA
Statistics
Matches: 64, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 5 0.08
53 36 0.56
54 23 0.36
ACGTcount: A:0.33, C:0.10, G:0.16, T:0.40
Consensus pattern (54 bp):
GTATTTCGGTAATTTTACAAACAAGGAGTATTTCAATAATTTTACAAATCGAGG
Found at i:56559137 original size:27 final size:26
Alignment explanation
Indices: 56559097--56559177 Score: 101
Period size: 27 Copynumber: 3.0 Consensus size: 26
56559087 TTATAAATCA
56559097 GGGTATTTCGATAATTTTACAAACTG
1 GGGTATTTCGATAATTTTACAAACTG
*
56559123 GGAGTATTTCAATAATTTTACAAA-TCG
1 GG-GTATTTCGATAATTTTACAAACT-G
* *
56559150 AGGGTATTTTGGTAATTTTACAAACTG
1 -GGGTATTTCGATAATTTTACAAACTG
56559177 G
1 G
56559178 CGTCTTAACG
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
26 4 0.09
27 40 0.85
28 3 0.06
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (26 bp):
GGGTATTTCGATAATTTTACAAACTG
Found at i:56560361 original size:12 final size:13
Alignment explanation
Indices: 56560344--56560372 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
56560334 ATCGGTCACC
56560344 AGAAAAAGAAAA-
1 AGAAAAAGAAAAT
56560356 AGAAAAAGAAAAT
1 AGAAAAAGAAAAT
56560369 AGAA
1 AGAA
56560373 TAGTTGAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.03
Consensus pattern (13 bp):
AGAAAAAGAAAAT
Found at i:56567164 original size:43 final size:42
Alignment explanation
Indices: 56567057--56567166 Score: 116
Period size: 42 Copynumber: 2.6 Consensus size: 42
56567047 GACTTCTGTT
56567057 TTACATGTAAGACCATGTCTGGGACATCAGCATCATATCGAA
1 TTACATGTAAGACCATGTCTGGGACATCAGCATCATATCGAA
* * * * * *
56567099 TTTCATGTAAGAACTTGTCTGGGATAGTGA-CATCGATGTTCG-A
1 TTACATGTAAGACCATGTCTGGGACA-TCAGCATC-AT-ATCGAA
*
56567142 TTACATGTAAGACCATGCCTGGGAC
1 TTACATGTAAGACCATGTCTGGGAC
56567167 GTTGGCATTG
Statistics
Matches: 54, Mismatches: 11, Indels: 5
0.77 0.16 0.07
Matches are distributed among these distances:
42 26 0.48
43 25 0.46
44 3 0.06
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (42 bp):
TTACATGTAAGACCATGTCTGGGACATCAGCATCATATCGAA
Found at i:56575138 original size:37 final size:37
Alignment explanation
Indices: 56575075--56575181 Score: 178
Period size: 37 Copynumber: 2.9 Consensus size: 37
56575065 AGCTCAGACG
* *
56575075 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
*
56575112 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
*
56575149 TAATCTCCACACGTAGTCATCAGGTCTTACCCG
1 AAATCTCCACACGTAGTCATCAGGTCTTACCCG
56575182 AAATATATTT
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 65 1.00
ACGTcount: A:0.28, C:0.32, G:0.17, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCAGGTCTTACCCGGACA
Found at i:56577073 original size:40 final size:40
Alignment explanation
Indices: 56576989--56577173 Score: 218
Period size: 40 Copynumber: 4.7 Consensus size: 40
56576979 TCGAATGATG
* * *
56576989 TCCGGGCTAAGTGCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAT
*
56577028 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56577069 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
*
56577108 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
* *
56577147 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
56577174 AACGAGTAGC
Statistics
Matches: 127, Mismatches: 12, Indels: 12
0.84 0.08 0.08
Matches are distributed among these distances:
39 36 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:56577125 original size:79 final size:81
Alignment explanation
Indices: 56576989--56577171 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
56576979 TCGAATGATG
* * *
56576989 TCCGGGCTAAGTGCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
56577053 TGTGCGAGTTACTA-A
66 TGTGCGAGTTACTATA
* * **
56577068 TTCCGGGCTAAG-CCCGAAGGCATTGGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGAT-CCGAAGGCA
56577130 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGTTACTATA
* *
56577148 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
56577172 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:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGTTACTATA
Found at i:56577195 original size:79 final size:78
Alignment explanation
Indices: 56577023--56577196 Score: 210
Period size: 79 Copynumber: 2.2 Consensus size: 78
56577013 GTGCTAAGTG
* *
56577023 ACTATATCCGGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAATTCCGGGCTAAGCCCGAAGG
1 ACTATATCCGG-TTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGG
**
56577088 CATTGGTGCGAGTT
65 CATTGGAACGAGTT
* *
56577102 ACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGA
1 ACTATATCC-GGTTAAGAT-CCGAAGGCATTTGTGCGAGTTACTAAT-ACCGGGCTAAG-CCCGA
*
56577165 AGGCATTTGAACGAG-T
62 AGGCATTGGAACGAGTT
56577181 AGCTATATCCGGTTAA
1 A-CTATATCCGGTTAA
56577197 ATTACGAAGG
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
78 3 0.04
79 53 0.65
80 26 0.32
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (78 bp):
ACTATATCCGGTTAAGATCCGAAGGCATTTGTGCGAGTTACTAATACCGGGCTAAGCCCGAAGGC
ATTGGAACGAGTT
Found at i:56589000 original size:22 final size:22
Alignment explanation
Indices: 56588975--56589019 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
56588965 GGTCCTTCCA
56588975 TATTTT-TTAATATTTATAATTT
1 TATTTTATTAATA-TTATAATTT
**
56588997 TATTTTATTTTTATTATAATTT
1 TATTTTATTAATATTATAATTT
56589019 T
1 T
56589020 GCCCTGACTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTATTAATATTATAATTT
Found at i:56590633 original size:27 final size:27
Alignment explanation
Indices: 56590603--56590780 Score: 214
Period size: 27 Copynumber: 6.6 Consensus size: 27
56590593 ATATCGAGTC
* * * *
56590603 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
56590630 CGCACACTTAGTGCTACATAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56590657 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56590685 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56590712 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56590739 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56590766 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56590781 GTACAATTTA
Statistics
Matches: 132, Mismatches: 16, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
27 108 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56590742 original size:82 final size:81
Alignment explanation
Indices: 56590624--56590779 Score: 242
Period size: 82 Copynumber: 1.9 Consensus size: 81
56590614 TGCTATATAA
*
56590624 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56590689 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56590706 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56590770 CACTTAGTGC
65 CACTTAGTGC
56590780 TGTACAATTT
Statistics
Matches: 68, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
81 16 0.24
82 52 0.76
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56591351 original size:13 final size:13
Alignment explanation
Indices: 56591333--56591357 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56591323 TACTAAATTT
56591333 TCATGGATTCAAG
1 TCATGGATTCAAG
56591346 TCATGGATTCAA
1 TCATGGATTCAA
56591358 TATACCATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (13 bp):
TCATGGATTCAAG
Found at i:56598878 original size:27 final size:27
Alignment explanation
Indices: 56598848--56599025 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
56598838 ATATTGAGTC
* *
56598848 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
56598875 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
56598902 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
56598930 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
56598957 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
56598984 CGCACACTTAGTGCAACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
56599011 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56599026 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56598987 original size:82 final size:81
Alignment explanation
Indices: 56598869--56599024 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56598859 TGCTATATAA
* * *
56598869 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGCCAAA-TCGCA
56598934 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56598951 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGCCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGCCAAATCGCA
56599015 CACTTAGTGC
65 CACTTAGTGC
56599025 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGCCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56599491 original size:34 final size:34
Alignment explanation
Indices: 56599448--56599516 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
56599438 ACATAGATTA
56599448 TAGTAAGCTTTATAATAGTCAATAAATAACTCAT
1 TAGTAAGCTTTATAATAGTCAATAAATAACTCAT
56599482 TAGTAAGCTTTATAATAGTCAATAAATAACTCAT
1 TAGTAAGCTTTATAATAGTCAATAAATAACTCAT
56599516 T
1 T
56599517 GGCAAATTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.12, G:0.09, T:0.36
Consensus pattern (34 bp):
TAGTAAGCTTTATAATAGTCAATAAATAACTCAT
Found at i:56605209 original size:11 final size:12
Alignment explanation
Indices: 56605184--56605215 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
56605174 AAACCATTCC
*
56605184 TTTCCCTTTCTT
1 TTTCCTTTTCTT
56605196 TTTCCTTTTCTT
1 TTTCCTTTTCTT
56605208 TTTCCTTT
1 TTTCCTTT
56605216 ACATAGATGC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTCCTTTTCTT
Found at i:56614489 original size:43 final size:44
Alignment explanation
Indices: 56614416--56614501 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 44
56614406 TAGGTCAAAT
56614416 AATATTAAAATAACTTACACTAATCAGAGTTTAAGTAGGAAACC
1 AATATTAAAATAACTTACACTAATCAGAGTTTAAGTAGGAAACC
* *
56614460 AATATTAAAATAAC-TACACTAATTAGAGTTTAAGTGGGAAAC
1 AATATTAAAATAACTTACACTAATCAGAGTTTAAGTAGGAAAC
56614502 TAAAAATAGA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
43 26 0.65
44 14 0.35
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.28
Consensus pattern (44 bp):
AATATTAAAATAACTTACACTAATCAGAGTTTAAGTAGGAAACC
Found at i:56614531 original size:25 final size:25
Alignment explanation
Indices: 56614483--56614532 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
56614473 CTACACTAAT
* *
56614483 TAGAGTTTAAGTGGGAAACTAAAAA
1 TAGAGTTTAACTGGGAAACGAAAAA
56614508 TAGAGTTTAACTGGGAGAA-GAAAAA
1 TAGAGTTTAACTGGGA-AACGAAAAA
56614533 CCAAAAACTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.48, C:0.04, G:0.26, T:0.22
Consensus pattern (25 bp):
TAGAGTTTAACTGGGAAACGAAAAA
Found at i:56621101 original size:138 final size:138
Alignment explanation
Indices: 56620850--56621113 Score: 456
Period size: 138 Copynumber: 1.9 Consensus size: 138
56620840 TATATTTTGG
* * * *
56620850 AAAGAATATTAATTTCCATGTCTTTTATATTTTGACCGAAATTAATTAATATAACTGTTTATGTT
1 AAAGAATATTAATTTCCATGGCTTTTATATTTTGACAGAAATTAATTAAGATAACTGTTTATATT
* *
56620915 AATAAATTTAGTAAAATATATACAATTAATATTTTGTATGAATTAAATTCATATATTAATTATAT
66 AATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATTATAT
56620980 TCTTTCCA
131 TCTTTCCA
*
56620988 AAAGAATATTAATTTCCATGGCTTTTATATTTTGACAGAAATTAATTAAGATAATTGTTTATATT
1 AAAGAATATTAATTTCCATGGCTTTTATATTTTGACAGAAATTAATTAAGATAACTGTTTATATT
*
56621053 AATAAATTCGGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATT
66 AATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATT
56621114 TTATCTATGT
Statistics
Matches: 118, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
138 118 1.00
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (138 bp):
AAAGAATATTAATTTCCATGGCTTTTATATTTTGACAGAAATTAATTAAGATAACTGTTTATATT
AATAAATTCAGTAAAATATATACAATTAATATTTTGTATGAATCAAATTCATATATTAATTATAT
TCTTTCCA
Found at i:56624096 original size:47 final size:47
Alignment explanation
Indices: 56624030--56624458 Score: 723
Period size: 47 Copynumber: 9.1 Consensus size: 47
56624020 GAAATGATAG
56624030 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56624077 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGA
*
56624126 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56624173 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
56624220 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56624267 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56624314 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56624361 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*** * * * * * * *
56624408 CGGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
56624455 TAAG
1 TAAG
56624459 TCCCGAAGGG
Statistics
Matches: 363, Mismatches: 17, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
47 316 0.87
49 47 0.13
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:56624633 original size:37 final size:37
Alignment explanation
Indices: 56624577--56624655 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
56624567 CCGAGCTCTA
* *
56624577 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
56624614 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56624651 AAGAC
1 AAGAC
56624656 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:56629859 original size:27 final size:27
Alignment explanation
Indices: 56629828--56630005 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56629818 TAAATTGTAC
56629828 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56629855 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56629881 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
56629909 GGCACTAAGTGTGCGAGTTTGACCATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56629937 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56629964 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56629991 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56630006 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56629946 original size:82 final size:81
Alignment explanation
Indices: 56629829--56629984 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56629819 AAATTGTACA
* * *
56629829 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56629893 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56629910 GCACTAAGTGTGCGAGTTTGACCATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56629975 TGCGAGTTGA
65 TGCGAATTGA
56629985 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56629996 original size:82 final size:81
Alignment explanation
Indices: 56629825--56630005 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
56629815 GATTAAATTG
* * *
56629825 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56629890 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56629906 TGCGGCACTAAGTGTGCGAGTTTGACCATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56629970 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56629988 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56630006 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56637818 original size:27 final size:27
Alignment explanation
Indices: 56637787--56637964 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56637777 TAAATTGTAC
56637787 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56637814 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56637840 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
* *
56637868 GGCACTAAGTGTGCGAGTTTGACCATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56637896 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56637923 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56637950 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56637965 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 24 0.19
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56637905 original size:82 final size:81
Alignment explanation
Indices: 56637788--56637943 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56637778 AAATTGTACA
* * *
56637788 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56637852 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56637869 GCACTAAGTGTGCGAGTTTGACCATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56637934 TGCGAGTTGA
65 TGCGAATTGA
56637944 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56637955 original size:82 final size:81
Alignment explanation
Indices: 56637784--56637964 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
56637774 GATTAAATTG
* * *
56637784 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56637849 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56637865 TGCGGCACTAAGTGTGCGAGTTTGACCATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56637929 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56637947 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56637965 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACCATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56648278 original size:125 final size:125
Alignment explanation
Indices: 56648056--56648306 Score: 502
Period size: 125 Copynumber: 2.0 Consensus size: 125
56648046 AATGCAATGA
56648056 ACAAATGAAATGACAGGAGCGCATGCGTAAAAGTGTAGTAATAAATAGGACGTTTGGTTCATGTG
1 ACAAATGAAATGACAGGAGCGCATGCGTAAAAGTGTAGTAATAAATAGGACGTTTGGTTCATGTG
56648121 TTACACACGCATTGGGAAACCGAAAACAACAAAACAATGAATAAACAAATTGTGTCCTTG
66 TTACACACGCATTGGGAAACCGAAAACAACAAAACAATGAATAAACAAATTGTGTCCTTG
56648181 ACAAATGAAATGACAGGAGCGCATGCGTAAAAGTGTAGTAATAAATAGGACGTTTGGTTCATGTG
1 ACAAATGAAATGACAGGAGCGCATGCGTAAAAGTGTAGTAATAAATAGGACGTTTGGTTCATGTG
56648246 TTACACACGCATTGGGAAACCGAAAACAACAAAACAATGAATAAACAAATTGTGTCCTTG
66 TTACACACGCATTGGGAAACCGAAAACAACAAAACAATGAATAAACAAATTGTGTCCTTG
56648306 A
1 A
56648307 TATAATGCAC
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
125 126 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (125 bp):
ACAAATGAAATGACAGGAGCGCATGCGTAAAAGTGTAGTAATAAATAGGACGTTTGGTTCATGTG
TTACACACGCATTGGGAAACCGAAAACAACAAAACAATGAATAAACAAATTGTGTCCTTG
Found at i:56659538 original size:33 final size:33
Alignment explanation
Indices: 56659492--56659602 Score: 177
Period size: 33 Copynumber: 3.4 Consensus size: 33
56659482 TACTCTCTTT
* *
56659492 TTGGTGTGCTGGTTGGATTAGCTTTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
* * *
56659525 TAGGTGTGATGGTTGGTTTAGCTCTTATGAACA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
56659558 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
56659591 TTGGTGTGATGG
1 TTGGTGTGATGG
56659603 ATGTATTGGC
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 70 1.00
ACGTcount: A:0.17, C:0.08, G:0.34, T:0.41
Consensus pattern (33 bp):
TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
Found at i:56659622 original size:33 final size:33
Alignment explanation
Indices: 56659492--56659624 Score: 133
Period size: 33 Copynumber: 4.0 Consensus size: 33
56659482 TACTCTCTTT
* * * *
56659492 TTGGTGTGCTGGTTGGATTAGCTTTTATGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
* * * * *
56659525 TAGGTGTGATGGTTGGTTTAGCTCTTATGAACA
1 TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
* *
56659558 TTGGTGTGATGGTTGGATTAGCTCTTATGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
* *
56659591 TTGGTGTGATGGATGTATTGGCTC-GAGTGAGCA
1 TTGGTGTGATGGATGGATTAGCTCTGA-TGAGCA
56659624 T
1 T
56659625 CTTGTGTGTT
Statistics
Matches: 87, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
32 1 0.01
33 86 0.99
ACGTcount: A:0.18, C:0.09, G:0.34, T:0.39
Consensus pattern (33 bp):
TTGGTGTGATGGATGGATTAGCTCTGATGAGCA
Found at i:56661765 original size:27 final size:27
Alignment explanation
Indices: 56661735--56661912 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
56661725 ATATTGAGTC
* *
56661735 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
56661762 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
**
56661789 CGCACACTTAGTGCTACATGGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
56661817 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
56661844 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
56661871 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
* *
56661898 CGCGCACTTCGTGCT
1 CGCACACTTAGTGCT
56661913 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 102 0.80
28 25 0.20
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:56661874 original size:82 final size:81
Alignment explanation
Indices: 56661756--56661911 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
56661746 TGCTATATAA
* * *
56661756 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATGGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56661821 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
56661838 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCG
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
*
56661902 CACTTCGTGC
65 CACTTAGTGC
56661912 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.78
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56669718 original size:27 final size:27
Alignment explanation
Indices: 56669688--56669865 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
56669678 ATATTGAGTC
* * * *
56669688 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56669715 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
*
56669742 CGCACACTTAGTGCTACATGGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56669770 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56669797 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56669824 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56669851 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56669866 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 105 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56669827 original size:82 final size:81
Alignment explanation
Indices: 56669709--56669864 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
56669699 TGCTATATAA
* * *
56669709 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATGGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56669774 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56669791 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56669855 CACTTAGTGC
65 CACTTAGTGC
56669865 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 16 0.24
82 50 0.76
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56672565 original size:25 final size:27
Alignment explanation
Indices: 56672528--56672580 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
56672518 TCAAACATGC
56672528 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
56672554 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
56672580 A
1 A
56672581 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:56674167 original size:26 final size:26
Alignment explanation
Indices: 56674069--56674172 Score: 154
Period size: 26 Copynumber: 4.0 Consensus size: 26
56674059 ATTCCCATCT
**
56674069 TGGAACATTTACCTAAATCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
56674095 TGGAACATTTACCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
56674121 TGGAATATTTACCTAATCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
* *
56674147 TGGAACAATTATCTAACCCATTATCA
1 TGGAACATTTACCTAACCCATTATCA
56674173 ATTTGTACCA
Statistics
Matches: 70, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 70 1.00
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.34
Consensus pattern (26 bp):
TGGAACATTTACCTAACCCATTATCA
Found at i:56674882 original size:12 final size:12
Alignment explanation
Indices: 56674865--56674894 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56674855 TCATGCTGTT
56674865 ACACGGCCTAGC
1 ACACGGCCTAGC
*
56674877 ACACGGCCTGGC
1 ACACGGCCTAGC
56674889 ACACGG
1 ACACGG
56674895 GCGTGTGAGG
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:0.23, C:0.40, G:0.30, T:0.07
Consensus pattern (12 bp):
ACACGGCCTAGC
Found at i:56676346 original size:43 final size:43
Alignment explanation
Indices: 56676243--56676347 Score: 138
Period size: 44 Copynumber: 2.4 Consensus size: 43
56676233 TTTGAGTTGC
* *
56676243 TTCCACGTAGCTTTCTTTTTTGTCATTTCTTGGTAGTGATTTT
1 TTCCACGTAGCTTCCTCTTTTGTCATTTCTTGGTAGTGATTTT
* ** *
56676286 TTCCTACATATTTTCCTCTTTTGTCGTTTCTTGGTAGTGATTTT
1 TTCC-ACGTAGCTTCCTCTTTTGTCATTTCTTGGTAGTGATTTT
*
56676330 TTTCACGTAGCTTCCTCT
1 TTCCACGTAGCTTCCTCT
56676348 GTTTTTATGT
Statistics
Matches: 51, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
43 15 0.29
44 36 0.71
ACGTcount: A:0.11, C:0.20, G:0.14, T:0.54
Consensus pattern (43 bp):
TTCCACGTAGCTTCCTCTTTTGTCATTTCTTGGTAGTGATTTT
Found at i:56677751 original size:12 final size:12
Alignment explanation
Indices: 56677734--56677758 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56677724 ATGTAAGTGA
56677734 TCTTGATGATTT
1 TCTTGATGATTT
56677746 TCTTGATGATTT
1 TCTTGATGATTT
56677758 T
1 T
56677759 TACATTTTTG
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:0.16, C:0.08, G:0.16, T:0.60
Consensus pattern (12 bp):
TCTTGATGATTT
Found at i:56678328 original size:21 final size:20
Alignment explanation
Indices: 56678300--56678341 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
56678290 GTTGTATATA
56678300 AATAATATAACTACATTGTC
1 AATAATATAACTACATTGTC
* *
56678320 AATACATATAATTGCATTGTC
1 AATA-ATATAACTACATTGTC
56678341 A
1 A
56678342 TTGAATTGAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (20 bp):
AATAATATAACTACATTGTC
Found at i:56678680 original size:50 final size:48
Alignment explanation
Indices: 56678477--56678845 Score: 296
Period size: 50 Copynumber: 7.7 Consensus size: 48
56678467 AATTTGTGTA
* *
56678477 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA-CGAGTG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA-TGATAGCGAGAG
* *
56678525 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGA-CGTA-AG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GATAGCG-AGAG
* * * *
56678571 CCAGTGTAAGA-TATGTCTGGGACAT-GTATCGGCTATGAGA-C-A-TG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGC-ATGATAGCGAGAG
* * *
56678615 TCAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGCAAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GATA-GCGAGAG
* * * *
56678665 CTAGTGTAAGACCATGTTTGGGACATGACATCAGCATG-TAAGTACGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAT-AG--CGAGAG
* * *
56678715 CTAGTGTAAGACCATGTCTGGGACATGACATCAGCATG-TAAGTACGAGAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGAT-AG--CGAGAG
** * * * *
56678765 CTTGTGTAAGACCATGTTTGGAACATGGCATCGGCCTCGATGAG-GATAG
1 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-GAT-AGCGAGAG
*
56678814 CCAGTTTAAGACCATGTCTGGGACATGGCATC
1 CCAGTGTAAGACCATGTCTGGGACATGGCATC
56678846 AGCAACTTAA
Statistics
Matches: 273, Mismatches: 33, Indels: 29
0.81 0.10 0.09
Matches are distributed among these distances:
44 12 0.04
45 16 0.06
46 60 0.22
47 16 0.06
48 14 0.05
49 34 0.12
50 117 0.43
51 1 0.00
52 3 0.01
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (48 bp):
CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCATGATAGCGAGAG
Found at i:56678753 original size:138 final size:135
Alignment explanation
Indices: 56678478--56678741 Score: 298
Period size: 138 Copynumber: 1.9 Consensus size: 135
56678468 ATTTGTGTAC
* * * *
56678478 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGAGTGCCAGTGTAAGACATGTCT
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACAAGAGCCAGTGTAAGACATGTCT
* * * *
56678543 GGGACATGCATCGGCCTCGAGACGTAAGCCAGTGTAAGATATGTCTGGGACATGTATCGGCTATG
66 GGGACATGCATCAGCATCGAGACGTAAGCCAGTGTAAGACATGTCTGGGACATGTA---GCTATC
56678608 AGACATGT
128 AGACATGT
* *
56678616 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGATATGCAAGAGCTAGTGTAAGACCATG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGA--CAAGAGCCAGTGTAAGA-CATG
* *
56678681 TTTGGGACATGACATCAGCAT-GTAAGTACG-AGAGCTAGTGTAAGACCATGTCTGGGACATG
63 TCTGGGACATG-CATCAGCATCG--AG-ACGTA-AGCCAGTGTAAGA-CATGTCTGGGACATG
56678742 ACATCAGCAT
Statistics
Matches: 106, Mismatches: 11, Indels: 11
0.83 0.09 0.09
Matches are distributed among these distances:
138 38 0.36
140 14 0.13
141 15 0.14
142 7 0.07
143 3 0.03
144 15 0.14
145 14 0.13
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (135 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGACATAGAGACAAGAGCCAGTGTAAGACATGTCT
GGGACATGCATCAGCATCGAGACGTAAGCCAGTGTAAGACATGTCTGGGACATGTAGCTATCAGA
CATGT
Found at i:56686255 original size:45 final size:47
Alignment explanation
Indices: 56686146--56686516 Score: 330
Period size: 50 Copynumber: 7.7 Consensus size: 47
56686136 ATTTGTGTGC
* * * *
56686146 CAGTGTATGACCATGTCTGGGACATGGCATCGACATTGAGACGAGTG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAG
*
56686193 CCAGTGTAAGA-CATGTCTGGGACAT-GCATCGGCCTCGAGACGTA-AG
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACG-AGAG
* *
56686239 CCGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-TACGAGAC-ATG-T
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCAT-CGAGACGA-GAG
* ** * * *
56686283 CAATGTAAGACCATGTCTGGGACATGGCATCCACATGGATATGCAAGAG
1 CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGA--CGAGAG
* * *
56686332 CTAGTGTAAGACCATGTCTGGGACATGTCATCAGTAT-GTAAGTACGAGAG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG--AG-ACGAGAG
* *
56686382 CTAGTGTAAGACCATGTCTAGGACATGGCATCAGCAT-GTAAGCACGAGAG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCG--AG-ACGAGAG
* * *
56686432 CTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATGAGGATAG
1 C-AGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGA-GACGAGAG
56686481 CCAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
1 -CAGTGTAAGACCATGTCTGGGACATGGCATCGGCA
56686517 ACTTAACCCA
Statistics
Matches: 274, Mismatches: 31, Indels: 35
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.00
44 9 0.03
45 51 0.19
46 24 0.09
47 16 0.06
48 11 0.04
49 42 0.15
50 117 0.43
51 2 0.01
52 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.30, T:0.22
Consensus pattern (47 bp):
CAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGAGAG
Found at i:56688637 original size:76 final size:74
Alignment explanation
Indices: 56688515--56688898 Score: 342
Period size: 76 Copynumber: 5.1 Consensus size: 74
56688505 GTAACAAAGT
* * * * * * *
56688515 TTTGCACCCAGCACTAGTCGGATAAATTGACGATATCAAATG-TGTGCCCATTGCTAGCCGGATA
1 TTTGCGCCCAGCGCTAGTCGGATAACTCGACGATATTAAA-GATGTGCCCA--GCTAGTCAGATA
*
56688579 AACCGACAACAA
63 AACCGACAACGA
* *
56688591 TTTGCGCCCAGCGCTAGTCGGATAACTCGATGATATTAAAGATGTGCCCAACAGTAGTCAGATAA
1 TTTGCGCCCAGCGCTAGTCGGATAACTCGACGATATTAAAGATGTGCCCAGC--TAGTCAGATAA
*
56688656 ACTGACAACGA
64 ACCGACAACGA
* * * *
56688667 TTTACGCCCAACGCTAGTCGGATAACCCAACGATATTAAAGATGTGCCCAGCACTAGTCAGATAA
1 TTTGCGCCCAGCGCTAGTCGGATAACTCGACGATATTAAAGATGTGCCCAG--CTAGTCAGATAA
*
56688732 ACCGACAATGA
64 ACCGACAACGA
* * * * ** * **
56688743 TTTACGCCCAGTGTTAGTCGGATAAAC-CAACTTTATTAAAAATGTGCCCAGCAATAGTTGGATA
1 TTTGCGCCCAGCGCTAGTCGGAT-AACTCGACGATATTAAAGATGTGCCCAGC--TAGTCAGATA
*
56688807 AACCGACAATGA
63 AACCGACAACGA
* * *
56688819 TTTGTGCCCAGCGCTAGTCGGATAAACT-GACGATATTAAAAATGTGCCCAGCACTAGTCGGATA
1 TTTGCGCCCAGCGCTAGTCGGAT-AACTCGACGATATTAAAGATGTGCCCAG--CTAGTCAGATA
** *
56688883 AAATGACAATGA
63 AACCGACAACGA
56688895 TTTG
1 TTTG
56688899 ATACAAAATT
Statistics
Matches: 260, Mismatches: 37, Indels: 22
0.82 0.12 0.07
Matches are distributed among these distances:
74 2 0.01
75 1 0.00
76 252 0.97
77 3 0.01
78 2 0.01
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.23
Consensus pattern (74 bp):
TTTGCGCCCAGCGCTAGTCGGATAACTCGACGATATTAAAGATGTGCCCAGCTAGTCAGATAAAC
CGACAACGA
Found at i:56688724 original size:40 final size:40
Alignment explanation
Indices: 56688680--56688884 Score: 160
Period size: 40 Copynumber: 5.3 Consensus size: 40
56688670 ACGCCCAACG
* * *
56688680 CTAGTCGGATAACCCAACGATATTAAAGATGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATTAAAAATGTGCCCAGCA
* * ** **
56688720 CTAGTCAGATAAACCGACAATGATT-----TACGCCCAGTG
1 CTAGTCGGATAAACCGACGAT-ATTAAAAATGTGCCCAGCA
* * **
56688756 TTAGTCGGATAAACCAACTTTATTAAAAATGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATTAAAAATGTGCCCAGCA
* * * *
56688796 ATAGTTGGATAAACCGACAATGATT-----TGTGCCCAGCG
1 CTAGTCGGATAAACCGACGAT-ATTAAAAATGTGCCCAGCA
*
56688832 CTAGTCGGATAAACTGACGATATTAAAAATGTGCCCAGCA
1 CTAGTCGGATAAACCGACGATATTAAAAATGTGCCCAGCA
56688872 CTAGTCGGATAAA
1 CTAGTCGGATAAA
56688885 ATGACAATGA
Statistics
Matches: 125, Mismatches: 28, Indels: 24
0.71 0.16 0.14
Matches are distributed among these distances:
35 6 0.05
36 50 0.40
40 63 0.50
41 6 0.05
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.23
Consensus pattern (40 bp):
CTAGTCGGATAAACCGACGATATTAAAAATGTGCCCAGCA
Found at i:56688807 original size:152 final size:152
Alignment explanation
Indices: 56688575--56688897 Score: 398
Period size: 152 Copynumber: 2.1 Consensus size: 152
56688565 TTGCTAGCCG
** * * *
56688575 GATAAACCGACAACAATTTGCGCCCAGCGCTAGTCGGATAACTCGATGATATTAAAGATGTGCCC
1 GATAAACCGACAATGATTTACGCCCAGCGCTAGTCGGATAACTCAATGATATTAAAAATGTGCCC
* * *
56688640 AACAGTAGTCAGATAAACTGACAACGATTTACGCCCAACGCTAGTCGGATAACCCAACGATATTA
66 AACAATAGTCAGATAAACCGACAACGATTTACGCCCAACGCTAGTCGGATAAACCAACGATATTA
*
56688705 AAGATGTGCCCAGCACTAGTCA
131 AAAATGTGCCCAGCACTAGTCA
* * *
56688727 GATAAACCGACAATGATTTACGCCCAGTGTTAGTCGGATAAAC-CAACT-TTATTAAAAATGTGC
1 GATAAACCGACAATGATTTACGCCCAGCGCTAGTCGGAT-AACTCAA-TGATATTAAAAATGTGC
* ** * ** * **
56688790 CCAGCAATAGTTGGATAAACCGACAATGATTTGTGCCCAGCGCTAGTCGGATAAACTGACGATAT
64 CCAACAATAGTCAGATAAACCGACAACGATTTACGCCCAACGCTAGTCGGATAAACCAACGATAT
*
56688855 TAAAAATGTGCCCAGCACTAGTCG
129 TAAAAATGTGCCCAGCACTAGTCA
**
56688879 GATAAAATGACAATGATTT
1 GATAAACCGACAATGATTT
56688898 GATACAAAAT
Statistics
Matches: 145, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
152 141 0.97
153 4 0.03
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (152 bp):
GATAAACCGACAATGATTTACGCCCAGCGCTAGTCGGATAACTCAATGATATTAAAAATGTGCCC
AACAATAGTCAGATAAACCGACAACGATTTACGCCCAACGCTAGTCGGATAAACCAACGATATTA
AAAATGTGCCCAGCACTAGTCA
Found at i:56692852 original size:40 final size:40
Alignment explanation
Indices: 56692808--56693069 Score: 319
Period size: 39 Copynumber: 6.7 Consensus size: 40
56692798 GCTCCTCGTT
* *
56692808 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
56692848 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
56692888 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
56692927 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
56692966 CAAATGCCTTCGGG-TTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* *
56693005 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGT-ATC-TCGCA
56693046 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
56693070 CATCATTCAA
Statistics
Matches: 201, Mismatches: 13, Indels: 17
0.87 0.06 0.07
Matches are distributed among these distances:
38 2 0.01
39 125 0.62
40 63 0.31
41 11 0.05
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:56701691 original size:25 final size:23
Alignment explanation
Indices: 56701642--56701694 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 23
56701632 TTTGGCTTGA
*
56701642 TTATGGATATGTTTATGAGTGAG
1 TTATGGATAAGTTTATGAGTGAG
56701665 TTATGGTATAAGTTATATGA-TGAAG
1 TTATGG-ATAAGTT-TATGAGTG-AG
56701690 TTATG
1 TTATG
56701695 TTTATGACAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 6 0.23
24 8 0.31
25 12 0.46
ACGTcount: A:0.30, C:0.00, G:0.26, T:0.43
Consensus pattern (23 bp):
TTATGGATAAGTTTATGAGTGAG
Found at i:56705154 original size:16 final size:15
Alignment explanation
Indices: 56705133--56705183 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 15
56705123 TGCAATTTGG
56705133 TTTATTTAATTTTCTT
1 TTTATTT-ATTTTCTT
56705149 TTTATTTATTTAT-TT
1 TTTATTTATTT-TCTT
56705164 ATTTATTGTGATTTTCTT
1 -TTTATT-T-ATTTTCTT
56705182 TT
1 TT
56705184 CAGCTATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 9
0.77 0.00 0.23
Matches are distributed among these distances:
15 6 0.20
16 14 0.47
17 4 0.13
18 6 0.20
ACGTcount: A:0.18, C:0.04, G:0.04, T:0.75
Consensus pattern (15 bp):
TTTATTTATTTTCTT
Found at i:56705192 original size:33 final size:32
Alignment explanation
Indices: 56705133--56705194 Score: 79
Period size: 33 Copynumber: 1.9 Consensus size: 32
56705123 TGCAATTTGG
* **
56705133 TTTATTTAATTTTCTTTTTATTTATTTATTTA
1 TTTATTTAATTTTCTTTTCAGCTATTTATTTA
*
56705165 TTTATTGTGATTTTCTTTTCAGCTATTTAT
1 TTTATT-TAATTTTCTTTTCAGCTATTTAT
56705195 GAGCATACAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 6 0.24
33 19 0.76
ACGTcount: A:0.19, C:0.06, G:0.05, T:0.69
Consensus pattern (32 bp):
TTTATTTAATTTTCTTTTCAGCTATTTATTTA
Found at i:56706888 original size:25 final size:24
Alignment explanation
Indices: 56706841--56706893 Score: 61
Period size: 25 Copynumber: 2.2 Consensus size: 24
56706831 CACAAATGCA
*
56706841 GCTCTTTATGAGCATCCTGATATAG
1 GCTCTTTATGAGCATCCTCATAT-G
* * *
56706866 GCTCTTTTTGAGCTTCTTCATATG
1 GCTCTTTATGAGCATCCTCATATG
56706890 GCTC
1 GCTC
56706894 ACTTGAACAT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.17, C:0.23, G:0.19, T:0.42
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTCATATG
Found at i:56714158 original size:46 final size:48
Alignment explanation
Indices: 56714036--56714165 Score: 155
Period size: 46 Copynumber: 2.8 Consensus size: 48
56714026 TGTAACCCGC
56714036 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA--CCTAGTTACAT
* * * *
56714086 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGGA-C-A-TTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTT-ACAT
56714129 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56714166 TGCTCAACCA
Statistics
Matches: 69, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
42 2 0.03
43 4 0.06
44 1 0.01
45 2 0.03
46 29 0.42
47 29 0.42
48 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (48 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACCTAGTTACAT
Found at i:56714624 original size:30 final size:30
Alignment explanation
Indices: 56714590--56714650 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
56714580 CATTTAATAC
56714590 AAACTTTGGAAAAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
* * *
56714620 AAACTTTTGCATAATTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACACTTTTGCCCCT
56714650 A
1 A
56714651 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.31, C:0.25, G:0.08, T:0.36
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACACTTTTGCCCCT
Found at i:56719857 original size:46 final size:46
Alignment explanation
Indices: 56719790--56719958 Score: 175
Period size: 46 Copynumber: 3.7 Consensus size: 46
56719780 TGTAACCCGC
* *
56719790 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
* *
56719836 CCATAAGTGAACTCGAACTCAACTCAACGAGTTCGAATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCG---GAC--GTTCACAT
* * * * * *
56719886 --TTCA-CGAACTCGGACTCAACTCAACGAGTTCGAACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
56719929 CCATAAGTGAACTCGGACTCAACTCAACGA
1 CCATAAGTGAACTCGGACTCAACTCAACGA
56719959 TTTTGGATGC
Statistics
Matches: 100, Mismatches: 14, Indels: 18
0.76 0.11 0.14
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 55 0.55
47 26 0.26
48 2 0.02
49 2 0.02
50 4 0.04
51 3 0.03
ACGTcount: A:0.32, C:0.29, G:0.18, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCACAT
Found at i:56720425 original size:30 final size:30
Alignment explanation
Indices: 56720391--56720450 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
56720381 ATTTAATACG
56720391 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
56720421 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
56720451 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:56723116 original size:41 final size:41
Alignment explanation
Indices: 56723059--56723138 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
56723049 AGGTTTTTGC
*
56723059 ACACGGGCTAAGACACGAGCATG-T-CATGGCCGTGTGAAGG
1 ACACGGGCAAAGACACGAGCATGTTCCA-GGCCGTGTGAAGG
* *
56723099 ACACGGGCCAAAGACACGGGCGTGTTCCAGGCCGTGTGAA
1 ACACGGG-CAAAGACACGAGCATGTTCCAGGCCGTGTGAA
56723139 AATCCTTGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
40 7 0.21
41 13 0.38
42 12 0.35
43 2 0.06
ACGTcount: A:0.26, C:0.25, G:0.35, T:0.14
Consensus pattern (41 bp):
ACACGGGCAAAGACACGAGCATGTTCCAGGCCGTGTGAAGG
Found at i:56731303 original size:46 final size:46
Alignment explanation
Indices: 56731247--56731419 Score: 217
Period size: 46 Copynumber: 3.7 Consensus size: 46
56731237 TGGTTGAGCA
56731247 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
56731293 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--ATG
* *
56731338 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
* * *
56731386 CCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56731420 GGGGCGGGTT
Statistics
Matches: 109, Mismatches: 11, Indels: 14
0.81 0.08 0.10
Matches are distributed among these distances:
43 6 0.06
45 4 0.04
46 60 0.55
47 30 0.28
48 4 0.04
50 5 0.05
ACGTcount: A:0.23, C:0.20, G:0.27, T:0.31
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
Found at i:56731403 original size:93 final size:93
Alignment explanation
Indices: 56731244--56731415 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
56731234 GGATGGTTGA
*
56731244 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
56731309 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
56731337 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAATGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
*
56731402 TGAGTCTGAGTTCA
66 TGAGTCCGAGTTCA
56731416 CTTAGGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.30
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:56735419 original size:20 final size:20
Alignment explanation
Indices: 56735382--56735425 Score: 56
Period size: 18 Copynumber: 2.3 Consensus size: 20
56735372 ATATATCTGA
* *
56735382 AAATTTAAGTTCTCTTTTTT
1 AAATTTAAATACTCTTTTTT
56735402 AAATTTAAATA--CTTTTTT
1 AAATTTAAATACTCTTTTTT
56735420 AAATTT
1 AAATTT
56735426 TTATAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 13 0.59
20 9 0.41
ACGTcount: A:0.34, C:0.07, G:0.02, T:0.57
Consensus pattern (20 bp):
AAATTTAAATACTCTTTTTT
Found at i:56744575 original size:30 final size:30
Alignment explanation
Indices: 56744541--56744601 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
56744531 TTCCCGAGCC
* *
56744541 TAGGGGTAAAAGTGTAAATATGCAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
* * *
56744571 TAGGGGCAAAATTGTAATTTTACAAAAGTT
1 TAGGGGCAAAAGTGTAAATATACAAAAGTT
56744601 T
1 T
56744602 GAGTTAAGGA
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:0.41, C:0.05, G:0.23, T:0.31
Consensus pattern (30 bp):
TAGGGGCAAAAGTGTAAATATACAAAAGTT
Found at i:56745183 original size:68 final size:68
Alignment explanation
Indices: 56745100--56745262 Score: 174
Period size: 67 Copynumber: 2.4 Consensus size: 68
56745090 TGCTGAGTGC
* * *
56745100 ACATCATGT-GTACAAGAGAGCTACGAGACATTATGATGTAGCTAGGTTGCATGGGTGATACTA-
1 ACATCATGTAG-ACAAGAGAGCTACGAGACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAG
* *
56745163 TG-TGT
63 TGAAGG
* * *
56745168 ACATCATGTAGACAAGAGAGCTACG-G-GATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTG
1 ACATCATGTAGACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTG
56745231 AAGG
65 AAGG
*
56745235 ACACCATGTAGACAAGAGAGCTACGAGA
1 ACATCATGTAGACAAGAGAGCTACGAGA
56745263 TAAACTGGCT
Statistics
Matches: 80, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
64 23 0.29
65 3 0.04
66 3 0.04
67 26 0.32
68 24 0.30
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.23
Consensus pattern (68 bp):
ACATCATGTAGACAAGAGAGCTACGAGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGA
AGG
Found at i:56747174 original size:18 final size:17
Alignment explanation
Indices: 56747143--56747177 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
56747133 GATTTTGGGT
56747143 TTAAATTTTTTAATTAA
1 TTAAATTTTTTAATTAA
56747160 TTAAATTTATTTAATTAA
1 TTAAATTT-TTTAATTAA
56747178 AAATCTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAAATTTTTTAATTAA
Found at i:56747421 original size:31 final size:31
Alignment explanation
Indices: 56747386--56747444 Score: 86
Period size: 31 Copynumber: 1.9 Consensus size: 31
56747376 AAAAGACTTA
56747386 AAATTT-ATAAAATTCTAAAAT-ATATAAATAT
1 AAATTTCA-AAAATTC-AAAATAATATAAATAT
56747417 AAATTTCAAAAATTCAAAATAATATAAA
1 AAATTTCAAAAATTCAAAATAATATAAA
56747445 AAATTATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 5 0.19
31 20 0.77
32 1 0.04
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (31 bp):
AAATTTCAAAAATTCAAAATAATATAAATAT
Found at i:56747710 original size:20 final size:20
Alignment explanation
Indices: 56747687--56747724 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
56747677 ACTTTTAGAG
*
56747687 TTTTATAATTATTTTGAAAA
1 TTTTAAAATTATTTTGAAAA
*
56747707 TTTTAAAATTTTTTTGAA
1 TTTTAAAATTATTTTGAA
56747725 TTGTTATATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.58
Consensus pattern (20 bp):
TTTTAAAATTATTTTGAAAA
Found at i:56747986 original size:14 final size:14
Alignment explanation
Indices: 56747967--56748006 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
56747957 TTGATTGGCA
56747967 GTAAAATGTTTTCC
1 GTAAAATGTTTTCC
* *
56747981 GTAAAATGATTTCT
1 GTAAAATGTTTTCC
*
56747995 GAAAAATGTTTT
1 GTAAAATGTTTT
56748007 ACTTTTCTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (14 bp):
GTAAAATGTTTTCC
Found at i:56748019 original size:34 final size:35
Alignment explanation
Indices: 56747975--56748041 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
56747965 CAGTAAAATG
* *
56747975 TTTTCCGTAAAATGA-TTTCTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
* *
56748009 TTTTCTGTAAAATGACTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGACTTACTGAAAAATATTTT
56748042 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 14 0.50
35 14 0.50
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGACTTACTGAAAAATATTTTAC
Found at i:56748028 original size:20 final size:20
Alignment explanation
Indices: 56747990--56748029 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
56747980 CGTAAAATGA
**
56747990 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGACTTACT
*
56748010 TTTCTGTAAAATGACTTACT
1 TTTCTGAAAAATGACTTACT
56748030 GGAAAATATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.30, C:0.12, G:0.10, T:0.47
Consensus pattern (20 bp):
TTTCTGAAAAATGACTTACT
Found at i:56751271 original size:6 final size:6
Alignment explanation
Indices: 56751260--56751310 Score: 84
Period size: 6 Copynumber: 8.5 Consensus size: 6
56751250 TGTCAAGAAT
* *
56751260 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGAA AGGGAA
1 AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA AGGGGA
56751308 AGG
1 AGG
56751311 AAAATTTTCC
Statistics
Matches: 44, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
AGGGGA
Found at i:56751617 original size:12 final size:12
Alignment explanation
Indices: 56751595--56751628 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
56751585 AGTTGAACCC
56751595 AATAA-TTAAAT
1 AATAATTTAAAT
56751606 AATAATTTAAAT
1 AATAATTTAAAT
*
56751618 ATTAATTTAAA
1 AATAATTTAAA
56751629 ATAAAAGAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 5 0.24
12 16 0.76
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AATAATTTAAAT
Found at i:56751639 original size:22 final size:23
Alignment explanation
Indices: 56751614--56751662 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
56751604 ATAATAATTT
*
56751614 AAATATTA-AT-TTAAAATAAAA
1 AAATATTAGATATCAAAATAAAA
56751635 GAAAT-TTAGATATCAAAATAAAA
1 -AAATATTAGATATCAAAATAAAA
56751658 AAATA
1 AAATA
56751663 AACCTAGTTG
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 3 0.13
22 10 0.43
23 10 0.43
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (23 bp):
AAATATTAGATATCAAAATAAAA
Found at i:56758542 original size:42 final size:42
Alignment explanation
Indices: 56758445--56758548 Score: 120
Period size: 42 Copynumber: 2.5 Consensus size: 42
56758435 AGGGTTACCG
* * *
56758445 AGATTATGTGTAAGACCATATTTGGGATATGGAATCATTATG
1 AGATTTTGTGTAAGACCATATCTGGGATATGGAATCATTATA
* * * **
56758487 AGACTTCGGGTAAGACCATATCTGGGATATGGCTTCGA-TATA
1 AGATTTTGTGTAAGACCATATCTGGGATATGGAATC-ATTATA
56758529 AGATTTTGTGTAAGACCATA
1 AGATTTTGTGTAAGACCATA
56758549 CGTAACGCCC
Statistics
Matches: 50, Mismatches: 11, Indels: 2
0.79 0.17 0.03
Matches are distributed among these distances:
42 49 0.98
43 1 0.02
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.33
Consensus pattern (42 bp):
AGATTTTGTGTAAGACCATATCTGGGATATGGAATCATTATA
Found at i:56770843 original size:93 final size:93
Alignment explanation
Indices: 56770684--56770856 Score: 285
Period size: 93 Copynumber: 1.9 Consensus size: 93
56770674 CGCCCATAAC
* *
56770684 CGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
56770749 ACGAGTTCGAATGCCTAGTTACATTTCA
66 ACAAGTTCGAATGCCTAGTTACATTTCA
*
56770777 CGAACTCGGACTCAACTCAACGAGTTCG-GACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCGAG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
*
56770841 AACAAGTTCGGATGCC
65 AACAAGTTCGAATGCC
56770857 CAAATATCCG
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
92 1 0.01
93 73 0.99
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGAGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACAAGTTCGAATGCCTAGTTACATTTCA
Found at i:56770852 original size:46 final size:45
Alignment explanation
Indices: 56770685--56770850 Score: 176
Period size: 46 Copynumber: 3.6 Consensus size: 45
56770675 GCCCATAACC
* * *
56770685 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGTATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGA-CATTCGCATCCATAAGT
* * * *
56770731 GAACTCGGACTCAACTCAACGAGTTCGA-ATGC-CTAGTTACATTTCA-C
1 GAACTCGGACTCAACTCAACGAGTTCGACATTCGC-A--TCCA--TAAGT
56770778 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTC-GACATTCGCATCCATAAGT
*
56770824 GAACTCGGACTCAACTCAACAAGTTCG
1 GAACTCGGACTCAACTCAACGAGTTCG
56770851 GATGCCCAAA
Statistics
Matches: 99, Mismatches: 12, Indels: 19
0.76 0.09 0.15
Matches are distributed among these distances:
44 3 0.03
45 3 0.03
46 55 0.56
47 29 0.29
48 4 0.04
49 4 0.04
50 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGACATTCGCATCCATAAGT
Found at i:56804180 original size:21 final size:21
Alignment explanation
Indices: 56804156--56804208 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
56804146 ACTGTTTTCG
*
56804156 GTGTCATGACACACAAAGTCT
1 GTGTCACGACACACAAAGTCT
** *
56804177 GTGTTGCGACACACGAAGTCT
1 GTGTCACGACACACAAAGTCT
*
56804198 ATGTCACGACA
1 GTGTCACGACA
56804209 TCGAGTCGAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.30, C:0.25, G:0.23, T:0.23
Consensus pattern (21 bp):
GTGTCACGACACACAAAGTCT
Found at i:56808656 original size:27 final size:26
Alignment explanation
Indices: 56808608--56808667 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
56808598 ACGAGGCTGC
*
56808608 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
56808635 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
56808661 CAGATAT
1 CAGATAT
56808668 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:56808754 original size:27 final size:26
Alignment explanation
Indices: 56808707--56808757 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
56808697 CGAGGCTGCC
*
56808707 AGATATTGTGACGAAGTCACCAGAAT
1 AGATATTGTGACGAAGCCACCAGAAT
* *
56808733 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
56808758 TTGCAACGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.18, G:0.27, T:0.20
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAT
Found at i:56812011 original size:41 final size:40
Alignment explanation
Indices: 56811884--56812028 Score: 184
Period size: 40 Copynumber: 3.6 Consensus size: 40
56811874 CTCACACAAG
* * * * * *
56811884 GCCTTCGGGTCTTAACCCAGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56811924 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56811964 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56812005 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56812029 CATTCGAGTA
Statistics
Matches: 91, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.03
40 58 0.64
41 27 0.30
42 3 0.03
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56818635 original size:50 final size:49
Alignment explanation
Indices: 56818455--56818692 Score: 289
Period size: 49 Copynumber: 4.8 Consensus size: 49
56818445 TAGCCAAAGC
* * * * *
56818455 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
* * *
56818504 TATCCGGTATATGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
*
56818553 TAT-TCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCT-GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACC-AAT
* * *
56818603 CATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGA-C-CAAT
* * * *
56818654 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
1 TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACA
56818693 TGCGACCTCA
Statistics
Matches: 162, Mismatches: 22, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
49 83 0.51
50 42 0.26
51 36 0.22
52 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (49 bp):
TATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCAAT
Found at i:56818644 original size:99 final size:100
Alignment explanation
Indices: 56818460--56818699 Score: 315
Period size: 99 Copynumber: 2.4 Consensus size: 100
56818450 AAAGCTATCT
* * * ** * * *
56818460 GGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACCAATTATCCGGTATATGTAGTAGCC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCC
56818525 TGCACTTAGTACTACACACGTGA-C-CAATTATTC-
66 TGCACTTAGTACTACACACGTGATCACAATT-TTCG
* * *
56818558 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC-AACCATCCGATACACGTAGTAGC
*
56818623 CTGCACTTAGTACTACACACGTGATCACAGTTTTCG
65 CTGCACTTAGTACTACACACGTGATCACAATTTTCG
* *
56818659 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACC
56818700 TCACAATAGA
Statistics
Matches: 122, Mismatches: 16, Indels: 5
0.85 0.11 0.03
Matches are distributed among these distances:
98 36 0.30
99 41 0.34
100 4 0.03
101 41 0.34
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.25
Consensus pattern (100 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGCGACCAACCATCCGATACACGTAGTAGCC
TGCACTTAGTACTACACACGTGATCACAATTTTCG
Found at i:56822347 original size:31 final size:32
Alignment explanation
Indices: 56822290--56822351 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 32
56822280 ACGAAGTCAC
* *
56822290 CAGATATAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATAGATATTGTGGCGAAGCCACCAGAA
*
56822322 CAGATATATATA-TGTGGCGAAGCCACCAGA
1 CAGATATAGATATTGTGGCGAAGCCACCAGA
56822352 TTGCAGCGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 16 0.59
32 11 0.41
ACGTcount: A:0.35, C:0.19, G:0.24, T:0.21
Consensus pattern (32 bp):
CAGATATAGATATTGTGGCGAAGCCACCAGAA
Found at i:56822374 original size:71 final size:67
Alignment explanation
Indices: 56822297--56822437 Score: 183
Period size: 67 Copynumber: 2.0 Consensus size: 67
56822287 CACCAGATAT
* * * *
56822297 AGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGCGAAGCCACCAGATTGCAGCGAG
1 AGATATTGTGACAAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCAAG
56822362 GCTGCC
62 GCTGCC
* * *
56822368 AGATATTGTGACAAAGTCACTAGAACAGATATATGTGGCGAGGCCACCAGATTGCAGCAAGGCTG
1 AGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGGCTG
56822433 CC
66 CC
56822435 AGA
1 AGA
56822438 ACGCTTCCTC
Statistics
Matches: 63, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 40 0.63
71 23 0.37
ACGTcount: A:0.32, C:0.21, G:0.28, T:0.19
Consensus pattern (67 bp):
AGATATTGTGACAAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCAAGGCTG
CC
Found at i:56827903 original size:24 final size:23
Alignment explanation
Indices: 56827871--56827922 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 23
56827861 CATTTACCTT
*
56827871 TCAACTTATCACCTATTTCAT-ACC
1 TCAAATTAT-ACC-ATTTCATCACC
*
56827895 TCAAATTATACCATTTCATCATC
1 TCAAATTATACCATTTCATCACC
56827918 TCAAA
1 TCAAA
56827923 ACCAAATCAC
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.28
23 10 0.40
24 8 0.32
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.37
Consensus pattern (23 bp):
TCAAATTATACCATTTCATCACC
Found at i:56849872 original size:37 final size:37
Alignment explanation
Indices: 56849829--56849925 Score: 115
Period size: 37 Copynumber: 2.6 Consensus size: 37
56849819 ATCCATCTGA
** *
56849829 AACACGCCAAATTCTCATAAGTTATAATCC-ACCCGAT
1 AACACGCCAAATTCTCATAAGAGATAA-CCTACCCAAT
* *
56849866 AACACGCCAAATGCTCATAAGAGCTAACCTACCCAAT
1 AACACGCCAAATTCTCATAAGAGATAACCTACCCAAT
* *
56849903 AACATGCCAAATTTTCATAAGAG
1 AACACGCCAAATTCTCATAAGAG
56849926 CTAATCTAGT
Statistics
Matches: 51, Mismatches: 8, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
36 2 0.04
37 49 0.96
ACGTcount: A:0.40, C:0.28, G:0.10, T:0.22
Consensus pattern (37 bp):
AACACGCCAAATTCTCATAAGAGATAACCTACCCAAT
Found at i:56849942 original size:37 final size:37
Alignment explanation
Indices: 56849859--56849950 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
56849849 GTTATAATCC
*
56849859 ACCCGATAACACGCCAAATGCTCATAAGAGCTAACCT
1 ACCCGATAACATGCCAAATGCTCATAAGAGCTAACCT
* ** *
56849896 ACCCAATAACATGCCAAATTTTCATAAGAGCTAATCT
1 ACCCGATAACATGCCAAATGCTCATAAGAGCTAACCT
** *
56849933 AGTCGATAACATTCCAAA
1 ACCCGATAACATGCCAAA
56849951 ACAAGGACTA
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (37 bp):
ACCCGATAACATGCCAAATGCTCATAAGAGCTAACCT
Found at i:56866375 original size:40 final size:40
Alignment explanation
Indices: 56866331--56866422 Score: 114
Period size: 40 Copynumber: 2.3 Consensus size: 40
56866321 CTATGTTCGA
*
56866331 CACTAAGTGTG-TGATTTGAAAGAGCTTCGACTATAAATAG
1 CACTAAGTGTGCT-AATTGAAAGAGCTTCGACTATAAATAG
* * ** *
56866371 CACTAAGTGTGCTAATTGGAATAGCTTCGACTATATGTGG
1 CACTAAGTGTGCTAATTGAAAGAGCTTCGACTATAAATAG
56866411 CACTAAGTGTGC
1 CACTAAGTGTGC
56866423 AATATTGAGA
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 44 0.98
41 1 0.02
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (40 bp):
CACTAAGTGTGCTAATTGAAAGAGCTTCGACTATAAATAG
Found at i:56868819 original size:55 final size:56
Alignment explanation
Indices: 56868736--56868870 Score: 175
Period size: 55 Copynumber: 2.4 Consensus size: 56
56868726 GACCATGGCA
* * * **
56868736 TCGATA-ATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATTGATA-GTGGTT
1 TCGATATATGTGTGCGAGTAAAACCACGTTTAATACGTTGACATCGATATGTGACT
* *
56868790 TCGATATATGTGTACGAGTAAAACCACGTTTTATACGTTGACATCGATATGTGACT
1 TCGATATATGTGTGCGAGTAAAACCACGTTTAATACGTTGACATCGATATGTGACT
* *
56868846 CCGGTATATGTGTGCGAGTAAAACC
1 TCGATATATGTGTGCGAGTAAAACC
56868871 TTATCTGGGT
Statistics
Matches: 69, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
54 6 0.09
55 37 0.54
56 26 0.38
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.32
Consensus pattern (56 bp):
TCGATATATGTGTGCGAGTAAAACCACGTTTAATACGTTGACATCGATATGTGACT
Found at i:56874389 original size:42 final size:42
Alignment explanation
Indices: 56874323--56874436 Score: 115
Period size: 42 Copynumber: 2.7 Consensus size: 42
56874313 AAAATATACA
* * ** *
56874323 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCAAAAATCG
1 ATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAAAAT-G
* * *
56874366 ATG-CAACTGTCCCA-ATAAGGTCTTACACGAAATCAAATATG
1 ATGCCAA-TGTCCCAGACAAGGTCTTACATGAAATCAAAAATG
*
56874407 ATGCCAATGTCCCAGACATGGTCTTACATG
1 ATGCCAATGTCCCAGACAAGGTCTTACATG
56874437 CAAAACAGAA
Statistics
Matches: 57, Mismatches: 11, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
41 11 0.19
42 38 0.67
43 8 0.14
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAAGGTCTTACATGAAATCAAAAATG
Found at i:56885365 original size:24 final size:24
Alignment explanation
Indices: 56885333--56885384 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
56885323 GACGCCACAT
* * *
56885333 GGCCGTGTGGTATGCCATGTGGTA
1 GGCCATGTGGTAAGCCATATGGTA
56885357 GGCCATGTGGTAAGCCATATGGTA
1 GGCCATGTGGTAAGCCATATGGTA
56885381 GGCC
1 GGCC
56885385 GTATGCATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.25
Consensus pattern (24 bp):
GGCCATGTGGTAAGCCATATGGTA
Found at i:56885389 original size:12 final size:12
Alignment explanation
Indices: 56885333--56885384 Score: 68
Period size: 12 Copynumber: 4.3 Consensus size: 12
56885323 GACGCCACAT
*
56885333 GGCCGTGTGGTA
1 GGCCATGTGGTA
*
56885345 TGCCATGTGGTA
1 GGCCATGTGGTA
56885357 GGCCATGTGGTA
1 GGCCATGTGGTA
* *
56885369 AGCCATATGGTA
1 GGCCATGTGGTA
56885381 GGCC
1 GGCC
56885385 GTATGCATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 34 1.00
ACGTcount: A:0.17, C:0.19, G:0.38, T:0.25
Consensus pattern (12 bp):
GGCCATGTGGTA
Found at i:56897573 original size:14 final size:14
Alignment explanation
Indices: 56897554--56897581 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
56897544 AATAAGTATG
56897554 TGTGAGTAATCATT
1 TGTGAGTAATCATT
56897568 TGTGAGTAATCATT
1 TGTGAGTAATCATT
56897582 GAGTGATATC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.07, G:0.21, T:0.43
Consensus pattern (14 bp):
TGTGAGTAATCATT
Found at i:56897704 original size:16 final size:16
Alignment explanation
Indices: 56897683--56897718 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
56897673 GGCAAATCCT
56897683 GAAATGCCA-AAAAGCC
1 GAAATG-CAGAAAAGCC
56897699 GAAATGCAGAAAAGCC
1 GAAATGCAGAAAAGCC
56897715 GAAA
1 GAAA
56897719 GTTTGGCTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 2 0.11
16 17 0.89
ACGTcount: A:0.53, C:0.19, G:0.22, T:0.06
Consensus pattern (16 bp):
GAAATGCAGAAAAGCC
Found at i:56897971 original size:29 final size:29
Alignment explanation
Indices: 56897929--56898052 Score: 196
Period size: 29 Copynumber: 4.3 Consensus size: 29
56897919 AAATCATGTT
56897929 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
56897958 TATGAATGTGATTTGGGCCTAATGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
56897987 TACGAATGTGATTTGGGCCTAATGGGTCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
* *
56898016 TATGAATGAGA-TTGGGCCTAGTGGGCCA
1 TATGAATGTGATTTGGGCCTAATGGGCCA
*
56898044 TATGCATGT
1 TATGAATGT
56898053 ATGTAGACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
28 22 0.25
29 65 0.75
ACGTcount: A:0.24, C:0.14, G:0.31, T:0.31
Consensus pattern (29 bp):
TATGAATGTGATTTGGGCCTAATGGGCCA
Found at i:56904950 original size:39 final size:39
Alignment explanation
Indices: 56904854--56904952 Score: 110
Period size: 39 Copynumber: 2.5 Consensus size: 39
56904844 ATTCACTTTT
* * * **
56904854 AAGCATATATCACATTACACATATGATTACATAATGTTC
1 AAGCATATATCACAATACTCATATGATGACATAACATTC
* * *
56904893 AAGCACATATCGCAATACTCATAT-AGTGGCATAACATTC
1 AAGCATATATCACAATACTCATATGA-TGACATAACATTC
56904932 AAGCATATATCACAATACTCA
1 AAGCATATATCACAATACTCA
56904953 AAAATAGGTT
Statistics
Matches: 49, Mismatches: 10, Indels: 2
0.80 0.16 0.03
Matches are distributed among these distances:
38 1 0.02
39 48 0.98
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.28
Consensus pattern (39 bp):
AAGCATATATCACAATACTCATATGATGACATAACATTC
Found at i:56906619 original size:27 final size:26
Alignment explanation
Indices: 56906564--56906626 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 26
56906554 TTAGCTCTTA
*
56906564 TGAGCATCCCGATTAAAGGCTCTTCG
1 TGAGCTTCCCGATTAAAGGCTCTTCG
*
56906590 TGAGCTTCCCG-TTAAATTGGCTCTTTG
1 TGAGCTTCCCGATTAAA--GGCTCTTCG
56906617 TGAGCTTCCC
1 TGAGCTTCCC
56906627 TATAGTGGTC
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 5 0.15
26 10 0.30
27 18 0.55
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.33
Consensus pattern (26 bp):
TGAGCTTCCCGATTAAAGGCTCTTCG
Found at i:56906694 original size:23 final size:24
Alignment explanation
Indices: 56906640--56906728 Score: 65
Period size: 24 Copynumber: 3.7 Consensus size: 24
56906630 AGTGGTCGCT
* * *
56906640 TGAACTTTCTGATATTGGTTATTTG
1 TGAACTTCCCGATA-TGGTTCTTTG
* *
56906665 -GAGCTTCCCGATATGGTT-TTTT
1 TGAACTTCCCGATATGGTTCTTTG
* * *
56906687 TTAACTTCCCAATAAGGTTCTTTG
1 TGAACTTCCCGATATGGTTCTTTG
*
56906711 TGAACTTCCTGATTATGG
1 TGAACTTCCCGA-TATGG
56906729 CTCGGATGAC
Statistics
Matches: 48, Mismatches: 13, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
22 3 0.06
23 19 0.40
24 22 0.46
25 4 0.08
ACGTcount: A:0.20, C:0.16, G:0.19, T:0.45
Consensus pattern (24 bp):
TGAACTTCCCGATATGGTTCTTTG
Found at i:56915152 original size:79 final size:80
Alignment explanation
Indices: 56914967--56915189 Score: 287
Period size: 79 Copynumber: 2.8 Consensus size: 80
56914957 TTGAATGCTG
* * * *
56914967 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGCTAAGACCCGAAGGCAT
*
56915029 TTGTGCGAGATACTAAT
64 TTGTGCGAGATACTAAA
56915046 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAG-CCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTT
*
56915109 GTGCGAGTTACTAAA
66 GTGCGAGATACTAAA
* * * *
56915124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGCTAAGACCCGAAGGCATT
56915188 TG
65 TG
56915190 AACGAGGAGC
Statistics
Matches: 129, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
78 44 0.34
79 61 0.47
80 24 0.19
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGACCCGAAGGCATTT
GTGCGAGATACTAAA
Found at i:56915203 original size:40 final size:39
Alignment explanation
Indices: 56914967--56915189 Score: 274
Period size: 39 Copynumber: 5.6 Consensus size: 39
56914957 TTGAATGCTG
* *
56914967 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-A
* * * *
56915006 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
56915046 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
56915085 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
56915124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA
1 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56915165 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAG-CCCGAAGGCATTTG
56915190 AACGAGGAGC
Statistics
Matches: 164, Mismatches: 15, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 92 0.56
40 62 0.38
41 10 0.06
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56915211 original size:79 final size:79
Alignment explanation
Indices: 56914967--56915222 Score: 240
Period size: 79 Copynumber: 3.3 Consensus size: 79
56914957 TTGAATGCTG
* * * * *
56914967 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATATCCGGACTAAGATCCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAA-ATCCGGGCTAAG-CCCGAAGGCAT
** *
56915029 TTGTGCGAGAT-ACTAAT
63 TTGAACGAG-TGACTAAA
* *
56915046 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCTAAGCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGCCCGAAGGCATTTG
** *
56915110 TGCGAGTTACTAAA
66 AACGAGTGACTAAA
*
56915124 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAA-CCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AATCCGGGCTAAG-CCCGAAGGCATT
*
56915188 TGAACGAG-GAGCTATA
64 TGAACGAGTGA-CTAAA
* *
56915204 TCC-GGTTAAATTCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
56915223 TACGTGATTT
Statistics
Matches: 154, Mismatches: 15, Indels: 16
0.83 0.08 0.09
Matches are distributed among these distances:
77 1 0.01
78 43 0.28
79 74 0.48
80 36 0.23
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTAAATCCGGGCTAAGCCCGAAGGCATTTG
AACGAGTGACTAAA
Found at i:56919007 original size:12 final size:12
Alignment explanation
Indices: 56918990--56919019 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
56918980 TTAGAGAATT
56918990 ACACGGGTAAGA
1 ACACGGGTAAGA
*
56919002 ACACGGGTTAGA
1 ACACGGGTAAGA
56919014 ACACGG
1 ACACGG
56919020 TCGTGTGCCT
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:0.37, C:0.20, G:0.33, T:0.10
Consensus pattern (12 bp):
ACACGGGTAAGA
Found at i:56926319 original size:33 final size:33
Alignment explanation
Indices: 56926275--56926339 Score: 85
Period size: 33 Copynumber: 2.0 Consensus size: 33
56926265 CTTGTTAGAT
* * * * *
56926275 ATTAGAGAATAACGATTAACGGAAAGATAAGAG
1 ATTAGAAAATAAAGATCAACGAAAAGACAAGAG
56926308 ATTAGAAAATAAAGATCAACGAAAAGACAAGA
1 ATTAGAAAATAAAGATCAACGAAAAGACAAGA
56926340 TTAGAGAAAG
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:0.57, C:0.08, G:0.20, T:0.15
Consensus pattern (33 bp):
ATTAGAAAATAAAGATCAACGAAAAGACAAGAG
Found at i:56935871 original size:30 final size:30
Alignment explanation
Indices: 56935837--56935899 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
56935827 ACTTATGTTA
56935837 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
*
56935867 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
56935897 TTG
1 TTG
56935900 CTTGTTCAAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.24, C:0.03, G:0.16, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:56937431 original size:19 final size:20
Alignment explanation
Indices: 56937407--56937444 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
56937397 GGTACCACCA
56937407 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
56937426 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
56937445 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:56937831 original size:46 final size:46
Alignment explanation
Indices: 56937668--56937840 Score: 190
Period size: 46 Copynumber: 3.7 Consensus size: 46
56937658 TAACCCGCCC
* * *
56937668 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
* * * * *
56937714 TAAATGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA---C-ATTTGCATCCA
* * *
56937762 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
56937807 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
56937841 TGCTCAACCA
Statistics
Matches: 104, Mismatches: 16, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 58 0.56
47 28 0.27
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGACATTTGCATCCA
Found at i:56937840 original size:93 final size:93
Alignment explanation
Indices: 56937673--56937843 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
56937663 CGCCCTAAGT
* *
56937673 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
* *
56937738 TGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGCTCGGATGCCTAGTTACATCTCAC
* * *
56937766 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
56937831 CGAGCTCGGATGC
66 CGAGCTCGGATGC
56937844 TCAACCATCC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:56938298 original size:31 final size:30
Alignment explanation
Indices: 56938263--56938323 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
56938253 ATTTAATACG
56938263 AACTTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTT-AAAAAATTACACTTTTGCCCCTA
** *
56938294 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTTAAAAAATTACACTTTTGCCCCTA
56938324 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 20 0.74
31 7 0.26
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.38
Consensus pattern (30 bp):
AACTTTTAAAAAATTACACTTTTGCCCCTA
Found at i:56940934 original size:14 final size:13
Alignment explanation
Indices: 56940888--56940940 Score: 54
Period size: 14 Copynumber: 3.8 Consensus size: 13
56940878 TCATAATGAC
56940888 TAATTAATTTAATT
1 TAATT-ATTTAATT
56940902 TAA-TATTTGAATTT
1 TAATTATTT-AA-TT
56940916 TAATTATTTAATT
1 TAATTATTTAATT
*
56940929 ATAATTAATTAA
1 -TAATTATTTAA
56940941 ATAATAATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
12 4 0.12
13 5 0.15
14 20 0.59
15 5 0.15
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (13 bp):
TAATTATTTAATT
Found at i:56959620 original size:56 final size:56
Alignment explanation
Indices: 56959534--56959709 Score: 334
Period size: 56 Copynumber: 3.1 Consensus size: 56
56959524 ACAAAGGATG
* *
56959534 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAAAATAAAATAAGACGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
56959590 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
56959646 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
1 ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
56959702 ATGGGCAA
1 ATGGGCAA
56959710 TAAACTAATA
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 118 1.00
ACGTcount: A:0.44, C:0.10, G:0.23, T:0.23
Consensus pattern (56 bp):
ATGGGCAAAACATGTCATGAAACATGTTGTGTTAATGGAAGAATAAAATAAGAAGC
Found at i:56961076 original size:40 final size:40
Alignment explanation
Indices: 56960838--56961062 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
56960828 TCGAATGATG
* * * *
56960838 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * * *
56960878 TCTGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56960918 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56960957 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
56960997 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
56961038 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
56961063 AACGAGTAGC
Statistics
Matches: 163, Mismatches: 17, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
39 34 0.21
40 119 0.73
41 10 0.06
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:56963250 original size:21 final size:20
Alignment explanation
Indices: 56963212--56963256 Score: 54
Period size: 21 Copynumber: 2.2 Consensus size: 20
56963202 TTTGCCTAAT
56963212 ATGTGAATTGAATAAAATTGA
1 ATGTGAATTGAATAAAATT-A
** *
56963233 ATGTGAATTTTATCAAATTA
1 ATGTGAATTGAATAAAATTA
56963253 ATGT
1 ATGT
56963257 TAAATTCATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.42, C:0.02, G:0.16, T:0.40
Consensus pattern (20 bp):
ATGTGAATTGAATAAAATTA
Found at i:56965124 original size:80 final size:79
Alignment explanation
Indices: 56965040--56965217 Score: 205
Period size: 79 Copynumber: 2.2 Consensus size: 79
56965030 GGACTAAGAT
*
56965040 CCGAAGGCATTTGTACGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTACGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
56965104 AAATCCGAGTTAAGTC
64 AAAACCGAGCTAAGTC
* * * * * * * *
56965120 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
* *
56965185 AACCGGGCTATGTC
66 AACCGAGCTAAGTC
*
56965199 CCGAAGGCATTTGAACGAG
1 CCGAAGGCATTTGTACGAG
56965218 GAGCTATATC
Statistics
Matches: 81, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
79 41 0.51
80 37 0.46
81 3 0.04
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGAGCTAAGTC
Done.