Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A04
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 81554553
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2322942 characters in sequence are not A, C, G, or T
File 138 of 253
Found at i:44182903 original size:54 final size:54
Alignment explanation
Indices: 44182658--44182973 Score: 221
Period size: 54 Copynumber: 5.9 Consensus size: 54
44182648 GCTGGTTTAC
* * * * * *
44182658 AAAATTACTG-AATACCCTTGGTTTACAAAA-TACCAAAATACCCTCAATTAGC
1 AAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
** * * * * **
44182710 AAAATTACCTAAATATCTCTAG-TTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACAGAAATA-CCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
** * *
44182764 AAAATTACCA-AAATACCCTTGATTTGTGAAATTACCTAAATACCCTCAATTTGT
1 AAAATTA-CAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
* * * * *
44182818 AAAATTACTA-AAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGG
1 AAAATTAC-AGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
* * * * **
44182872 AAAATTACAGAAATACTCTTGATTTACAAAATTA-TAGAAATACCCTTGACTTTCA
1 AAAATTACAGAAATACCCTTGATTTGCAAAATTACCA-AAATACCCTT-AATTTGT
* ** * * * *
44182927 AAAATTACAGAAATTCTATTGGTTTGCCAAATTACCGAAATGCCCTT
1 AAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTT
44182974 GGTTTGTAGA
Statistics
Matches: 207, Mismatches: 47, Indels: 17
0.76 0.17 0.06
Matches are distributed among these distances:
52 8 0.04
53 18 0.09
54 138 0.67
55 43 0.21
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (54 bp):
AAAATTACAGAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
Found at i:44182903 original size:81 final size:81
Alignment explanation
Indices: 44182653--44182916 Score: 261
Period size: 81 Copynumber: 3.3 Consensus size: 81
44182643 AATGGGCTGG
* * * * * *
44182653 TTTACAAAATTACT-GAATACCCTTGGTTTACAAAA-TACCAAAATACCCTCAATTAGCAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
44182716 ACCTAAATATCTCTAG-
66 ACCTAAATA-CTCTAGA
** * * *
44182732 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTG-AAAT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTG-GAAAAT
*
44182796 TACCTAAATACCCTCA-A
65 TACCTAAATACTCT-AGA
** ** * *
44182813 TTTGTAAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGGAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
** *
44182878 ACAGAAATACTCTTGA
66 ACCTAAATACTCTAGA
44182894 TTTACAAAATTA-TAGAAATACCC
1 TTTACAAAATTACTA-AAATACCC
44182917 TTGACTTTCA
Statistics
Matches: 153, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
79 11 0.07
80 23 0.15
81 119 0.78
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (81 bp):
TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
ACCTAAATACTCTAGA
Found at i:44183295 original size:40 final size:41
Alignment explanation
Indices: 44183238--44183357 Score: 134
Period size: 41 Copynumber: 3.0 Consensus size: 41
44183228 CGGATGAAGA
* *
44183238 AATTGAGGATAGAATGGTTGCTTGACGACCGCGGCTCCA-C
1 AATTGAGGATCGAATGGTTGCTTGACGACCGCGGATCCACC
** * * *
44183278 TGTTGAGGATCGTATGGTTGCTTCACGACCGTGGATCCACC
1 AATTGAGGATCGAATGGTTGCTTGACGACCGCGGATCCACC
* * * *
44183319 AATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCA
1 AATTGAGGATCGAATGGTTGCTTGACGACCGCGGATCCA
44183358 TCGGTGGCTT
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 32 0.48
41 34 0.52
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.27
Consensus pattern (41 bp):
AATTGAGGATCGAATGGTTGCTTGACGACCGCGGATCCACC
Found at i:44183554 original size:22 final size:22
Alignment explanation
Indices: 44183502--44183566 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44183492 TCCAATTATT
**
44183502 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
44183524 C-AACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44183546 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44183567 ACGAATTTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.23, C:0.25, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44183986 original size:27 final size:26
Alignment explanation
Indices: 44183957--44184161 Score: 198
Period size: 27 Copynumber: 7.6 Consensus size: 26
44183947 CTTGGTTTAC
*
44183957 AAAATTACCAAAATACCCTCATTTAGC
1 AAAATTACCAAAATACCCTCATTT-GT
**
44183984 AAAATTACCAAAATACCTCTGGTTTGT
1 AAAATTACCAAAATACC-CTCATTTGT
44184011 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTC-A-TTTGT
*
44184038 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCC-TCATTTGT
* *
44184065 GAAATTACCTAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTC-ATTTGT
* * *
44184092 AAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACCAAAATA-CCCTCATTTGT
* * * *
44184119 AAAATTACCGAAATACACTTAATTTGG
1 AAAATTACCAAAATAC-CCTCATTTGT
44184146 AAAATTA-CAGAAATAC
1 AAAATTACCA-AAATAC
44184162 TCTTGATTTA
Statistics
Matches: 151, Mismatches: 18, Indels: 18
0.81 0.10 0.10
Matches are distributed among these distances:
26 4 0.03
27 137 0.91
28 10 0.07
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (26 bp):
AAAATTACCAAAATACCCTCATTTGT
Found at i:44184007 original size:54 final size:54
Alignment explanation
Indices: 44183941--44184179 Score: 243
Period size: 54 Copynumber: 4.4 Consensus size: 54
44183931 AAAATTATTG
* * *
44183941 AATACCCTTGGTTTACAAAATTACCAAAATACCCTC-ATTTAGCAAAATTACCAA
1 AATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTT-GTAAAATTACCAA
* * *
44183995 AATA-CCTCTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAA
1 AATACCCT-TGATTTGCAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCAA
** * *
44184049 AATACCCTTGATTTGTGAAATTACCTAAATACCCTCAATTTGTAAAATTACTAA
1 AATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
* * * * * * *
44184103 AATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGGAAAATTA-CAGA
1 AATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA-A
* *
44184157 AATACTCTTGATTTACAAAATTA
1 AATACCCTTGATTTGCAAAATTA
44184180 TAGAAATACC
Statistics
Matches: 156, Mismatches: 23, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
53 5 0.03
54 144 0.92
55 7 0.04
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.31
Consensus pattern (54 bp):
AATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
Found at i:44184056 original size:81 final size:81
Alignment explanation
Indices: 44183957--44184161 Score: 245
Period size: 81 Copynumber: 2.5 Consensus size: 81
44183947 CTTGGTTTAC
**
44183957 AAAATTACCAAAATACCC-TCATTTAGCAAAATTACCAAAATA-CCTCTGGTTTGTAAAATTACC
1 AAAATTACCAAAATACCCTTCATTT-GCAAAATTACCAAAATACCCTC-AATTTGTAAAATTACC
* *
44184020 AAAATACCCCTAGTTTGT
64 AAAATACCCCTAATTTGG
* ** * *
44184038 AAAATTACCAAAATACCCTTGATTTGTGAAATTACCTAAATACCCTCAATTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTTCATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
44184103 AATACCCCTAATTTGG
66 AATACCCCTAATTTGG
* * * *
44184119 AAAATTACCGAAATACACTTAATTTGGAAAATTA-CAGAAATAC
1 AAAATTACCAAAATACCCTTCATTTGCAAAATTACCA-AAATAC
44184162 TCTTGATTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
80 1 0.01
81 96 0.91
82 9 0.08
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.30
Consensus pattern (81 bp):
AAAATTACCAAAATACCCTTCATTTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
AATACCCCTAATTTGG
Found at i:44184170 original size:27 final size:27
Alignment explanation
Indices: 44183941--44184253 Score: 176
Period size: 27 Copynumber: 11.6 Consensus size: 27
44183931 AAAATTATTG
* **
44183941 AATACCCTTGGTTTACAAAATTACCA-A
1 AATACCCTTGATTTGGAAAATTA-CAGA
* *
44183968 AATACCC-TCATTTAGCAAAATTACCA-A
1 AATACCCTTGATTT-GGAAAATTA-CAGA
* *
44183995 AATA-CCTCTGGTTTGTAAAATTACCA-A
1 AATACCCT-TGATTTGGAAAATTA-CAGA
* *
44184022 AATACCCCT-AGTTTGTAAAATTACCA-A
1 AATACCCTTGA-TTTGGAAAATTA-CAGA
**
44184049 AATACCCTTGATTTGTG-AAATTACCTA
1 AATACCCTTGATTTG-GAAAATTACAGA
** *
44184076 AATACCCTCAATTTGTAAAATTACTA-A
1 AATACCCTTGATTTGGAAAATTAC-AGA
* * *
44184103 AATACCCCTAATTTGGAAAATTACCGA
1 AATACCCTTGATTTGGAAAATTACAGA
* *
44184130 AATACACTTAATTTGGAAAATTACAGA
1 AATACCCTTGATTTGGAAAATTACAGA
* ** *
44184157 AATACTCTTGATTTACAAAATTATAGA
1 AATACCCTTGATTTGGAAAATTACAGA
**
44184184 AATACCCTTGACTTTAAAAAATTACAGA
1 AATACCCTTGA-TTTGGAAAATTACAGA
* ** * * *
44184212 AGTACTATTGGTTTGCAAAATTACCGA
1 AATACCCTTGATTTGGAAAATTACAGA
* *
44184239 AATGCCCTTGGTTTG
1 AATACCCTTGATTTG
44184254 TAGATTTACC
Statistics
Matches: 233, Mismatches: 41, Indels: 24
0.78 0.14 0.08
Matches are distributed among these distances:
26 7 0.03
27 198 0.85
28 28 0.12
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.32
Consensus pattern (27 bp):
AATACCCTTGATTTGGAAAATTACAGA
Found at i:44184177 original size:81 final size:81
Alignment explanation
Indices: 44184011--44184190 Score: 211
Period size: 81 Copynumber: 2.2 Consensus size: 81
44184001 TCTGGTTTGT
* * * * * **
44184011 AAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCTTGATTTGTGAAATTACCTA
1 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGTGAAATTACAGA
**
44184076 AATACCCTCAATTTGT
66 AATACCCTCAATTTAC
*
44184092 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTG-GAAAATTACAG
1 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGTG-AAATTACAG
* **
44184156 AAATACTCTTGATTTAC
65 AAATACCCTCAATTTAC
44184173 AAAATTA-TAGAAATACCC
1 AAAATTACTA-AAATACCC
44184191 TTGACTTTAA
Statistics
Matches: 84, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.04
81 81 0.96
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGTGAAATTACAGA
AATACCCTCAATTTAC
Found at i:44184186 original size:54 final size:54
Alignment explanation
Indices: 44183941--44184247 Score: 196
Period size: 54 Copynumber: 5.7 Consensus size: 54
44183931 AAAATTATTG
* * * * *
44183941 AATACCCTTGGTTTACAAAATTACCA-AAATACCC-TCATTTAGCAAAATTACCA-A
1 AATACTCTTGATTTGCAAAATTA-CAGAAATACCCTTAATTT-GAAAAATTA-CAGA
* * * * *
44183995 AATAC-CTCTGGTTTGTAAAATTACCA-AAATACCCCTAGTTTGTAAAATTACCA-A
1 AATACTCT-TGATTTGCAAAATTA-CAGAAATACCCTTAATTTGAAAAATTA-CAGA
* ** ** * *
44184049 AATACCCTTGATTTGTGAAATTACCTAAATACCCTCAATTTGTAAAATTACTA-A
1 AATACTCTTGATTTGCAAAATTACAGAAATACCCTTAATTTGAAAAATTAC-AGA
* * * * * * *
44184103 AATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGGAAAATTACAGA
1 AATACTCTTGATTTGCAAAATTACAGAAATACCCTTAATTTGAAAAATTACAGA
* * * *
44184157 AATACTCTTGATTTACAAAATTATAGAAATACCCTTGACTTTAAAAAATTACAGA
1 AATACTCTTGATTTGCAAAATTACAGAAATACCCTT-AATTTGAAAAATTACAGA
* * * * *
44184212 AGTACTATTGGTTTGCAAAATTACCGAAATGCCCTT
1 AATACTCTTGATTTGCAAAATTACAGAAATACCCTT
44184248 GGTTTGTAGA
Statistics
Matches: 209, Mismatches: 37, Indels: 13
0.81 0.14 0.05
Matches are distributed among these distances:
53 5 0.02
54 154 0.74
55 50 0.24
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (54 bp):
AATACTCTTGATTTGCAAAATTACAGAAATACCCTTAATTTGAAAAATTACAGA
Found at i:44184569 original size:40 final size:41
Alignment explanation
Indices: 44184513--44184631 Score: 159
Period size: 40 Copynumber: 2.9 Consensus size: 41
44184503 GGAGGAAGAA
* * *
44184513 ATTGAGGATCAAATGGTTGCTTGACGACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACAGTGGATCCACCG
* *
44184554 -TTGAGGATCGTATGGTTGCTTGACGAAAGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACAGTGGATCCACCG
* * *
44184594 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACAGTGGATCCA
44184632 TCGGTGGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 35 0.51
41 33 0.49
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACAGTGGATCCACCG
Found at i:44184614 original size:41 final size:40
Alignment explanation
Indices: 44184525--44184631 Score: 151
Period size: 41 Copynumber: 2.6 Consensus size: 40
44184515 TGAGGATCAA
* * * *
44184525 ATGGTTGCTTGACGACCGTGGCTCCACCGTTGAGGATCGT
1 ATGGTTGCTTGACGACAGTGGATCCACCGTTAAGGATCGC
*
44184565 ATGGTTGCTTGACGAAAGTGGATCCACCGATTAAGGATCGC
1 ATGGTTGCTTGACGACAGTGGATCCACCG-TTAAGGATCGC
*
44184606 ATGGTTGCTTGACGACTGTGGATCCA
1 ATGGTTGCTTGACGACAGTGGATCCA
44184632 TCGGTGGCTT
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
40 26 0.44
41 33 0.56
ACGTcount: A:0.21, C:0.21, G:0.31, T:0.27
Consensus pattern (40 bp):
ATGGTTGCTTGACGACAGTGGATCCACCGTTAAGGATCGC
Found at i:44184836 original size:22 final size:22
Alignment explanation
Indices: 44184776--44184840 Score: 87
Period size: 22 Copynumber: 3.0 Consensus size: 22
44184766 TCCAATTATT
**
44184776 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
44184798 CT-ATATATGGCTTTGTGCCAAC
1 CTGAT-TATGGCTTTGTGCCAAC
*
44184820 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44184841 ACGAATTTGC
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
21 2 0.05
22 34 0.89
23 2 0.05
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44185260 original size:27 final size:27
Alignment explanation
Indices: 44185231--44185466 Score: 208
Period size: 27 Copynumber: 8.7 Consensus size: 27
44185221 CTTGGTTTAC
* * *
44185231 AAAATTACCAAAACACCCTTAATTAGC
1 AAAATTACCAAAATACCCTTAATTTGT
* *
44185258 AAAATTACCAAAATA-CATCTAGTTTGT
1 AAAATTACCAAAATACCCT-TAATTTGT
* **
44185285 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
*
44185312 AAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * * *
44185339 GAAAGTACCTAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
44185366 AAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
44185393 AAAATTACCGAAATACACTTAATTTGG
1 AAAATTACCAAAATACCCTTAATTTGT
* * **
44185420 AAAATTA-CAGAAATACTCTTGATTTAC
1 AAAATTACCA-AAATACCCTTAATTTGT
*
44185447 AAAATTA-TAGAAATACCCTT
1 AAAATTACCA-AAATACCCTT
44185467 GACTTTCAAA
Statistics
Matches: 173, Mismatches: 33, Indels: 6
0.82 0.16 0.03
Matches are distributed among these distances:
26 3 0.02
27 169 0.98
28 1 0.01
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:44185451 original size:54 final size:53
Alignment explanation
Indices: 44185205--44185521 Score: 231
Period size: 54 Copynumber: 5.9 Consensus size: 53
44185195 GCTGGTTTAC
** * * * * * *
44185205 AAAATTACTGAATACCCTTGGTTTACAAAATTACCAAAACACCCTTAATTAGC
1 AAAATTACAAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* * * * * **
44185258 AAAATTACCAAAATACATCTAG-TTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTA-CAAAATAC-CCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
** * * *
44185312 AAAATTACCAAAATACCCTTGATTTGTGAAAGTACCTAAATACCCTCAATTTGT
1 AAAATTA-CAAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* * * * *
44185366 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGG
1 AAAATTAC-AAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* * ** * **
44185420 AAAATTACAGAAATACTCTTGATTTACAAAATTATAGAAATACCCTTGACTTTCA
1 AAAATTACA-AAATACCCTTGATTTGCAAAATTACCGAAATACCCTT-AATTTGT
* ** * *
44185475 AAAATTACAGAAGTACTATTGGTTTGCAAAATTACCGAAATTCCCTT
1 AAAATTACA-AAATACCCTTGATTTGCAAAATTACCGAAATACCCTT
44185522 GGTTTGTAGA
Statistics
Matches: 210, Mismatches: 48, Indels: 10
0.78 0.18 0.04
Matches are distributed among these distances:
53 12 0.06
54 151 0.72
55 47 0.22
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (53 bp):
AAAATTACAAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
Found at i:44185451 original size:81 final size:80
Alignment explanation
Indices: 44185200--44185464 Score: 234
Period size: 81 Copynumber: 3.3 Consensus size: 80
44185190 ACTGGGCTGG
* * * * * *
44185200 TTTACAAAATTACT-GAATACCCTTGGTTTACAAAATTACCAAAACACCCTTAATTAGCAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
44185264 ACCAAAATACATCTAG-
66 A-CAAAATAC-TCTAGA
** * * * *
44185280 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTG-AAAG
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTG-GAAAAT
* *
44185344 TACCTAAATACCCTCA-A
65 TA-CAAAATACTCT-AGA
** ** * * *
44185361 TTTGTAAAATTACTAAAATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGGAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
*
44185426 ACAGAAATACTCTTGA
66 ACA-AAATACTCTAGA
44185442 TTTACAAAATTA-TAGAAATACCC
1 TTTACAAAATTACTA-AAATACCC
44185465 TTGACTTTCA
Statistics
Matches: 150, Mismatches: 27, Indels: 15
0.78 0.14 0.08
Matches are distributed among these distances:
80 17 0.11
81 133 0.89
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (80 bp):
TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
ACAAAATACTCTAGA
Found at i:44185467 original size:27 final size:27
Alignment explanation
Indices: 44185204--44185527 Score: 187
Period size: 27 Copynumber: 12.0 Consensus size: 27
44185194 GGCTGGTTTA
* * *
44185204 CAAAATTACTG-AATACCCTTGGTTTA
1 CAAAATTACAGAAATACCCTTGATTTG
* * *
44185230 CAAAATTACCA-AAACACCCTTAATTAG
1 CAAAATTA-CAGAAATACCCTTGATTTG
* *
44185257 CAAAATTACCA-AAATACATCTAG-TTTG
1 CAAAATTA-CAGAAATAC-CCTTGATTTG
* * *
44185284 TAAAATTACCA-AAATACCCCTGGTTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
*
44185311 TAAAATTACCA-AAATACCCTTGATTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
** * ** **
44185338 TGAAAGTACCTAAATACCCTCAATTTG
1 CAAAATTACAGAAATACCCTTGATTTG
* * *
44185365 TAAAATTACTA-AAATACCCCTAATTTG
1 CAAAATTAC-AGAAATACCCTTGATTTG
* * * *
44185392 GAAAATTACCGAAATACACTTAATTTG
1 CAAAATTACAGAAATACCCTTGATTTG
* * *
44185419 GAAAATTACAGAAATACTCTTGATTTA
1 CAAAATTACAGAAATACCCTTGATTTG
*
44185446 CAAAATTATAGAAATACCCTTGACTTT-
1 CAAAATTACAGAAATACCCTTGA-TTTG
* ** *
44185473 CAAAAATTACAGAAGTACTATTGGTTTG
1 C-AAAATTACAGAAATACCCTTGATTTG
* * *
44185501 CAAAATTACCGAAATTCCCTTGGTTTG
1 CAAAATTACAGAAATACCCTTGATTTG
44185528 TAGATTTACC
Statistics
Matches: 240, Mismatches: 48, Indels: 19
0.78 0.16 0.06
Matches are distributed among these distances:
26 11 0.05
27 206 0.86
28 23 0.10
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
CAAAATTACAGAAATACCCTTGATTTG
Found at i:44185843 original size:40 final size:41
Alignment explanation
Indices: 44185787--44185905 Score: 177
Period size: 40 Copynumber: 2.9 Consensus size: 41
44185777 GGAGGAAGAA
* *
44185787 ATTGAGGATCAAATGGTTGCTTGACGACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44185828 -TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44185868 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44185906 TCGGTGGCTT
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
40 37 0.52
41 34 0.48
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44185888 original size:41 final size:40
Alignment explanation
Indices: 44185799--44185905 Score: 169
Period size: 41 Copynumber: 2.6 Consensus size: 40
44185789 TGAGGATCAA
* * *
44185799 ATGGTTGCTTGACGACCGTGGCTCCACCGTTGAGGATCGT
1 ATGGTTGCTTGACGACCGTGGATCCACCGTTAAGGATCGC
44185839 ATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATCGC
1 ATGGTTGCTTGACGACCGTGGATCCACCG-TTAAGGATCGC
*
44185880 ATGGTTGCTTGACGACTGTGGATCCA
1 ATGGTTGCTTGACGACCGTGGATCCA
44185906 TCGGTGGCTT
Statistics
Matches: 62, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
40 28 0.45
41 34 0.55
ACGTcount: A:0.19, C:0.23, G:0.31, T:0.27
Consensus pattern (40 bp):
ATGGTTGCTTGACGACCGTGGATCCACCGTTAAGGATCGC
Found at i:44186024 original size:26 final size:26
Alignment explanation
Indices: 44185992--44186051 Score: 120
Period size: 26 Copynumber: 2.3 Consensus size: 26
44185982 TATATTACCA
44185992 AAAATTACTGAATACCCTTGGTTTAC
1 AAAATTACTGAATACCCTTGGTTTAC
44186018 AAAATTACTGAATACCCTTGGTTTAC
1 AAAATTACTGAATACCCTTGGTTTAC
44186044 AAAATTAC
1 AAAATTAC
44186052 CAAAATACCC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.38, C:0.18, G:0.10, T:0.33
Consensus pattern (26 bp):
AAAATTACTGAATACCCTTGGTTTAC
Found at i:44186117 original size:27 final size:27
Alignment explanation
Indices: 44186044--44186186 Score: 148
Period size: 27 Copynumber: 5.3 Consensus size: 27
44186034 CTTGGTTTAC
* * * *
44186044 AAAATTACCAAAATA-CCCTCAAATAGA
1 AAAATTACCTAAATACCCCT-AATTTGT
* *
44186071 AAAATTACCAAAAATACCCCTAGTTTGT
1 AAAATTACC-TAAATACCCCTAATTTGT
44186099 AAAATTACCTAAATACCCCTAATTTGT
1 AAAATTACCTAAATACCCCTAATTTGT
* *
44186126 GAAATTACCTAAATA-CCCTAAATTTTT
1 AAAATTACCTAAATACCCCT-AATTTGT
*
44186153 AAAATTA-CTAAAATACCCCTAATTTGG
1 AAAATTACCT-AAATACCCCTAATTTGT
44186180 AAAATTA
1 AAAATTA
44186187 GAGAAATACT
Statistics
Matches: 100, Mismatches: 11, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
26 6 0.06
27 68 0.68
28 22 0.22
29 4 0.04
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.29
Consensus pattern (27 bp):
AAAATTACCTAAATACCCCTAATTTGT
Found at i:44186211 original size:54 final size:54
Alignment explanation
Indices: 44186018--44186269 Score: 156
Period size: 54 Copynumber: 4.6 Consensus size: 54
44186008 CTTGGTTTAC
* * * * * * *
44186018 AAAATTACTG-AATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCAAATAGA
1 AAAATTACAGAAATACTCTTGATTTACAAAATTACTAAAATACCCCT-AATTTGG
* * * **
44186071 AAAATTACCAAAAATACCCCT-AGTTTGTAAAATTACCT-AAATACCCCTAATTTGTG
1 AAAATTA-CAGAAATACTCTTGA-TTTACAAAATTA-CTAAAATACCCCTAATTTG-G
** * ** **
44186127 -AAATTACCTAAATACCCTAAATTTTTAAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACAGAAATACTCTTGATTTACAAAATTACTAAAATACCCCTAATTTGG
* * * **
44186180 AAAATTAGAGAAATACTCTTGATTTACAAAATTA-TAGAAATACCCTTGACTTTCA
1 AAAATTACAGAAATACTCTTGATTTACAAAATTACTA-AAATACCCCT-AATTTGG
* * *
44186235 AAAATTACAGAAATACTATTGGTTTGCAAAATTAC
1 AAAATTACAGAAATACTCTTGATTTACAAAATTAC
44186270 CGAAATGTAC
Statistics
Matches: 156, Mismatches: 31, Indels: 21
0.75 0.15 0.10
Matches are distributed among these distances:
53 12 0.08
54 71 0.46
55 68 0.44
56 5 0.03
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.31
Consensus pattern (54 bp):
AAAATTACAGAAATACTCTTGATTTACAAAATTACTAAAATACCCCTAATTTGG
Found at i:44186247 original size:28 final size:27
Alignment explanation
Indices: 44185992--44186275 Score: 123
Period size: 27 Copynumber: 10.5 Consensus size: 27
44185982 TATATTACCA
* *
44185992 AAAATTACTG-AATACCCTTGGTTTAC
1 AAAATTACAGAAATACCCTTGATTTAC
* *
44186018 AAAATTACTG-AATACCCTTGGTTTAC
1 AAAATTACAGAAATACCCTTGATTTAC
* ** *
44186044 AAAATTACCA-AAATACCC-TCAAATAGA
1 AAAATTA-CAGAAATACCCTTGATTTA-C
* * **
44186071 AAAATTACCAAAAATACCCCT-AGTTTGT
1 AAAATTA-CAGAAATACCCTTGA-TTTAC
** * * **
44186099 AAAATTACCTAAATACCCCTAATTTGT
1 AAAATTACAGAAATACCCTTGATTTAC
* ** ** **
44186126 GAAATTACCTAAATACCCTAAATTTTT
1 AAAATTACAGAAATACCCTTGATTTAC
* * **
44186153 AAAATTACTA-AAATACCCCTAATTTGG
1 AAAATTAC-AGAAATACCCTTGATTTAC
* *
44186180 AAAATTAGAGAAATACTCTTGATTTAC
1 AAAATTACAGAAATACCCTTGATTTAC
*
44186207 AAAATTATAGAAATACCCTTGACTTT-C
1 AAAATTACAGAAATACCCTTGA-TTTAC
** * *
44186234 AAAAATTACAGAAATACTATTGGTTTGC
1 -AAAATTACAGAAATACCCTTGATTTAC
*
44186262 AAAATTACCGAAAT
1 AAAATTACAGAAAT
44186276 GTACTTGGTT
Statistics
Matches: 211, Mismatches: 35, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
26 37 0.18
27 133 0.63
28 39 0.18
29 2 0.01
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACAGAAATACCCTTGATTTAC
Found at i:44186603 original size:40 final size:41
Alignment explanation
Indices: 44186547--44186665 Score: 143
Period size: 40 Copynumber: 2.9 Consensus size: 41
44186537 GGAGGAAGAA
* *
44186547 ATTGAGGATCGAATGGTTGCTTGATGACCATGGCTCCACC-
1 ATTGAGGATCGAATGGTTGCTTGACGACCATGGATCCACCG
* * *
44186587 ATTGAGGATCGTATGGTTGCTTGACGACCGTGTATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCATGGATCCACCG
* **
44186628 ATTAAGGATC-ACATGGTTGCTTGACGACCGCGGATCCA
1 ATTGAGGATCGA-ATGGTTGCTTGACGACCATGGATCCA
44186666 TCGGTGGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 35 0.51
41 33 0.49
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCATGGATCCACCG
Found at i:44186648 original size:41 final size:39
Alignment explanation
Indices: 44186551--44186665 Score: 131
Period size: 41 Copynumber: 2.8 Consensus size: 39
44186541 GAAGAAATTG
* * * *
44186551 AGGATCGAATGGTTGCTTGATGACCATGGCTCCACCATTG
1 AGGATC-AATGGTTGCTTGACGACCGTGGATCCACCATTA
* *
44186591 AGGATCGTATGGTTGCTTGACGACCGTGTATCCACCGATTA
1 AGGATC-AATGGTTGCTTGACGACCGTGGATCCACC-ATTA
*
44186632 AGGATCACATGGTTGCTTGACGACCGCGGATCCA
1 AGGATCA-ATGGTTGCTTGACGACCGTGGATCCA
44186666 TCGGTGGCTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
40 31 0.48
41 33 0.52
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.26
Consensus pattern (39 bp):
AGGATCAATGGTTGCTTGACGACCGTGGATCCACCATTA
Found at i:44186716 original size:760 final size:759
Alignment explanation
Indices: 44185312--44186750 Score: 2503
Period size: 760 Copynumber: 1.9 Consensus size: 759
44185302 CCTGGTTTGT
* *
44185312 AAAATTACCAAAATACCCTTGATTTGTGAAAGTACCTAAATACCCTCAATTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTAGATTTGTAAAAGTACCTAAATACCCTCAATTTGTAAAATTACTAA
* *
44185377 AATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGGAAAATTACAGAAATACTCTTGA
66 AATACCCCTAATTTGGAAAATTACCAAAATACACCTAATTTGGAAAATTACAGAAATACTCTTGA
*
44185442 TTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAGAAGTACTATTGGTTTGCAAAAT
131 TTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAGAAATACTATTGGTTTGCAAAAT
*
44185507 TACCGAAATTCCCTTGGTTTGTAGATTTACCAAAACACCTTTGTAGGGTGAAATGACTAAAATAC
196 TACCGAAATTCACTTGGTTTGTAGATTTACCAAAACACCTTTGTAGGGTGAAATGACTAAAATAC
*
44185572 CCCTAATAGGTAAAAAGACCGTTCTGCCGCTCTAAGGTATATGACTCACTAATAATACAATTTGA
261 CCCTAATAGGAAAAAAGACCGTTCTGCCGCTCTAAGGTATATGACTCACTAATAATACAATTTGA
*
44185637 TTGATTTGACTATGTTTTGACTGAGCATGTATGACTCTTATTGGACTGTTGTGACTGTGATTTGT
326 TTGATTTGACTATGTTTTGACTGAGCATGTATGACTCTGATTGGACTGTTGTGACTGTGATTTGT
*
44185702 ATGATTTTGTATGTCGTGTGTATATTTGCTGCATTCATATAATATTATGTTGCACATGGGTGGGG
391 ATGATTTTGTATGCCGTGTGTATATTTGCTGCATTCATATAATATTATGTTGCACATGGGTGGGG
* *
44185767 ATTATGAAACGGAGGAAGAAATTGAGGATCAAATGGTTGCTTGACGACCGTGGCTCCACCGTTGA
456 ATTATGAAACGGAGGAAGAAATTGAGGATCAAATGGTTGCTTGACGACCATGGCTCCACCATTGA
* *
44185832 GGATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATCGCATGGTTGCTTGACGACT
521 GGATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATCACATGGTTGCTTGACGACC
* *
44185897 GTGGATCCATCGGTGGCTTTTAAGCCCAATATATGATTATTGATGACTCTGTATCGATCATAATT
586 GCGGATCCATCGGTGGCTTTTAAGCCCAATATATGATTATTGATGACTCTGTATCGATCAGAATT
* **
44185962 ACCCGAGGCTGTGTGCTGACTATATTACCAAAAATTACTGAATACCCTTGGTTTACAAAATTACT
651 ACCCGACGCTGTGTGCCAACTATATTACCAAAAATTACTGAATACCCTTGGTTTACAAAATTACT
44186027 GAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAAATAGA
716 GAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAAATAGA
* *
44186071 AAAATTACCAAAAATACCCCTAG-TTTGTAAAATTACCTAAATACCC-CTAATTTGTGAAATTAC
1 AAAATTACC-AAAATA-CCCTAGATTTGTAAAAGTACCTAAATACCCTC-AATTTGTAAAATTA-
** * * *
44186134 CT-AAATA-CCCTAAATTTTTAAAATTACTAAAATACCCCTAATTTGGAAAATTAGAGAAATACT
62 CTAAAATACCCCT-AATTTGGAAAATTACCAAAATACACCTAATTTGGAAAATTACAGAAATACT
44186197 CTTGATTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAGAAATACTATTGGTTTGC
126 CTTGATTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAGAAATACTATTGGTTTGC
44186262 AAAATTACCGAAATGT-ACTTGGTTTGTAGATTTACCAAAACA-CTATTGTAGGGTGAAATGACT
191 AAAATTACCGAAAT-TCACTTGGTTTGTAGATTTACCAAAACACCT-TTGTAGGGTGAAATGACT
44186325 AAAATACCCCTAATAGGAAAAAAGACCGTTCTGCCGCTCTAAGGTATATGACTCACTAATAATAC
254 AAAATACCCCTAATAGGAAAAAAGACCGTTCTGCCGCTCTAAGGTATATGACTCACTAATAATAC
*
44186390 AATTTGATTGATTTGACTATGTTTTGACTGAGCATGTATGACTCTGATTGGACTGTTTTGACTGT
319 AATTTGATTGATTTGACTATGTTTTGACTGAGCATGTATGACTCTGATTGGACTGTTGTGACTGT
44186455 GATTTGTATGATTTTGTATGCCGTGTGTATATTTGCTGCATTCATATAATATTATGTTGCACATG
384 GATTTGTATGATTTTGTATGCCGTGTGTATATTTGCTGCATTCATATAATATTATGTTGCACATG
* * *
44186520 GGTGGGGATTATGAAATGGAGGAAGAAATTGAGGATCGAATGGTTGCTTGATGACCATGGCTCCA
449 GGTGGGGATTATGAAACGGAGGAAGAAATTGAGGATCAAATGGTTGCTTGACGACCATGGCTCCA
*
44186585 CCATTGAGGATCGTATGGTTGCTTGACGACCGTGTATCCACCGATTAAGGATCACATGGTTGCTT
514 CCATTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATCACATGGTTGCTT
44186650 GACGACCGCGGATCCATCGGTGGCTTTTAAGCCCAATATATGATTATTGATGACTCTGTATCGAT
579 GACGACCGCGGATCCATCGGTGGCTTTTAAGCCCAATATATGATTATTGATGACTCTGTATCGAT
44186715 CAGAATTACCCGACGCTGTGTGCCAACTATATTACC
644 CAGAATTACCCGACGCTGTGTGCCAACTATATTACC
44186751 GTTGCTGATG
Statistics
Matches: 643, Mismatches: 30, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
759 16 0.02
760 619 0.96
761 8 0.01
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.32
Consensus pattern (759 bp):
AAAATTACCAAAATACCCTAGATTTGTAAAAGTACCTAAATACCCTCAATTTGTAAAATTACTAA
AATACCCCTAATTTGGAAAATTACCAAAATACACCTAATTTGGAAAATTACAGAAATACTCTTGA
TTTACAAAATTATAGAAATACCCTTGACTTTCAAAAATTACAGAAATACTATTGGTTTGCAAAAT
TACCGAAATTCACTTGGTTTGTAGATTTACCAAAACACCTTTGTAGGGTGAAATGACTAAAATAC
CCCTAATAGGAAAAAAGACCGTTCTGCCGCTCTAAGGTATATGACTCACTAATAATACAATTTGA
TTGATTTGACTATGTTTTGACTGAGCATGTATGACTCTGATTGGACTGTTGTGACTGTGATTTGT
ATGATTTTGTATGCCGTGTGTATATTTGCTGCATTCATATAATATTATGTTGCACATGGGTGGGG
ATTATGAAACGGAGGAAGAAATTGAGGATCAAATGGTTGCTTGACGACCATGGCTCCACCATTGA
GGATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATCACATGGTTGCTTGACGACC
GCGGATCCATCGGTGGCTTTTAAGCCCAATATATGATTATTGATGACTCTGTATCGATCAGAATT
ACCCGACGCTGTGTGCCAACTATATTACCAAAAATTACTGAATACCCTTGGTTTACAAAATTACT
GAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAAATAGA
Found at i:44186862 original size:22 final size:22
Alignment explanation
Indices: 44186810--44186874 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
44186800 TCCAATTATT
**
44186810 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44186832 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44186854 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44186875 ACGAATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44187344 original size:27 final size:27
Alignment explanation
Indices: 44187265--44187469 Score: 175
Period size: 27 Copynumber: 7.6 Consensus size: 27
44187255 CTTGGTTTAC
***
44187265 AAAATTACCAAAATA-CCCTCAATTAAC
1 AAAATTACCAAAATACCCCT-AATTTGT
* *
44187292 AAAATTACCAAAAAACCTCTAATTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
**
44187319 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTAATTTGT
* *
44187346 AAAAATTACCAAAATACCCTTGATTTGT
1 -AAAATTACCAAAATACCCCTAATTTGT
* * *
44187374 GAACTTACCTAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-AATTTGT
* *
44187401 AAAATTACTAAAATACTCCTAATTTG-
1 AAAATTACCAAAATACCCCTAATTTGT
* * * * *
44187427 GAAATTACCAAAATACACTTAATTAGG
1 AAAATTACCAAAATACCCCTAATTTGT
44187454 AAAATTA-CAGAAATAC
1 AAAATTACCA-AAATAC
44187470 TCTTGATATA
Statistics
Matches: 145, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
26 26 0.18
27 88 0.61
28 31 0.21
ACGTcount: A:0.45, C:0.20, G:0.06, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTAATTTGT
Found at i:44187484 original size:27 final size:28
Alignment explanation
Indices: 44187454--44187525 Score: 94
Period size: 27 Copynumber: 2.6 Consensus size: 28
44187444 CTTAATTAGG
44187454 AAAATTACAGAAATACTCTTGA-TATAC-
1 AAAATTACAGAAATACTCTTGACT-TACA
* * *
44187481 AAAATTATAGAAATACCCTTGACTTTCA
1 AAAATTACAGAAATACTCTTGACTTACA
44187509 AAAATTACAGAAATACT
1 AAAATTACAGAAATACT
44187526 ATTGGTTTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
27 22 0.58
28 16 0.42
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAATTACAGAAATACTCTTGACTTACA
Found at i:44187538 original size:28 final size:27
Alignment explanation
Indices: 44187454--44187539 Score: 93
Period size: 28 Copynumber: 3.1 Consensus size: 27
44187444 CTTAATTAGG
*
44187454 AAAATTACAGAAATACTCTTGATAT-A
1 AAAATTACAGAAATACTCTTGATTTCA
* *
44187480 CAAAATTATAGAAATACCCTTGACTTTCA
1 -AAAATTACAGAAATACTCTTGA-TTTCA
* *
44187509 AAAATTACAGAAATACTATTGGTTTGCA
1 AAAATTACAGAAATACTCTTGATTT-CA
44187537 AAA
1 AAA
44187540 TTATCGAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
27 23 0.47
28 25 0.51
29 1 0.02
ACGTcount: A:0.47, C:0.14, G:0.09, T:0.30
Consensus pattern (27 bp):
AAAATTACAGAAATACTCTTGATTTCA
Found at i:44187879 original size:40 final size:41
Alignment explanation
Indices: 44187821--44187939 Score: 168
Period size: 40 Copynumber: 2.9 Consensus size: 41
44187811 GGAGGAAGAA
* * *
44187821 ATTGAGGATCGAAGGGTTGCTTGACGATCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44187862 -TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44187902 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44187940 TCGGTGGCTT
Statistics
Matches: 70, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
40 36 0.51
41 34 0.49
ACGTcount: A:0.20, C:0.21, G:0.32, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44187922 original size:41 final size:40
Alignment explanation
Indices: 44187825--44187939 Score: 158
Period size: 41 Copynumber: 2.9 Consensus size: 40
44187815 GAAGAAATTG
* * * *
44187825 AGGATCGAAGGGTTGCTTGACGATCGTGGCTCCACCGTTG
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGTTA
*
44187865 AGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG-TTA
* *
44187906 AGGATCGCATGGTTGCTTGACGACTGTGGATCCA
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44187940 TCGGTGGCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
40 33 0.49
41 34 0.51
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.26
Consensus pattern (40 bp):
AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGTTA
Found at i:44188136 original size:22 final size:22
Alignment explanation
Indices: 44188084--44188148 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
44188074 TCCAATTATT
**
44188084 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44188106 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44188128 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44188149 ACGAATTTGC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 1 0.03
22 34 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44188556 original size:27 final size:27
Alignment explanation
Indices: 44188505--44188638 Score: 112
Period size: 27 Copynumber: 5.0 Consensus size: 27
44188495 TGGACTGGGC
* **
44188505 TGGTTTAAAAAATTA-CTGAATACCCT
1 TGGTTTACAAAATTACCAAAATACCCT
*
44188531 TGGTTTACAAAATTACCAAAACACCC-
1 TGGTTTACAAAATTACCAAAATACCCT
** *
44188557 TCATTTAGCAAAATTAGCAAAATA-CCT
1 TGGTTTA-CAAAATTACCAAAATACCCT
* ** *
44188584 CTAGTTTGTAAAATTACCAAAATACCCC
1 -TGGTTTACAAAATTACCAAAATACCCT
**
44188612 TGGTTTGTAAAATTACCAAAATACCCT
1 TGGTTTACAAAATTACCAAAATACCCT
44188639 CTAGTTATGT
Statistics
Matches: 87, Mismatches: 16, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
26 21 0.24
27 60 0.69
28 6 0.07
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TGGTTTACAAAATTACCAAAATACCCT
Found at i:44188597 original size:54 final size:55
Alignment explanation
Indices: 44188539--44188644 Score: 144
Period size: 54 Copynumber: 1.9 Consensus size: 55
44188529 CTTGGTTTAC
*
44188539 AAAATTACCAAAACA-CCCTCATTTAGCAAAATTAGCAAAATA-CCTCTAGTTTGT
1 AAAATTACCAAAACACCCCTCATTT-GCAAAATTACCAAAATACCCTCTAGTTTGT
* ** *
44188593 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTCTAGTT
1 AAAATTACCAAAACACCCCTCATTTGCAAAATTACCAAAATACCCTCTAGTT
44188645 ATGTTACTCT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
54 29 0.64
55 16 0.36
ACGTcount: A:0.42, C:0.23, G:0.08, T:0.28
Consensus pattern (55 bp):
AAAATTACCAAAACACCCCTCATTTGCAAAATTACCAAAATACCCTCTAGTTTGT
Found at i:44188823 original size:40 final size:41
Alignment explanation
Indices: 44188767--44188885 Score: 186
Period size: 40 Copynumber: 2.9 Consensus size: 41
44188757 GGAGGAAGAA
* *
44188767 ATTGAGGATCAAATGGTTGCTTGACGACCGTGGCTCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44188808 -TTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* *
44188848 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44188886 TCGGTGGCTT
Statistics
Matches: 72, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
40 37 0.51
41 35 0.49
ACGTcount: A:0.21, C:0.23, G:0.30, T:0.26
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44188868 original size:41 final size:40
Alignment explanation
Indices: 44188779--44188885 Score: 178
Period size: 41 Copynumber: 2.6 Consensus size: 40
44188769 TGAGGATCAA
* * *
44188779 ATGGTTGCTTGACGACCGTGGCTCCACCGTTGAGGATCGT
1 ATGGTTGCTTGACGACCGTGGATCCACCGTTAAGGATCGC
44188819 ATGGTTGCTTGACGACCGTGGATCCACCGATTAAGGATCGC
1 ATGGTTGCTTGACGACCGTGGATCCACCG-TTAAGGATCGC
44188860 ATGGTTGCTTGACGACCGTGGATCCA
1 ATGGTTGCTTGACGACCGTGGATCCA
44188886 TCGGTGGCTT
Statistics
Matches: 63, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
40 28 0.44
41 35 0.56
ACGTcount: A:0.19, C:0.24, G:0.31, T:0.26
Consensus pattern (40 bp):
ATGGTTGCTTGACGACCGTGGATCCACCGTTAAGGATCGC
Found at i:44189573 original size:55 final size:54
Alignment explanation
Indices: 44189470--44189617 Score: 133
Period size: 55 Copynumber: 2.7 Consensus size: 54
44189460 AAAATTACTG
* ** *
44189470 AATACCCTTGGTTTACAAAATTACCAAAATACCCTCAA-ATAGAAAAATTACCAAA
1 AATACCCCTGGTTTGTAAAATTACCTAAATACCCT-AATATAGAAAAATTACC-AA
** *
44189525 AATACCCCTGGTTTGTAAAATTACCTAAATACCACTAATAT-GTGAAATTACCTA
1 AATACCCCTGGTTTGTAAAATTACCTAAATACC-CTAATATAGAAAAATTACCAA
**
44189579 AATA-CCCTCAATTTGTAAAATTA-CTAAAATACCCCTAAT
1 AATACCCCT-GGTTTGTAAAATTACCT-AAATA-CCCTAAT
44189618 TTGGAAAATT
Statistics
Matches: 79, Mismatches: 9, Indels: 11
0.80 0.09 0.11
Matches are distributed among these distances:
53 6 0.08
54 27 0.34
55 42 0.53
56 4 0.05
ACGTcount: A:0.44, C:0.22, G:0.06, T:0.28
Consensus pattern (54 bp):
AATACCCCTGGTTTGTAAAATTACCTAAATACCCTAATATAGAAAAATTACCAA
Found at i:44189654 original size:81 final size:81
Alignment explanation
Indices: 44189460--44189667 Score: 197
Period size: 81 Copynumber: 2.6 Consensus size: 81
44189450 GATGGTTTAC
* *
44189460 AAAATTACTG-AATACCCTTGGTTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
1 AAAATTACAGAAATA-CCTTGATTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
** *
44189524 AAATACCCCTGGTTTGT
65 AAATACCCCTAATTTGG
** * * * *** * * * * *
44189541 AAAATTACCTAAATACCACTAATATGTGAAATTACCTAAATACCCTCAATTTGTAAAATTA-CTA
1 AAAATTACAGAAATACC-TTGATTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
44189605 AAATACCCCTAATTTGG
65 AAATACCCCTAATTTGG
44189622 AAAATTACAGAAATACTCTTGATTTACAAAATTA-CAGAAATACCCT
1 AAAATTACAGAAATAC-CTTGATTTACAAAATTACCA-AAATACCCT
44189668 TGACTTTCAA
Statistics
Matches: 97, Mismatches: 26, Indels: 8
0.74 0.20 0.06
Matches are distributed among these distances:
80 1 0.01
81 59 0.61
82 37 0.38
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (81 bp):
AAAATTACAGAAATACCTTGATTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAAA
AATACCCCTAATTTGG
Found at i:44189725 original size:27 final size:27
Alignment explanation
Indices: 44189452--44189729 Score: 134
Period size: 27 Copynumber: 10.3 Consensus size: 27
44189442 TGGACTGGGA
* *
44189452 TGGTTTACAAAATTACTG-AATACCCT
1 TGGTTTGCAAAATTACAGAAATACCCT
*
44189478 TGGTTTACAAAATTACCA-AAATACCCT
1 TGGTTTGCAAAATTA-CAGAAATACCCT
**** * * * *
44189505 CAAATAGAAAAATTACCAAAAATACCCC
1 TGGTTTGCAAAATTA-CAGAAATACCCT
* **
44189533 TGGTTTGTAAAATTACCTAAATACCAC-
1 TGGTTTGCAAAATTACAGAAATACC-CT
** * ** **
44189560 TAATATGTGAAATTACCTAAATACCCT
1 TGGTTTGCAAAATTACAGAAATACCCT
*** * *
44189587 CAATTTGTAAAATTACTA-AAATACCCC
1 TGGTTTGCAAAATTAC-AGAAATACCCT
** * *
44189614 TAATTTGGAAAATTACAGAAATACTCT
1 TGGTTTGCAAAATTACAGAAATACCCT
* *
44189641 TGATTTACAAAATTACAGAAATACCCT
1 TGGTTTGCAAAATTACAGAAATACCCT
* **
44189668 TGACTTT-CAAAAATTACAGAAATACTAT
1 TG-GTTTGC-AAAATTACAGAAATACCCT
* *
44189696 TGGTTTGCAAAATTACCGAAATGCCCT
1 TGGTTTGCAAAATTACAGAAATACCCT
44189723 TGGTTTG
1 TGGTTTG
44189730 TAGATTTACC
Statistics
Matches: 200, Mismatches: 42, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
26 17 0.09
27 142 0.71
28 41 0.20
ACGTcount: A:0.41, C:0.19, G:0.10, T:0.31
Consensus pattern (27 bp):
TGGTTTGCAAAATTACAGAAATACCCT
Found at i:44190045 original size:40 final size:41
Alignment explanation
Indices: 44189989--44190107 Score: 159
Period size: 40 Copynumber: 2.9 Consensus size: 41
44189979 GGAGGAAGAA
* *
44189989 ATTGAGGATCGAATGGTTGCTTGACGATCGTGGCTCCACC-
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCT
* *
44190029 GTTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCT
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCT
* * * *
44190070 ATTAAGGATCGCATGGTTGCTTGACGGCTGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44190108 TCGGTGGCTT
Statistics
Matches: 69, Mismatches: 9, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 36 0.52
41 33 0.48
ACGTcount: A:0.19, C:0.21, G:0.31, T:0.29
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCT
Found at i:44190304 original size:22 final size:22
Alignment explanation
Indices: 44190252--44190316 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44190242 TCCAATTATT
* **
44190252 CTGATTATGGGTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
*
44190274 CT-ACATATGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44190296 CTGATTATGGCTGTGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44190317 ACGAATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.22, C:0.23, G:0.23, T:0.32
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44190736 original size:27 final size:27
Alignment explanation
Indices: 44190707--44190910 Score: 209
Period size: 27 Copynumber: 7.6 Consensus size: 27
44190697 CTTGGTTTAC
* *
44190707 AAAATTACCAAAATACCCTCAATTAGC
1 AAAATTACCAAAATACCCTCAATTTGT
*
44190734 AAAATTACCAAAATA-CCTCTATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
**
44190760 AAAATTACCAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-AATTTGT
* **
44190787 TAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
** *
44190814 GTAATTACCTAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
* *
44190841 AAAATTACTAAAATACCC-CTAATTTGG
1 AAAATTACCAAAATACCCTC-AATTTGT
* * *
44190868 AAAATTACCAAAATACACTTAATTTGG
1 AAAATTACCAAAATACCCTCAATTTGT
44190895 AAAATTA-CAGAAATAC
1 AAAATTACCA-AAATAC
44190911 TCTTGATTTA
Statistics
Matches: 150, Mismatches: 21, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
26 27 0.18
27 123 0.82
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAATTTGT
Found at i:44190875 original size:81 final size:80
Alignment explanation
Indices: 44190707--44190910 Score: 248
Period size: 81 Copynumber: 2.5 Consensus size: 80
44190697 CTTGGTTTAC
* * *
44190707 AAAATTACCAAAATACCCTCAATTAGCAAAATTACCAAAATACCTCTATTTGTAAAATTACCAAA
1 AAAATTACCAAAATACCCTTAATTTGCAAAATTACCAAAATACCTCAATTTGTAAAATTACCAAA
** *
44190772 ATACCCCTGGTTTGT
66 ATACCCCTAATTTGG
* * *** * *
44190787 TAAATTACCAAAATACCCTTGATTTGTGTAATTACCTAAATACCCTCAATTTGTAAAATTACTAA
1 AAAATTACCAAAATACCCTTAATTTGCAAAATTACCAAAATA-CCTCAATTTGTAAAATTACCAA
44190852 AATACCCCTAATTTGG
65 AATACCCCTAATTTGG
* *
44190868 AAAATTACCAAAATACACTTAATTTGGAAAATTA-CAGAAATAC
1 AAAATTACCAAAATACCCTTAATTTGCAAAATTACCA-AAATAC
44190911 TCTTGATTTA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
80 36 0.35
81 66 0.65
ACGTcount: A:0.43, C:0.20, G:0.07, T:0.30
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTAATTTGCAAAATTACCAAAATACCTCAATTTGTAAAATTACCAAA
ATACCCCTAATTTGG
Found at i:44190919 original size:27 final size:27
Alignment explanation
Indices: 44190680--44191001 Score: 180
Period size: 27 Copynumber: 12.0 Consensus size: 27
44190670 GGCCGGTTTA
* * *
44190680 CAAAATTACTG-AATACCCTTGGTTTA
1 CAAAATTACAGAAATACCCTTGATTTG
** *
44190706 CAAAATTACCA-AAATACCCTCAATTAG
1 CAAAATTA-CAGAAATACCCTTGATTTG
44190733 CAAAATTACCA-AAATA-CCTCT-ATTTG
1 CAAAATTA-CAGAAATACCCT-TGATTTG
* * *
44190759 TAAAATTACCA-AAATACCCCTGGTTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
**
44190786 TTAAATTACCA-AAATACCCTTGATTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
*** ** **
44190813 TGTAATTACCTAAATACCCTCAATTTG
1 CAAAATTACAGAAATACCCTTGATTTG
* * *
44190840 TAAAATTACTA-AAATACCCCTAATTTG
1 CAAAATTAC-AGAAATACCCTTGATTTG
* * *
44190867 GAAAATTACCA-AAATACACTTAATTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
* * *
44190894 GAAAATTACAGAAATACTCTTGATTTA
1 CAAAATTACAGAAATACCCTTGATTTG
*
44190921 CAAAATTA-AAAAATACCCTTGACTTT-
1 CAAAATTACAGAAATACCCTTGA-TTTG
** *
44190947 CAAAAATTACAGAAATACTATTGGTTTG
1 C-AAAATTACAGAAATACCCTTGATTTG
* * *
44190975 CAAAATTACCGAAATGCCCTTGGTTTG
1 CAAAATTACAGAAATACCCTTGATTTG
44191002 TAGATTTACC
Statistics
Matches: 242, Mismatches: 41, Indels: 25
0.79 0.13 0.08
Matches are distributed among these distances:
26 47 0.19
27 183 0.76
28 12 0.05
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.32
Consensus pattern (27 bp):
CAAAATTACAGAAATACCCTTGATTTG
Found at i:44190926 original size:54 final size:53
Alignment explanation
Indices: 44190681--44190995 Score: 249
Period size: 54 Copynumber: 5.9 Consensus size: 53
44190671 GCCGGTTTAC
** * * * * *
44190681 AAAATTACTGAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATTAGC
1 AAAATTACAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
* * **
44190734 AAAATTACCAAAATA-CCTCT-ATTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTA-CAAAATACCCT-TGATTTGCAAAATTACCAAAATACCCTTAATTTGT
* *** * *
44190787 TAAATTACCAAAATACCCTTGATTTGTGTAATTACCTAAATACCCTCAATTTGT
1 AAAATTA-CAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
* * * * *
44190841 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGG
1 AAAATTAC-AAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
* * * * **
44190895 AAAATTACAGAAATACTCTTGATTTACAAAATTA-AAAAATACCCTTGACTTTCA
1 AAAATTACA-AAATACCCTTGATTTGCAAAATTACCAAAATACCCTT-AATTTGT
** * * *
44190949 AAAATTACAGAAATACTATTGGTTTGCAAAATTACCGAAATGCCCTT
1 AAAATTACA-AAATACCCTTGATTTGCAAAATTACCAAAATACCCTT
44190996 GGTTTGTAGA
Statistics
Matches: 209, Mismatches: 45, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
53 61 0.29
54 139 0.67
55 9 0.04
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (53 bp):
AAAATTACAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTTAATTTGT
Found at i:44190926 original size:81 final size:78
Alignment explanation
Indices: 44190676--44190938 Score: 226
Period size: 81 Copynumber: 3.3 Consensus size: 78
44190666 ACTGGGCCGG
* * * * * *
44190676 TTTACAAAATTACT-GAATACCCTTGGTTTACAAAATTACCAAAATACCCTCAATTAGCAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
44190740 ACCAAAATACCTCTA
66 A-CAAAATACCT-TA
** * ** * *
44190755 TTTGTAAAATTACCAAAATACCCCTGGTTTGTTAAATTACCAAAATACCCTTGATTTGTG-TAAT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTG-GAAAAT
* *
44190819 TACCTAAATACCCTCAA
65 TA-CAAAATA-CCT-TA
** ** * *
44190836 TTTGTAAAATTACTAAAATACCCCTAATTTGGAAAATTACCAAAATACACTTAATTTGGAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
44190901 ACAGAAATACTCTTGA
66 ACA-AAATAC-CTT-A
*
44190917 TTTACAAAATTA-AAAAATACCC
1 TTTACAAAATTACTAAAATACCC
44190939 TTGACTTTCA
Statistics
Matches: 149, Mismatches: 28, Indels: 13
0.78 0.15 0.07
Matches are distributed among these distances:
79 11 0.07
80 59 0.40
81 79 0.53
ACGTcount: A:0.42, C:0.19, G:0.07, T:0.32
Consensus pattern (78 bp):
TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
ACAAAATACCTTA
Found at i:44191317 original size:40 final size:41
Alignment explanation
Indices: 44191261--44191379 Score: 161
Period size: 40 Copynumber: 2.9 Consensus size: 41
44191251 GGAGGAATTA
*
44191261 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGCTCCACC-
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * * *
44191301 ATTGAGGATCGTATGGTTACTTGACAACCATGGATCCACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
*
44191342 A-TGAAGGATCGCATGGTTGCTTGACGACCGTGGATCCA
1 ATTG-AGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44191380 TCGGTGGCTT
Statistics
Matches: 68, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
40 37 0.54
41 31 0.46
ACGTcount: A:0.24, C:0.23, G:0.29, T:0.25
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44192147 original size:81 final size:82
Alignment explanation
Indices: 44191953--44192160 Score: 215
Period size: 81 Copynumber: 2.6 Consensus size: 82
44191943 GACGGTTTAC
* * *
44191953 AAAATTACTG-AATACCCTTGGTTTACAAAATTACCAAAATACCATCAAATAGAAAAATTACCAA
1 AAAATTACAGAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
** *
44192017 AAATACCCCTGGTTTGT
66 AAATACCCCTAATTTGG
** * * *** * * * * *
44192034 AAAATTACCTAAATACCCCTAATTTGTGAAATTACCTAAATACCCTCAATTTGTAAAATTA-CTA
1 AAAATTACAGAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
44192098 AAATACCCCTAATTTGG
66 AAATACCCCTAATTTGG
*
44192115 AAAATTACAGAAATACTCTTGATTTACAAAATTA-CAGAAATACCCT
1 AAAATTACAGAAATACCCTTGATTTACAAAATTACCA-AAATACCCT
44192161 TGACTTTCAA
Statistics
Matches: 99, Mismatches: 26, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
80 1 0.01
81 59 0.60
82 39 0.39
ACGTcount: A:0.44, C:0.20, G:0.07, T:0.29
Consensus pattern (82 bp):
AAAATTACAGAAATACCCTTGATTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
AAATACCCCTAATTTGG
Found at i:44192209 original size:27 final size:27
Alignment explanation
Indices: 44191952--44192210 Score: 162
Period size: 27 Copynumber: 9.6 Consensus size: 27
44191942 GGACGGTTTA
* * *
44191952 CAAAATTACTG-AATACCCTTGGTTTA
1 CAAAATTACCGAAATACCCTTGATTTG
* * ** * *
44191978 CAAAATTACCAAAATACCATCAAATAG
1 CAAAATTACCGAAATACCCTTGATTTG
* * * *
44192005 AAAAATTACCAAAAATACCCCTGGTTTG
1 CAAAATTACC-GAAATACCCTTGATTTG
* * * *
44192033 TAAAATTACCTAAATACCCCTAATTTG
1 CAAAATTACCGAAATACCCTTGATTTG
** * **
44192060 TGAAATTACCTAAATACCCTCAATTTG
1 CAAAATTACCGAAATACCCTTGATTTG
* ** * *
44192087 TAAAATTACTAAAATACCCCTAATTTG
1 CAAAATTACCGAAATACCCTTGATTTG
* * * *
44192114 GAAAATTACAGAAATACTCTTGATTTA
1 CAAAATTACCGAAATACCCTTGATTTG
*
44192141 CAAAATTACAGAAATACCCTTGACTTT-
1 CAAAATTACCGAAATACCCTTGA-TTTG
* * *
44192168 CAAAAATTACAGAAATACCATTGGTTTG
1 C-AAAATTACCGAAATACCCTTGATTTG
44192196 CAAAATTACCGAAAT
1 CAAAATTACCGAAAT
44192211 GCCTTTGGTT
Statistics
Matches: 187, Mismatches: 41, Indels: 9
0.79 0.17 0.04
Matches are distributed among these distances:
26 9 0.05
27 135 0.72
28 43 0.23
ACGTcount: A:0.43, C:0.19, G:0.08, T:0.29
Consensus pattern (27 bp):
CAAAATTACCGAAATACCCTTGATTTG
Found at i:44192218 original size:27 final size:27
Alignment explanation
Indices: 44192110--44192222 Score: 113
Period size: 27 Copynumber: 4.1 Consensus size: 27
44192100 ATACCCCTAA
* *
44192110 TTTGGAAAATTACAGAAATACTC-TTGA
1 TTTGCAAAATTACAGAAATAC-CATTGG
* * *
44192137 TTTACAAAATTACAGAAATACCCTTGAC
1 TTTGCAAAATTACAGAAATACCATTG-G
44192165 TTT-CAAAAATTACAGAAATACCATTGG
1 TTTGC-AAAATTACAGAAATACCATTGG
* * *
44192192 TTTGCAAAATTACCGAAATGCCTTTGG
1 TTTGCAAAATTACAGAAATACCATTGG
44192219 TTTG
1 TTTG
44192223 TAGATTTACC
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
26 1 0.01
27 49 0.66
28 24 0.32
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.33
Consensus pattern (27 bp):
TTTGCAAAATTACAGAAATACCATTGG
Found at i:44192538 original size:40 final size:41
Alignment explanation
Indices: 44192482--44192600 Score: 177
Period size: 40 Copynumber: 2.9 Consensus size: 41
44192472 GGAGGAAGAA
*
44192482 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGCTCCACC-
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCT
* *
44192522 GTTGAGGATCGTATGGTTGCTTGACGACCGTGGATCCACCT
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCT
* * *
44192563 ATTAAGGATCGCATGGTTGCTTGACGACTGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44192601 TCGGTGGCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
40 37 0.52
41 34 0.48
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCT
Found at i:44192800 original size:22 final size:22
Alignment explanation
Indices: 44192745--44192809 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
44192735 TCCAATTATT
**
44192745 CTGATTATGGCTTTGCACCAAC
1 CTGATTATGGCTTTGTGCCAAC
* *
44192767 CT-ACATAAGGCTTTGTGCCAAC
1 CTGA-TTATGGCTTTGTGCCAAC
*
44192789 CTGATTATGGCTATGTGCCAA
1 CTGATTATGGCTTTGTGCCAA
44192810 ACGAAATTGC
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
21 1 0.03
22 32 0.94
23 1 0.03
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTTTGTGCCAAC
Found at i:44193229 original size:27 final size:27
Alignment explanation
Indices: 44193200--44193435 Score: 217
Period size: 27 Copynumber: 8.7 Consensus size: 27
44193190 CTTGGTTTAC
* *
44193200 AAAATTACCAAAATACCCTTAATTAGC
1 AAAATTACCAAAATACCCTTAATTTGT
*
44193227 AAAATTACCAAAATA-CCTCTAGTTTGT
1 AAAATTACCAAAATACCCT-TAATTTGT
* **
44193254 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* *
44193281 TAAATTACCAAAATACCCTTGATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * * *
44193308 GAAATTACCTATATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
44193335 AAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACCAAAATACCCTTAATTTGT
* * *
44193362 AAAATTACCGAAATACACTTAATTTGG
1 AAAATTACCAAAATACCCTTAATTTGT
* * **
44193389 AAAATTA-CAGAAATACTCTTGATTTAC
1 AAAATTACCA-AAATACCCTTAATTTGT
*
44193416 AAAATTA-TAGAAATACCCTT
1 AAAATTACCA-AAATACCCTT
44193436 GACTTTCAAA
Statistics
Matches: 175, Mismatches: 31, Indels: 6
0.83 0.15 0.03
Matches are distributed among these distances:
26 4 0.02
27 169 0.97
28 2 0.01
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.32
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTTAATTTGT
Found at i:44193420 original size:54 final size:53
Alignment explanation
Indices: 44193174--44193490 Score: 240
Period size: 54 Copynumber: 5.9 Consensus size: 53
44193164 GCTGGTTTAC
** * * * * *
44193174 AAAATTACTGAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAATTAGC
1 AAAATTACAAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* * * * **
44193227 AAAATTACCAAAATACCTCTAG-TTTGTAAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTA-CAAAATACC-CTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* ** * * *
44193281 TAAATTACCAAAATACCCTTGATTTGTGAAATTACCTATATACCCTCAATTTGT
1 AAAATTA-CAAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* * * * *
44193335 AAAATTACTAAAATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGG
1 AAAATTAC-AAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
* * ** * **
44193389 AAAATTACAGAAATACTCTTGATTTACAAAATTATAGAAATACCCTTGACTTTCA
1 AAAATTACA-AAATACCCTTGATTTGCAAAATTACCGAAATACCCTT-AATTTGT
** * * *
44193444 AAAATTACAGAAATACTATTGGTTTGCAAAATTACTGAAATGCCCTT
1 AAAATTACA-AAATACCCTTGATTTGCAAAATTACCGAAATACCCTT
44193491 GGTTTGTAGA
Statistics
Matches: 212, Mismatches: 46, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
53 12 0.06
54 152 0.72
55 48 0.23
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (53 bp):
AAAATTACAAAATACCCTTGATTTGCAAAATTACCGAAATACCCTTAATTTGT
Found at i:44193420 original size:81 final size:80
Alignment explanation
Indices: 44193169--44193433 Score: 234
Period size: 81 Copynumber: 3.3 Consensus size: 80
44193159 ACTAGGCTGG
* * * * *
44193169 TTTACAAAATTACT-GAATACCCTTGGTTTACAAAATTACCAAAATACCCTTAATTAGCAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
44193233 ACCAAAATACCTCTAG-
66 A-CAAAATA-CTCTAGA
** * ** *
44193249 TTTGTAAAATTACCAAAATACCCCTGGTTTGTTAAATTACCAAAATACCCTTGATTTGTG-AAAT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTG-GAAAAT
* * *
44193313 TACCTATATACCCTCA-A
65 TA-CAAAATACTCT-AGA
** ** * * *
44193330 TTTGTAAAATTACTAAAATACCCCTAATTTGGAAAATTACCGAAATACACTTAATTTGGAAAATT
1 TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
*
44193395 ACAGAAATACTCTTGA
66 ACA-AAATACTCTAGA
44193411 TTTACAAAATTA-TAGAAATACCC
1 TTTACAAAATTACTA-AAATACCC
44193434 TTGACTTTCA
Statistics
Matches: 149, Mismatches: 28, Indels: 15
0.78 0.15 0.08
Matches are distributed among these distances:
80 18 0.12
81 131 0.88
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.32
Consensus pattern (80 bp):
TTTACAAAATTACTAAAATACCCCTGGTTTGCAAAATTACCAAAATACCCTTAATTTGGAAAATT
ACAAAATACTCTAGA
Found at i:44193436 original size:27 final size:27
Alignment explanation
Indices: 44193173--44193496 Score: 205
Period size: 27 Copynumber: 12.0 Consensus size: 27
44193163 GGCTGGTTTA
* * *
44193173 CAAAATTACTG-AATACCCTTGGTTTA
1 CAAAATTACAGAAATACCCTTGATTTG
* *
44193199 CAAAATTACCA-AAATACCCTTAATTAG
1 CAAAATTA-CAGAAATACCCTTGATTTG
*
44193226 CAAAATTACCA-AAATACCTCTAG-TTTG
1 CAAAATTA-CAGAAATACC-CTTGATTTG
* * *
44193253 TAAAATTACCA-AAATACCCCTGGTTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
**
44193280 TTAAATTACCA-AAATACCCTTGATTTG
1 CAAAATTA-CAGAAATACCCTTGATTTG
** ** * **
44193307 TGAAATTACCTATATACCCTCAATTTG
1 CAAAATTACAGAAATACCCTTGATTTG
* * *
44193334 TAAAATTACTA-AAATACCCCTAATTTG
1 CAAAATTAC-AGAAATACCCTTGATTTG
* * * *
44193361 GAAAATTACCGAAATACACTTAATTTG
1 CAAAATTACAGAAATACCCTTGATTTG
* * *
44193388 GAAAATTACAGAAATACTCTTGATTTA
1 CAAAATTACAGAAATACCCTTGATTTG
*
44193415 CAAAATTATAGAAATACCCTTGACTTT-
1 CAAAATTACAGAAATACCCTTGA-TTTG
** *
44193442 CAAAAATTACAGAAATACTATTGGTTTG
1 C-AAAATTACAGAAATACCCTTGATTTG
* * *
44193470 CAAAATTACTGAAATGCCCTTGGTTTG
1 CAAAATTACAGAAATACCCTTGATTTG
44193497 TAGATTTACC
Statistics
Matches: 245, Mismatches: 43, Indels: 19
0.80 0.14 0.06
Matches are distributed among these distances:
26 11 0.04
27 210 0.86
28 24 0.10
ACGTcount: A:0.40, C:0.18, G:0.10, T:0.32
Consensus pattern (27 bp):
CAAAATTACAGAAATACCCTTGATTTG
Found at i:44193812 original size:40 final size:41
Alignment explanation
Indices: 44193756--44193874 Score: 150
Period size: 40 Copynumber: 2.9 Consensus size: 41
44193746 GGAGGAATTA
*
44193756 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGCTCCACC-
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * * * *
44193796 ATTGAGGATCGTATGGTTACTTGACAACCATGGATCGACCG
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
* * *
44193837 ATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCA
1 ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44193875 TCGGTGGCTT
Statistics
Matches: 65, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
40 34 0.52
41 31 0.48
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.27
Consensus pattern (41 bp):
ATTGAGGATCGAATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:44193871 original size:41 final size:40
Alignment explanation
Indices: 44193760--44193874 Score: 140
Period size: 41 Copynumber: 2.9 Consensus size: 40
44193750 GAATTAATTG
* *
44193760 AGGATCGAATGGTTGCTTGACGACCGTGGCTCCACCATTG
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCATTA
* * * * *
44193800 AGGATCGTATGGTTACTTGACAACCATGGATCGACCGATTA
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACC-ATTA
* *
44193841 AGGATCGCATGGTTGCTTGACGATCGTGGATCCA
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCA
44193875 TCGGTGGCTT
Statistics
Matches: 61, Mismatches: 13, Indels: 1
0.81 0.17 0.01
Matches are distributed among these distances:
40 30 0.49
41 31 0.51
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCATTA
Found at i:44194531 original size:27 final size:27
Alignment explanation
Indices: 44194474--44194656 Score: 156
Period size: 27 Copynumber: 6.7 Consensus size: 27
44194464 CTTGGTTTAC
* * * *
44194474 AAAATTACCAAAATA-CCCTCAAATAGA
1 AAAATTACCAAAATACCCCT-GATTTGT
*
44194501 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
*
44194528 AAAATTACCTAAATACCCCTGATTTGT
1 AAAATTACCAAAATACCCCTGATTTGT
* * *
44194555 GAAATTACCTAAATA-CCCTCAATTTGT
1 AAAATTACCAAAATACCCCT-GATTTGT
* * *
44194582 AAAATTACTAAAATACCCCTAATTTGG
1 AAAATTACCAAAATACCCCTGATTTGT
* * * * *
44194609 AAAATTATCGAAATACTCTTGATTTGG
1 AAAATTACCAAAATACCCCTGATTTGT
44194636 AAAATTA-CAGAAATACACCCT
1 AAAATTACCA-AAATAC-CCCT
44194657 TAACTATCAA
Statistics
Matches: 129, Mismatches: 22, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
26 5 0.04
27 114 0.88
28 10 0.08
ACGTcount: A:0.43, C:0.20, G:0.08, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGATTTGT
Found at i:44194574 original size:81 final size:81
Alignment explanation
Indices: 44194448--44194651 Score: 216
Period size: 81 Copynumber: 2.5 Consensus size: 81
44194438 GATGGTTTAC
* * * **
44194448 AAAATTACTG-AATACCCTTGGTTTACAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
1 AAAATTACCGAAATACCCCTGATTTGGAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
** *
44194512 AATACCCCTGGTTTGT
66 AATACCCCTAATTTGG
* * * * * *
44194528 AAAATTACCTAAATACCCCTGATTTGTG-AAATTACCTAAATACCCTCAATTTGTAAAATTACTA
1 AAAATTACCGAAATACCCCTGATTTG-GAAAATTACCAAAATACCCTCAAATAGAAAAATTACCA
44194592 AAATACCCCTAATTTGG
65 AAATACCCCTAATTTGG
* * *
44194609 AAAATTATCGAAATACTCTTGATTTGGAAAATTA-CAGAAATAC
1 AAAATTACCGAAATACCCCTGATTTGGAAAATTACCA-AAATAC
44194652 ACCCTTAACT
Statistics
Matches: 101, Mismatches: 19, Indels: 7
0.80 0.15 0.06
Matches are distributed among these distances:
80 10 0.10
81 91 0.90
ACGTcount: A:0.42, C:0.19, G:0.09, T:0.30
Consensus pattern (81 bp):
AAAATTACCGAAATACCCCTGATTTGGAAAATTACCAAAATACCCTCAAATAGAAAAATTACCAA
AATACCCCTAATTTGG
Found at i:44194650 original size:54 final size:53
Alignment explanation
Indices: 44194523--44194710 Score: 148
Period size: 54 Copynumber: 3.4 Consensus size: 53
44194513 ATACCCCTGG
** * * * **
44194523 TTTGTAAAATTACCTAAATACCCCTGATTTGTG-AAATTACCTAAATACCCTCAA
1 TTTGTAAAATTACAGAAATACCCCTAATTTG-GAAAATTATCGAAATA-CCTTGA
44194577 TTTGTAAAATTACTA-AAATACCCCTAATTTGGAAAATTATCGAAATACTCTTGA
1 TTTGTAAAATTAC-AGAAATACCCCTAATTTGGAAAATTATCGAAATAC-CTTGA
* * ** * *
44194631 TTTGGAAAATTACAGAAATACACCCTTAACTATCAAAAATTATAGAAATACCATTGG
1 TTTGTAAAATTACAGAAATAC-CCC-TAA-TTTGGAAAATTATCGAAATACC-TTGA
*
44194688 TTTGCAAAATTATC-GAAATACCC
1 TTTGTAAAATTA-CAGAAATACCC
44194711 TTAGTTTGTA
Statistics
Matches: 112, Mismatches: 13, Indels: 16
0.79 0.09 0.11
Matches are distributed among these distances:
53 3 0.03
54 61 0.54
55 3 0.03
56 6 0.05
57 38 0.34
58 1 0.01
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (53 bp):
TTTGTAAAATTACAGAAATACCCCTAATTTGGAAAATTATCGAAATACCTTGA
Found at i:44194705 original size:27 final size:27
Alignment explanation
Indices: 44194666--44194718 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
44194656 TTAACTATCA
*
44194666 AAAATTATAGAAATACCATTGGTTTGC
1 AAAATTATAGAAATACCATTAGTTTGC
* *
44194693 AAAATTATCGAAATACCCTTAGTTTG
1 AAAATTATAGAAATACCATTAGTTTG
44194719 TAGATTTACC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.34
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTAGTTTGC
Found at i:44194868 original size:20 final size:20
Alignment explanation
Indices: 44194845--44194895 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
44194835 AACTATGCTT
44194845 TGATTGAGAATG-TATGACTG
1 TGATTG-GAATGTTATGACTG
* *
44194865 TGATTGGATTGTTGTGACTG
1 TGATTGGAATGTTATGACTG
*
44194885 TGATTTGAATG
1 TGATTGGAATG
44194896 ATTTTGTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 4 0.15
20 22 0.85
ACGTcount: A:0.24, C:0.04, G:0.31, T:0.41
Consensus pattern (20 bp):
TGATTGGAATGTTATGACTG
Found at i:44195089 original size:41 final size:41
Alignment explanation
Indices: 44194982--44195099 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 41
44194972 GAAGAAATTG
*** *
44194982 AGGATCGAATGGTTGCTTGACGACCACAGATCCACCGATTG
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGATTA
*
44195023 AGGATCGTATGGTTGCTTGACGACCGTGGATCCACCGATTA
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGATTA
* *
44195064 AGGATCGCATGGTTGTTTGACGACCGTGGATCCACC
1 AGGATCGAATGGTTGCTTGACGACCGTGGATCCACC
44195100 ACTGGCTTTT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 70 1.00
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (41 bp):
AGGATCGAATGGTTGCTTGACGACCGTGGATCCACCGATTA
Found at i:44195302 original size:22 final size:22
Alignment explanation
Indices: 44195242--44195308 Score: 73
Period size: 22 Copynumber: 3.0 Consensus size: 22
44195232 TCCAATTATT
* *
44195242 CTGATTATGGCTTTGCGCCAAA
1 CTGATTATGGCTCTGTGCCAAA
*
44195264 CT-ATATATGGCTCTGTGCCAAC
1 CTGAT-TATGGCTCTGTGCCAAA
* *
44195286 CTGATTATGGCTGTGTGCAAAA
1 CTGATTATGGCTCTGTGCCAAA
44195308 C
1 C
44195309 GTATTTGCCT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
21 2 0.05
22 33 0.89
23 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (22 bp):
CTGATTATGGCTCTGTGCCAAA
Found at i:44212050 original size:21 final size:21
Alignment explanation
Indices: 44212024--44212072 Score: 98
Period size: 21 Copynumber: 2.3 Consensus size: 21
44212014 TAAAATTGCT
44212024 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATTTGTCA
44212045 TAAAAGTTATAAAATTTGTCA
1 TAAAAGTTATAAAATTTGTCA
44212066 TAAAAGT
1 TAAAAGT
44212073 GTGATTTAGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.49, C:0.04, G:0.10, T:0.37
Consensus pattern (21 bp):
TAAAAGTTATAAAATTTGTCA
Found at i:44220486 original size:40 final size:40
Alignment explanation
Indices: 44220305--44220538 Score: 292
Period size: 41 Copynumber: 5.8 Consensus size: 40
44220295 TGGATGATAA
* * **
44220305 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTATTACAT
*
44220346 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA-T
** *
44220387 CCGGGCTAAGTTTCGAAGGCATTTGTGTGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA-T
44220428 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * * *
44220468 CCGGGCTAAGTCCAGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* *
44220508 CCGGGCTATGTCCCGAAGGCA-TTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
44220539 AGCTATATCT
Statistics
Matches: 173, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
39 8 0.05
40 62 0.36
41 100 0.58
42 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:44237417 original size:21 final size:21
Alignment explanation
Indices: 44237391--44237430 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
44237381 CACTTGACAT
*
44237391 AGGGGCACATGCCCATGTGAA
1 AGGGGCACACGCCCATGTGAA
*
44237412 AGGGGCACACGCCCGTGTG
1 AGGGGCACACGCCCATGTG
44237431 GCCAAATCAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.23, C:0.28, G:0.38, T:0.12
Consensus pattern (21 bp):
AGGGGCACACGCCCATGTGAA
Found at i:44240260 original size:43 final size:43
Alignment explanation
Indices: 44240208--44240293 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
44240198 GATATATGTG
** *
44240208 GCATCCGAGCTTGTTGAGTGGTCCGAGTTCATTATGGATGCGA
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGA
*
44240251 GCATCCGAGCTCATTGAGTGGTGCGAGTTCATAATGGATGCGA
1 GCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGA
44240294 TAAATGTGAT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.28
Consensus pattern (43 bp):
GCATCCGAGCTCATTGAGTGGTCCGAGTTCATAATGGATGCGA
Found at i:44250346 original size:58 final size:56
Alignment explanation
Indices: 44250198--44250346 Score: 158
Period size: 56 Copynumber: 2.6 Consensus size: 56
44250188 ATCATATAAC
* * *
44250198 AGGATTACCAGTCCAGGCTAAATCCTTAATATAACGTATGCTCAAAAAGCTCAATT
1 AGGATTACCAGTCCAGGCTAAATCCTTACTATAACGTATACTCAAAAAGATCAATT
* * * * *
44250254 AGGATTACCAGTCCAGGCTAAACCCTAAAC-ATAACGTATACTCAAGAGGTATTATATT
1 AGGATTACCAGTCCAGGCTAAATCCT-TACTATAACGTATACTCAAAAAG-ATCA-ATT
* *
44250312 AGGATTACCCA-TCCGGGCTAAATCCTTCCTATAAC
1 AGGATTA-CCAGTCCAGGCTAAATCCTTACTATAAC
44250347 AAGATCAATA
Statistics
Matches: 76, Mismatches: 12, Indels: 8
0.79 0.12 0.08
Matches are distributed among these distances:
56 41 0.54
57 4 0.05
58 28 0.37
59 3 0.04
ACGTcount: A:0.36, C:0.23, G:0.15, T:0.26
Consensus pattern (56 bp):
AGGATTACCAGTCCAGGCTAAATCCTTACTATAACGTATACTCAAAAAGATCAATT
Found at i:44253338 original size:24 final size:24
Alignment explanation
Indices: 44253323--44253434 Score: 170
Period size: 24 Copynumber: 4.7 Consensus size: 24
44253313 CGGATTTGAG
*
44253323 TGGCACTATGTGTGCGTATTGGTA
1 TGGCACTATGTGTGCGTATTTGTA
44253347 TGGCACTATGTGTGCGTATTTGTA
1 TGGCACTATGTGTGCGTATTTGTA
*
44253371 TGGCACTATGTGTGCGTATATGTA
1 TGGCACTATGTGTGCGTATTTGTA
* * * *
44253395 TGGCACTACGTGTGCGTAATTATT
1 TGGCACTATGTGTGCGTATTTGTA
44253419 TGGCACTATGTGTGCG
1 TGGCACTATGTGTGCG
44253435 GAGTTGAATC
Statistics
Matches: 80, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 80 1.00
ACGTcount: A:0.18, C:0.14, G:0.30, T:0.38
Consensus pattern (24 bp):
TGGCACTATGTGTGCGTATTTGTA
Found at i:44258282 original size:42 final size:41
Alignment explanation
Indices: 44258170--44258294 Score: 162
Period size: 42 Copynumber: 3.0 Consensus size: 41
44258160 AAAAATCATT
* ** *
44258170 TTTTTTCTTTTCAAAATTTAAATTTCAAACTAATTAATTTCA
1 TTTTTTCTTAT-AAAATTTAAATTAAAAACTTATTAATTTCA
*
44258212 TTTTTTCCTTCT-AAATTTAAATTAAAAACTTATTAATTTCA
1 TTTTTT-CTTATAAAATTTAAATTAAAAACTTATTAATTTCA
*
44258253 TTTGTTTCTTATAAAATTTAAAATAAAAACTTATTAATTTCA
1 TTT-TTTCTTATAAAATTTAAATTAAAAACTTATTAATTTCA
44258295 CTTCTTTTTT
Statistics
Matches: 74, Mismatches: 6, Indels: 6
0.86 0.07 0.07
Matches are distributed among these distances:
41 33 0.45
42 37 0.50
43 4 0.05
ACGTcount: A:0.38, C:0.10, G:0.01, T:0.50
Consensus pattern (41 bp):
TTTTTTCTTATAAAATTTAAATTAAAAACTTATTAATTTCA
Found at i:44263604 original size:27 final size:26
Alignment explanation
Indices: 44263573--44263750 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
44263563 ATATTGAGTC
* *
44263573 CGCACACTCAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
* *
44263600 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACT
44263627 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
** * *
44263655 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACT
**
44263682 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCAACT
* *
44263709 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
44263736 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44263751 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:44263712 original size:82 final size:81
Alignment explanation
Indices: 44263594--44263749 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44263584 TGCTATATCA
* *
44263594 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44263659 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44263676 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44263740 CACTTAGTGC
65 CACTTAGTGC
44263750 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44271675 original size:27 final size:26
Alignment explanation
Indices: 44271644--44271821 Score: 169
Period size: 27 Copynumber: 6.6 Consensus size: 26
44271634 ATATTGAGTC
* *
44271644 CGCACACTCAGTGCTATATCATCAACT
1 CGCACACTTAGTGCTACAT-ATCAACT
* *
44271671 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACAT-ATCAACT
44271698 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATA-TC-AACT
** * *
44271726 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACAT-ATCAACT
**
44271753 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATA-TCAACT
* *
44271780 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATA-TCAACT
44271807 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
44271822 GTACAATTTA
Statistics
Matches: 127, Mismatches: 18, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
26 1 0.01
27 103 0.81
28 23 0.18
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (26 bp):
CGCACACTTAGTGCTACATATCAACT
Found at i:44271783 original size:82 final size:81
Alignment explanation
Indices: 44271665--44271820 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
44271655 TGCTATATCA
* *
44271665 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
44271730 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
44271747 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
44271811 CACTTAGTGC
65 CACTTAGTGC
44271821 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:44280742 original size:96 final size:96
Alignment explanation
Indices: 44280610--44280802 Score: 296
Period size: 96 Copynumber: 2.0 Consensus size: 96
44280600 AACGAAAGGA
* * * * *
44280610 AGAATAAAATTGAGCTATCTCCTTTTGTGTAATGTTATTAGTCTAGTTCAAAAGATTATAAGGGT
1 AGAATAAAATTGAGATATCACCTTTTGTGCAATGTTATTAGTCTAGCTCAAAAGATCATAAGGGT
*
44280675 TTCCAATGTCTAATTAAATATCCAAATAGAG
66 TTCCAATGTCCAATTAAATATCCAAATAGAG
* * *
44280706 AGAATACAATTGAGATATCACCTTTTGTGCAATGTTATTGGTGTAGCTCAAAAGATCATAAGGGT
1 AGAATAAAATTGAGATATCACCTTTTGTGCAATGTTATTAGTCTAGCTCAAAAGATCATAAGGGT
*
44280771 TTCCAATGTCCAATTAAATATCCAACTAGAG
66 TTCCAATGTCCAATTAAATATCCAAATAGAG
44280802 A
1 A
44280803 ATAAAGTAAG
Statistics
Matches: 87, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
96 87 1.00
ACGTcount: A:0.36, C:0.13, G:0.17, T:0.34
Consensus pattern (96 bp):
AGAATAAAATTGAGATATCACCTTTTGTGCAATGTTATTAGTCTAGCTCAAAAGATCATAAGGGT
TTCCAATGTCCAATTAAATATCCAAATAGAG
Found at i:44286738 original size:25 final size:25
Alignment explanation
Indices: 44286699--44286790 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
44286689 TCATGTGCAT
44286699 GTATGCTCA-TACGAGCTATGAATCG
1 GTATGCTCACT-CGAGCTATGAATCG
*
44286724 GTATGTTCACTCGAGC--TGCAGATCG
1 GTATGCTCACTCGAGCTATG-A-ATCG
** * *
44286749 GTATGCTCTTTCGAGCTATAAATTG
1 GTATGCTCACTCGAGCTATGAATCG
*
44286774 GTATGCTCACACGAGCT
1 GTATGCTCACTCGAGCT
44286791 GTGGGCTAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
23 2 0.04
24 1 0.02
25 47 0.89
26 2 0.04
27 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.24, T:0.30
Consensus pattern (25 bp):
GTATGCTCACTCGAGCTATGAATCG
Found at i:44289056 original size:18 final size:18
Alignment explanation
Indices: 44289033--44289069 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
44289023 CTTGGCCCAT
*
44289033 TGCAGTAATAGTAAACAG
1 TGCAGTAACAGTAAACAG
*
44289051 TGCAGTAACAGTAAGCAG
1 TGCAGTAACAGTAAACAG
44289069 T
1 T
44289070 ATGCAAATCC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.41, C:0.14, G:0.24, T:0.22
Consensus pattern (18 bp):
TGCAGTAACAGTAAACAG
Found at i:44289648 original size:27 final size:27
Alignment explanation
Indices: 44289383--44289651 Score: 242
Period size: 27 Copynumber: 10.0 Consensus size: 27
44289373 AAACATACAT
* ** *
44289383 CACATAAGGGGAAAATAGTCATCCTAC
1 CACATAAGGGCAAAATAGTCATTTTAA
* **
44289410 CATATAAGGGCAAAATAGTCA-TCCAA
1 CACATAAGGGCAAAATAGTCATTTTAA
*
44289436 CCACATAAGGGCAAAATAGTCATTTTAC
1 -CACATAAGGGCAAAATAGTCATTTTAA
** * * *
44289464 CTTATAAGGGAAAAATCA-TCATTTCAC
1 CACATAAGGGCAAAAT-AGTCATTTTAA
*
44289491 CACATAAGGGCAAAACT-GTCATGTTAA
1 CACATAAGGGCAAAA-TAGTCATTTTAA
* * **
44289518 CACATAAGGGAAAAACT-GTTATTTTTC
1 CACATAAGGGCAAAA-TAGTCATTTTAA
* **
44289545 CATATAAGGGCAAAACT-GTCATTTTCT
1 CACATAAGGGCAAAA-TAGTCATTTTAA
*
44289572 CACATAAGGGCAAAATCGTCATTTTAA
1 CACATAAGGGCAAAATAGTCATTTTAA
*
44289599 CACAAAAGGGCAAAATAGTCATTTTAA
1 CACATAAGGGCAAAATAGTCATTTTAA
*
44289626 CACAAAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAATAGTCATTTTA
44289652 CCTTACAGGG
Statistics
Matches: 202, Mismatches: 34, Indels: 12
0.81 0.14 0.05
Matches are distributed among these distances:
26 3 0.01
27 195 0.97
28 4 0.02
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAA
Found at i:44289650 original size:81 final size:82
Alignment explanation
Indices: 44289386--44289650 Score: 267
Period size: 81 Copynumber: 3.3 Consensus size: 82
44289376 CATACATCAC
* ** * * **
44289386 ATAAGGGGAAAATAGTCATCCT-ACCATATAAGGGCAAAATAGTCA-TCCAACCACATAAGGGCA
1 ATAAGGGCAAAATAGTCATTTTCACCACATAAGGGCAAAATCGTCATTTTAA-CACATAAGGGCA
*
44289449 AAATAGTCATTTTACCTT
65 AAATAGTCATTTTACCAT
* * *
44289467 ATAAGGGAAAAATCA-TCA-TTTCACCACATAAGGGCAAAA-CTGTCATGTTAACACATAAGGGA
1 ATAAGGGCAAAAT-AGTCATTTTCACCACATAAGGGCAAAATC-GTCATTTTAACACATAAGGGC
* *
44289529 AAAACT-GTTATTTTTCCAT
64 AAAA-TAGTCATTTTACCAT
* *
44289548 ATAAGGGCAAAACT-GTCATTTTC-TCACATAAGGGCAAAATCGTCATTTTAACACAAAAGGGCA
1 ATAAGGGCAAAA-TAGTCATTTTCACCACATAAGGGCAAAATCGTCATTTTAACACATAAGGGCA
* *
44289611 AAATAGTCATTTTAACAC
65 AAATAGTCATTTTACCAT
*
44289629 AAAAGGGCAAAATAGTCATTTT
1 ATAAGGGCAAAATAGTCATTTT
44289651 ACCTTACAGG
Statistics
Matches: 151, Mismatches: 22, Indels: 22
0.77 0.11 0.11
Matches are distributed among these distances:
80 3 0.02
81 138 0.91
82 10 0.07
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (82 bp):
ATAAGGGCAAAATAGTCATTTTCACCACATAAGGGCAAAATCGTCATTTTAACACATAAGGGCAA
AATAGTCATTTTACCAT
Found at i:44289677 original size:27 final size:27
Alignment explanation
Indices: 44289643--44289733 Score: 128
Period size: 27 Copynumber: 3.4 Consensus size: 27
44289633 GGGCAAAATA
*
44289643 GTCATTTTACCTTACAGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGTATTTTG
*
44289670 GTCTTTTTACCCTACAGGGGTATTTTG
1 GTCATTTTACCCTACAGGGGTATTTTG
** *
44289697 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTACAGGGGTATTTTG
*
44289724 ATCATTTTAC
1 GTCATTTTAC
44289734 AAGTAAATAA
Statistics
Matches: 57, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 57 1.00
ACGTcount: A:0.18, C:0.18, G:0.21, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTACAGGGGTATTTTG
Found at i:44295006 original size:22 final size:23
Alignment explanation
Indices: 44294981--44295029 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
44294971 TGGACATTAT
*
44294981 AGTGCTA-AATAGTAGGCACTAA
1 AGTGCTAGAATAGTAAGCACTAA
*
44295003 AGTG-TAGAATAGTAAGCACTGA
1 AGTGCTAGAATAGTAAGCACTAA
44295025 AGTGC
1 AGTGC
44295030 GAAACAGGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.22
Consensus pattern (23 bp):
AGTGCTAGAATAGTAAGCACTAA
Found at i:44296216 original size:12 final size:12
Alignment explanation
Indices: 44296199--44296238 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
44296189 TCAGTTGAGG
44296199 GATTTGAAGAGA
1 GATTTGAAGAGA
*
44296211 GATTTGAAGAGG
1 GATTTGAAGAGA
* *
44296223 GATTTTAGGAGA
1 GATTTGAAGAGA
44296235 GATT
1 GATT
44296239 AGGGGAGGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.30
Consensus pattern (12 bp):
GATTTGAAGAGA
Found at i:44296246 original size:24 final size:24
Alignment explanation
Indices: 44296195--44296240 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
44296185 GTGATCAGTT
*
44296195 GAGGGATTTGAAGAGAGATTTGAA
1 GAGGGATTTGAAGAGAGATTAGAA
* *
44296219 GAGGGATTTTAGGAGAGATTAG
1 GAGGGATTTGAAGAGAGATTAG
44296241 GGGAGGAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.39, T:0.26
Consensus pattern (24 bp):
GAGGGATTTGAAGAGAGATTAGAA
Found at i:44297686 original size:27 final size:27
Alignment explanation
Indices: 44297655--44297786 Score: 183
Period size: 27 Copynumber: 4.9 Consensus size: 27
44297645 TAATTTGATG
44297655 AAATGACTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
*
44297682 AAATGACTGTTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
44297709 GAATGGCTATTTTGCCCTTATGTGGTA
1 AAATGACTATTTTGCCCTTATGTGGTA
* * * *
44297736 AAATGACTATATTGCCCTTATATGCTC
1 AAATGACTATTTTGCCCTTATGTGGTA
* *
44297763 AGATGACTGTTTTGCCCTTATGTG
1 AAATGACTATTTTGCCCTTATGTG
44297787 ATGTATGTTT
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 91 1.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (27 bp):
AAATGACTATTTTGCCCTTATGTGGTA
Found at i:44299507 original size:37 final size:37
Alignment explanation
Indices: 44299454--44299556 Score: 179
Period size: 37 Copynumber: 2.8 Consensus size: 37
44299444 CAAATAGTCC
*
44299454 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
44299491 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
44299528 CCACACGTAGTCACCGGGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
44299557 ATATATTTCC
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 63 1.00
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.22
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:44299755 original size:48 final size:48
Alignment explanation
Indices: 44299697--44300130 Score: 769
Period size: 48 Copynumber: 9.0 Consensus size: 48
44299687 ATATACACAC
*
44299697 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
44299745 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
44299793 ATCTCATATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
44299841 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
44299889 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
44299937 AACTCATACACATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
44299985 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
44300033 ATCTCATACATATTTCACACTAGCCATTCGGTTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
44300081 ATCTCATATATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
44300129 AT
1 AT
44300131 ATTTATCTTG
Statistics
Matches: 370, Mismatches: 16, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 370 1.00
ACGTcount: A:0.31, C:0.28, G:0.06, T:0.34
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:44309333 original size:59 final size:59
Alignment explanation
Indices: 44309264--44309379 Score: 153
Period size: 59 Copynumber: 2.0 Consensus size: 59
44309254 AAAAAATAAA
* * ** *
44309264 AAATTACATTTTGACTCCTAAACTTTTCC-TAAATTTTATTTTGACCCTAAACTTTCTTT
1 AAATTACATTTTAACCCCTAAAC-TTTCCTTAAATTACATTTTAACCCTAAACTTTCTTT
* *
44309323 AAATTTCATTTTAACCCCTAAACTTTCCTTAAATTACATTTTAACCCTAAATTTTCT
1 AAATTACATTTTAACCCCTAAACTTTCCTTAAATTACATTTTAACCCTAAACTTTCT
44309380 AAGAATTACA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
58 5 0.10
59 44 0.90
ACGTcount: A:0.31, C:0.22, G:0.02, T:0.46
Consensus pattern (59 bp):
AAATTACATTTTAACCCCTAAACTTTCCTTAAATTACATTTTAACCCTAAACTTTCTTT
Found at i:44309386 original size:29 final size:29
Alignment explanation
Indices: 44309264--44309389 Score: 130
Period size: 30 Copynumber: 4.3 Consensus size: 29
44309254 AAAAAATAAA
* *
44309264 AAATTACATTTTGACTCCTAAACTTTTCCT
1 AAATTACATTTTAAC-CCTAAACTTTTCTT
** *
44309294 AAATTTTATTTTGACCCTAAAC-TTTCTTT
1 AAATTACATTTTAACCCTAAACTTTTC-TT
* *
44309323 AAATTTCATTTTAACCCCTAAACTTTCCTT
1 AAATTACATTTTAA-CCCTAAACTTTTCTT
*
44309353 AAATTACATTTTAACCCTAAA-TTTTCTA
1 AAATTACATTTTAACCCTAAACTTTTCTT
44309381 AGAATTACA
1 A-AATTACA
44309390 CTTTGGTCCC
Statistics
Matches: 83, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
28 10 0.12
29 34 0.41
30 36 0.43
31 3 0.04
ACGTcount: A:0.33, C:0.21, G:0.02, T:0.44
Consensus pattern (29 bp):
AAATTACATTTTAACCCTAAACTTTTCTT
Found at i:44310887 original size:17 final size:18
Alignment explanation
Indices: 44310867--44310903 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
44310857 TATAAAAAAA
44310867 TTCGAG-TTTCAAAAATT
1 TTCGAGTTTTCAAAAATT
*
44310884 TTCGTGTTTTCAAAAATT
1 TTCGAGTTTTCAAAAATT
44310902 TT
1 TT
44310904 TGTTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.30, C:0.11, G:0.11, T:0.49
Consensus pattern (18 bp):
TTCGAGTTTTCAAAAATT
Found at i:44322823 original size:14 final size:14
Alignment explanation
Indices: 44322801--44322835 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
44322791 TGCCGAGGTA
44322801 TTTTCAATTTCTGG
1 TTTTCAATTTCTGG
*
44322815 TTTTTAATTTCTGG
1 TTTTCAATTTCTGG
44322829 TTTTCAA
1 TTTTCAA
44322836 AAAAATCAAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.11, G:0.11, T:0.60
Consensus pattern (14 bp):
TTTTCAATTTCTGG
Found at i:44322852 original size:91 final size:90
Alignment explanation
Indices: 44322727--44322994 Score: 334
Period size: 91 Copynumber: 3.0 Consensus size: 90
44322717 TATCCTAATA
* *
44322727 TTTTT-ATTTCTGTTTTTC--AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCA
1 TTTTTAATTTCTGGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
*
44322789 CATGCCGAGGTATTTTCAATTTCTGG
66 CATGCTGAGGTATTTTCAATTTCT-G
* *
44322815 TTTTTAATTTCTGGTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGGTCA
1 TTTTTAATTTCTGGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
* * *
44322880 TATGCTGAGATATTTTCATTTTCTG
66 CATGCTGAGGTATTTTCAATTTCTG
* * * * *
44322905 TTTTCAATTTAT-G---TGAAAAAAGATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTC
1 TTTTTAATTTCTGGTTTTCAAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTC
* *
44322966 ACATGCTGAGGTATTTTCAGTTTATG
65 ACATGCTGAGGTATTTTCAATTTCTG
44322992 TTT
1 TTT
44322995 CAAAAAAGAT
Statistics
Matches: 157, Mismatches: 19, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
86 7 0.04
87 60 0.38
88 5 0.03
89 13 0.08
90 11 0.07
91 61 0.39
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (90 bp):
TTTTTAATTTCTGGTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCA
CATGCTGAGGTATTTTCAATTTCTG
Found at i:44322957 original size:87 final size:88
Alignment explanation
Indices: 44322745--44323299 Score: 437
Period size: 78 Copynumber: 6.8 Consensus size: 88
44322735 TCTGTTTTTC
* *
44322745 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGCCACATGCCGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAATT
* *
44322810 TCTGGTTTTTAATTTCTGGTTTTCAA
66 TCT-GTTTTCAATTTATGG--TTCAA
* * * * *
44322836 AAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGGTCATATGCTGAGATATTTTCATTT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAATT
*
44322901 TCTGTTTTCAATTTAT-G-TGAA
66 TCTGTTTTCAATTTATGGTTCAA
* * *
44322922 AAAAGATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTCACATGCTGAGGTATTTTCAGT
1 AAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAAT
*
44322987 TTATG-TTTC-----A------AA
65 TTCTGTTTTCAATTTATGGTTCAA
* * * * * *
44322999 AAAGATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGTCACATGGTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAATT
44323064 TC-----T--A-TT-T--TTCAA
66 TCTGTTTTCAATTTATGGTTCAA
* * * *
44323076 AAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCACACGCCGAGGTATTTTTCAAT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTA-TTTTCAAT
*
44323141 TTC-----T--A--TCT--TTCAA
65 TTCTGTTTTCAATTTATGGTTCAA
* * *
44323154 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAATT
44323219 TCCAT-TTTTCAA---A------AA
66 T-C-TGTTTTCAATTTATGGTTCAA
* ** *
44323234 AAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGGTCACACGCTGAGGTATTTTCAATT
1 AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAATT
44323299 T
66 T
44323300 TTTTCTTTTT
Statistics
Matches: 405, Mismatches: 41, Indels: 47
0.82 0.08 0.10
Matches are distributed among these distances:
72 1 0.00
76 56 0.14
77 66 0.16
78 73 0.18
80 65 0.16
81 1 0.00
83 1 0.00
85 1 0.00
86 11 0.03
87 57 0.14
89 1 0.00
90 11 0.03
91 61 0.15
ACGTcount: A:0.29, C:0.16, G:0.21, T:0.33
Consensus pattern (88 bp):
AAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTTGGGTCACATGCTGAGGTATTTTCAATT
TCTGTTTTCAATTTATGGTTCAA
Found at i:44323109 original size:77 final size:77
Alignment explanation
Indices: 44322815--44323376 Score: 603
Period size: 77 Copynumber: 7.1 Consensus size: 77
44322805 CAATTTCTGG
* ** * **
44322815 TTTTTAATTTCTGGTTTTCAAAAAAATCAACTCATATTACGAGAGGTGAGTTGAGCCTTAGGTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* *
44322880 TATGCTGAGATA
66 CATGCTGAGGTA
* * *
44322892 TTTTCATTTTCTGTTTTCAATTTATGTGAAAAAAGATCAACTCATATTGCGAGAGGTGAGCTGAG
1 TTTTCAATTTC-----T--ATTT-T-TCAAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAG
44322957 CCTCGGGTCACATGCTGAGGTA
56 CCTCGGGTCACATGCTGAGGTA
* * * * *
44322979 TTTTC-AGTT-TATGTTTCAAAAAAGATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGTC
1 TTTTCAATTTCTATTTTTCAAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
44323042 ACATGGTGAGGTA
65 ACATGCTGAGGTA
*
44323055 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
* *
44323120 CACGCCGAGGTA
66 CATGCTGAGGTA
* *
44323132 TTTTTCAATTTCTATCTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGTC
1 -TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTC
*
44323197 ACACGCTGAGGTA
65 ACATGCTGAGGTA
* * *
44323210 TTTTCAATTTCCATTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCAGG
1 TTTTCAATTTCTATTTTTC---AAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGG
*
44323275 TCACACGCTGAGGTA
63 TCACATGCTGAGGTA
* * * * * * * *
44323290 TTTTCAATTTTTTTCTTTTTC--AAAGATCAACTCGTAATCCGAGAGGTGAGTTGAACTTCGGGT
1 TTTTCAA--TTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
*
44323353 CACAT-CTTGAGCTA
64 CACATGC-TGAGGTA
44323367 TTTTCAATTT
1 TTTTCAATTT
44323377 TTTGTTTTTC
Statistics
Matches: 415, Mismatches: 51, Indels: 40
0.82 0.10 0.08
Matches are distributed among these distances:
75 3 0.01
76 61 0.15
77 126 0.30
78 89 0.21
80 63 0.15
82 10 0.02
84 2 0.00
85 1 0.00
86 9 0.02
87 51 0.12
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (77 bp):
TTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
CATGCTGAGGTA
Found at i:44323342 original size:235 final size:231
Alignment explanation
Indices: 44322920--44323356 Score: 601
Period size: 235 Copynumber: 1.9 Consensus size: 231
44322910 AATTTATGTG
*
44322920 AAAAAAGATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTCACATGCTGAGGTATTTTCA
1 AAAAAAGATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTCACACGCTGAGGTATTTTCA
* * * * * * *
44322985 GTTTATGTTTCAAAAAAGATTAACTCATATTGTGAGAGGTGAGTTGAGCCTCGAGTCACATGGTG
66 ATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGAGTCACACGCTG
* * *
44323050 AGGTATTTTCAATTTCTATTTTTCAAAAAAATCAACTCATATTGCGAGAGATGAGTTGAGCCTCG
131 AGGTATTTTCAATTTCTATTTTTC-AAAAAATCAACTCATAATCCGAGAGATGAGTTGAACCTCG
44323115 GGTCACACGCCGAGGTATTTTTCAATTTCTATCTTTC
195 GGTCACACGCCGAGGTATTTTTCAATTTCTATCTTTC
* *
44323152 AAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGGCTCGGGTCACACGCTGAGGTATTTTCA
1 AAAAAAGATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTCACACGCTGAGGTATTTTCA
*
44323216 ATTTCCATTTTTCAAAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTC-AGGTCACA
66 ATTT--ATGTTTC--AAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGA-GTCACA
* * * * *
44323280 CGCTGAGGTATTTTCAATTTTTTTCTTTTTC-AAAGATCAACTCGTAATCCGAGAGGTGAGTTGA
126 CGCTGAGGTATTTTCAA--TTTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGATGAGTTGA
*
44323344 ACTTCGGGTCACA
189 ACCTCGGGTCACA
44323357 TCTTGAGCTA
Statistics
Matches: 178, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
231 58 0.33
232 6 0.03
233 6 0.03
234 1 0.01
235 97 0.54
237 10 0.06
ACGTcount: A:0.30, C:0.17, G:0.22, T:0.31
Consensus pattern (231 bp):
AAAAAAGATCAACTCATATTGCGAGAGGTGAGCTGAGCCTCGGGTCACACGCTGAGGTATTTTCA
ATTTATGTTTCAAAAAAAATCAACTCATATTGCGAGAGGTGAGTTAAGCCTCGAGTCACACGCTG
AGGTATTTTCAATTTCTATTTTTCAAAAAATCAACTCATAATCCGAGAGATGAGTTGAACCTCGG
GTCACACGCCGAGGTATTTTTCAATTTCTATCTTTC
Found at i:44323625 original size:30 final size:30
Alignment explanation
Indices: 44323584--44323683 Score: 130
Period size: 30 Copynumber: 3.3 Consensus size: 30
44323574 TAAAAAAATC
44323584 CATTTTGACCCCTAAACTTTTCCTAAATTT
1 CATTTTGACCCCTAAACTTTTCCTAAATTT
* **
44323614 CATTTTAACCCCTAAACTTTTTTTAAATTT
1 CATTTTGACCCCTAAACTTTTCCTAAATTT
* * *
44323644 CACTTCGACCCCTAAAC-TTTCCTTAAATTG
1 CATTTTGACCCCTAAACTTTTCC-TAAATTT
44323674 CATTTTGACC
1 CATTTTGACC
44323684 TTAAATTTTC
Statistics
Matches: 58, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 3 0.05
30 55 0.95
ACGTcount: A:0.27, C:0.27, G:0.04, T:0.42
Consensus pattern (30 bp):
CATTTTGACCCCTAAACTTTTCCTAAATTT
Found at i:44325220 original size:19 final size:18
Alignment explanation
Indices: 44325185--44325219 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
44325175 TTCGGGTTTC
*
44325185 AAAAATTTTCGTATTTTA
1 AAAAATTTTCATATTTTA
*
44325203 AAAAATTTTCATCTTTT
1 AAAAATTTTCATATTTT
44325220 TTAAATTTCT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.09, G:0.03, T:0.51
Consensus pattern (18 bp):
AAAAATTTTCATATTTTA
Found at i:44325271 original size:18 final size:17
Alignment explanation
Indices: 44325250--44325325 Score: 62
Period size: 17 Copynumber: 4.2 Consensus size: 17
44325240 AGATTCTCAG
44325250 GTTTTCAAGAATTTTTTT
1 GTTTTCAA-AATTTTTTT
* * *
44325268 GTTTTCAAAATCTCTTG
1 GTTTTCAAAATTTTTTT
*
44325285 GGTTTCAAAATTTTTTTT
1 GTTTTCAAAA-TTTTTTT
* *
44325303 CGAGTTTCAAAATTTTTGT
1 -G-TTTTCAAAATTTTTTT
44325322 GTTT
1 GTTT
44325326 CAATCGAATC
Statistics
Matches: 46, Mismatches: 9, Indels: 7
0.74 0.15 0.11
Matches are distributed among these distances:
17 17 0.37
18 13 0.28
19 7 0.15
20 9 0.20
ACGTcount: A:0.22, C:0.09, G:0.13, T:0.55
Consensus pattern (17 bp):
GTTTTCAAAATTTTTTT
Found at i:44325274 original size:36 final size:34
Alignment explanation
Indices: 44325234--44325301 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 34
44325224 ATTTCTCGGG
*
44325234 TTTCAAAGAT-TCTCAGGTTTTCAAGAATTTTTTTGT
1 TTTCAAA-ATCTCT-AGGGTTTCAA-AATTTTTTTGT
*
44325270 TTTCAAAATCTCTTGGGTTTCAAAATTTTTTT
1 TTTCAAAATCTCTAGGGTTTCAAAATTTTTTT
44325302 TCGAGTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 9 0.31
35 10 0.34
36 10 0.34
ACGTcount: A:0.25, C:0.12, G:0.12, T:0.51
Consensus pattern (34 bp):
TTTCAAAATCTCTAGGGTTTCAAAATTTTTTTGT
Found at i:44328454 original size:37 final size:37
Alignment explanation
Indices: 44328404--44328479 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
44328394 CTTTAGCTCA
*
44328404 GACAAAATCTCCACACGAAGTTATCAGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCAGGTCTTACCCG
* *
44328441 GACAAAATCTCCACACGTAGTCATCGGGTCTTACCCG
1 GACAAAATCTCCACACGAAGTCATCAGGTCTTACCCG
44328478 GA
1 GA
44328480 ATATATTTCC
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.21
Consensus pattern (37 bp):
GACAAAATCTCCACACGAAGTCATCAGGTCTTACCCG
Found at i:44328749 original size:48 final size:48
Alignment explanation
Indices: 44328625--44328809 Score: 316
Period size: 48 Copynumber: 3.8 Consensus size: 48
44328615 GCACATCGCC
*
44328625 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC--A
* * *
44328675 TATATATTTCACATTAACCATTCGGCTTTACCACATATGCATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
44328723 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
44328771 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 TACATATTTCACATTAGCCATTCGGCTTTACCACATATA
44328810 TGCATGTTCA
Statistics
Matches: 128, Mismatches: 7, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
48 85 0.66
50 43 0.34
ACGTcount: A:0.31, C:0.26, G:0.06, T:0.36
Consensus pattern (48 bp):
TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCA
Found at i:44328814 original size:98 final size:97
Alignment explanation
Indices: 44328625--44328808 Score: 325
Period size: 98 Copynumber: 1.9 Consensus size: 97
44328615 GCACATCGCC
*
44328625 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCATATATATATTTCACATT
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCA-ATACATATTTCACATT
44328690 AACCATTCGGCTTTACCACATATGCATATCTCA
65 AACCATTCGGCTTTACCACATATGCATATCTCA
*
44328723 TACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTC-ATACATATTTCACATTA
1 TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTA
*
44328787 GCCATTCGGCTTTACCACATAT
66 ACCATTCGGCTTTACCACATAT
44328809 ATGCATGTTC
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
96 37 0.45
98 46 0.55
ACGTcount: A:0.31, C:0.27, G:0.07, T:0.36
Consensus pattern (97 bp):
TACATATTTCACACTAGCCATTCGGCTTTACCACATATACATATCTCAATACATATTTCACATTA
ACCATTCGGCTTTACCACATATGCATATCTCA
Found at i:44328887 original size:93 final size:94
Alignment explanation
Indices: 44328779--44328971 Score: 289
Period size: 93 Copynumber: 2.1 Consensus size: 94
44328769 CATACATATT
* *
44328779 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCACCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
* **
44328844 CTTATCACA-ATATGCATGCTCACATTCA
66 CTTATCACATATATACACACTCACATTCA
* * *
44328872 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCACATTGGCCATTCGGC
1 TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
* *
44328937 CTTATCTCATATATACACATTCACATTCA
66 CTTATCACATATATACACACTCACATTCA
44328966 TCACAT
1 TCACAT
44328972 AAAATCCTAA
Statistics
Matches: 89, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
93 68 0.76
94 21 0.24
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (94 bp):
TCACATTAGCCATTCGGCCTTACCACATATATGCATGTTCACATTCACCACATTGGCCATTCGGC
CTTATCACATATATACACACTCACATTCA
Found at i:44328922 original size:47 final size:47
Alignment explanation
Indices: 44328779--44328971 Score: 289
Period size: 47 Copynumber: 4.1 Consensus size: 47
44328769 CATACATATT
* * * *
44328779 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
44328826 CCACATTGGCCATTCGGCCTTATCACA-ATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
44328872 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * **
44328919 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
44328966 TCACAT
1 TCACAT
44328972 AAAATCCTAA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
46 43 0.32
47 90 0.68
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:44334249 original size:43 final size:42
Alignment explanation
Indices: 44334191--44334345 Score: 166
Period size: 43 Copynumber: 3.6 Consensus size: 42
44334181 CAATGCCCTA
* * * *
44334191 TCCCAGATATGGTCTTACATGTCATCCTATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAATCCTATA-CGATGCCAATG
* * * * *
44334234 TGCTAGACAGGGTCTTACACGAAATCATATAACGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCCTAT-ACGATGCCAATG
* * *
44334277 TCCCAGAAATGGTCTTACACGTAATCACAATACAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATC-CTATACGATGCCAATG
*
44334320 TCCCAGACATGGTCTTACATGTAATC
1 TCCCAGACATGGTCTTACACGTAATC
44334346 ACATCTCGGT
Statistics
Matches: 91, Mismatches: 19, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
43 88 0.97
44 3 0.03
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.27
Consensus pattern (42 bp):
TCCCAGACATGGTCTTACACGTAATCCTATACGATGCCAATG
Found at i:44337392 original size:19 final size:19
Alignment explanation
Indices: 44337370--44337430 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
44337360 CACACAAGGC
44337370 GCATCTTGGCACATGAAGT
1 GCATCTTGGCACATGAAGT
* * *
44337389 GCATCCTGGCGCATGAAGA
1 GCATCTTGGCACATGAAGT
* *
44337408 GCGTCTTAGCACAT-AGAGT
1 GCATCTTGGCACATGA-AGT
44337427 GCAT
1 GCAT
44337431 AAACTCGTAC
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
18 1 0.03
19 31 0.97
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (19 bp):
GCATCTTGGCACATGAAGT
Found at i:44338945 original size:9 final size:9
Alignment explanation
Indices: 44338911--44339117 Score: 53
Period size: 10 Copynumber: 21.4 Consensus size: 9
44338901 GTAAATTTTT
44338911 TTATAAAAA
1 TTATAAAAA
*
44338920 CTATAAAAA
1 TTATAAAAA
*
44338929 -TAT--TAA
1 TTATAAAAA
44338935 TTATAAAAA
1 TTATAAAAA
44338944 TTATAATAAA
1 TTATAA-AAA
* *
44338954 TGAAAAATAA
1 TTATAAA-AA
*
44338964 TTGTAAAAA
1 TTATAAAAA
44338973 TTATATAGAGAA
1 TTATA-A-A-AA
*
44338985 TTGTAGAGAAAA
1 -T-TATA-AAAA
*
44338997 TATTTAAAAA
1 T-TATAAAAA
*
44339007 TATCTAAAATA
1 T-TATAAAA-A
*
44339018 GTAT-AAAA
1 TTATAAAAA
* *
44339026 TAAGAAAAA
1 TTATAAAAA
*
44339035 ATATTAAAATA
1 TTA-TAAAA-A
** *
44339046 ACATATAAA
1 TTATAAAAA
*
44339055 TTACAAAAA
1 TTATAAAAA
*
44339064 ATATAACAAA
1 TTATAA-AAA
*
44339074 TTGTAAAAA
1 TTATAAAAA
44339083 TTATAAAAA
1 TTATAAAAA
44339092 TTTATTTAAAAA
1 -TTA--TAAAAA
*
44339104 CTATAAAAAA
1 TTAT-AAAAA
44339114 TTAT
1 TTAT
44339118 TAAACATATT
Statistics
Matches: 143, Mismatches: 36, Indels: 37
0.66 0.17 0.17
Matches are distributed among these distances:
6 2 0.01
7 3 0.02
8 5 0.03
9 53 0.37
10 54 0.38
11 10 0.07
12 10 0.07
13 2 0.01
14 4 0.03
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (9 bp):
TTATAAAAA
Found at i:44339055 original size:29 final size:29
Alignment explanation
Indices: 44339002--44339067 Score: 80
Period size: 29 Copynumber: 2.3 Consensus size: 29
44338992 GAAAATATTT
** *
44339002 AAAAATATCTAAAATAGTATAAAATAAGA
1 AAAAATATCTAAAATAACATAAAATAACA
*
44339031 AAAAATAT-TAAAATAACATATAAATTACA
1 AAAAATATCTAAAATAACATA-AAATAACA
44339060 AAAAATAT
1 AAAAATAT
44339068 AACAAATTGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 10 0.31
29 22 0.69
ACGTcount: A:0.67, C:0.05, G:0.03, T:0.26
Consensus pattern (29 bp):
AAAAATATCTAAAATAACATAAAATAACA
Found at i:44339103 original size:21 final size:19
Alignment explanation
Indices: 44339060--44339141 Score: 78
Period size: 19 Copynumber: 4.2 Consensus size: 19
44339050 ATAAATTACA
44339060 AAAAATATAACAAATTGTA--
1 AAAAATATAA-AAATT-TATT
*
44339079 AAAATTATAAAAATTTATTT
1 AAAAATATAAAAATTTA-TT
*
44339099 AAAAACTATAAAAAATTATT
1 AAAAA-TATAAAAATTTATT
* *
44339119 AAACATATTAAAATTTATT
1 AAAAATATAAAAATTTATT
44339138 AAAA
1 AAAA
44339142 TTTACAATGT
Statistics
Matches: 52, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
17 2 0.04
18 5 0.10
19 24 0.46
20 10 0.19
21 11 0.21
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (19 bp):
AAAAATATAAAAATTTATT
Found at i:44339109 original size:40 final size:39
Alignment explanation
Indices: 44339059--44339141 Score: 96
Period size: 40 Copynumber: 2.1 Consensus size: 39
44339049 TATAAATTAC
*
44339059 AAAAAATATAACAAATT-GTAAAAATTATAAAAATTTATTT
1 AAAAAATATAAAAAATTAGTAAAAA-TATAAAAATTTA-TT
* * * *
44339099 AAAAACTATAAAAAATTATTAAACATATTAAAATTTATT
1 AAAAAATATAAAAAATTAGTAAAAATATAAAAATTTATT
44339138 AAAA
1 AAAA
44339142 TTTACAATGT
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
39 6 0.16
40 26 0.70
41 5 0.14
ACGTcount: A:0.61, C:0.04, G:0.01, T:0.34
Consensus pattern (39 bp):
AAAAAATATAAAAAATTAGTAAAAATATAAAAATTTATT
Found at i:44339136 original size:19 final size:20
Alignment explanation
Indices: 44339077--44339141 Score: 78
Period size: 21 Copynumber: 3.2 Consensus size: 20
44339067 TAACAAATTG
*
44339077 TAAAAATTATAAAAATTTATT
1 TAAAAACTATAAAAATTTA-T
*
44339098 TAAAAACTATAAAAAATTAT
1 TAAAAACTATAAAAATTTAT
* *
44339118 TAAACA-TATTAAAATTTAT
1 TAAAAACTATAAAAATTTAT
44339137 TAAAA
1 TAAAA
44339142 TTTACAATGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
19 15 0.39
20 6 0.16
21 17 0.45
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAAAACTATAAAAATTTAT
Found at i:44339145 original size:10 final size:10
Alignment explanation
Indices: 44339077--44339141 Score: 62
Period size: 10 Copynumber: 6.5 Consensus size: 10
44339067 TAACAAATTG
44339077 TAAAAATTA-
1 TAAAAATTAT
44339086 TAAAAATTTATT
1 TAAAAA-TTA-T
*
44339098 TAAAAACTAT
1 TAAAAATTAT
*
44339108 AAAAAATTAT
1 TAAAAATTAT
*
44339118 TAAACA-TAT
1 TAAAAATTAT
*
44339127 TAAAATTTAT
1 TAAAAATTAT
44339137 TAAAA
1 TAAAA
44339142 TTTACAATGT
Statistics
Matches: 45, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
9 13 0.29
10 24 0.53
11 2 0.04
12 6 0.13
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (10 bp):
TAAAAATTAT
Found at i:44343422 original size:22 final size:22
Alignment explanation
Indices: 44343377--44343422 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
44343367 GTAATTCATA
**
44343377 ATTATAATAAAGCATTTATCAC
1 ATTATAATAAAGCATTTAAAAC
*
44343399 ATTATATTAAAGCATTTAAAAC
1 ATTATAATAAAGCATTTAAAAC
44343421 AT
1 AT
44343423 ACTACCATAC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.48, C:0.11, G:0.04, T:0.37
Consensus pattern (22 bp):
ATTATAATAAAGCATTTAAAAC
Found at i:44345495 original size:13 final size:13
Alignment explanation
Indices: 44345477--44345509 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
44345467 ACCTTGTGTC
44345477 ACACACGGCCTAG
1 ACACACGGCCTAG
44345490 ACACACGGCCTAG
1 ACACACGGCCTAG
44345503 ACACACG
1 ACACACG
44345510 CCCGTGTGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.33, C:0.39, G:0.21, T:0.06
Consensus pattern (13 bp):
ACACACGGCCTAG
Found at i:44354430 original size:79 final size:80
Alignment explanation
Indices: 44354246--44354467 Score: 263
Period size: 79 Copynumber: 2.8 Consensus size: 80
44354236 GCTCCTCGTT
* * * * * *
44354246 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCTTTCGGGACTTAACCCG
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTTGCACCAATGCCTTCGGGACTTAGCCCA
*
44354310 GATTTAGTAACTCGCA
65 GAATTAGTAACTCGCA
*
44354326 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACCAATGCCTTCGGG-CTTAGCCCAG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACCAATGCCTTCGGGACTTAGCCCAG
*
44354390 AATTAGTATCTCGCA
66 AATTAGTAACTCGCA
* * * * *
44354405 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA-CAAAGCCTTCGGGACTTAGCCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGTAACTT-GCACCAATGCCTTCGGGACTTAGCCC
44354468 GGACATCATT
Statistics
Matches: 123, Mismatches: 15, Indels: 8
0.84 0.10 0.05
Matches are distributed among these distances:
78 3 0.02
79 61 0.50
80 57 0.46
81 2 0.02
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTTGCACCAATGCCTTCGGGACTTAGCCCAG
AATTAGTAACTCGCA
Found at i:44354430 original size:119 final size:120
Alignment explanation
Indices: 44354248--44354470 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
44354238 TCCTCGTTCA
** *
44354248 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCTTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
44354313 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACC
* * **
44354368 AATGCCTTCGGG-CTTAGCCCAGAAT-TAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCC-GAATATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
44354430 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
44354471 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 3 0.03
119 63 0.72
120 22 0.25
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGAATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTTGCACC
Found at i:44354470 original size:40 final size:41
Alignment explanation
Indices: 44354246--44354470 Score: 250
Period size: 40 Copynumber: 5.6 Consensus size: 41
44354236 GCTCCTCGTT
* *
44354246 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
44354286 CAAATGCTTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* *
44354326 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTT-GCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
* * *
44354366 CCAATGCCTTCGGG-CTTAGCCCAGA-ATTAGTATC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTTCGCA
* * * *
44354405 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAACTTCGCA
44354446 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
44354471 CATCATTCAA
Statistics
Matches: 158, Mismatches: 19, Indels: 16
0.82 0.10 0.08
Matches are distributed among these distances:
38 3 0.02
39 28 0.18
40 114 0.72
41 13 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTTCGCA
Found at i:44361650 original size:40 final size:40
Alignment explanation
Indices: 44361605--44361796 Score: 226
Period size: 40 Copynumber: 4.8 Consensus size: 40
44361595 ATAACCACAA
* * *
44361605 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
*
44361645 GCACAAATGCCTTCGGGTCTTAGCCCGGATATATCAACTC
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
* * *
44361685 GCACAAATGCCTTCGGGTCTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* * * * *
44361725 GCATAAATGCCTTCGGGACTTAGCCCGGATAAAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAGCCCGGAT-ATAGCAACTC
* *
44361765 GCATAAATGCCTTCGGGACTTAGCCCGGATAT
1 GCACAAATGCCTTCGGGTCTTAGCCCGGATAT
44361797 CATTCAAATG
Statistics
Matches: 142, Mismatches: 9, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 137 0.96
41 4 0.03
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAGCCCGGATATAGCAACTC
Done.