Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 191 of 425
Found at i:57959429 original size:31 final size:31
Alignment explanation
Indices: 57959357--57959466 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
57959347 AATCAAAATG
*
57959357 AGAATCAGTATCAGAATCAGGTGACAGAATTTGAAT
1 AGAATCAGAATCAGAATCAGGTGACAGAA--T---T
*
57959393 CAGAATCAGAATCAGAATTAGGTGACAGAATT
1 -AGAATCAGAATCAGAATCAGGTGACAGAATT
* * * *
57959425 AGAATCAAAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATT
*
57959456 AAAATCAGAAT
1 AGAATCAGAAT
57959467 GTGAATGCAA
Statistics
Matches: 64, Mismatches: 9, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
31 35 0.55
32 1 0.02
35 1 0.02
37 27 0.42
ACGTcount: A:0.46, C:0.13, G:0.19, T:0.22
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATT
Found at i:57959466 original size:37 final size:37
Alignment explanation
Indices: 57959345--57959466 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
57959335 TACCAGAACT
* *
57959345 AGAATCAAAATGAGAATCAGTATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*** *
57959382 AGAATTTGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
* * *
57959419 AGAAT-----T-AGAATCAAAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
57959450 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
57959467 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 10, Indels: 12
0.76 0.11 0.13
Matches are distributed among these distances:
31 26 0.38
32 1 0.01
36 1 0.01
37 41 0.59
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:57959904 original size:27 final size:27
Alignment explanation
Indices: 57959874--57960229 Score: 460
Period size: 27 Copynumber: 13.2 Consensus size: 27
57959864 AACACCCTAG
** *
57959874 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
57959901 GGGTAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
57959928 GGGTAAAATAATAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
57959955 GGGTAAAACAATAATTTTATAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
57959982 GGGTTAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
**
57960009 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
57960036 GGGTCAAATAGTAATTTTGTAAATTGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
57960063 GGGTAAAACAGTAATTCTATAAATAGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* * *
57960090 GAGTAAAACAGTAATTCTGTCAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
*
57960117 GGGTAAAACGGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
57960144 GGGTAAAACGGTAATTTTGTAAATCAA
1 GGGTAAAACAGTAATTTTGTAAATCGA
57960171 GGGTAAAACAGTAATTTTGTAAATCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
* *
57960198 GGATAAAACAGTAATTTTGTAATTCGA
1 GGGTAAAACAGTAATTTTGTAAATCGA
57960225 GGGTA
1 GGGTA
57960230 CTTTGATAAT
Statistics
Matches: 288, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 288 1.00
ACGTcount: A:0.40, C:0.08, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAACAGTAATTTTGTAAATCGA
Found at i:57960239 original size:27 final size:27
Alignment explanation
Indices: 57960179--57960322 Score: 96
Period size: 27 Copynumber: 5.4 Consensus size: 27
57960169 AAGGGTAAAA
* * * ***
57960179 CAGTAATTTTGTAAATCGAGGATAAAA
1 CAGTAATTTTGCAAGTCGAGGGTATTT
* *
57960206 CAGTAATTTTGTAATTCGAGGGTACTTT
1 CAGTAATTTTGCAAGTCGAGGGTA-TTT
*
57960234 GA-TAATTTT-CAAGTCGAGGGTATTT
1 CAGTAATTTTGCAAGTCGAGGGTATTT
* * *
57960259 CAGTAATTTTGCAA-ACTAAGGGTGTTT
1 CAGTAATTTTGCAAGTC-GAGGGTATTT
* * *
57960286 CAGTAATTTTACAAATCGAGGATATTT
1 CAGTAATTTTGCAAGTCGAGGGTATTT
**
57960313 TGGTAATTTT
1 CAGTAATTTT
57960323 ATAAACTGGG
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
25 4 0.04
26 19 0.20
27 68 0.73
28 2 0.02
ACGTcount: A:0.32, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAGTAATTTTGCAAGTCGAGGGTATTT
Found at i:57960346 original size:54 final size:54
Alignment explanation
Indices: 57960224--57960353 Score: 138
Period size: 54 Copynumber: 2.4 Consensus size: 54
57960214 TTGTAATTCG
* * * *
57960224 AGGGTACTTTGATAATTTT-CAAGTCGAGGGTATTTCAGTAATTTTGCAAACTA
1 AGGGTACTTTGGTAATTTTACAAATCGAGGATATTTCAGTAATTTTACAAACTA
* * ** * *
57960277 AGGGT-GTTTCAGTAATTTTACAAATCGAGGATATTTTGGTAATTTTATAAACTG
1 AGGGTACTTT-GGTAATTTTACAAATCGAGGATATTTCAGTAATTTTACAAACTA
*
57960331 GGGGTACTTTGGTAATTTTACAA
1 AGGGTACTTTGGTAATTTTACAA
57960354 CTGGGGGTAT
Statistics
Matches: 61, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
52 3 0.05
53 12 0.20
54 43 0.70
55 3 0.05
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (54 bp):
AGGGTACTTTGGTAATTTTACAAATCGAGGATATTTCAGTAATTTTACAAACTA
Found at i:57960371 original size:26 final size:26
Alignment explanation
Indices: 57960223--57960374 Score: 110
Period size: 27 Copynumber: 5.7 Consensus size: 26
57960213 TTTGTAATTC
* *
57960223 GAGGGTACTTT-GATAATTTT-CAAGT
1 GAGGGTATTTTAG-TAATTTTACAACT
* *
57960248 CGAGGGTATTTCAGTAATTTTGCAAACT
1 -GAGGGTATTTTAGTAATTTTAC-AACT
* * * *
57960276 AAGGGTGTTTCAGTAATTTTACAAAT
1 GAGGGTATTTTAGTAATTTTACAACT
* * *
57960302 CGAGGATATTTTGGTAATTTTATAAACT
1 -GAGGGTATTTTAGTAATTTTA-CAACT
* * *
57960330 GGGGGTACTTTGGTAATTTTACAACT
1 GAGGGTATTTTAGTAATTTTACAACT
*
57960356 GGGGGTATTTTAGTAATTT
1 GAGGGTATTTTAGTAATTT
57960375 GGTAAACTAA
Statistics
Matches: 101, Mismatches: 20, Indels: 10
0.77 0.15 0.08
Matches are distributed among these distances:
26 40 0.40
27 55 0.54
28 6 0.06
ACGTcount: A:0.28, C:0.09, G:0.23, T:0.40
Consensus pattern (26 bp):
GAGGGTATTTTAGTAATTTTACAACT
Found at i:57961954 original size:16 final size:16
Alignment explanation
Indices: 57961933--57961964 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
57961923 ATGTTTTGAA
57961933 CAACAGTAGTTGCTTT
1 CAACAGTAGTTGCTTT
57961949 CAACAGTAGTTGCTTT
1 CAACAGTAGTTGCTTT
57961965 GGAAAATCGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.38
Consensus pattern (16 bp):
CAACAGTAGTTGCTTT
Found at i:57963794 original size:40 final size:40
Alignment explanation
Indices: 57963686--57963895 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57963676 CGGGATTTAA
* * * * *
57963686 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
57963726 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57963766 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57963806 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57963846 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57963886 CCGGATATAT
1 CCGGATATAT
57963896 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57971930 original size:40 final size:40
Alignment explanation
Indices: 57971822--57972031 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
57971812 CGGGATTTAA
* * * * *
57971822 CCGGATATAGCGACTCGCACGATTGCCTTCGGGTCATAAC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * * *
57971862 CCGGATTTGGT-GACTTGCACAAAGGCCTTCGGGTCTTAGC
1 CCGGATAT-ATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57971902 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57971942 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57971982 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
57972022 CCGGATATAT
1 CCGGATATAT
57972032 TTCCAATGTT
Statistics
Matches: 153, Mismatches: 15, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 152 0.99
ACGTcount: A:0.22, C:0.29, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATATCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:57973853 original size:6 final size:6
Alignment explanation
Indices: 57973823--57973965 Score: 105
Period size: 6 Copynumber: 23.3 Consensus size: 6
57973813 AAGAAACATT
* * *
57973823 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCAG- GTGACAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA
* * *
57973872 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATTAG- GTGACAGA ATTAGA
1 ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* * * *
57973921 ATCAGA ATTAGT ATCAGT ATCAGGTA AT-AGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA AT
57973966 GTGAATGGAA
Statistics
Matches: 108, Mismatches: 18, Indels: 22
0.73 0.12 0.15
Matches are distributed among these distances:
5 6 0.06
6 90 0.83
7 8 0.07
8 4 0.04
ACGTcount: A:0.48, C:0.13, G:0.19, T:0.21
Consensus pattern (6 bp):
ATCAGA
Found at i:57973891 original size:43 final size:43
Alignment explanation
Indices: 57973832--57973943 Score: 161
Period size: 43 Copynumber: 2.6 Consensus size: 43
57973822 TATCAGAACT
* *
57973832 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* *
57973875 AGAATCAGAATCAGAATCAGAATCAGAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
* * *
57973918 AGAATCAGAATTAGTATCAGTATCAG
1 AGAATCAGAATCAGAATCAGAATCAG
57973944 GTAATAGAAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.46, C:0.12, G:0.21, T:0.21
Consensus pattern (43 bp):
AGAATCAGAATCAGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:57973915 original size:37 final size:37
Alignment explanation
Indices: 57973832--57973965 Score: 133
Period size: 37 Copynumber: 3.5 Consensus size: 37
57973822 TATCAGAACT
*
57973832 AGAATCAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
*
57973869 AGAATCAGAATCAGAATCAGAATCAGAATCAGAATTAGGTGAC
1 AGAATC---A--A-AATCAGAATCAGAATCAGAATCAGGTGAC
* * * * * * *
57973912 AGAATTAGAATCAGAATTAGTATCAGTATCAGGTAAT
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
57973949 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
57973966 GTGAATGGAA
Statistics
Matches: 79, Mismatches: 12, Indels: 12
0.77 0.12 0.12
Matches are distributed among these distances:
37 44 0.56
40 2 0.03
42 1 0.01
43 32 0.41
ACGTcount: A:0.48, C:0.12, G:0.19, T:0.21
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTGAC
Found at i:57974501 original size:27 final size:27
Alignment explanation
Indices: 57974471--57974691 Score: 244
Period size: 27 Copynumber: 8.2 Consensus size: 27
57974461 AACACCCTAG
* * *
57974471 GGGTAAAATGGTACTTTTATAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
57974498 GGGTAAAATGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** * *
57974525 GGGTAAAACAGTAATTCTATCAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* *
57974552 GGATAAAACGGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
** * *
57974579 ACGTAAAATAGTAATTCTGTCAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*
57974606 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
* * *
57974633 GGGTAAAACGGTAATTTTTTAAATCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
*** * *
57974660 GGGTAAAACAATAATTTTGTAATTCGA
1 GGGTAAAATGGTAATTCTGTAAATCGA
57974687 GGGTA
1 GGGTA
57974692 CTTTGATAGT
Statistics
Matches: 166, Mismatches: 28, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 166 1.00
ACGTcount: A:0.38, C:0.09, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTCTGTAAATCGA
Found at i:57974714 original size:81 final size:81
Alignment explanation
Indices: 57974509--57974718 Score: 201
Period size: 81 Copynumber: 2.6 Consensus size: 81
57974499 GGTAAAATGG
* * * *
57974509 TAATTCTGTAAATCGAGGGTAAAA-CAGTAATTCTATC-AATCGAGGATAAAACGGTAATTCTGT
1 TAATTCTGTCAATCGAGGGTAAAATGA-TAATTTTA-CAAATCGAGGGTAAAACGGTAATTCTGT
* *
57974572 AAATCGAACGTAAAATAG
64 AAATCGAACGTAAAACAA
* ** * *
57974590 TAATTCTGTCAATCGAGGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACGGTAATTTTTTAA
1 TAATTCTGTCAATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAA
**
57974655 ATCGAGGGTAAAACAA
66 ATCGAACGTAAAACAA
* *** * *
57974671 TAATTTTGT-AATTCGAGGGTACTTTGATAGTTTTACAAGTCGAGGGTA
1 TAATTCTGTCAA-TCGAGGGTAAAATGATAATTTTACAAATCGAGGGTA
57974719 TTTTAGTAAT
Statistics
Matches: 104, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
80 2 0.02
81 102 0.98
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.31
Consensus pattern (81 bp):
TAATTCTGTCAATCGAGGGTAAAATGATAATTTTACAAATCGAGGGTAAAACGGTAATTCTGTAA
ATCGAACGTAAAACAA
Found at i:57974729 original size:54 final size:52
Alignment explanation
Indices: 57974671--57974837 Score: 142
Period size: 54 Copynumber: 3.1 Consensus size: 52
57974661 GGTAAAACAA
* * *
57974671 TAATTTTGTAATTCGAGGGTACTTTGATAGTTTTACAAGTCGAGGGTATTTTAG
1 TAATTTTATAA-TCGGGGGTACTTTGATA-TTTTACAAATCGAGGGTATTTTAG
* * * * *
57974725 TAATTTTACAAACTGGGGGTATTTTTGTTATTTTACAAATCGAGGATA-TTTACG
1 TAATTTTATAATC-GGGGGTA-CTTTGATATTTTACAAATCGAGGGTATTTTA-G
* * *
57974779 TAATTTTATAAATCGGGGGTACTTTGGTAATTTTACAACT-G-GGGTTATTTCAG
1 TAATTTTAT-AATCGGGGGTACTTTGAT-ATTTTACAAATCGAGGG-TATTTTAG
57974832 TAATTT
1 TAATTT
57974838 GGTAAACTAA
Statistics
Matches: 91, Mismatches: 15, Indels: 15
0.75 0.12 0.12
Matches are distributed among these distances:
52 2 0.02
53 20 0.22
54 60 0.66
55 9 0.10
ACGTcount: A:0.28, C:0.08, G:0.21, T:0.43
Consensus pattern (52 bp):
TAATTTTATAATCGGGGGTACTTTGATATTTTACAAATCGAGGGTATTTTAG
Found at i:57974731 original size:27 final size:27
Alignment explanation
Indices: 57974683--57974837 Score: 122
Period size: 27 Copynumber: 5.8 Consensus size: 27
57974673 ATTTTGTAAT
* * *
57974683 TCGAGGGTACTTT-GATAGTTTTACAAG
1 TCGAGGGTATTTTAG-TAATTTTACAAA
57974710 TCGAGGGTATTTTAGTAATTTTACAAA
1 TCGAGGGTATTTTAGTAATTTTACAAA
* * *
57974737 -CTGGGGGTATTTTTGTTATTTTACAAA
1 TC-GAGGGTATTTTAGTAATTTTACAAA
* *
57974764 TCGAGGATA-TTTACGTAATTTTATAAA
1 TCGAGGGTATTTTA-GTAATTTTACAAA
* * * *
57974791 TCGGGGGTACTTTGGTAATTTTACAAC
1 TCGAGGGTATTTTAGTAATTTTACAAA
*
57974818 T-G-GGGTTATTTCAGTAATTT
1 TCGAGGG-TATTTTAGTAATTT
57974838 GGTAAACTAA
Statistics
Matches: 103, Mismatches: 19, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
25 3 0.03
26 16 0.16
27 79 0.77
28 5 0.05
ACGTcount: A:0.27, C:0.09, G:0.22, T:0.42
Consensus pattern (27 bp):
TCGAGGGTATTTTAGTAATTTTACAAA
Found at i:57975818 original size:27 final size:27
Alignment explanation
Indices: 57975779--57975970 Score: 206
Period size: 27 Copynumber: 7.1 Consensus size: 27
57975769 TTAGAATACA
** *
57975779 TTGGTTTACAAAATTACAAAAATACCC
1 TTGGTTTGTAAAATTACCAAAATACCC
*
57975806 TTTGTTTGTAAAATTACCAAAATACCC
1 TTGGTTTGTAAAATTACCAAAATACCC
**
57975833 TTGGTTTACAAAATTACCAAAATACCC
1 TTGGTTTGTAAAATTACCAAAATACCC
*
57975860 CTGGTTTGTAAAATTACCAAAATACCC
1 TTGGTTTGTAAAATTACCAAAATACCC
* **
57975887 TTAGTTTACAAAATTACCAAAATACCC
1 TTGGTTTGTAAAATTACCAAAATACCC
* * * *
57975914 CTGATTTGTGAAATTACCGAAATACCC
1 TTGGTTTGTAAAATTACCAAAATACCC
** * *
57975941 TT-GTAGGGTAGAATTACCGAAATACCC
1 TTGGT-TTGTAAAATTACCAAAATACCC
57975968 TTG
1 TTG
57975971 TAGGGTAGAA
Statistics
Matches: 136, Mismatches: 27, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
26 1 0.01
27 135 0.99
ACGTcount: A:0.38, C:0.20, G:0.11, T:0.31
Consensus pattern (27 bp):
TTGGTTTGTAAAATTACCAAAATACCC
Found at i:57975838 original size:54 final size:53
Alignment explanation
Indices: 57975779--57975943 Score: 249
Period size: 54 Copynumber: 3.1 Consensus size: 53
57975769 TTAGAATACA
*
57975779 TTGGTTTACAAAATTACAAAAATACCCTTTGTTTGTAAAATTACCAAAATACCC
1 TTGGTTTACAAAATTACCAAAATACCC-TTGTTTGTAAAATTACCAAAATACCC
*
57975833 TTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
1 TTGGTTTACAAAATTACCAAAATA-CCCTTGTTTGTAAAATTACCAAAATACCC
* * * *
57975887 TTAGTTTACAAAATTACCAAAATACCCCTGATTTGTGAAATTACCGAAATACCC
1 TTGGTTTACAAAATTACCAAAATACCCTTG-TTTGTAAAATTACCAAAATACCC
57975941 TTG
1 TTG
57975944 TAGGGTAGAA
Statistics
Matches: 101, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
53 4 0.04
54 94 0.93
55 3 0.03
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.32
Consensus pattern (53 bp):
TTGGTTTACAAAATTACCAAAATACCCTTGTTTGTAAAATTACCAAAATACCC
Found at i:57975971 original size:27 final size:27
Alignment explanation
Indices: 57975925--57976039 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 27
57975915 TGATTTGTGA
57975925 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
57975952 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
** * * *
57975979 AATTATTGAAATACCCCTATAGAGTAG
1 AATTACCGAAATACCCTTGTAGGGTAG
* * * *
57976006 AATTATCGAGATACCCTTGTGGGGTAA
1 AATTACCGAAATACCCTTGTAGGGTAG
57976033 AATTACC
1 AATTACC
57976040 ATTTTGCCCC
Statistics
Matches: 75, Mismatches: 13, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 75 1.00
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (27 bp):
AATTACCGAAATACCCTTGTAGGGTAG
Found at i:57980327 original size:40 final size:40
Alignment explanation
Indices: 57980249--57980386 Score: 201
Period size: 40 Copynumber: 3.5 Consensus size: 40
57980239 AAACCAAGTA
* * *
57980249 CCTTCGGGATTTAG-CCGGACATAGCT-ACCCGC-TCAAATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCAT-AAATG
57980288 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCATAAATG
*
57980328 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCATAAATG
57980368 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
57980387 TTATCATCCG
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
39 14 0.15
40 77 0.84
41 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCATAAATG
Found at i:57993499 original size:2 final size:2
Alignment explanation
Indices: 57993487--57993518 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
57993477 CTTATTCTTC
*
57993487 AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
57993519 TCTTACCAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:57996891 original size:27 final size:27
Alignment explanation
Indices: 57996861--57996912 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
57996851 TCATTTCACC
57996861 CTACAGAAG-TATTTCGGTAATTTTACA
1 CTACA-AAGATATTTCGGTAATTTTACA
* *
57996888 CTACAAGGATATTTTGGTAATTTTA
1 CTACAAAGATATTTCGGTAATTTTA
57996913 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:57996926 original size:53 final size:54
Alignment explanation
Indices: 57996869--57996997 Score: 145
Period size: 53 Copynumber: 2.4 Consensus size: 54
57996859 CCCTACAGAA
* *** *
57996869 GTATTTCGGTAATTTTACACTACAAGGA-TATTTTGGTAATTTTATAAATC-AGG
1 GTATTTCGGTAATTTTACA-AACAAGGAGTATTTCAATAATTTTACAAATCGAGG
** **
57996922 GTATTTCAATAATTTTACAAACCGGGAGTATTTCAATAATTTTACAAATCGAGG
1 GTATTTCGGTAATTTTACAAACAAGGAGTATTTCAATAATTTTACAAATCGAGG
*
57996976 GTATTTTGGTAATTTTACAAAC
1 GTATTTCGGTAATTTTACAAAC
57996998 TGGGGTCTTA
Statistics
Matches: 62, Mismatches: 12, Indels: 3
0.81 0.16 0.04
Matches are distributed among these distances:
52 5 0.08
53 35 0.56
54 22 0.35
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.40
Consensus pattern (54 bp):
GTATTTCGGTAATTTTACAAACAAGGAGTATTTCAATAATTTTACAAATCGAGG
Found at i:57996934 original size:26 final size:26
Alignment explanation
Indices: 57996905--57996996 Score: 112
Period size: 27 Copynumber: 3.5 Consensus size: 26
57996895 GATATTTTGG
*
57996905 TAATTTTATAAATCAGGGTATTTCAA
1 TAATTTTACAAATCAGGGTATTTCAA
* *
57996931 TAATTTTACAAACCGGGAGTATTTCAA
1 TAATTTTACAAATCAGG-GTATTTCAA
***
57996958 TAATTTTACAAATCGAGGGTATTTTGG
1 TAATTTTACAAATC-AGGGTATTTCAA
57996985 TAATTTTACAAA
1 TAATTTTACAAA
57996997 CTGGGGTCTT
Statistics
Matches: 56, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
26 14 0.25
27 40 0.71
28 2 0.04
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.39
Consensus pattern (26 bp):
TAATTTTACAAATCAGGGTATTTCAA
Found at i:57998191 original size:12 final size:13
Alignment explanation
Indices: 57998174--57998202 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
57998164 ATTGGTCACC
57998174 AGAAAAAGAAAA-
1 AGAAAAAGAAAAT
57998186 AGAAAAAGAAAAT
1 AGAAAAAGAAAAT
57998199 AGAA
1 AGAA
57998203 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:58006457 original size:40 final size:40
Alignment explanation
Indices: 58006360--58006550 Score: 238
Period size: 40 Copynumber: 4.8 Consensus size: 40
58006350 CGAATGGTGT
* * * * *
58006360 CCGGGTTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* * *
58006401 TCGGGTCAACTCCCGAAGGCATTTGTGCGAGTTACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
*
58006441 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACCAAAA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
58006481 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
58006521 CCGGGCTAATTCCCGAAGGCAATTGTGCGA
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGA
58006551 ATCACTATAA
Statistics
Matches: 130, Mismatches: 20, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
40 106 0.82
41 24 0.18
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.24
Consensus pattern (40 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:58006513 original size:80 final size:80
Alignment explanation
Indices: 58006360--58006592 Score: 268
Period size: 80 Copynumber: 2.9 Consensus size: 80
58006350 CGAATGGTGT
* * * * * * *
58006360 CCGGGTTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATTCGGGTCAACTCCCGAAGGCATTT
1 CCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTCACTAAAATCGGGTTAAGTCCCGAAGGCATTC
58006425 GTGCGAGTTACCAAAA
65 GTGCGAGTTACCAAAA
* *
58006441 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACCAAAACCGGGTTAAGTCCCGAAGGCATTCG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAATCGGGTTAAGTCCCGAAGGCATTCG
* *
58006506 TGCGAGTTACTAAAT
66 TGCGAGTTACCAAAA
* * * * * * * * *
58006521 CCGGGCTAATTCCCGAAGGCAATTGTGCGAATCACTATAATCGGGCTATGTCCCGAAGACAATCG
1 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAATCGGGTTAAGTCCCGAAGGCATTCG
*
58006586 AGCGAGT
66 TGCGAGT
58006593 CGCTATATCC
Statistics
Matches: 129, Mismatches: 23, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
80 102 0.79
81 27 0.21
ACGTcount: A:0.27, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACTAAAATCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACCAAAA
Found at i:58006566 original size:40 final size:40
Alignment explanation
Indices: 58006411--58006593 Score: 197
Period size: 40 Copynumber: 4.6 Consensus size: 40
58006401 TCGGGTCAAC
* * *
58006411 TCCCGAAGGCATTTGTGCGAGTTACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATTGTGCGAGTCACCAAAACCGGGCTAAG
* *
58006451 TCCCGAAGGCATTTGTGCGAGTCACCAAAACCGGGTTAAG
1 TCCCGAAGGCAATTGTGCGAGTCACCAAAACCGGGCTAAG
* * * *
58006491 TCCCGAAGGC-ATTCGTGCGAGTTACTAAATCCGGGCTAAT
1 TCCCGAAGGCAATT-GTGCGAGTCACCAAAACCGGGCTAAG
* * * * *
58006531 TCCCGAAGGCAATTGTGCGAATCACTATAATCGGGCTATG
1 TCCCGAAGGCAATTGTGCGAGTCACCAAAACCGGGCTAAG
* * *
58006571 TCCCGAAGACAATCGAGCGAGTC
1 TCCCGAAGGCAATTGTGCGAGTC
58006594 GCTATATCCG
Statistics
Matches: 123, Mismatches: 18, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 2 0.02
40 118 0.96
41 3 0.02
ACGTcount: A:0.27, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
TCCCGAAGGCAATTGTGCGAGTCACCAAAACCGGGCTAAG
Found at i:58006574 original size:120 final size:121
Alignment explanation
Indices: 58006360--58006578 Score: 289
Period size: 120 Copynumber: 1.8 Consensus size: 121
58006350 CGAATGGTGT
* * * *
58006360 CCGGGTTAAGTCCCGAAGGCTTTTGTGCTAAGTGACTAAATTCGGGTCAACTCCCGAAGGCATTT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
* * *
58006425 GTGCGAGTTACCAAAACCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTCACCAAAA
66 GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCAAAA
* * *
58006481 CCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAATCCGGG-CTAATTCCCGAAGGCAAT
1 CCGGGTTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTC-AACTCCCGAAGGCAAT
* * * *
58006544 TGTGCGAATCACTATAATCGGGCTATGTCCCGAAG
65 TGTGCGAATCACCAAAACCGGGCTAAGTCCCGAAG
58006579 ACAATCGAGC
Statistics
Matches: 83, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
119 1 0.01
120 56 0.67
121 26 0.31
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (121 bp):
CCGGGTTAAGTCCCGAAGGCATTCGTGCTAAGTGACTAAATCCGGGTCAACTCCCGAAGGCAATT
GTGCGAATCACCAAAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTCACCAAAA
Found at i:58014487 original size:40 final size:40
Alignment explanation
Indices: 58014443--58014576 Score: 137
Period size: 40 Copynumber: 3.4 Consensus size: 40
58014433 GGGCTAAGTC
*
58014443 CCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAACAT
1 CCGAAGGCATTTGTGC-AAGTGACCAAATCCGGACTAACAT
* ** *
58014483 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGACTAAGAT
1 CCGAAGGCATTTGTGCAAGTGACCAAATCCGGACTAACAT
* ** ** *
58014523 CCGAAGGCATTTGTGCGAGTTCCCAAATCCGGGTTAA-GT
1 CCGAAGGCATTTGTGCAAGTGACCAAATCCGGACTAACAT
58014562 CCCGAAGGCATTTGT
1 -CCGAAGGCATTTGT
58014577 ACGAGCTATT
Statistics
Matches: 84, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
39 1 0.01
40 76 0.90
41 7 0.08
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.25
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCAAGTGACCAAATCCGGACTAACAT
Found at i:58017656 original size:30 final size:30
Alignment explanation
Indices: 58017621--58017707 Score: 79
Period size: 30 Copynumber: 2.8 Consensus size: 30
58017611 GAGAAAAGGA
* *
58017621 AGAAAGGAGAAAATAGAAAGAAAATGGGA-G
1 AGAAAGGAGAAAAAAGAAAGAAAA-GAGAGG
*
58017651 AGAAAGGA-AGAAAAGAAAAGAGAAAGAGAGG
1 AGAAAGGAGAAAAAAG-AAAGA-AAAGAGAGG
*
58017682 AGAAAGGGGAAAGAAAAGAAAGAAAA
1 AGAAAGGAG-AA-AAAAGAAAGAAAA
58017708 ATGGAGAAGA
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
29 5 0.11
30 16 0.35
31 11 0.24
32 3 0.07
33 6 0.13
34 5 0.11
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (30 bp):
AGAAAGGAGAAAAAAGAAAGAAAAGAGAGG
Found at i:58017682 original size:24 final size:24
Alignment explanation
Indices: 58017637--58017686 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 24
58017627 GAGAAAATAG
* *
58017637 AAAGAAAATGGGAGAGAAAGGAAGA
1 AAAGAAAATGAGAAAGAAAGG-AGA
*
58017662 AAAGAAAA-GAGAAAGAGAGGAGA
1 AAAGAAAATGAGAAAGAAAGGAGA
58017685 AA
1 AA
58017687 GGGGAAAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
23 5 0.23
24 9 0.41
25 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (24 bp):
AAAGAAAATGAGAAAGAAAGGAGA
Found at i:58017722 original size:34 final size:34
Alignment explanation
Indices: 58017658--58017723 Score: 82
Period size: 34 Copynumber: 1.9 Consensus size: 34
58017648 GAGAGAAAGG
* *
58017658 AAGAAAAGAAAAGAGAAAGAGAGGAGAAAGGGGA
1 AAGAAAAGAAAAGAAAAAGAGAAGAGAAAGGGGA
58017692 AAGAAAAG-AAAGAAAAATGGAGAAGA-AAAGGG
1 AAGAAAAGAAAAGAAAAA--GAGAAGAGAAAGGG
58017724 TGGCTAGTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
33 8 0.29
34 14 0.50
35 6 0.21
ACGTcount: A:0.64, C:0.00, G:0.35, T:0.02
Consensus pattern (34 bp):
AAGAAAAGAAAAGAAAAAGAGAAGAGAAAGGGGA
Found at i:58027857 original size:29 final size:29
Alignment explanation
Indices: 58027825--58027959 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
58027815 ATACCCTCCG
** * *
58027825 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
58027854 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58027883 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
58027912 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58027941 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
58027960 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:58027892 original size:58 final size:58
Alignment explanation
Indices: 58027771--58027960 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
58027761 TACTCGATTT
* * * *** *
58027771 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
58027829 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
58027887 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
58027945 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
58027961 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:58035961 original size:29 final size:29
Alignment explanation
Indices: 58035929--58036063 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
58035919 ATACCCTCCG
** * *
58035929 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
58035958 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58035987 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
58036016 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58036045 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
58036064 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:58035996 original size:58 final size:58
Alignment explanation
Indices: 58035875--58036064 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
58035865 TACTCGATTT
* * * *** *
58035875 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
58035933 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
58035991 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
58036049 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
58036065 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:58040530 original size:15 final size:15
Alignment explanation
Indices: 58040491--58040535 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
58040481 CAAGAAAACT
*
58040491 GAATAAAGAAATCCA
1 GAATAAAGAAACCCA
*
58040506 -AGATAGAGAAACCCA
1 GA-ATAAAGAAACCCA
58040521 GAATAAAGAAACCCA
1 GAATAAAGAAACCCA
58040536 AGATATGATA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 1 0.04
15 23 0.92
16 1 0.04
ACGTcount: A:0.58, C:0.18, G:0.16, T:0.09
Consensus pattern (15 bp):
GAATAAAGAAACCCA
Found at i:58056144 original size:41 final size:40
Alignment explanation
Indices: 58056085--58056228 Score: 164
Period size: 41 Copynumber: 3.5 Consensus size: 40
58056075 CTCGAATGAT
* *
58056085 ATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGATTAC
1 ATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACTAC
* *
58056126 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACTAT
1 ATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACTAC
** * * *
58056166 ATCCGGGCTAAAGTCCCGAAGGCATTTAAGCTAGTGACCAT
1 ATCCGGGCT-AAGTCCCGAAGGCATTTGTGCTAGCGACTAC
*
58056207 ATCCGGGCTAAGACCCGAAGGC
1 ATCCGGGCTAAGTCCCGAAGGC
58056229 CTTGTGCGAG
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
40 28 0.31
41 61 0.68
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACTAC
Found at i:58058406 original size:27 final size:28
Alignment explanation
Indices: 58058350--58058419 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
58058340 AAATTTGTAC
58058350 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
58058378 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
58058405 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58058420 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:58064677 original size:21 final size:21
Alignment explanation
Indices: 58064653--58064698 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
58064643 TAGAAAGAAT
58064653 AAAATAATGA-AAAAAAAAAGG
1 AAAAT-ATGATAAAAAAAAAGG
* *
58064674 AAAATATGATGAAAACAAAGG
1 AAAATATGATAAAAAAAAAGG
58064695 AAAA
1 AAAA
58064699 AAAAAGTGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.72, C:0.02, G:0.15, T:0.11
Consensus pattern (21 bp):
AAAATATGATAAAAAAAAAGG
Found at i:58064939 original size:7 final size:7
Alignment explanation
Indices: 58064927--58064951 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58064917 GTTGTCTTCT
58064927 TGTTTGA
1 TGTTTGA
58064934 TGTTTGA
1 TGTTTGA
58064941 TGTTTGA
1 TGTTTGA
58064948 TGTT
1 TGTT
58064952 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:58065846 original size:27 final size:28
Alignment explanation
Indices: 58065790--58065859 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
58065780 AAATTTGTAC
58065790 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
58065818 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
58065845 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58065860 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:58072177 original size:7 final size:7
Alignment explanation
Indices: 58072165--58072189 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
58072155 GTTGTCTTCT
58072165 TGTTTGA
1 TGTTTGA
58072172 TGTTTGA
1 TGTTTGA
58072179 TGTTTGA
1 TGTTTGA
58072186 TGTT
1 TGTT
58072190 GTGGTGATGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.12, C:0.00, G:0.28, T:0.60
Consensus pattern (7 bp):
TGTTTGA
Found at i:58073115 original size:27 final size:28
Alignment explanation
Indices: 58073059--58073128 Score: 115
Period size: 27 Copynumber: 2.5 Consensus size: 28
58073049 AAATTTGTAC
58073059 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
* *
58073087 AGCACTAGGTGTGCGAG-TTGATTTTAT
1 AGCACTAAGTGTGCGAGTTTGATTATAT
58073114 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
58073129 GACTCACTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
27 23 0.59
28 16 0.41
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.33
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATTATAT
Found at i:58077143 original size:41 final size:41
Alignment explanation
Indices: 58077082--58077227 Score: 192
Period size: 41 Copynumber: 3.6 Consensus size: 41
58077072 TACTCGAATG
*
58077082 ATATCCGGGCTAAG-TCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCT-AGCGACT
* *
58077123 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGCGACT
* * *
58077163 ATATCCGGGCTAA-AGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGA-TCCCGAAGGCATTTGTGCTAGCGACT
58077204 ATATCCGGGCTAAGA-CCCGAAGGC
1 ATATCCGGGCTAAGATCCCGAAGGC
58077228 CTTGTGCGAG
Statistics
Matches: 93, Mismatches: 8, Indels: 9
0.85 0.07 0.08
Matches are distributed among these distances:
39 1 0.01
40 28 0.30
41 62 0.67
42 2 0.02
ACGTcount: A:0.26, C:0.25, G:0.26, T:0.23
Consensus pattern (41 bp):
ATATCCGGGCTAAGATCCCGAAGGCATTTGTGCTAGCGACT
Found at i:58083992 original size:17 final size:17
Alignment explanation
Indices: 58083970--58084005 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
58083960 ATCATCGAAG
58083970 CACCAATATGTGAAACA
1 CACCAATATGTGAAACA
58083987 CACCAATATGTGAAACA
1 CACCAATATGTGAAACA
58084004 CA
1 CA
58084006 TTGTGAATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.47, C:0.25, G:0.11, T:0.17
Consensus pattern (17 bp):
CACCAATATGTGAAACA
Found at i:58086227 original size:38 final size:38
Alignment explanation
Indices: 58086176--58086554 Score: 236
Period size: 38 Copynumber: 9.0 Consensus size: 38
58086166 AGAATAAAAA
* *
58086176 AACGTGGTGCTAAGTGGATATACCACTGTTATACGTGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
**
58086214 AACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACATGT
1 AACGTGGTGCTAAGTGGATATA-C-------CAC-GGTT-ATACATGT
* * *
58086262 AATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* *
58086309 AATGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * *
58086347 AACGTGGTGCCAAGTGGATATGCCACGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
* * *
58086394 AACTTGGTGCTAAGTGGATATACCACAGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
* * * *
58086432 AACGTGGTGCTAAATGGATATGCCTCGGTTACATATATTGATTCATT
1 AACGTGGTGCTAAGTGGATATACCACGGTT--ATACA-TG------T
*
58086479 AACGTGGTGCTAAGTGGATATACCACGGTTAAACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
*
58086517 AACGTGGTGCTAAGTGGATATGCCACGGTTATACATGT
1 AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
58086555 TAATTTGAAA
Statistics
Matches: 269, Mismatches: 36, Indels: 72
0.71 0.10 0.19
Matches are distributed among these distances:
38 113 0.42
39 3 0.01
40 13 0.05
41 6 0.02
44 6 0.02
45 9 0.03
46 3 0.01
47 89 0.33
48 27 0.10
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (38 bp):
AACGTGGTGCTAAGTGGATATACCACGGTTATACATGT
Found at i:58086335 original size:47 final size:47
Alignment explanation
Indices: 58086213--58086509 Score: 315
Period size: 47 Copynumber: 6.7 Consensus size: 47
58086203 GTTATACGTG
* * * *
58086213 TAACGTGGTGCTAAGTGGATATACCATGATTACACATATTGATACAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
58086260 GTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 -TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
58086308 TAATGTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* *
58086346 TAACGTGGTGCCAAGTGGATATGCCACGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
58086393 TAACTTGGTGCTAAGTGGATATACCACAGTTA-A-ACA-TG------
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
* * *
58086431 TAACGTGGTGCTAAATGGATATGCCTCGGTTACATATATTGATTCAT
1 TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
58086478 TAACGTGGTGCTAAGTGGATATACCACGGTTA
1 TAACGTGGTGCTAAGTGGATATACCACGGTTA
58086510 AACATGTAAC
Statistics
Matches: 205, Mismatches: 26, Indels: 37
0.76 0.10 0.14
Matches are distributed among these distances:
38 56 0.27
39 2 0.01
40 4 0.02
41 4 0.02
44 4 0.02
45 4 0.02
46 2 0.01
47 88 0.43
48 41 0.20
ACGTcount: A:0.30, C:0.15, G:0.23, T:0.32
Consensus pattern (47 bp):
TAACGTGGTGCTAAGTGGATATACCACGGTTACATATATTGATTCAT
Found at i:58086362 original size:85 final size:85
Alignment explanation
Indices: 58086256--58086547 Score: 514
Period size: 85 Copynumber: 3.4 Consensus size: 85
58086246 ACATATTGAT
*
58086256 ACATGTAATGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
58086321 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
*
58086341 ACATGTAACGTGGTGCCAAGTGGATATGCCACGGTTACATATATTGATTCATTAACT-TGGTGCT
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAA-TGTGGTGCT
*
58086405 AAGTGGATATACCACAGTTAA
65 AAGTGGATATACCACGGTTAA
* * *
58086426 ACATGTAACGTGGTGCTAAATGGATATGCCTCGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
58086491 AGTGGATATACCACGGTTAA
66 AGTGGATATACCACGGTTAA
58086511 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTA
58086548 TACATGTTAA
Statistics
Matches: 195, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
85 194 0.99
86 1 0.01
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAATGTGGTGCTA
AGTGGATATACCACGGTTAA
Found at i:58088688 original size:40 final size:41
Alignment explanation
Indices: 58088643--58088773 Score: 162
Period size: 40 Copynumber: 3.3 Consensus size: 41
58088633 CGGAATATAA
58088643 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
* * *
58088683 CCGGATAGAAT-A-GCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACG-TAGCACAAATGCCTTCGGGTCTTAGC
** * *
58088723 CCGGATATAGCCAC-TAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
58088763 CCGGATATAAT
1 CCGGATATAAT
58088774 TTCCAGCATA
Statistics
Matches: 76, Mismatches: 11, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
38 1 0.01
39 2 0.03
40 72 0.95
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CCGGATATAATCACGTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58088787 original size:40 final size:40
Alignment explanation
Indices: 58088643--58088810 Score: 151
Period size: 40 Copynumber: 4.2 Consensus size: 40
58088633 CGGAATATAA
* ** *
58088643 CCGGATATAATCACGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
* *
58088683 CCGGATAGAATAGCTC-GCACGAA-TGCCTTCGGGTCTTAGC
1 CCGGATATAATAAC-CAGCAC-AATTGCCTTCGGGTCTTAGC
*** * *
58088723 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
** * * * *
58088763 CCGGATATAATTTCCAGCATAATTGTCTTTGGGGCTTAGC
1 CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
58088803 CCGGATAT
1 CCGGATAT
58088811 CATTCAATTT
Statistics
Matches: 103, Mismatches: 21, Indels: 8
0.78 0.16 0.06
Matches are distributed among these distances:
39 2 0.02
40 99 0.96
41 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATAACCAGCACAATTGCCTTCGGGTCTTAGC
Found at i:58092715 original size:41 final size:41
Alignment explanation
Indices: 58092666--58092808 Score: 198
Period size: 41 Copynumber: 3.5 Consensus size: 41
58092656 TAATCGGGGT
*
58092666 GCTTGGTCTCGAAGGGCTTTTGAGCCAGTGTCATAATCCGA
1 GCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGA
*
58092707 GCTTGGTCTCAAAGGGCTTTTGAGCCAATGTCATAA-CCGA
1 GCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGA
* * * * * * *
58092747 ACCTAGTTTCGAAGGGCCTTCGGGCCAATGTCATAATCCGA
1 GCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGA
58092788 GCTTGGTCTCGAAGGGCTTTT
1 GCTTGGTCTCGAAGGGCTTTT
58092809 TGAGTCAGCG
Statistics
Matches: 85, Mismatches: 16, Indels: 2
0.83 0.16 0.02
Matches are distributed among these distances:
40 32 0.38
41 53 0.62
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (41 bp):
GCTTGGTCTCGAAGGGCTTTTGAGCCAATGTCATAATCCGA
Found at i:58107567 original size:40 final size:40
Alignment explanation
Indices: 58107395--58107570 Score: 234
Period size: 40 Copynumber: 4.4 Consensus size: 40
58107385 CAACCAAGTA
* * *
58107395 CCTTCGGGATTTAG-CCGGACATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGACATAG-TAACTAGCACAAATG
* *
58107434 CCTTCGGGACTTAACCCGGACATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTAGCACAAATG
*
58107474 CCTTCGGGACTTAGCCCGGATATAGTAAC-ACGCACAAATG
1 CCTTCGGGACTTAGCCCGGACATAGTAACTA-GCACAAATG
*
58107514 CCTTCGGGACTTAGCCCGGA-ATTAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGACA-TAGTAACTAGCACAAATG
58107554 CCTTCGGGACTTAGCCC
1 CCTTCGGGACTTAGCCC
58107571 AGTTATCATC
Statistics
Matches: 125, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
39 14 0.11
40 110 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.22, T:0.22
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGACATAGTAACTAGCACAAATG
Found at i:58109699 original size:28 final size:28
Alignment explanation
Indices: 58109634--58109734 Score: 114
Period size: 28 Copynumber: 3.5 Consensus size: 28
58109624 ATAGTGAATC
*
58109634 CGCACACTTAGTGCTATATGTATTC-AACT
1 CGCACACTTAGTGCTATA--TAATCAAACT
58109663 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
58109691 CGCACACTTAGTGCTGTACAATTTTAAACC
1 CGCACACTTAGTGCTATATAA--TCAAACT
58109721 CGCACACTTAGTGC
1 CGCACACTTAGTGC
58109735 CAATCTTGTC
Statistics
Matches: 64, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
27 4 0.06
28 23 0.36
29 18 0.28
30 19 0.30
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58118035 original size:46 final size:46
Alignment explanation
Indices: 58117917--58118038 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 46
58117907 TTCACGTAAT
* * * * *
58117917 GATGCCATAGCCCAGCTATGGTCTTACACGAATCACATATCTCACT
1 GATGCCATATCCCAGATATGGTCTTATACGAATCACATATCACACC
* * *
58117963 GATGCCATATCCCAGATATGGTCTTATAC-AGTAGATATATCACACC
1 GATGCCATATCCCAGATATGGTCTTATACGAAT-CACATATCACACC
58118009 GATGCCATATCCCAGATATGGTCTTATACG
1 GATGCCATATCCCAGATATGGTCTTATACG
58118039 GAAATCACTT
Statistics
Matches: 66, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
45 2 0.03
46 64 0.97
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (46 bp):
GATGCCATATCCCAGATATGGTCTTATACGAATCACATATCACACC
Found at i:58118098 original size:31 final size:31
Alignment explanation
Indices: 58118063--58118211 Score: 201
Period size: 31 Copynumber: 4.8 Consensus size: 31
58118053 CTTGTCACTT
* *
58118063 GTAGCCGAAGCTACCACTATTCACTAATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* * *
58118094 GTAGCCGGAGCTACCATTTTTCATTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
58118125 GTAG-CTAGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGA-AGCTACCACTTTTCACTGATCAG
*
58118156 GTAGCAGAAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
58118187 GTAGCTGAAGCTACCACCTTTCACT
1 GTAGCCGAAGCTACCACTTTTCACT
58118212 TGTCTTTTGT
Statistics
Matches: 103, Mismatches: 13, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
30 1 0.01
31 101 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.19, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:58123148 original size:18 final size:18
Alignment explanation
Indices: 58123125--58123160 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
58123115 GGCCTAATGG
58123125 CCGATGTGATGAATGTGA
1 CCGATGTGATGAATGTGA
*
58123143 CCGATGTGGTGAATGTGA
1 CCGATGTGATGAATGTGA
58123161 AAGTGTATGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.11, G:0.36, T:0.28
Consensus pattern (18 bp):
CCGATGTGATGAATGTGA
Found at i:58123160 original size:49 final size:49
Alignment explanation
Indices: 58122911--58123142 Score: 437
Period size: 49 Copynumber: 4.7 Consensus size: 49
58122901 TACATATATG
58122911 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
*
58122960 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
* *
58123009 TGTGATGAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
58123058 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
58123107 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGA
58123143 CCGATGTGGT
Statistics
Matches: 179, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 179 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
Found at i:58123343 original size:37 final size:37
Alignment explanation
Indices: 58123293--58123377 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
58123283 GGAATATGTT
*
58123293 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
58123330 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
58123367 CCGGGTAAGAC
1 CCGGGTAAGAC
58123378 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:58126535 original size:47 final size:47
Alignment explanation
Indices: 58126466--58126950 Score: 772
Period size: 47 Copynumber: 10.3 Consensus size: 47
58126456 ATGATATACA
* *
58126466 TATATGTGTGATAAGGCCGAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
58126513 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
58126560 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAACGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* * *
58126607 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGAG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
58126654 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
58126701 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
58126748 TATATATGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
58126795 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
58126842 TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
* *
58126889 TATATATGTGATAAGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
*
58126936 TATAAATGTGATAAG
1 TATATATGTGATAAG
58126951 TCCCGAAGGG
Statistics
Matches: 409, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 409 1.00
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:58128845 original size:39 final size:39
Alignment explanation
Indices: 58128802--58128972 Score: 288
Period size: 39 Copynumber: 4.4 Consensus size: 39
58128792 GGTCTTTAAC
* ** * *
58128802 CCGGATATTTTTCCAGCACGTAGCCTGCGAACCTCAAGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
58128841 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
58128880 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
58128919 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
1 CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
*
58128958 CTGGATATATTTCCA
1 CCGGATATATTTCCA
58128973 ATCTCATATA
Statistics
Matches: 126, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 126 1.00
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (39 bp):
CCGGATATATTTCCAGCATATAGCCTGCGGACCTCATGT
Found at i:58136960 original size:37 final size:38
Alignment explanation
Indices: 58136868--58136976 Score: 193
Period size: 38 Copynumber: 2.9 Consensus size: 38
58136858 TTTTAGCACG
*
58136868 TAGCCTGCGGACCTCAAGTCCGATATATTTCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGATATATTTCCAGCATA
58136906 TAGCCTGCGGACCTCATGTCCGATATATTTCCAGCATA
1 TAGCCTGCGGACCTCATGTCCGATATATTTCCAGCATA
58136944 TAG-CTGCGGACCTCATGTCCGCATATATTTCCA
1 TAGCCTGCGGACCTCATGTCCG-ATATATTTCCA
58136977 ATCTCATAAA
Statistics
Matches: 69, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
37 18 0.26
38 51 0.74
ACGTcount: A:0.24, C:0.29, G:0.18, T:0.28
Consensus pattern (38 bp):
TAGCCTGCGGACCTCATGTCCGATATATTTCCAGCATA
Found at i:58143602 original size:18 final size:18
Alignment explanation
Indices: 58143576--58143612 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
58143566 ATATACTCAC
58143576 TTTGAGTAAATGATCATA
1 TTTGAGTAAATGATCATA
*
58143594 TTTGTGTAAATGATCATA
1 TTTGAGTAAATGATCATA
58143612 T
1 T
58143613 GATATGGTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.35, C:0.05, G:0.16, T:0.43
Consensus pattern (18 bp):
TTTGAGTAAATGATCATA
Found at i:58153572 original size:40 final size:40
Alignment explanation
Indices: 58153527--58153656 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
58153517 CGGAATACAA
58153527 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
58153567 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
58153607 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
58153647 CCGGATATAA
1 CCGGATATAA
58153657 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:58161549 original size:40 final size:40
Alignment explanation
Indices: 58161504--58161633 Score: 174
Period size: 40 Copynumber: 3.2 Consensus size: 40
58161494 CGGAATACAA
58161504 CCGGATATAACCACGT-GCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACGAATGCCTTCGGGTCTTAGC
* * *
58161544 CCGGATAGAACGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
* * *
58161584 CCGGATGTAGCCACTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACGAA-TGCCTTCGGGTCTTAGC
58161624 CCGGATATAA
1 CCGGATATAA
58161634 TTTCCAGCAT
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 3 0.04
40 75 0.96
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.22
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACGAATGCCTTCGGGTCTTAGC
Found at i:58167183 original size:25 final size:25
Alignment explanation
Indices: 58167139--58167187 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
58167129 CTATATTATG
* * *
58167139 AAAAATGACTATTTTGCCCCTAGGT
1 AAAAATGACCAATTTACCCCTAGGT
58167164 AAAAATGACCAATTTACCCCTAGG
1 AAAAATGACCAATTTACCCCTAGG
58167188 GTTTAAGTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.37, C:0.22, G:0.14, T:0.27
Consensus pattern (25 bp):
AAAAATGACCAATTTACCCCTAGGT
Found at i:58167394 original size:25 final size:25
Alignment explanation
Indices: 58167317--58167387 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
58167307 GAGGAAGTGC
* * *
58167317 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
58167342 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
58167367 AAAAGGGCTTTTGCCCCAGTT
1 AAAAGGGC-TTTGCCCCAGTT
58167388 ATTAAAAGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
25 30 0.71
26 12 0.29
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:58167400 original size:25 final size:26
Alignment explanation
Indices: 58167327--58167400 Score: 84
Period size: 25 Copynumber: 2.9 Consensus size: 26
58167317 AAAAGGGCTA
*
58167327 TGCCCCAGTTTACCGAAAAG-GGC-TT
1 TGCCCCAGTTTATC-AAAAGAGGCTTT
58167352 TGCCCCAGTTTATCAAAA-AGGGCTTT
1 TGCCCCAGTTTATCAAAAGA-GGCTTT
*
58167378 TGCCCCAG-TTATTAAAAGAGGCT
1 TGCCCCAGTTTATCAAAAGAGGCT
58167401 AGGCCACCAG
Statistics
Matches: 43, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
24 4 0.09
25 28 0.65
26 11 0.26
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (26 bp):
TGCCCCAGTTTATCAAAAGAGGCTTT
Found at i:58170223 original size:43 final size:43
Alignment explanation
Indices: 58170112--58170282 Score: 141
Period size: 43 Copynumber: 4.0 Consensus size: 43
58170102 ATTACCGAGA
* * * ** *
58170112 TATGGTTACATGTAAAACCATGTCTAAGACATTGGCATTGTAT
1 TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
*
58170155 TGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGT-T
1 TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * *
58170197 ATATGATTTCGTGTAAGACCTTGTCTGGGACAGTGGCGTCG-AT
1 -TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
* * * * * * *
58170240 ATGTGATAACATATAAGACCATATCTGGGATA-TGGCATTGTAT
1 -TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
58170283 CAGCTTTATG
Statistics
Matches: 103, Mismatches: 22, Indels: 6
0.79 0.17 0.05
Matches are distributed among these distances:
42 7 0.07
43 96 0.93
ACGTcount: A:0.27, C:0.15, G:0.25, T:0.33
Consensus pattern (43 bp):
TATGATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTAT
Found at i:58172886 original size:40 final size:40
Alignment explanation
Indices: 58172778--58172905 Score: 134
Period size: 40 Copynumber: 3.2 Consensus size: 40
58172768 TCTTTGGAAT
* ** *
58172778 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCATTAGCACAAATGCCTTCGGGTC
* * ** *
58172817 TTAACCCGGATTTGGTAACTT-GCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCA-TTAGCACAAATGCCTTCGGGTC
* *
58172857 TTAGCCCGGATATAATCATTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCATTAGCACAAATGCCTTCGGGTC
58172897 TTAGCCCGG
1 TTAGCCCGG
58172906 GTATCATTCA
Statistics
Matches: 70, Mismatches: 16, Indels: 5
0.77 0.18 0.05
Matches are distributed among these distances:
39 5 0.07
40 65 0.93
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.27
Consensus pattern (40 bp):
TTAGCCCGGATATAATCATTAGCACAAATGCCTTCGGGTC
Found at i:58192072 original size:30 final size:30
Alignment explanation
Indices: 58192028--58192116 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
58192018 CAAAGATAAC
58192028 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* * *
58192057 GAGAAACCCAGAATAAAGAAAT-CTAGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
58192087 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
58192117 TGATACTATG
Statistics
Matches: 48, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 10 0.21
30 35 0.73
31 3 0.06
ACGTcount: A:0.57, C:0.15, G:0.17, T:0.11
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:58192076 original size:15 final size:15
Alignment explanation
Indices: 58192028--58192107 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
58192018 CAAAGATAAC
*
58192028 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
58192042 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
58192057 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
*
58192072 AAGAAATCTAGAATA
1 AAGAAATCCAGAATA
* *
58192087 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
58192102 AAGAAA
1 AAGAAA
58192108 CCCAAGATAT
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 9 0.17
15 43 0.81
16 1 0.02
ACGTcount: A:0.59, C:0.12, G:0.17, T:0.11
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:58192116 original size:15 final size:15
Alignment explanation
Indices: 58192039--58192116 Score: 61
Period size: 15 Copynumber: 5.2 Consensus size: 15
58192029 AGAAAACCGA
*
58192039 ATAAAGAAATCCAAG
1 ATAAAGAAACCCAAG
*
58192054 ATAGAGAAACCC-AG
1 ATAAAGAAACCCAAG
* *
58192068 AATAAAGAAA-TCTAG
1 -ATAAAGAAACCCAAG
* * *
58192083 AATAAAGAGATCCAGG
1 -ATAAAGAAACCCAAG
58192099 ATAAAGAAACCCAAG
1 ATAAAGAAACCCAAG
58192114 ATA
1 ATA
58192117 TGATACTATG
Statistics
Matches: 49, Mismatches: 11, Indels: 6
0.74 0.17 0.09
Matches are distributed among these distances:
14 3 0.06
15 44 0.90
16 2 0.04
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.13
Consensus pattern (15 bp):
ATAAAGAAACCCAAG
Found at i:58208331 original size:30 final size:30
Alignment explanation
Indices: 58208297--58208356 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
58208287 TATTTTATAA
*
58208297 TTAATTTTGTTATTATTTTAAAGGCATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
* *
58208327 TTAATTTTATTATTATTTTAGAGGTATTTG
1 TTAATTTTATTATTATTTTAAAGGCATTTG
58208357 CTTCTTAAGT
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:0.27, C:0.02, G:0.13, T:0.58
Consensus pattern (30 bp):
TTAATTTTATTATTATTTTAAAGGCATTTG
Found at i:58222657 original size:40 final size:39
Alignment explanation
Indices: 58222568--58222758 Score: 170
Period size: 40 Copynumber: 4.8 Consensus size: 39
58222558 GGATATAGCG
* * * ***
58222568 ACTCGCTCAAAAGCCTTCGGACATAGCCCGG-TTATAATA
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATT-TGGGA
* * *
58222607 GCTCGTACAAATGCCTTCGGGACTTAACCCGGATTTGGGA
1 ACTCGCACAAATGCCTTC-GGACTTAGCCCGGATTTGGGA
*
58222647 ACTCGCACAAATGCCTTCGGATCTTAGTCCGGATTT-GGA
1 ACTCGCACAAATGCCTTCGGA-CTTAGCCCGGATTTGGGA
* * * **
58222686 ACTCGCACAAATGCCTTCGGATTTAGTCCGGATATGGTC
1 ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTGGGA
* *
58222725 ACTTAGCACAAAGGCCTTCGGGACTTAGCCCGGA
1 AC-TCGCACAAATGCCTTC-GGACTTAGCCCGGA
58222759 CATCATTCGA
Statistics
Matches: 125, Mismatches: 21, Indels: 10
0.80 0.13 0.06
Matches are distributed among these distances:
38 12 0.10
39 44 0.35
40 55 0.44
41 14 0.11
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (39 bp):
ACTCGCACAAATGCCTTCGGACTTAGCCCGGATTTGGGA
Found at i:58222698 original size:39 final size:39
Alignment explanation
Indices: 58222608--58222758 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 39
58222598 GTTATAATAG
* *
58222608 CTCGTACAAATGCCTTCGGGACTTAACCCGGATTTGGGAA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATTT-GGAA
*
58222648 CTCGCACAAATGCCTTC-GGATCTTAGTCCGGATTTGGAA
1 CTCGCACAAATGCCTTCGGGA-CTTAGCCCGGATTTGGAA
* * * *
58222687 CTCGCACAAATGCCTTC-GGATTTAGTCCGGATATGGTCA
1 CTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGG-AA
* *
58222726 CTTAGCACAAAGGCCTTCGGGACTTAGCCCGGA
1 C-TCGCACAAATGCCTTCGGGACTTAGCCCGGA
58222759 CATCATTCGA
Statistics
Matches: 97, Mismatches: 10, Indels: 7
0.85 0.09 0.06
Matches are distributed among these distances:
38 14 0.14
39 29 0.30
40 42 0.43
41 12 0.12
ACGTcount: A:0.24, C:0.26, G:0.25, T:0.25
Consensus pattern (39 bp):
CTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGAA
Found at i:58224834 original size:40 final size:39
Alignment explanation
Indices: 58224789--58224954 Score: 142
Period size: 40 Copynumber: 4.2 Consensus size: 39
58224779 CGGAATATAA
58224789 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATC-C-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
58224829 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAAT-CCTAGCACAAATGCCTTCGGGTCTTAGC
* * * * *
58224869 CCGGATGT-AGCCTAGCGCAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCCTAGCACAAATGCCTTCGGGTCTTAGC
* * *
58224907 CCGGATATAATTTCC-AGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAA--TCCTAGCACAAATGCCTTCGGG-TCTTAGC
58224947 CCGGATAT
1 CCGGATAT
58224955 CATTCAATTT
Statistics
Matches: 102, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
38 29 0.28
39 3 0.03
40 67 0.66
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (39 bp):
CCGGATATAATCCTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:58233964 original size:39 final size:39
Alignment explanation
Indices: 58233880--58234013 Score: 155
Period size: 39 Copynumber: 3.4 Consensus size: 39
58233870 ATAATAGCTC
** *
58233880 GCACAAATGCCTTCGGGA-CTTAACCCGGATTTGGGAACTC
1 GCACAAATGCCTTC-GGATCTT-AGTCGGATTTGGGAACTT
*
58233920 ACACAAATGCCTTCGGATCTTAGTCGGATTTGGGAACTT
1 GCACAAATGCCTTCGGATCTTAGTCGGATTTGGGAACTT
* * **
58233959 GCACAAATGCCTTCGGATGTTAGTCGGATATGGTCACTT
1 GCACAAATGCCTTCGGATCTTAGTCGGATTTGGGAACTT
58233998 AGCACAAA-GCCTTCGG
1 -GCACAAATGCCTTCGG
58234014 GACTTAGCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 60 0.72
40 23 0.28
ACGTcount: A:0.25, C:0.24, G:0.25, T:0.26
Consensus pattern (39 bp):
GCACAAATGCCTTCGGATCTTAGTCGGATTTGGGAACTT
Found at i:58241084 original size:19 final size:20
Alignment explanation
Indices: 58241046--58241085 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
58241036 CTACTTCGAG
*
58241046 CCGTGATGGGCCGAAAGGGC
1 CCGTGATGGGCCCAAAGGGC
*
58241066 CCGTG-TGGGCCCAATGGGC
1 CCGTGATGGGCCCAAAGGGC
58241085 C
1 C
58241086 TACGGCCCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.15, C:0.30, G:0.42, T:0.12
Consensus pattern (20 bp):
CCGTGATGGGCCCAAAGGGC
Found at i:58241298 original size:27 final size:27
Alignment explanation
Indices: 58241267--58241704 Score: 449
Period size: 27 Copynumber: 16.3 Consensus size: 27
58241257 TTAGTTTAAC
*
58241267 AAATTACTAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* **
58241294 AAATTACCAAAATA-CCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* * **
58241321 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTA
*
58241348 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * * *
58241375 AAATTACTAAAATACCCTTGCTTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
58241402 AAATTACCAAAGTACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
**
58241429 AAATTACCAAAATACCCAAG-TTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*
58241455 AAATTACCAAACTACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
58241482 AAATTACCAAAATACCCCTGGTTTCTA
1 AAATTACCAAAATACCCCTGATTTGTA
58241509 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
58241536 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
58241563 ATATTATCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
58241590 AAATTACCAAAATACCCCTAATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
* * **
58241617 AAATTACTAAAATACCCTTGACCTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
*** *
58241644 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * *
58241671 AAATTACCAAAGTACCCTTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
58241698 GAATTAC
1 AAATTAC
58241705 TGTTTTACCC
Statistics
Matches: 343, Mismatches: 55, Indels: 26
0.81 0.13 0.06
Matches are distributed among these distances:
26 30 0.09
27 306 0.89
28 7 0.02
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:58241333 original size:54 final size:54
Alignment explanation
Indices: 58241267--58241633 Score: 511
Period size: 54 Copynumber: 6.8 Consensus size: 54
58241257 TTAGTTTAAC
* * * **
58241267 AAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* ** *
58241321 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * *
58241375 AAATTACTAAAATACCCTTGCTTTATAAAATTACCAAAGTACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
** *
58241429 AAATTACCAAAATA-CCCAAGTTTGTAAAATTACCAAACTACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
*
58241482 AAATTACCAAAATACCCCTGGTTTCTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* *
58241536 AAATTACCAAAATACCCCTGGTTTGTAATATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
** * *
58241590 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATACCC
1 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC
58241634 TTGACCTGTA
Statistics
Matches: 278, Mismatches: 34, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
53 47 0.17
54 231 0.83
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:58241644 original size:54 final size:54
Alignment explanation
Indices: 58241267--58241687 Score: 506
Period size: 54 Copynumber: 7.8 Consensus size: 54
58241257 TTAGTTTAAC
* * **
58241267 AAATTACTAAAATACCCCTGATTTGTAAAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * ** *
58241321 AAATTACCAAAATACCCTTGGTTTACAAAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * *
58241375 AAATTACTAAAATACCCTTGCTTTATAAAATTACCAAAGTACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
** *
58241429 AAATTACCAAAATACCCAAG-TTTGTAAAATTACCAAACTACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* *
58241482 AAATTACCAAAATACCCCTGGTTTCTAAAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * *
58241536 AAATTACCAAAATACCCCTGGTTTGTAATATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
* * * * **
58241590 AAATTACCAAAATACCCCTAATTTGTGAAATTACTAAAATA-CCCTTGACCTGTA
1 AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAG-TTTGTA
*** * *
58241644 AAATTATTGAAATA-CCCTCGACTTGTAAAATTACCAAAGTACCC
1 AAATTACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCC
58241688 TTGATTTATA
Statistics
Matches: 320, Mismatches: 43, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
53 58 0.18
54 260 0.81
55 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCCCTAGTTTGTA
Found at i:58241703 original size:54 final size:53
Alignment explanation
Indices: 58241612--58241744 Score: 122
Period size: 54 Copynumber: 2.5 Consensus size: 53
58241602 TACCCCTAAT
* * * *
58241612 TTGTGAAATTACTAAAATACCCTTGACCTGTAAAATTATTGAAATACCCTCGAC
1 TTGTAAAATTAC-CAAATACCCTTGACCTATAAAATTACTGAAATACCCTCGAC
** * *** *
58241666 TTGTAAAATTACCAAAGTACCCTTGATTTATAGAATTACTGTTTTACCCTCGAT
1 TTGTAAAATTACCAAA-TACCCTTGACCTATAAAATTACTGAAATACCCTCGAC
**
58241720 TTACAAAATTACCGAAATACCCTTG
1 TTGTAAAATTACC-AAATACCCTTG
58241745 TAGGGTAGAA
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
53 3 0.05
54 58 0.91
55 3 0.05
ACGTcount: A:0.35, C:0.20, G:0.11, T:0.34
Consensus pattern (53 bp):
TTGTAAAATTACCAAATACCCTTGACCTATAAAATTACTGAAATACCCTCGAC
Found at i:58241759 original size:27 final size:27
Alignment explanation
Indices: 58241729--58241835 Score: 130
Period size: 27 Copynumber: 4.0 Consensus size: 27
58241719 TTTACAAAAT
58241729 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
*
58241756 TACCGAAATACCCTTGTAGGGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAA
** * *
58241783 TACTAAAATACTCC-TGTAAGGTAGAAT
1 TACCGAAATAC-CCTTGTAGGGTAGAAA
*
58241810 TACCGAGATACCCTTGT-GGGTA-AAA
1 TACCGAAATACCCTTGTAGGGTAGAAA
58241835 T
1 T
58241836 TACCATTTTA
Statistics
Matches: 69, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.04
26 6 0.09
27 58 0.84
28 2 0.03
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
TACCGAAATACCCTTGTAGGGTAGAAA
Found at i:58241784 original size:54 final size:53
Alignment explanation
Indices: 58241724--58241840 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 53
58241714 CTCGATTTAC
* *
58241724 AAAATTACCGAAATAC-CCTTGTAGGGTAGAAATACCGAAATACCCTTGTAGGGT
1 AAAATTACCAAAATACTCC-TGTAAGGTAGAAATACCGAAATACCCTTGT-GGGT
* * * *
58241778 AGAATTACTAAAATACTCCTGTAAGGTAGAATTACCGAGATACCCTTGTGGGT
1 AAAATTACCAAAATACTCCTGTAAGGTAGAAATACCGAAATACCCTTGTGGGT
58241831 AAAATTACCA
1 AAAATTACCA
58241841 TTTTACCCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
53 12 0.22
54 40 0.74
55 2 0.04
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.26
Consensus pattern (53 bp):
AAAATTACCAAAATACTCCTGTAAGGTAGAAATACCGAAATACCCTTGTGGGT
Found at i:58242128 original size:27 final size:26
Alignment explanation
Indices: 58242084--58242135 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
58242074 CTCGCTGCAA
*
58242084 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
58242111 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
58242136 GCAACCTCGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:58242363 original size:6 final size:6
Alignment explanation
Indices: 58242354--58242463 Score: 91
Period size: 6 Copynumber: 17.8 Consensus size: 6
58242344 TTGCATTCAC
* * *
58242354 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTTTG -TTACCTT
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * *
58242404 ATTCTG ATTCTG ATTCTA ATTTTG ATTCTG -TTACCTG ATTTTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
58242453 ATTCTG ATTCT
1 ATTCTG ATTCT
58242464 TATTTTTATT
Statistics
Matches: 83, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
5 6 0.07
6 65 0.78
7 7 0.08
8 5 0.06
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (6 bp):
ATTCTG
Found at i:58242385 original size:25 final size:25
Alignment explanation
Indices: 58242357--58242420 Score: 101
Period size: 25 Copynumber: 2.6 Consensus size: 25
58242347 CATTCACATT
58242357 CTGATTCTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTGATA
* * *
58242382 CTGATTCTGATTTTGTTACCTTATT
1 CTGATTCTGATTCTGTTACCTGATA
58242407 CTGATTCTGATTCT
1 CTGATTCTGATTCT
58242421 AATTTTGATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.17, C:0.19, G:0.14, T:0.50
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTGATA
Found at i:58242389 original size:31 final size:31
Alignment explanation
Indices: 58242354--58242463 Score: 125
Period size: 31 Copynumber: 3.5 Consensus size: 31
58242344 TTGCATTCAC
*
58242354 ATTCTGATTCTGATTCTGTTACCTGATACTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
* * *
58242385 ATTCTGATTTTG-TTAC-CTTATTCTGATTCTG
1 ATTCTGATTCTGATT-CTGTTA-CCTGATTCTG
* * *
58242416 ATTCTAATTTTGATTCTGTTACCTGATTTTG
1 ATTCTGATTCTGATTCTGTTACCTGATTCTG
58242447 ATTCTGATTCTGATTCT
1 ATTCTGATTCTGATTCT
58242464 TATTTTTATT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
30 5 0.08
31 55 0.85
32 5 0.08
ACGTcount: A:0.18, C:0.16, G:0.14, T:0.52
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTGTTACCTGATTCTG
Found at i:58254757 original size:43 final size:43
Alignment explanation
Indices: 58254690--58254781 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
58254680 GCTAGGCTTG
* * * *
58254690 AAGCCCTATATCATTTCACCGGCATTATAGCTTCCTAGGTCCA
1 AAGCCCAATATCATCTCACCGGCATTATAGCCTCCTAGGCCCA
* * *
58254733 AAGCCCAATATTATCTCACTGGCATTATAGCCTCCTAGGCCCG
1 AAGCCCAATATCATCTCACCGGCATTATAGCCTCCTAGGCCCA
58254776 AAGCCC
1 AAGCCC
58254782 GATAATATTA
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.26
Consensus pattern (43 bp):
AAGCCCAATATCATCTCACCGGCATTATAGCCTCCTAGGCCCA
Found at i:58255673 original size:2 final size:2
Alignment explanation
Indices: 58255666--58255691 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
58255656 CCCCATAGAT
58255666 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
58255692 AAATAACACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58256508 original size:14 final size:15
Alignment explanation
Indices: 58256479--58256508 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58256469 CAAAATTTAG
58256479 ACATGATACTTTCAC
1 ACATGATACTTTCAC
58256494 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
58256508 A
1 A
58256509 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:58260978 original size:43 final size:43
Alignment explanation
Indices: 58260931--58261040 Score: 139
Period size: 43 Copynumber: 2.6 Consensus size: 43
58260921 CTGGCATTTC
* *
58260931 GCCTGCTAGGCTTGAAGCCCGATATCATTTCACCGACATTATA
1 GCCTGCTAGGCCTGAAGCCCGATATCATCTCACCGACATTATA
* * * * *
58260974 GCCTGCTAGGCCTGAATCCTGATATTATCTCATCGGCATTATA
1 GCCTGCTAGGCCTGAAGCCCGATATCATCTCACCGACATTATA
* *
58261017 GCTTGCTAGGCCCGAAGCCCGATA
1 GCCTGCTAGGCCTGAAGCCCGATA
58261041 ATATTATTCA
Statistics
Matches: 56, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 56 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (43 bp):
GCCTGCTAGGCCTGAAGCCCGATATCATCTCACCGACATTATA
Found at i:58262777 original size:14 final size:15
Alignment explanation
Indices: 58262748--58262777 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
58262738 CAAAATTTAG
58262748 ACATGATACTTTCAC
1 ACATGATACTTTCAC
58262763 ACATGATAC-TTCAC
1 ACATGATACTTTCAC
58262777 A
1 A
58262778 TATAATAAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 6 0.40
15 9 0.60
ACGTcount: A:0.37, C:0.27, G:0.07, T:0.30
Consensus pattern (15 bp):
ACATGATACTTTCAC
Found at i:58266525 original size:24 final size:25
Alignment explanation
Indices: 58266480--58266526 Score: 69
Period size: 24 Copynumber: 1.9 Consensus size: 25
58266470 TTTTTTTATT
*
58266480 TTGATGAATATTTTGAGTTATGTCA
1 TTGATGAATATTTTGAGCTATGTCA
*
58266505 TTGATGATTA-TTTGAGCTATGT
1 TTGATGAATATTTTGAGCTATGT
58266527 GATGTTAGTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.26, C:0.04, G:0.21, T:0.49
Consensus pattern (25 bp):
TTGATGAATATTTTGAGCTATGTCA
Found at i:58267182 original size:45 final size:45
Alignment explanation
Indices: 58267119--58267243 Score: 146
Period size: 45 Copynumber: 2.8 Consensus size: 45
58267109 TAGGATTCCG
* * *
58267119 ATATGTATTTTCGAGTAAGACCACGTTTGGGACGTTGGCATCGAT
1 ATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATCGAT
*
58267164 ATATGTGTTTTC-ATGTAAGACCATGTCTGGGACATTGGCATCGAT
1 ATATGTGTTTTCGA-GTAAGACCACGTCTGGGACATTGGCATCGAT
* * * *
58267209 ATATGTGGTTAT-GTGTAAGACCATGTCTAGGACAT
1 ATATGT-GTTTTCGAGTAAGACCACGTCTGGGACAT
58267244 CAGCATCATA
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
44 1 0.01
45 65 0.93
46 4 0.06
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.34
Consensus pattern (45 bp):
ATATGTGTTTTCGAGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:58271028 original size:40 final size:40
Alignment explanation
Indices: 58270991--58271172 Score: 219
Period size: 40 Copynumber: 4.6 Consensus size: 40
58270981 GCTACTCGTT
*
58270991 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
58271031 CAAATGCCTTCGAGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
58271071 CAAATGCCTTC-GGATCTTAGTCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTCGCA
* * * * * *
58271111 CAAATGCGTTC-GGTCTTAGTCCGGATATAGTCACTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAAC-TCGCA
58271151 CAAA-GCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
58271173 AGACATCATT
Statistics
Matches: 124, Mismatches: 14, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 25 0.20
40 97 0.78
41 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:58278928 original size:40 final size:40
Alignment explanation
Indices: 58278862--58279028 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
58278852 AAATTGAATG
* * *
58278862 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58278901 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
58278941 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
58278981 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
58279021 ATATCCGG
1 ATATCCGG
58279029 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58283435 original size:122 final size:122
Alignment explanation
Indices: 58283218--58283437 Score: 300
Period size: 122 Copynumber: 1.8 Consensus size: 122
58283208 GAATTATGTG
** * * * *
58283218 AATGAAATATGGATGTGTATTGATTATTGATTATGTGTGTATGAGTATTTAATGATACCCGGGCT
1 AATGAAATATGGATGTCCAATGATTATTGATTATGTGTGCATGAGAATTGAATGATACCCGGGCT
* * * **
58283283 AAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGAA
66 AAGTCCCGAAGACAATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGAA
*
58283340 AATGAAATAT-GATGTCCAATGATTATTGATGTATGTGTGCATGAGCAATTGAATGATATCCGGG
1 AATGAAATATGGATGTCCAATGATTATTGAT-TATGTGTGCATGAG-AATTGAATGATACCCGGG
58283404 CTAAG-CCCGAAGACAATTATGCTGGAAATTATAT
64 CTAAGTCCCGAAGACAATTATGCTGGAAATTATAT
58283438 CCGGGTTAAG
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
121 17 0.20
122 47 0.56
123 20 0.24
ACGTcount: A:0.31, C:0.11, G:0.24, T:0.34
Consensus pattern (122 bp):
AATGAAATATGGATGTCCAATGATTATTGATTATGTGTGCATGAGAATTGAATGATACCCGGGCT
AAGTCCCGAAGACAATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGAA
Found at i:58283461 original size:40 final size:40
Alignment explanation
Indices: 58283395--58283538 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
58283385 CAATTGAATG
* * *
58283395 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
58283434 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
58283474 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTCATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
*
58283514 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCA
58283539 TTCGTGCACG
Statistics
Matches: 85, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
39 16 0.19
40 69 0.81
ACGTcount: A:0.28, C:0.24, G:0.27, T:0.21
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:58283559 original size:40 final size:40
Alignment explanation
Indices: 58283432--58283561 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
58283422 ATGCTGGAAA
* *
58283432 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
58283472 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
58283512 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
58283552 TTATATCCGG
1 TTATATCCGG
58283562 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:58290982 original size:123 final size:123
Alignment explanation
Indices: 58290762--58290984 Score: 313
Period size: 123 Copynumber: 1.8 Consensus size: 123
58290752 GAATTATGTG
** * * * *
58290762 AAATGAAATATGGATGTGTATTGATTATTGATTATGTGTGTATGAGTATTTGAATGATACCCGGG
1 AAATGAAATATGGATGTCCAATGATTATTGATTATGTGTGCATGAGAAATTGAATGATACCCGGG
* * * * **
58290827 CTAAGTCCCGAAGGCGATTATGCTTGTGATTATATTTGCGTTTGAGCCTTAGTAACGA
66 CTAAATCCCGAAGACAATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
*
58290885 AAATGAAATAT-GATGTCCAATGATTATTGATGTATGTGTGCATGAGAAATTGAATGATATCCGG
1 AAATGAAATATGGATGTCCAATGATTATTGAT-TATGTGTGCATGAGAAATTGAATGATACCCGG
58290949 GCTAAATCCCGAAGACAATTATGCTGGAAATTATAT
65 GCTAAATCCCGAAGACAATTATGCTGGAAATTATAT
58290985 CCGGGTTAAG
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
122 17 0.20
123 69 0.80
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (123 bp):
AAATGAAATATGGATGTCCAATGATTATTGATTATGTGTGCATGAGAAATTGAATGATACCCGGG
CTAAATCCCGAAGACAATTATGCTGGAAATTATATTTGCGTTTGAGCCTTAGTAACGA
Found at i:58291106 original size:40 final size:40
Alignment explanation
Indices: 58290979--58291108 Score: 165
Period size: 40 Copynumber: 3.2 Consensus size: 40
58290969 ATGCTGGAAA
* *
58290979 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTGG
* * **
58291019 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
*
58291059 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGA-GTGG
58291099 TTATATCCGG
1 TTATATCCGG
58291109 TTGTATTCCG
Statistics
Matches: 76, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
39 4 0.05
40 72 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTGG
Found at i:58298738 original size:40 final size:40
Alignment explanation
Indices: 58298693--58298877 Score: 217
Period size: 40 Copynumber: 4.6 Consensus size: 40
58298683 CTTGCACAAG
* * *
58298693 GCCTTCGGGTCTTAGCCCGGATGTGGCCACTAGCATAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAAAT
* * *
58298733 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAAAT
* * *
58298773 GCCTTCAGGTCTTAGCCCGGATATAGCAACTAGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAAAT
* * * * * *
58298813 GCCTTCAGATCTTAGTCCGGTTATAGTCACTTAGCACAAAA
1 GCCTTCGGGTCTTAGCCCGGATATAGCCAC-TAGCACAAAT
*
58298854 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58298878 CATTCGAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 1
0.83 0.17 0.01
Matches are distributed among these distances:
40 93 0.77
41 27 0.22
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCCACTAGCACAAAT
Found at i:58298805 original size:80 final size:81
Alignment explanation
Indices: 58298693--58298877 Score: 239
Period size: 80 Copynumber: 2.3 Consensus size: 81
58298683 CTTGCACAAG
* * * * *
58298693 GCCTTCGGGTCTTAGCCCGGATGTGGCCACTAGCATAAATGCCTTCGGGA-CTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTC-AGATCTTAGCCCGGATAT
* *
58298757 AGTCGC-TAGCACAAAT
65 AGTCACTTAGCACAAAA
* * * *
58298773 GCCTTCAGGTCTTAGCCCGGATATAGCAACTAGCACGAATGCCTTCAGATCTTAGTCCGGTTATA
1 GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCAGATCTTAGCCCGGATATA
58298838 GTCACTTAGCACAAAA
66 GTCACTTAGCACAAAA
*
58298854 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGTCTTAGCCCGGATAT
58298878 CATTCGAATA
Statistics
Matches: 90, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
79 2 0.02
80 57 0.63
81 31 0.34
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (81 bp):
GCCTTCGGGTCTTAGCCCGGATATAGCAACTAGCACAAATGCCTTCAGATCTTAGCCCGGATATA
GTCACTTAGCACAAAA
Found at i:58311447 original size:50 final size:50
Alignment explanation
Indices: 58311237--58311614 Score: 197
Period size: 50 Copynumber: 7.6 Consensus size: 50
58311227 GTTATAAGAA
* * * *
58311237 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACA-ATT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTG--T-A-CCAGATTGATAAGT
* * ** * *
58311289 CACGTGTGTAGTACTAAGTGCA-CCTACTATGCATACTC-GATAGTTTCAA-T
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTAC-CAGATTG-AT-AAGT
* * * * ** * *
58311339 CACGTATGTAGTACTAAGTGCAAGCTACTATGTGTATCAGAGGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAAGT
* * *
58311389 CACGTGTGTAGTACTAAGTGCAGGCTACTATATGTACCGGATTGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAAGT
* * ** * * **
58311439 CGCATGTGTAGTACTAACTGCA-GCTACTATGCATACCCG-TTAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGA-TAAG-T
* * * * * * *
58311489 CACGTGCGTAGTACTAAGTGCAAGCTACTA--CGT----GATGGGTAAGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAAGT
* * * *
58311533 CACATGTGTAGTTCTAAGTGGAGGGTACTACGTGTACCAGATTGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAAGT
* * *
58311583 CGCATGAGTAGTACTAAGTGTAGGCTACTATG
1 CACATGTGTAGTACTAAGTGCAGGCTACTATG
58311615 CATCCCAGAG
Statistics
Matches: 246, Mismatches: 62, Indels: 38
0.71 0.18 0.11
Matches are distributed among these distances:
44 24 0.10
45 3 0.01
46 3 0.01
48 7 0.03
49 19 0.08
50 141 0.57
51 29 0.12
52 20 0.08
ACGTcount: A:0.28, C:0.17, G:0.25, T:0.30
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTGATAAGT
Found at i:58311449 original size:100 final size:101
Alignment explanation
Indices: 58311237--58311469 Score: 242
Period size: 100 Copynumber: 2.3 Consensus size: 101
58311227 GTTATAAGAA
* * * **
58311237 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAATTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAGA-AAGGTTAGGTCACGTGTGTAGTA
* *
58311302 CTAAGTGCACCTACTATGCATACTCGATAGTTTCAAT
65 CTAAGTGCACCTACTATACATACTCGATAGTATCAAT
* * * *
58311339 CACGTATGTAGTACTAAGTGCAAGCTACTATGTGTATCAG-AGGGTTAGGTCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAGAAAGGTTAGGTCACGTGTGTAGTAC
* ** *
58311403 TAAGTGCAGGCTACTATATGTAC-CGGATTG-AT-AAGT
66 TAAGTGCA-CCTACTATACATACTC-GATAGTATCAA-T
* *
58311439 CGCATGTGTAGTACTAACTGC-AGCTACTATG
1 CACATGTGTAGTACTAAGTGCAAGCTACTATG
58311470 CATACCCGTT
Statistics
Matches: 109, Mismatches: 19, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
99 12 0.11
100 49 0.45
101 14 0.13
102 34 0.31
ACGTcount: A:0.27, C:0.17, G:0.24, T:0.32
Consensus pattern (101 bp):
CACATGTGTAGTACTAAGTGCAAGCTACTATGTGTATAAGAAAGGTTAGGTCACGTGTGTAGTAC
TAAGTGCACCTACTATACATACTCGATAGTATCAAT
Found at i:58311514 original size:150 final size:144
Alignment explanation
Indices: 58311293--58311617 Score: 391
Period size: 150 Copynumber: 2.2 Consensus size: 144
58311283 TTAGGTCACG
* * * *
58311293 TGTGTAGTACTAAGTGCACCTACTATGCATACTCGATAGTTTCAATCACGTATGTAGTACTAAGT
1 TGTGTAGTACTAAGTGCAGCTACTATGCATACCCGATACTTTCAATCACGTACGTAGTACTAAGT
* * * * *
58311358 GCAAGCTACTATGTGTATCAGAGGGTTAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATATG
66 GCAAGCTACTACGTG-AT----GGG-TAAGCCACATGTGTAGTACTAAGTGCAGGCTACTACATG
*
58311423 TACCGGATTGATAAGTCGCA
125 TACCAGATTGATAAGTCGCA
* * * *
58311443 TGTGTAGTACTAACTGCAGCTACTATGCATACCCGTTAACTTT-GATCACGTGCGTAGTACTAAG
1 TGTGTAGTACTAAGTGCAGCTACTATGCATACCCGAT-ACTTTCAATCACGTACGTAGTACTAAG
* * * *
58311507 TGCAAGCTACTACGTGATGGGTAAGCCACATGTGTAGTTCTAAGTGGAGGGTACTACGTGTACCA
65 TGCAAGCTACTACGTGATGGGTAAGCCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCA
58311572 GATTGATAAGTCGCA
130 GATTGATAAGTCGCA
* *
58311587 TGAGTAGTACTAAGTGTAGGCTACTATGCAT
1 TGTGTAGTACTAAGTGCA-GCTACTATGCAT
58311618 CCCAGAGAGC
Statistics
Matches: 152, Mismatches: 21, Indels: 9
0.84 0.12 0.05
Matches are distributed among these distances:
144 65 0.43
145 15 0.10
149 2 0.01
150 66 0.43
151 4 0.03
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.30
Consensus pattern (144 bp):
TGTGTAGTACTAAGTGCAGCTACTATGCATACCCGATACTTTCAATCACGTACGTAGTACTAAGT
GCAAGCTACTACGTGATGGGTAAGCCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAG
ATTGATAAGTCGCA
Found at i:58314593 original size:9 final size:9
Alignment explanation
Indices: 58314579--58314606 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
58314569 GATTCGACTG
58314579 AGGTTGGAA
1 AGGTTGGAA
58314588 AGGTTGGAA
1 AGGTTGGAA
58314597 AGGTTGGAA
1 AGGTTGGAA
58314606 A
1 A
58314607 AGTCAAGTGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.36, C:0.00, G:0.43, T:0.21
Consensus pattern (9 bp):
AGGTTGGAA
Found at i:58321299 original size:56 final size:56
Alignment explanation
Indices: 58321160--58321372 Score: 318
Period size: 56 Copynumber: 3.8 Consensus size: 56
58321150 GAAGTATATA
*
58321160 TGGCATCGATATGTGACTCCGATATATATGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * *
58321216 TGGTATTGATATGTGACTCTGATATATATGTGTGCGAGTAAGACCACGTTTAATACGT
1 TGGCATCGATATGTGACTCCG--ATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* *
58321274 TGGCATCAATATGTGACTCCGATATATGTGTGCGAGTAAGACCACATTTAATACGT
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
* * * *
58321330 TGGCATTGATATATGACTCTGATATATGTGTACGAGTAAGACC
1 TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACC
58321373 CTGTCTGGGG
Statistics
Matches: 141, Mismatches: 14, Indels: 4
0.89 0.09 0.03
Matches are distributed among these distances:
56 90 0.64
58 51 0.36
ACGTcount: A:0.29, C:0.15, G:0.23, T:0.32
Consensus pattern (56 bp):
TGGCATCGATATGTGACTCCGATATATGTGTGCGAGTAAGACCACGTTTAATACGT
Found at i:58322531 original size:13 final size:13
Alignment explanation
Indices: 58322513--58322540 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
58322503 ACATATTATA
58322513 AATATTTTGTGTT
1 AATATTTTGTGTT
58322526 AATATTTTGTGTT
1 AATATTTTGTGTT
58322539 AA
1 AA
58322541 AAATAATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.00, G:0.14, T:0.57
Consensus pattern (13 bp):
AATATTTTGTGTT
Found at i:58325299 original size:29 final size:29
Alignment explanation
Indices: 58325267--58325402 Score: 157
Period size: 29 Copynumber: 4.7 Consensus size: 29
58325257 ATACCCTTCG
** * *
58325267 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
58325296 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58325325 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
58325354 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
58325383 AGCACGCACACTTAGTGCCA
1 AGCTCGCACACTTAGTGCCA
58325403 ATCTCGTCAC
Statistics
Matches: 94, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 93 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.15, T:0.29
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:58325394 original size:58 final size:58
Alignment explanation
Indices: 58325242--58325401 Score: 176
Period size: 58 Copynumber: 2.8 Consensus size: 58
58325232 AATTTAAGCC
* *** * * ** * *
58325242 CGCACACACAGTGCCATACCCTTCGAGCTCGCACACCCAGTGCCGTATTTTTCCAGCT
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
* * * * *
58325300 TGCACACATAGTGTCATATTTTTCCAGCATGCACACTTAGTGCCTTATATTTCCAGCA
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
*
58325358 CGCACACTTAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
1 CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCC
58325402 AATCTCGTCA
Statistics
Matches: 83, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
58 83 1.00
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.28
Consensus pattern (58 bp):
CGCACACATAGTGCCATATATTTCCAGCACGCACACTTAGTGCCGTATATTTCCAGCA
Found at i:58328392 original size:27 final size:28
Alignment explanation
Indices: 58328362--58328431 Score: 106
Period size: 27 Copynumber: 2.5 Consensus size: 28
58328352 ATAATAAGTC
*
58328362 CGCACACTTAGTGCTATATAATC-AGCT
1 CGCACACTTAGTGCTATATAATCAAACT
* *
58328389 CGCACACATAGTGCTATATAATCAAATT
1 CGCACACTTAGTGCTATATAATCAAACT
58328417 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
58328432 GTACAAATTT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.31, C:0.26, G:0.14, T:0.29
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:58336168 original size:30 final size:30
Alignment explanation
Indices: 58336132--58336262 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
58336122 GACAAGATTG
* * * * *
58336132 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
58336162 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
58336190 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
58336220 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
58336249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58336263 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:58336223 original size:58 final size:58
Alignment explanation
Indices: 58336132--58336262 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
58336122 GACAAGATTG
* * * * * *
58336132 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
58336190 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
58336249 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58336263 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:58343336 original size:30 final size:30
Alignment explanation
Indices: 58343300--58343430 Score: 171
Period size: 30 Copynumber: 4.5 Consensus size: 30
58343290 GACAAGATTG
* * * * *
58343300 GCACTAAGTGTGCGGGTTTAAAATTGTACA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
*
58343330 GCACTAAGTGTGCGAGTTTG---ATTATATA
1 GCACTAAGTGTGCGAG-CTGAAAATTATATA
58343358 GCACTAAGTGTGCGAGCTGAAAATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
58343388 GCACTAAGTGTGCGAGCTGAAAA-TATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATATA
58343417 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58343431 GATTCACTAT
Statistics
Matches: 92, Mismatches: 5, Indels: 9
0.87 0.05 0.08
Matches are distributed among these distances:
27 2 0.02
28 22 0.24
29 20 0.22
30 46 0.50
31 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (30 bp):
GCACTAAGTGTGCGAGCTGAAAATTATATA
Found at i:58343391 original size:58 final size:58
Alignment explanation
Indices: 58343300--58343430 Score: 174
Period size: 58 Copynumber: 2.2 Consensus size: 58
58343290 GACAAGATTG
* * * * * *
58343300 GCACTAAGTGTGCGGGTTTAAAATTGTACAGCACTAAGTGTGCGAGTTTG-ATTATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAG-CTGAAATATATA
*
58343358 GCACTAAGTGTGCGAGCTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTG-AAATATATA
58343417 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
58343431 GATTCACTAT
Statistics
Matches: 64, Mismatches: 7, Indels: 3
0.86 0.09 0.04
Matches are distributed among these distances:
57 2 0.03
58 41 0.64
59 21 0.33
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (58 bp):
GCACTAAGTGTGCGAGCTGAAAATTATACAGCACTAAGTGTGCGAGCTGAAATATATA
Found at i:58346703 original size:40 final size:40
Alignment explanation
Indices: 58346643--58346735 Score: 168
Period size: 40 Copynumber: 2.3 Consensus size: 40
58346633 AAGGGTATTT
58346643 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAA
* *
58346683 GGCAGTAAGTGTGCGATTTAAACTAGCTTTGGCTATATAA
1 GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAA
58346723 GGCACTAAGTGTG
1 GGCACTAAGTGTG
58346736 TGACACCGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 50 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (40 bp):
GGCACTAAGTGTGCGATTTAAACTAGCTTCGGCTATATAA
Done.