Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 104 of 284
Found at i:34149998 original size:19 final size:19
Alignment explanation
Indices: 34149974--34150011 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
34149964 GTTCGAGACC
34149974 ATCAAATTTAAAAAATGAA
1 ATCAAATTTAAAAAATGAA
34149993 ATCAAATTTAAAAAATGAA
1 ATCAAATTTAAAAAATGAA
34150012 CTCGTATATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.26
Consensus pattern (19 bp):
ATCAAATTTAAAAAATGAA
Found at i:34151817 original size:14 final size:15
Alignment explanation
Indices: 34151790--34151818 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
34151780 AATTTTATGA
34151790 ATTTCATGATGTGTT
1 ATTTCATGATGTGTT
34151805 ATTTCAT-ATGTGTT
1 ATTTCATGATGTGTT
34151819 GATGATAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.21, C:0.07, G:0.17, T:0.55
Consensus pattern (15 bp):
ATTTCATGATGTGTT
Found at i:34152016 original size:50 final size:50
Alignment explanation
Indices: 34151936--34152112 Score: 237
Period size: 50 Copynumber: 3.5 Consensus size: 50
34151926 CCATGGCAAC
* * * *
34151936 AAGTGATAAGAGATAGCTTCAGCTATACTTATCTGATCAAGGATAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* *
34151986 AAGTGATAAGTGATAGCTTCGGTTACACTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* * * *
34152036 AAGTGATAAGTGATAGTTTCGACTACACTTATCTAATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
* *
34152086 CAAGTTAAAAGTGATAGCTTCGGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
34152113 CTGATCAGTG
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
50 88 0.80
51 22 0.20
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
Found at i:34152135 original size:31 final size:31
Alignment explanation
Indices: 34152092--34152205 Score: 158
Period size: 31 Copynumber: 3.7 Consensus size: 31
34152082 ATGACAAGTT
*
34152092 AAAAGTGATAGCTTCGGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* *
34152123 AAAAGTTGTAGCTTCGGCTACCTGACCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
* * *
34152154 AAAAATGGTAGCTCCAGCTACCTGATCAGTG
1 AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
34152185 AATAA-TGGTAGCTTCGGCTAC
1 AA-AAGTGGTAGCTTCGGCTAC
34152206 AAGTGACAAG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
31 70 0.97
32 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (31 bp):
AAAAGTGGTAGCTTCGGCTACCTGATCAGTG
Found at i:34161899 original size:12 final size:12
Alignment explanation
Indices: 34161884--34161913 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34161874 AATAATTAAA
34161884 TAAATTAGAAAT
1 TAAATTAGAAAT
*
34161896 TAAATTGGAAAT
1 TAAATTAGAAAT
34161908 TAAATT
1 TAAATT
34161914 TGGATTTTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.53, C:0.00, G:0.10, T:0.37
Consensus pattern (12 bp):
TAAATTAGAAAT
Found at i:34170497 original size:48 final size:48
Alignment explanation
Indices: 34170288--34170600 Score: 232
Period size: 48 Copynumber: 6.6 Consensus size: 48
34170278 TAGGATACCA
* * * **
34170288 ATGCCATGCCCCAAACATGGTCTTACACTGGCTCA-TACATCAA-GTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAAC-TCAAGGCCG
* ** *
34170335 ATGCCATATCCCAGACATGGTCTTACACTAACT-ACCGTAAC-CGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCA-C--AACTCAAGGCCG
* * * * * *
34170384 ACGCCATGTCCCAGGCATGGTCTTACACT-G-ACACATCCCATA-GCTG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAACTCA-AGGCCG
* * *
34170430 ATGCCATGTCCCAGGCATGGCCTTACACTGGCTCACAACTCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAACTCAAGGCCG
* * * * *
34170478 ATGCCATGTTCCAGACATGGTCTTACACTAGCTCTCATCTCAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAACTCAAGGCCG
** * * * *
34170526 ATAACATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-ATGGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-ACTCAAGGCCG
*
34170574 AAG-CATGTCCCAGACAT-GTCTTACACT
1 ATGCCATGTCCCAGACATGGTCTTACACT
34170601 AGCACACATG
Statistics
Matches: 211, Mismatches: 43, Indels: 25
0.76 0.15 0.09
Matches are distributed among these distances:
45 2 0.01
46 42 0.20
47 46 0.22
48 90 0.43
49 29 0.14
50 2 0.01
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.24
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGGCTCACAACTCAAGGCCG
Found at i:34175428 original size:46 final size:46
Alignment explanation
Indices: 34175361--34176268 Score: 1662
Period size: 46 Copynumber: 19.7 Consensus size: 46
34175351 TGTAACCCGC
* * * * *
34175361 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
34175407 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GA-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGC-A--T
* * *
34175453 ACATCTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175500 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175546 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175592 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175638 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175684 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175730 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175776 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175822 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175868 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175914 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34175960 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34176006 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34176052 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34176098 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34176144 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34176190 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
34176236 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
34176269 TGGATGCTCA
Statistics
Matches: 840, Mismatches: 13, Indels: 18
0.96 0.01 0.02
Matches are distributed among these distances:
43 1 0.00
44 2 0.00
45 3 0.00
46 796 0.95
47 29 0.03
48 4 0.00
49 4 0.00
50 1 0.00
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:34179582 original size:16 final size:16
Alignment explanation
Indices: 34179561--34179592 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
34179551 GTTGAAACGC
34179561 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
34179577 CCCAAAAATCTCGAAA
1 CCCAAAAATCTCGAAA
34179593 TCTCAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.31, G:0.06, T:0.12
Consensus pattern (16 bp):
CCCAAAAATCTCGAAA
Found at i:34182497 original size:20 final size:20
Alignment explanation
Indices: 34182459--34182498 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
34182449 AAACACAAGC
* *
34182459 TGTCCATTTAGCTAACTTAT
1 TGTCCATTCAACTAACTTAT
*
34182479 TGTCCATTCAACTAGCTTAT
1 TGTCCATTCAACTAACTTAT
34182499 GTATTGAGCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (20 bp):
TGTCCATTCAACTAACTTAT
Found at i:34185006 original size:43 final size:43
Alignment explanation
Indices: 34184958--34185062 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 43
34184948 TCCTAGAAAA
*
34184958 GGTCTTACATGTAATCGATC-A-ACGATGCCAATGTCACAAACAT
1 GGTCTTACATGTAATC-A-CAATACAATGCCAATGTCACAAACAT
* * *
34185001 GGTCTTACACGTAATCACAATACAATGCCAATGTCCCAGACAT
1 GGTCTTACATGTAATCACAATACAATGCCAATGTCACAAACAT
34185044 GGTCTTACATGTAATCACA
1 GGTCTTACATGTAATCACA
34185063 TCTTGGTAAC
Statistics
Matches: 55, Mismatches: 5, Indels: 4
0.86 0.08 0.06
Matches are distributed among these distances:
41 1 0.02
42 2 0.04
43 52 0.95
ACGTcount: A:0.34, C:0.25, G:0.15, T:0.26
Consensus pattern (43 bp):
GGTCTTACATGTAATCACAATACAATGCCAATGTCACAAACAT
Found at i:34194529 original size:20 final size:19
Alignment explanation
Indices: 34194496--34194542 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
34194486 ATTTAATTAA
*
34194496 AAATTTAATTTAAATGAAT
1 AAATTTAATTTAAAAGAAT
34194515 AAATTTAAGTTTAAAAGAAT
1 AAATTTAA-TTTAAAAGAAT
34194535 AGAATTTA
1 A-AATTTA
34194543 CTTAAAAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 8 0.32
20 11 0.44
21 6 0.24
ACGTcount: A:0.53, C:0.00, G:0.09, T:0.38
Consensus pattern (19 bp):
AAATTTAATTTAAAAGAAT
Found at i:34194641 original size:31 final size:33
Alignment explanation
Indices: 34194596--34194665 Score: 85
Period size: 31 Copynumber: 2.2 Consensus size: 33
34194586 AAGAAATAAA
34194596 AAAAT-TAAAAATAAA-CAATAGAATTT-AA-TT
1 AAAATATAAAAATAAAGCAATA-AATTTAAATTT
* *
34194626 AAAATATAAATATAAAGGAATAAATTTAAATTT
1 AAAATATAAAAATAAAGCAATAAATTTAAATTT
34194659 AAAATAT
1 AAAATAT
34194666 TAGTTTTTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
30 5 0.15
31 14 0.41
32 6 0.18
33 9 0.26
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.31
Consensus pattern (33 bp):
AAAATATAAAAATAAAGCAATAAATTTAAATTT
Found at i:34194682 original size:132 final size:136
Alignment explanation
Indices: 34194484--34194743 Score: 316
Period size: 132 Copynumber: 1.9 Consensus size: 136
34194474 GTCGGTAATC
* * * * *
34194484 GAATTTAATTAAAAATTTAATTTAAATGAATAAATTTAAGTTTAAAAGAATAGAATTTACTT-AA
1 GAATTTAATTAAAAATTAAATATAAAGGAATAAATTTAAATTTAAAAGAATAGAATTTAATTAAA
* ** * * *
34194548 AAATAA-A-TAAAGAAATAAACTAAGTACAGAAATATTTAAAGAAA-TAA-AAAAATTAAAAATA
66 AAAGAATATTAAAG-AATAAAAAAAATAAAGAAATATTTAAAGAAACAAATAAAAATTAAAAATA
34194609 AACAATA
130 AACAATA
* * **
34194616 GAATTTAATT-AAAATATAAATATAAAGGAATAAATTTAAATTTAAAATATTAGTTTTTAATTAA
1 GAATTTAATTAAAAAT-TAAATATAAAGGAATAAATTTAAATTTAAAAGAATAGAATTTAATTAA
34194680 AAAAGAATATTTAAAGAATAAAAAAAATAAAGAAATATTTAAAGAAACAAATAAAAATTAAAAA
65 AAAAGAATA-TTAAAGAATAAAAAAAATAAAGAAATATTTAAAGAAACAAATAAAAATTAAAAA
34194744 CTTGATTGGA
Statistics
Matches: 106, Mismatches: 15, Indels: 9
0.82 0.12 0.07
Matches are distributed among these distances:
131 5 0.05
132 47 0.44
133 7 0.07
134 1 0.01
135 27 0.25
136 7 0.07
137 12 0.11
ACGTcount: A:0.62, C:0.02, G:0.07, T:0.30
Consensus pattern (136 bp):
GAATTTAATTAAAAATTAAATATAAAGGAATAAATTTAAATTTAAAAGAATAGAATTTAATTAAA
AAAGAATATTAAAGAATAAAAAAAATAAAGAAATATTTAAAGAAACAAATAAAAATTAAAAATAA
ACAATA
Found at i:34200999 original size:20 final size:17
Alignment explanation
Indices: 34200974--34201020 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 17
34200964 TTTATTTCAA
34200974 TTTTCTTTCTTGCACTTTTT
1 TTTTCTTT-TTG-A-TTTTT
34200994 TTTTCTTGTTTGATTTTT
1 TTTTCTT-TTTGATTTTT
34201012 TTTTCTTTT
1 TTTTCTTTT
34201021 CTCAAGCTCT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 2 0.08
18 12 0.46
19 1 0.04
20 10 0.38
21 1 0.04
ACGTcount: A:0.04, C:0.13, G:0.06, T:0.77
Consensus pattern (17 bp):
TTTTCTTTTTGATTTTT
Found at i:34201033 original size:21 final size:21
Alignment explanation
Indices: 34201009--34201085 Score: 50
Period size: 20 Copynumber: 3.6 Consensus size: 21
34200999 TTGTTTGATT
*
34201009 TTTTTTTCTTTTCTC-AAGCTC
1 TTTTTTTCTTTTCTCGAA-ATC
* *
34201030 TTTTATTTTTCTTTCATCGAAATT
1 TTTT-TTTCT-TTTC-TCGAAATC
**
34201054 TTTTTTTCTTTTCTCTCAAT-
1 TTTTTTTCTTTTCTCGAAATC
*
34201074 TTTTTTTGTTTT
1 TTTTTTTCTTTT
34201086 TCTTTTTCAC
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
20 11 0.24
21 9 0.20
22 8 0.18
23 8 0.18
24 7 0.16
25 2 0.04
ACGTcount: A:0.12, C:0.16, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTTTTCTTTTCTCGAAATC
Found at i:34201059 original size:26 final size:22
Alignment explanation
Indices: 34201007--34201090 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 22
34200997 TCTTGTTTGA
* *
34201007 TTTTTTTTTCTTTTCTCAAGCTCT
1 TTTTTTTTTC-TTTCTCAA-TTTT
*
34201031 TTTATTTTTCTTTCATCGAAATTTT
1 TTTTTTTTTCTTTC-TC--AATTTT
34201056 TTTTTCTTTTC--TCTCAATTTT
1 TTTTT-TTTTCTTTCTCAATTTT
34201077 TTTTGTTTTTCTTT
1 TTTT-TTTTTCTTT
34201091 TTCACTTTCA
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
21 15 0.31
22 1 0.02
23 7 0.14
24 13 0.27
25 6 0.12
26 7 0.14
ACGTcount: A:0.11, C:0.15, G:0.04, T:0.70
Consensus pattern (22 bp):
TTTTTTTTTCTTTCTCAATTTT
Found at i:34204783 original size:27 final size:29
Alignment explanation
Indices: 34204726--34204783 Score: 66
Period size: 31 Copynumber: 2.0 Consensus size: 29
34204716 ATGATTCTAG
*
34204726 TTTTGGTATGTATATGCCTATGTGAACTTGA
1 TTTTGGTATGAATAT--CTATGTGAACTTGA
*
34204757 TTTTGGTATGAATAT-TATG-GAATTTGA
1 TTTTGGTATGAATATCTATGTGAACTTGA
34204784 AATATGGTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
27 7 0.28
28 4 0.16
31 14 0.56
ACGTcount: A:0.26, C:0.05, G:0.22, T:0.47
Consensus pattern (29 bp):
TTTTGGTATGAATATCTATGTGAACTTGA
Found at i:34209831 original size:43 final size:44
Alignment explanation
Indices: 34209782--34209939 Score: 189
Period size: 43 Copynumber: 3.7 Consensus size: 44
34209772 GGTTATCGAG
* * * *
34209782 ATGTGATTGCATGTAAAACCATGTCTGGGACATTGGCATTGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
34209826 -TGTGATTACGTGTAAGACTATGTCTGGGACATTGGCATCGTAT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
* * *
34209869 AT-TGATT-CGTGTAAGACCCTATCTGGGACAGTGGCATCG-AT
1 ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
*
34209910 ATGTGATAACATGTAAGACCATATCTGGGA
1 ATGTGATTACATGTAAGACCATATCTGGGA
34209940 TATAGCGTTG
Statistics
Matches: 99, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
41 4 0.04
42 32 0.32
43 62 0.63
44 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.26, T:0.32
Consensus pattern (44 bp):
ATGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTAT
Found at i:34214255 original size:43 final size:44
Alignment explanation
Indices: 34214158--34214309 Score: 143
Period size: 43 Copynumber: 3.5 Consensus size: 44
34214148 ATCGAGATGT
* *
34214158 GATTACATGTAAGACCATGTATGGGACATTGGCAT-TGTATTGA
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAATGA
* *
34214201 GATTACATGTAAGACCATGTCTGGGATATTGGCATCAT-TAAT-C
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATC-TGTAATGA
* * * * * *
34214244 GATTTCGTGTAAGACCTTATCTGGGACAGTGGCATC-G-ATATGT
1 GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTA-ATGA
* *
34214287 GATAACATGTAAGACCATATCTG
1 GATTACATGTAAGACCATGTCTG
34214310 AGATATGGCA
Statistics
Matches: 89, Mismatches: 15, Indels: 10
0.78 0.13 0.09
Matches are distributed among these distances:
41 1 0.01
42 2 0.02
43 82 0.92
44 3 0.03
45 1 0.01
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.32
Consensus pattern (44 bp):
GATTACATGTAAGACCATGTCTGGGACATTGGCATCTGTAATGA
Found at i:34223976 original size:9 final size:10
Alignment explanation
Indices: 34223954--34224000 Score: 62
Period size: 9 Copynumber: 4.9 Consensus size: 10
34223944 CACCAAAACT
34223954 AAAACAAAGA
1 AAAACAAAGA
*
34223964 AAAATAAAG-
1 AAAACAAAGA
34223973 AAAACAAAGA
1 AAAACAAAGA
*
34223983 AAAATAAAG-
1 AAAACAAAGA
34223992 AAAACAAAG
1 AAAACAAAG
34224001 TAGGTTTCGG
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 16 0.50
10 16 0.50
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.04
Consensus pattern (10 bp):
AAAACAAAGA
Found at i:34223978 original size:19 final size:19
Alignment explanation
Indices: 34223954--34224000 Score: 94
Period size: 19 Copynumber: 2.5 Consensus size: 19
34223944 CACCAAAACT
34223954 AAAACAAAGAAAAATAAAG
1 AAAACAAAGAAAAATAAAG
34223973 AAAACAAAGAAAAATAAAG
1 AAAACAAAGAAAAATAAAG
34223992 AAAACAAAG
1 AAAACAAAG
34224001 TAGGTTTCGG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.79, C:0.06, G:0.11, T:0.04
Consensus pattern (19 bp):
AAAACAAAGAAAAATAAAG
Found at i:34229059 original size:5 final size:5
Alignment explanation
Indices: 34229049--34229073 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34229039 CTAACTTCAC
34229049 TCTAA TCTAA TCTAA TCTAA TCTAA
1 TCTAA TCTAA TCTAA TCTAA TCTAA
34229074 AGGATAACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.40, C:0.20, G:0.00, T:0.40
Consensus pattern (5 bp):
TCTAA
Found at i:34230833 original size:32 final size:32
Alignment explanation
Indices: 34230792--34230857 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
34230782 TAATGTATTA
34230792 TTCTCATAAAAATTCACTCAACATTATTTTAT
1 TTCTCATAAAAATTCACTCAACATTATTTTAT
*
34230824 TTCTCATAAAAATTCACTCAATATTATTTTAT
1 TTCTCATAAAAATTCACTCAACATTATTTTAT
34230856 TT
1 TT
34230858 TATCTCGTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.17, G:0.00, T:0.47
Consensus pattern (32 bp):
TTCTCATAAAAATTCACTCAACATTATTTTAT
Found at i:34233126 original size:84 final size:84
Alignment explanation
Indices: 34232968--34233126 Score: 196
Period size: 84 Copynumber: 1.9 Consensus size: 84
34232958 TACGATAGTA
* * * ***
34232968 AAAATATAATTTTATTATTTTAATAGAATATATTTTTATAATTTTTAAAAAATTAAATTAAATTT
1 AAAATATAAATTTATTATTTTAATAGAATATATTTTTATAATTTATAAAAAATTAAATAAAAAAA
*
34233033 TTATTATTTTTGAGGTGCT
66 TTATCATTTTTGAGGTGCT
** *
34233052 AAAATATAAATTTATTATTATTAATTTAA-A-ATTTTTATAATTTATAAAAAACTTGAATAAAAA
1 AAAATATAAATTTATTATT-TTAATAGAATATATTTTTATAATTTATAAAAAA-TTAAATAAAAA
34233115 AATTATCATTTT
64 AATTATCATTTT
34233127 AGGGCTGAGG
Statistics
Matches: 63, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
83 20 0.32
84 36 0.57
85 7 0.11
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (84 bp):
AAAATATAAATTTATTATTTTAATAGAATATATTTTTATAATTTATAAAAAATTAAATAAAAAAA
TTATCATTTTTGAGGTGCT
Found at i:34234339 original size:124 final size:124
Alignment explanation
Indices: 34234120--34234374 Score: 388
Period size: 124 Copynumber: 2.1 Consensus size: 124
34234110 AAATAGTGGG
** * * *
34234120 AAATCGCTTCTACCAGGATGCTATTTAAGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATT
1 AAATCGCTAATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
34234185 TCGCTACAGTGGTCATGTAAGAAATAAA-TTTTTTTGACGTTTCCTGAGCAAATAGTATA
66 TCGCTACAGTGGTCATGTAAGAAATAAATTTTTTTTGACGTTT-CTGAGCAAATAGTATA
* *
34234244 AAATCGCTAATACCAGGATGCTATATGAGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATT
1 AAATCGCTAATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
* * *
34234309 TCGCTACAGTTGGTCATGTAGGAAAT-AATTTTTTTTGACGTTTCTGAGCAAATAGTGTC
66 TCGCTACAG-TGGTCATGTAAGAAATAAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
34234368 AAATCGC
1 AAATCGC
34234375 GCCCTCGTGG
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
124 90 0.76
125 29 0.24
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (124 bp):
AAATCGCTAATACCAGGATGCTATATAAGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATT
TCGCTACAGTGGTCATGTAAGAAATAAATTTTTTTTGACGTTTCTGAGCAAATAGTATA
Found at i:34242031 original size:26 final size:26
Alignment explanation
Indices: 34242002--34242068 Score: 82
Period size: 26 Copynumber: 2.5 Consensus size: 26
34241992 TTTTTCTATT
* * *
34242002 TATTTATGTTTAATAATTA-TAATTAA
1 TATTTATTTTTAAAAATAACTAATT-A
34242028 TATTTATTTTTAAAAATAAGCTAATTA
1 TATTTATTTTTAAAAATAA-CTAATTA
34242055 TATTTATTTTTAAA
1 TATTTATTTTTAAA
34242069 TCCGTCAATA
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
26 16 0.44
27 15 0.42
28 5 0.14
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (26 bp):
TATTTATTTTTAAAAATAACTAATTA
Found at i:34242403 original size:23 final size:23
Alignment explanation
Indices: 34242375--34242422 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
34242365 AATACTTGAG
34242375 TATGATAAATTTGAATCATTAAT
1 TATGATAAATTTGAATCATTAAT
34242398 TATGATAAATTTGAATCATTAAT
1 TATGATAAATTTGAATCATTAAT
34242421 TA
1 TA
34242423 CGTCCCAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (23 bp):
TATGATAAATTTGAATCATTAAT
Found at i:34242457 original size:9 final size:9
Alignment explanation
Indices: 34242445--34242558 Score: 83
Period size: 9 Copynumber: 12.4 Consensus size: 9
34242435 ATTAATTTAG
34242445 AAAATTTTT
1 AAAATTTTT
34242454 AAAATTTTT
1 AAAATTTTT
34242463 AAAATTTTTT
1 AAAA-TTTTT
*
34242473 AGAATTTTT
1 AAAATTTTT
*
34242482 ATAATTTTTT
1 A-AAATTTTT
* *
34242492 AAAA-ATAT
1 AAAATTTTT
34242500 -AAA-TTTT
1 AAAATTTTT
34242507 AAAATTTTT
1 AAAATTTTT
34242516 ATAAATATTTT
1 A-AAAT-TTTT
*
34242527 -AAATTTTAA
1 AAAATTTT-T
34242536 AAAATATTTT
1 AAAAT-TTTT
* *
34242546 GAATTTTTT
1 AAAATTTTT
34242555 AAAA
1 AAAA
34242559 ATATTTTGAA
Statistics
Matches: 82, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
7 5 0.06
8 8 0.10
9 36 0.44
10 26 0.32
11 7 0.09
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (9 bp):
AAAATTTTT
Found at i:34242473 original size:19 final size:19
Alignment explanation
Indices: 34242445--34242558 Score: 87
Period size: 19 Copynumber: 6.2 Consensus size: 19
34242435 ATTAATTTAG
34242445 AAAA-TTTTTAAAATTTTT
1 AAAATTTTTTAAAATTTTT
*
34242463 AAAATTTTTTAGAATTTTT
1 AAAATTTTTTAAAATTTTT
* * *
34242482 ATAATTTTTTAAAA-ATAT
1 AAAATTTTTTAAAATTTTT
34242500 -AAA--TTTTAAAATTTTT
1 AAAATTTTTTAAAATTTTT
* *
34242516 ATAAATATTTT-AAATTTTAA
1 A-AAATTTTTTAAAATTTT-T
* * *
34242536 AAAATATTTTGAATTTTTT
1 AAAATTTTTTAAAATTTTT
34242555 AAAA
1 AAAA
34242559 ATATTTTGAA
Statistics
Matches: 77, Mismatches: 11, Indels: 15
0.75 0.11 0.15
Matches are distributed among these distances:
15 8 0.10
16 2 0.03
17 2 0.03
18 9 0.12
19 45 0.58
20 11 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
AAAATTTTTTAAAATTTTT
Found at i:34242527 original size:11 final size:10
Alignment explanation
Indices: 34242445--34242575 Score: 61
Period size: 9 Copynumber: 14.0 Consensus size: 10
34242435 ATTAATTTAG
34242445 AAAAT-TTTT
1 AAAATATTTT
34242454 AAAAT-TTTT
1 AAAATATTTT
*
34242463 AAAATTTTTT
1 AAAATATTTT
*
34242473 AGAAT-TTTT
1 AAAATATTTT
* *
34242482 ATAATTTTTT
1 AAAATATTTT
34242492 AAAA-A---T
1 AAAATATTTT
*
34242498 ATAA-ATTTT
1 AAAATATTTT
34242507 AAAAT-TTTT
1 AAAATATTTT
34242516 ATAAATATTTT
1 A-AAATATTTT
*
34242527 -AAAT-TTTAA
1 AAAATATTT-T
34242536 AAAATATTTT
1 AAAATATTTT
* *
34242546 -GAATTTTTT
1 AAAATATTTT
34242555 AAAAATATTTT
1 -AAAATATTTT
* *
34242566 GAATTATTTT
1 AAAATATTTT
34242576 GTAAATTTTG
Statistics
Matches: 95, Mismatches: 14, Indels: 25
0.71 0.10 0.19
Matches are distributed among these distances:
6 5 0.05
8 3 0.03
9 42 0.44
10 31 0.33
11 14 0.15
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (10 bp):
AAAATATTTT
Found at i:34242539 original size:43 final size:44
Alignment explanation
Indices: 34242459--34242542 Score: 120
Period size: 44 Copynumber: 1.9 Consensus size: 44
34242449 TTTTTAAAAT
*
34242459 TTTTAAAATTTTTTAGAATTTTTATAATTTTTTAAAAATATAAA
1 TTTTAAAATTTTTTAGAATTTTTATAATTTTTAAAAAATATAAA
34242503 TTTTAAAATTTTTATA-AATATTTTA-AA-TTTTAAAAAATAT
1 TTTTAAAATTTTT-TAGAAT-TTTTATAATTTTTAAAAAATAT
34242543 TTTGAATTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
43 12 0.32
44 18 0.49
45 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.01, T:0.54
Consensus pattern (44 bp):
TTTTAAAATTTTTTAGAATTTTTATAATTTTTAAAAAATATAAA
Found at i:34242566 original size:20 final size:20
Alignment explanation
Indices: 34242511--34242575 Score: 87
Period size: 20 Copynumber: 3.2 Consensus size: 20
34242501 AATTTTAAAA
* *
34242511 TTTTTATAAATATTTT-AAA
1 TTTTTAAAAATATTTTGAAT
*
34242530 TTTTAAAAAATATTTTGAAT
1 TTTTTAAAAATATTTTGAAT
34242550 TTTTTAAAAATATTTTGAAT
1 TTTTTAAAAATATTTTGAAT
34242570 TATTTT
1 T-TTTT
34242576 GTAAATTTTG
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
19 14 0.35
20 22 0.55
21 4 0.10
ACGTcount: A:0.40, C:0.00, G:0.03, T:0.57
Consensus pattern (20 bp):
TTTTTAAAAATATTTTGAAT
Found at i:34252314 original size:68 final size:68
Alignment explanation
Indices: 34252205--34252344 Score: 262
Period size: 68 Copynumber: 2.1 Consensus size: 68
34252195 CCCAGAGCTG
34252205 GTAACTTGAATCCAAAATCTATAAAATAGAGGTAAAAATGAACACACAGAGTAAGCTATCATAGC
1 GTAACTTGAATCCAAAATCTATAAAATAGAGGTAAAAATGAACACACAGAGTAAGCTATCATAGC
*
34252270 TTC
66 TTA
*
34252273 GTAACTTGAATCTAAAATCTATAAAATAGAGGTAAAAATGAACACACAGAGTAAGCTATCATAGC
1 GTAACTTGAATCCAAAATCTATAAAATAGAGGTAAAAATGAACACACAGAGTAAGCTATCATAGC
34252338 TTA
66 TTA
34252341 GTAA
1 GTAA
34252345 GCCATAAGCA
Statistics
Matches: 70, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 70 1.00
ACGTcount: A:0.46, C:0.14, G:0.15, T:0.24
Consensus pattern (68 bp):
GTAACTTGAATCCAAAATCTATAAAATAGAGGTAAAAATGAACACACAGAGTAAGCTATCATAGC
TTA
Found at i:34253047 original size:56 final size:57
Alignment explanation
Indices: 34252982--34253114 Score: 189
Period size: 56 Copynumber: 2.4 Consensus size: 57
34252972 TCGTAGACAG
* * * * *
34252982 GGTCTTACTCGCACACATATATT-GAAGTCACATATCGATGCCAATGTATAAAATGT
1 GGTCTTACTCGCACACATATATTCCAAATCACATATCGATGACAACGTATAAAACGT
* *
34253038 GGTCCTACTCGCATACATAT-TTCCAAATCACATATCGATGACAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATTCCAAATCACATATCGATGACAACGTATAAAACGT
34253094 GGTCTTACTCGCACACATATA
1 GGTCTTACTCGCACACATATA
34253115 CCAATGCCAT
Statistics
Matches: 66, Mismatches: 9, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
55 2 0.03
56 64 0.97
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.29
Consensus pattern (57 bp):
GGTCTTACTCGCACACATATATTCCAAATCACATATCGATGACAACGTATAAAACGT
Found at i:34254327 original size:46 final size:46
Alignment explanation
Indices: 34254153--34254333 Score: 256
Period size: 46 Copynumber: 3.9 Consensus size: 46
34254143 TTTGACATGA
* * * * *
34254153 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATATCACGT
* * * *
34254199 TGCCATGGTATCTTTCAACCATAGTCTTATTCTTTTCATGTCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
34254245 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
*
34254291 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCA
1 TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCA
34254334 GAGAGCACAC
Statistics
Matches: 122, Mismatches: 12, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.21, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATATCACGT
Found at i:34258888 original size:16 final size:17
Alignment explanation
Indices: 34258856--34258888 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34258846 GGAATACTTT
34258856 ATTTTTATTAATTTAGCC
1 ATTTTTATT-ATTTAGCC
34258874 ATTTTTATT-TTTAGC
1 ATTTTTATTATTTAGC
34258889 TTAATTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.24, C:0.09, G:0.06, T:0.61
Consensus pattern (17 bp):
ATTTTTATTATTTAGCC
Found at i:34262696 original size:12 final size:12
Alignment explanation
Indices: 34262681--34262715 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
34262671 TTTTCCCTAT
34262681 TTTTTTATTTTA
1 TTTTTTATTTTA
34262693 TTTTTTA-TTTA
1 TTTTTTATTTTA
*
34262704 TATTTTATTTTA
1 TTTTTTATTTTA
34262716 ATTGCTTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (12 bp):
TTTTTTATTTTA
Found at i:34262771 original size:15 final size:15
Alignment explanation
Indices: 34262751--34262803 Score: 58
Period size: 15 Copynumber: 3.6 Consensus size: 15
34262741 TTGCTTATTA
34262751 TTTTATTTTAGTTTC
1 TTTTATTTTAGTTTC
*
34262766 TTTTATTTTAGTATC
1 TTTTATTTTAGTTTC
34262781 -TTTATTATT--TTTC
1 TTTTATT-TTAGTTTC
34262794 TTATTATTTT
1 TT-TTATTTT
34262804 TTTCATTTTC
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
13 3 0.09
14 9 0.27
15 21 0.64
ACGTcount: A:0.17, C:0.06, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTTATTTTAGTTTC
Found at i:34265200 original size:43 final size:43
Alignment explanation
Indices: 34265153--34265262 Score: 202
Period size: 43 Copynumber: 2.6 Consensus size: 43
34265143 GGCATTACGT
34265153 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
* *
34265196 CTGCTAAGCACGAAGGCCCGAATACACATCATCGGCACGAAGC
1 CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
34265239 CTGCTAGGCACGAAGGCCCGAATA
1 CTGCTAGGCACGAAGGCCCGAATA
34265263 TAATACCAGC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 64 1.00
ACGTcount: A:0.31, C:0.33, G:0.25, T:0.11
Consensus pattern (43 bp):
CTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAAGC
Found at i:34265339 original size:38 final size:38
Alignment explanation
Indices: 34265255--34265362 Score: 117
Period size: 38 Copynumber: 2.8 Consensus size: 38
34265245 GGCACGAAGG
* * * * *
34265255 CCCGAATATAATACCAGCACTAGGCTTGCGGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
* *
34265293 CTCTGATATAATACCAGCACGAAGCCTGCGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
** * *
34265331 CCCGGATATTTTACCGGCACGAAGCCTACGGG
1 CCCGGATATAATACCAGCACGAAGCCTGCGGG
34265363 TCTTTAAGCC
Statistics
Matches: 57, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 57 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCGGGATTTAA
Found at i:34268724 original size:19 final size:19
Alignment explanation
Indices: 34268700--34268757 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 19
34268690 CCTTCTCTTA
34268700 TGATATTTTGTTTATACTG
1 TGATATTTTGTTTATACTG
* *
34268719 TGATA--TTATCT-TA---
1 TGATATTTTGTTTATACTG
34268732 TGATATTTTGTTTATACTG
1 TGATATTTTGTTTATACTG
34268751 TGATATT
1 TGATATT
34268758 AAGTGTGGGG
Statistics
Matches: 29, Mismatches: 4, Indels: 12
0.64 0.09 0.27
Matches are distributed among these distances:
13 5 0.17
15 4 0.14
16 4 0.14
17 4 0.14
19 12 0.41
ACGTcount: A:0.24, C:0.05, G:0.14, T:0.57
Consensus pattern (19 bp):
TGATATTTTGTTTATACTG
Found at i:34268736 original size:32 final size:32
Alignment explanation
Indices: 34268695--34268758 Score: 128
Period size: 32 Copynumber: 2.0 Consensus size: 32
34268685 TTTCTCCTTC
34268695 TCTTATGATATTTTGTTTATACTGTGATATTA
1 TCTTATGATATTTTGTTTATACTGTGATATTA
34268727 TCTTATGATATTTTGTTTATACTGTGATATTA
1 TCTTATGATATTTTGTTTATACTGTGATATTA
34268759 AGTGTGGGGA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.25, C:0.06, G:0.12, T:0.56
Consensus pattern (32 bp):
TCTTATGATATTTTGTTTATACTGTGATATTA
Found at i:34271651 original size:27 final size:29
Alignment explanation
Indices: 34271619--34271684 Score: 82
Period size: 31 Copynumber: 2.3 Consensus size: 29
34271609 TTATTTAAGA
34271619 AAAAACTT-AATAG-ACAATAACTTAAAT
1 AAAAACTTGAATAGTACAATAACTTAAAT
*
34271646 AAAAACTTTTGAATAGTTCAATAACTTAAAT
1 AAAAAC--TTGAATAGTACAATAACTTAAAT
*
34271677 GAAAACTT
1 AAAAACTT
34271685 TCGAATAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
27 6 0.18
29 4 0.12
30 5 0.15
31 18 0.55
ACGTcount: A:0.53, C:0.11, G:0.06, T:0.30
Consensus pattern (29 bp):
AAAAACTTGAATAGTACAATAACTTAAAT
Found at i:34271671 original size:31 final size:31
Alignment explanation
Indices: 34271633--34271698 Score: 105
Period size: 31 Copynumber: 2.1 Consensus size: 31
34271623 ACTTAATAGA
* *
34271633 CAATAACTTAAATAAAAACTTTTGAATAGTT
1 CAATAACTTAAATAAAAACTTTCGAATAATT
*
34271664 CAATAACTTAAATGAAAACTTTCGAATAATT
1 CAATAACTTAAATAAAAACTTTCGAATAATT
34271695 CAAT
1 CAAT
34271699 GATCAAATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.48, C:0.12, G:0.06, T:0.33
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTCGAATAATT
Found at i:34274224 original size:31 final size:31
Alignment explanation
Indices: 34274166--34274229 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
34274156 ACTCAATAGC
* *
34274166 CAGTGACTTAAATAAAAACTTTTGAATAGTT
1 CAGTAACTTAAATAAAAACTTTTGAATAATT
* *
34274197 CAGTAACTTAAATGAATA-TTTTCGAATAATT
1 CAGTAACTTAAATAAAAACTTTT-GAATAATT
34274228 CA
1 CA
34274230 ATAATAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (31 bp):
CAGTAACTTAAATAAAAACTTTTGAATAATT
Found at i:34274932 original size:18 final size:19
Alignment explanation
Indices: 34274909--34274946 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
34274899 TTGATATGAT
*
34274909 ACTAAAATTAT-TAAAAAA
1 ACTAAAAATATATAAAAAA
34274927 ACTAAAAATATATAAAAAA
1 ACTAAAAATATATAAAAAA
34274946 A
1 A
34274947 ATCAGGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (19 bp):
ACTAAAAATATATAAAAAA
Found at i:34275245 original size:23 final size:21
Alignment explanation
Indices: 34275215--34275258 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34275205 AAATTAAATC
34275215 TCTAAGATTACAAAATCATATCT
1 TCTAAGATTAC--AATCATATCT
*
34275238 TCTAAGATTGCAATCATATCT
1 TCTAAGATTACAATCATATCT
34275259 AAGATTGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 10 0.50
23 10 0.50
ACGTcount: A:0.39, C:0.18, G:0.07, T:0.36
Consensus pattern (21 bp):
TCTAAGATTACAATCATATCT
Found at i:34275272 original size:17 final size:18
Alignment explanation
Indices: 34275238--34275290 Score: 81
Period size: 17 Copynumber: 2.9 Consensus size: 18
34275228 AATCATATCT
34275238 TCTAAGATTGCAATCATA
1 TCTAAGATTGCAATCATA
*
34275256 TCTAAGATTG-TATCATA
1 TCTAAGATTGCAATCATA
34275273 TCTAAGATTGCATATCAT
1 TCTAAGATTGCA-ATCAT
34275291 TGAAGATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 16 0.52
18 10 0.32
19 5 0.16
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (18 bp):
TCTAAGATTGCAATCATA
Found at i:34275757 original size:44 final size:45
Alignment explanation
Indices: 34275641--34275840 Score: 267
Period size: 45 Copynumber: 4.5 Consensus size: 45
34275631 GGAAGGCGAT
* * * *
34275641 ATCTGCTATCTTTGATCTGCTCCTCGTCTAATACAGAGACACCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
34275686 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
34275731 ATTTGCT-TCTTCAATCTGCTCCCCGTCTAATACAGAGATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* * * *
34275775 ATCTGTTATCTTCGATTTGCTCCCCGTCTAATATAGATATGCCAA
1 ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
* *
34275820 ATCTGTCATCTTGGATCTGCT
1 ATCTGTTATCTTCGATCTGCT
34275841 TCGATGTAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
44 40 0.29
45 97 0.71
ACGTcount: A:0.24, C:0.28, G:0.14, T:0.34
Consensus pattern (45 bp):
ATCTGTTATCTTCGATCTGCTCCCCGTCTAATACAGAGACGCCAA
Found at i:34275775 original size:89 final size:89
Alignment explanation
Indices: 34275655--34275821 Score: 271
Period size: 89 Copynumber: 1.9 Consensus size: 89
34275645 GCTATCTTTG
*
34275655 ATCTGCTCCTCGTCTAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
34275720 AGAGACGCCAAATTTGCTTCTTCA
66 AGAGACGCCAAATTTGCTTCTTCA
** * *
34275744 ATCTGCTCCCCGTCTAATACAGAGATGCCAAATCTGTTATCTTCGATTTGCTCCCCGTCTAATAT
1 ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
* *
34275809 AGATATGCCAAAT
66 AGAGACGCCAAAT
34275822 CTGTCATCTT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
89 71 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (89 bp):
ATCTGCTCCCCGTCTAATACAGAGACACCAAATCTGTTATCTTCGATCTGCTCCCCGTCTAATAC
AGAGACGCCAAATTTGCTTCTTCA
Found at i:34276745 original size:37 final size:37
Alignment explanation
Indices: 34276618--34276745 Score: 105
Period size: 37 Copynumber: 3.4 Consensus size: 37
34276608 TACCAAATCA
*
34276618 TCTTGGATCTGCTTCAATGAAGGTCAGATCTGCTATG
1 TCTTGGATCTGCTTCAATGAAGATCAGATCTGCTATG
* ** ** ** * *
34276655 TCTTTGATCTGCTCTCCGTCTA-ATACAGAGATGCCAAATCA
1 TCTTGGATCTGCT-TCAATGAAGAT-CAGATCTG-C-TAT-G
34276696 TCTTGGATCTGCTTCAATGAAGATCAGATCTGCTATG
1 TCTTGGATCTGCTTCAATGAAGATCAGATCTGCTATG
*
34276733 TCTTCGATCTGCT
1 TCTTGGATCTGCT
34276746 CTCTGTGAAA
Statistics
Matches: 65, Mismatches: 20, Indels: 12
0.67 0.21 0.12
Matches are distributed among these distances:
37 25 0.38
38 12 0.18
39 2 0.03
40 12 0.18
41 14 0.22
ACGTcount: A:0.23, C:0.23, G:0.20, T:0.35
Consensus pattern (37 bp):
TCTTGGATCTGCTTCAATGAAGATCAGATCTGCTATG
Found at i:34276772 original size:78 final size:78
Alignment explanation
Indices: 34275854--34276746 Score: 1723
Period size: 78 Copynumber: 11.4 Consensus size: 78
34275844 ATGTAAACAC
34275854 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34275919 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34275932 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34275997 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276010 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276075 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276088 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276153 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276166 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276231 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276244 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276309 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276322 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276387 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276400 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276465 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276478 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276543 TGGATCTGCTTCA
66 TGGATCTGCTTCA
34276556 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276621 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* * * * *
34276634 ATGAAGGTCAGATCTGCTATGTCTTTGATCTGCTCTCCGTCTAATACAGAGATGCCAAATCATCT
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
34276699 TGGATCTGCTTCA
66 TGGATCTGCTTCA
* *
34276712 ATGAAGATCAGATCTGCTATGTCTTCGATCTGCTC
1 ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTC
34276747 TCTGTGAAAT
Statistics
Matches: 808, Mismatches: 7, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 808 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (78 bp):
ATGAAGGTCAGATCTGCTATGTCTTCGATATGCTCGCCGTCTAATATAGAGATACCAAATCATCT
TGGATCTGCTTCA
Found at i:34285984 original size:70 final size:70
Alignment explanation
Indices: 34285871--34286009 Score: 251
Period size: 70 Copynumber: 2.0 Consensus size: 70
34285861 ATCTCGTGAT
* *
34285871 TTACAAAATCTATTTAGAAGGATACTTTAGGCATTTAGACAAACGAGAAATCGCAACCTAGCATG
1 TTACAAAATCTATTTAGAAAGATACTTTAGGCATTTAGACAAACGAGAAATCGCAACCCAGCATG
34285936 TTAGG
66 TTAGG
*
34285941 TTACAAAATCTATTTAGAAAGATACTTTAGGCATTTAGACAAACGGGAAATCGCAACCCAGCATG
1 TTACAAAATCTATTTAGAAAGATACTTTAGGCATTTAGACAAACGAGAAATCGCAACCCAGCATG
34286006 TTAG
66 TTAG
34286010 TGCACTATTT
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 66 1.00
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.27
Consensus pattern (70 bp):
TTACAAAATCTATTTAGAAAGATACTTTAGGCATTTAGACAAACGAGAAATCGCAACCCAGCATG
TTAGG
Found at i:34286221 original size:17 final size:17
Alignment explanation
Indices: 34286199--34286231 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34286189 GATATGATAC
34286199 TAAAAT-TATTAAAAAAT
1 TAAAATATA-TAAAAAAT
34286216 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
34286232 AATCAGGGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (17 bp):
TAAAATATATAAAAAAT
Found at i:34286232 original size:18 final size:17
Alignment explanation
Indices: 34286199--34286232 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
34286189 GATATGATAC
*
34286199 TAAAATTATTAAAAAAT
1 TAAAATTATAAAAAAAT
34286216 TAAAATATATAAAAAAA
1 TAAAAT-TATAAAAAAA
34286233 ATCAGGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (17 bp):
TAAAATTATAAAAAAAT
Found at i:34286514 original size:21 final size:22
Alignment explanation
Indices: 34286488--34286531 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
34286478 AAAAGGTATC
*
34286488 TACAAATTAAATC-TCTAAGAT
1 TACAAATCAAATCTTCTAAGAT
*
34286509 TACAAATCATATCTTCTAAGAT
1 TACAAATCAAATCTTCTAAGAT
34286531 T
1 T
34286532 GCATATCATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.43, C:0.16, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCAAATCTTCTAAGAT
Found at i:34286529 original size:22 final size:22
Alignment explanation
Indices: 34286488--34286544 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
34286478 AAAAGGTATC
* *
34286488 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
34286509 TACAAATCATATCTTCTAAGAT
1 TACAAATCATATCTTCTAAGAT
* *
34286531 TGCATATCATATCT
1 TACAAATCATATCT
34286545 AAGATTGTAT
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 11 0.35
22 20 0.65
ACGTcount: A:0.40, C:0.18, G:0.05, T:0.37
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:34286558 original size:22 final size:19
Alignment explanation
Indices: 34286514--34286561 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 19
34286504 AAGATTACAA
34286514 ATCATATCTTCTAAGATTG
1 ATCATATCTTCTAAGATTG
34286533 --CATATCATATCTAAGATTG
1 ATCATATC-T-TCTAAGATTG
34286552 TATCATATCT
1 -ATCATATCT
34286562 AAGATTGCAT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
17 6 0.25
18 1 0.04
19 10 0.42
21 1 0.04
22 6 0.25
ACGTcount: A:0.33, C:0.17, G:0.08, T:0.42
Consensus pattern (19 bp):
ATCATATCTTCTAAGATTG
Found at i:34286602 original size:36 final size:36
Alignment explanation
Indices: 34286526--34286603 Score: 115
Period size: 36 Copynumber: 2.2 Consensus size: 36
34286516 CATATCTTCT
*
34286526 AAGATTGCATATCATATCTAAGATTGTATCATATCT
1 AAGATTGCATATCATATCTAAGATTGTATCATATCG
34286562 AAGATTGCATATCATATCTAAGATTGCATATCAT-T-G
1 AAGATTGCATATCATATCTAAGATTG--TATCATATCG
34286598 AAGATT
1 AAGATT
34286604 ATATTTCCAT
Statistics
Matches: 39, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
36 32 0.82
37 1 0.03
38 6 0.15
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.37
Consensus pattern (36 bp):
AAGATTGCATATCATATCTAAGATTGTATCATATCG
Found at i:34286603 original size:17 final size:19
Alignment explanation
Indices: 34286523--34286595 Score: 132
Period size: 19 Copynumber: 3.9 Consensus size: 19
34286513 AATCATATCT
34286523 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34286542 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
34286559 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
34286578 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
34286596 TGAAGATTAT
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
17 17 0.33
19 35 0.67
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:34289171 original size:31 final size:31
Alignment explanation
Indices: 34289133--34289196 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
34289123 ACTTAATAGA
* *
34289133 CAATAACTTAAATAAAAACTTTTGAATAGTT
1 CAATAACTTAAATAAAAACTTTTAAATAATT
*
34289164 CAATAACTTAAATGAAAACTTTTAAATAATT
1 CAATAACTTAAATAAAAACTTTTAAATAATT
34289195 CA
1 CA
34289197 GTGATCAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.50, C:0.11, G:0.05, T:0.34
Consensus pattern (31 bp):
CAATAACTTAAATAAAAACTTTTAAATAATT
Found at i:34296984 original size:93 final size:93
Alignment explanation
Indices: 34296877--34297047 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
34296867 GCCCCTAAGT
* *
34296877 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
34296942 CGAGTTCGGATGCCTAGTTACATTTCAC
66 CGAGTTCGGATGCCTAGTTACATTTCAC
* *
34296970 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
34297035 CGAGTTCGGATGC
66 CGAGTTCGGATGC
34297048 TCAACCATCC
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGAACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:34297044 original size:46 final size:46
Alignment explanation
Indices: 34296872--34297044 Score: 201
Period size: 46 Copynumber: 3.7 Consensus size: 46
34296862 AACCCGCCCC
* * *
34296872 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* * *
34296918 TAAGTGAACTCGAACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCATCCA
* *
34296966 TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
34297011 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
34297045 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 13, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 60 0.57
47 28 0.27
48 2 0.02
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.28, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:34305173 original size:26 final size:26
Alignment explanation
Indices: 34305144--34305195 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
34305134 TCACTCGTTC
*
34305144 CCATTTCCATAAAAGAATCTTAATGG
1 CCATTTCAATAAAAGAATCTTAATGG
*
34305170 CCATTTCAATAAGAGAATCTTAATGG
1 CCATTTCAATAAAAGAATCTTAATGG
34305196 GTTAGAGCTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.13, T:0.31
Consensus pattern (26 bp):
CCATTTCAATAAAAGAATCTTAATGG
Found at i:34313925 original size:22 final size:21
Alignment explanation
Indices: 34313894--34313949 Score: 76
Period size: 22 Copynumber: 2.6 Consensus size: 21
34313884 TGAAGTTCTT
*
34313894 AAAATATTTTTTAGATTTGAAA
1 AAAATATTTTTTACATTT-AAA
*
34313916 AATATATTTTTATACATTTAAA
1 AAAATATTTTT-TACATTTAAA
34313938 AAAATATTTTTT
1 AAAATATTTTTT
34313950 GACAAAAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
21 1 0.03
22 23 0.77
23 6 0.20
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (21 bp):
AAAATATTTTTTACATTTAAA
Found at i:34314563 original size:84 final size:83
Alignment explanation
Indices: 34314458--34315101 Score: 474
Period size: 84 Copynumber: 7.7 Consensus size: 83
34314448 ATTACAAAGC
*
34314458 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATAACCATTTGCCTTAAAGGA
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAAT-ACCATTTGCCTCAAAGGA
*
34314523 CGTCGTTTCACAACATGGA
65 CGTCGTTTCACAACAAGGA
* * * * * * * * * *
34314542 ACTAAATTTTTAGTGGTGTTTTTCACAAACGCCGCAAATTTGCAATACTAATGTGACTCTAACGG
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATAC-CATTTGCCTC-AAAGG
* *
34314607 -CGTCGTTTCA-ATACAAAGC
64 ACGTCGTTTCACA-ACAAGGA
* * ** * *
34314626 ATTAAACTTTTAGTGGCGTTTTTAAGAAATGCCGCAAGTTTGCAATACCATTTGCCTTAAACGAC
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATACCATTTGCCTCAAAGGAC
* * *
34314691 ATCGTTTCACAATAGGGA
66 GTCGTTTCACAACAAGGA
* * * * * * * * *
34314709 ATTAAATTTTTAGTGGCGTTTTTCACAAACGCCACGAATTTGCCATACCAACTTGTCTCCAACA-
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATACC-ATTTGCCT-CAA-AG
** * *
34314773 G-CGTCGTTTCATTACAAAGC
63 GACGTCGTTTCACAACAAGGA
** *
34314793 ATTAAACTTTTAGTGGAATTTTTAAAAAAACGCCGCAAAATTGCAATACCATTTGCCTCAAACGA
1 ATTAAACTTTTAGTGGCGTTTTT-AAAAAACGCCGCAAAATTGCAATACCATTTGCCTCAAAGGA
* * *
34314858 C-TACGTTTTAGAATAAGGA
65 CGT-CGTTTCACAACAAGGA
* * * * * * * * * * * *
34314877 ATAAAATTTTTACTAGCGTTTTTCACAAACGCCGCGAATTTACAATACCAATTCGACTCCAACGG
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATACC-ATTTGCCT-CAAAGG
*** * *
34314942 -CGTCGTTTCGTTACAAAGC
64 ACGTCGTTTCACAACAAGGA
* * * * *
34314961 ATTAAAATTTTAGTGGCGTTTTTAGAAAACGCCACAAAATCGCAATACCCATTTGCCTCAAATGA
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATA-CCATTTGCCTCAAAGGA
***
34315026 AAACGTTTC-CGAACAAGGA
65 CGTCGTTTCAC-AACAAGGA
* * * *
34315045 ATAAAAATTTTAGTGGCGTCTTTAAAAAATGCCGCAAAATTGCAATACCCATTTGCC
1 ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATA-CCATTTGCC
34315102 CTAGACGATG
Statistics
Matches: 424, Mismatches: 118, Indels: 36
0.73 0.20 0.06
Matches are distributed among these distances:
82 4 0.01
83 92 0.22
84 293 0.69
85 34 0.08
86 1 0.00
ACGTcount: A:0.34, C:0.20, G:0.16, T:0.30
Consensus pattern (83 bp):
ATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATACCATTTGCCTCAAAGGAC
GTCGTTTCACAACAAGGA
Found at i:34314639 original size:168 final size:165
Alignment explanation
Indices: 34314382--34315093 Score: 809
Period size: 168 Copynumber: 4.2 Consensus size: 165
34314372 AGGTCCAGCA
* ** ** ** * *
34314382 TTAGCGGCGTTTCCCACAAACGTTGCAAATTTGCAATAATAAATTCGACTCCAACGGCATCATTT
1 TTAGTGGCGTTTTTCACAAACGCCGCAAATTTGCAAT-ACCAATTCGACTCCAACGGCGTCGTTT
34314447 CATTACAAAGCATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATAACCATTT
65 CATTACAAAGCATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAAT-ACCATTT
* * *
34314512 GCCTTAAAGGACGTCGTTTCACAACATGGAACTAAATTT
129 GCCTTAAACGAC-TCGTTTCACAATAAGGAA-TAAATTT
* * *
34314551 TTAGTGGTGTTTTTCACAAACGCCGCAAATTTGCAATACTAATGT-GACTCTAACGGCGTCGTTT
1 TTAGTGGCGTTTTTCACAAACGCCGCAAATTTGCAATACCAAT-TCGACTCCAACGGCGTCGTTT
* * * **
34314615 CAATACAAAGCATTAAACTTTTAGTGGCGTTTTTAAGAAATGCCGCAAGTTTGCAATACCATTTG
65 CATTACAAAGCATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATACCATTTG
*
34314680 CCTTAAACGACATCGTTTCACAATAGGGAATTAAATTT
130 CCTTAAACGAC-TCGTTTCACAATAAGGAA-TAAATTT
* * * * *
34314718 TTAGTGGCGTTTTTCACAAACGCCACGAATTTGCCATACCAACTT-GTCTCCAACAGCGTCGTTT
1 TTAGTGGCGTTTTTCACAAACGCCGCAAATTTGCAATACCAA-TTCGACTCCAACGGCGTCGTTT
**
34314782 CATTACAAAGCATTAAACTTTTAGTGGAATTTTTAAAAAAACGCCGCAAAATTGCAATACCATTT
65 CATTACAAAGCATTAAACTTTTAGTGGCGTTTTT-AAAAAACGCCGCAAAATTGCAATACCATTT
* * *
34314847 GCCTCAAACGACTACGTTTTAGAATAAGGAATAAAATTT
129 GCCTTAAACGACT-CGTTTCACAATAAGGAAT-AAATTT
* * * *
34314886 TTACTAGCGTTTTTCACAAACGCCGCGAATTTACAATACCAATTCGACTCCAACGGCGTCGTTTC
1 TTAGTGGCGTTTTTCACAAACGCCGCAAATTTGCAATACCAATTCGACTCCAACGGCGTCGTTTC
* * * * *
34314951 GTTACAAAGCATTAAAATTTTAGTGGCGTTTTTAGAAAACGCCACAAAATCGCAATACCCATTTG
66 ATTACAAAGCATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATA-CCATTTG
* * ** * *
34315016 CCTCAAATGAAAACGTTTC-CGAACAAGGAATAAAAATT
130 CCTTAAACG-ACTCGTTTCAC-AATAAGGAAT-AAATTT
* * * * *
34315054 TTAGTGGCGTCTTTAAAAAATGCCGCAAAATTGCAATACC
1 TTAGTGGCGTTTTTCACAAACGCCGCAAATTTGCAATACC
34315094 CATTTGCCCT
Statistics
Matches: 464, Mismatches: 70, Indels: 19
0.84 0.13 0.03
Matches are distributed among these distances:
167 151 0.33
168 280 0.60
169 33 0.07
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.30
Consensus pattern (165 bp):
TTAGTGGCGTTTTTCACAAACGCCGCAAATTTGCAATACCAATTCGACTCCAACGGCGTCGTTTC
ATTACAAAGCATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAAAATTGCAATACCATTTGC
CTTAAACGACTCGTTTCACAATAAGGAATAAATTT
Found at i:34315008 original size:335 final size:336
Alignment explanation
Indices: 34314430--34315063 Score: 859
Period size: 335 Copynumber: 1.9 Consensus size: 336
34314420 ATAAATTCGA
* **
34314430 CTCCAACGGCATCATTTCATTACAAAGCATTAAACTTTTAGTGGCGTTTTTAAAAAACGCCGCAA
1 CTCCAACAGCATCATTTCATTACAAAGCATTAAACTTTTAGTGGAATTTTTAAAAAACGCCGCAA
* * * * * *
34314495 AATTGCAATAACCATTTGCCTTAAAGGACGTCGTTTCACAACATGGAACTAAATTTTTAGTGGTG
66 AATTGCAATAACCATTTGCCTCAAACGACGTCGTTTCACAACAAGGAACTAAATTTTTACTAGCG
* * *
34314560 TTTTTCACAAACGCCGCAAATTTGCAATACTAATGTGACTCTAACGGCGTCGTTTCAATACAAAG
131 TTTTTCACAAACGCCGCAAATTTACAATACCAATGTGACTCCAACGGCGTCGTTTCAATACAAAG
* * * ** * *
34314625 CATTAAACTTTTAGTGGCGTTTTTAAGAAATGCCGCAAGTTTGCAATA-CCATTTGCCTTAAACG
196 CATTAAAATTTTAGTGGCGTTTTTAAGAAACGCCACAAAATCGCAATACCCATTTGCCTCAAACG
* * * * * *
34314689 ACATCGTTTCAC-AATAGGGAATTAAATTTTTAGTGGCGTTTTTCACAAACGCCACGAATTTGCC
261 AAAACGTTTC-CGAACAAGGAATAAAAATTTTAGTGGCGTTTTTCACAAACGCCACGAATTTGCC
34314753 ATACCAACTTGT
325 ATACCAACTTGT
* *
34314765 CTCCAACAGCGTCGTTTCATTACAAAGCATTAAACTTTTAGTGGAATTTTTAAAAAAACGCCGCA
1 CTCCAACAGCATCATTTCATTACAAAGCATTAAACTTTTAGTGGAATTTTT-AAAAAACGCCGCA
* * *
34314830 AAATTGCAAT-ACCATTTGCCTCAAACGAC-TACGTTTTAGAATAAGGAA-TAAAATTTTTACTA
65 AAATTGCAATAACCATTTGCCTCAAACGACGT-CGTTTCACAACAAGGAACT-AAATTTTTACTA
* **
34314892 GCGTTTTTCACAAACGCCGCGAATTTACAATACCAAT-TCGACTCCAACGGCGTCGTTTCGTTAC
128 GCGTTTTTCACAAACGCCGCAAATTTACAATACCAATGT-GACTCCAACGGCGTCGTTTCAATAC
34314956 AAAGCATTAAAATTTTAGTGGCGTTTTT-AGAAAACGCCACAAAATCGCAATACCCATTTGCCTC
192 AAAGCATTAAAATTTTAGTGGCGTTTTTAAG-AAACGCCACAAAATCGCAATACCCATTTGCCTC
*
34315020 AAATGAAAACGTTTCCGAACAAGGAATAAAAATTTTAGTGGCGT
256 AAACGAAAACGTTTCCGAACAAGGAATAAAAATTTTAGTGGCGT
34315064 CTTTAAAAAA
Statistics
Matches: 258, Mismatches: 34, Indels: 13
0.85 0.11 0.04
Matches are distributed among these distances:
334 5 0.02
335 185 0.72
336 68 0.26
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (336 bp):
CTCCAACAGCATCATTTCATTACAAAGCATTAAACTTTTAGTGGAATTTTTAAAAAACGCCGCAA
AATTGCAATAACCATTTGCCTCAAACGACGTCGTTTCACAACAAGGAACTAAATTTTTACTAGCG
TTTTTCACAAACGCCGCAAATTTACAATACCAATGTGACTCCAACGGCGTCGTTTCAATACAAAG
CATTAAAATTTTAGTGGCGTTTTTAAGAAACGCCACAAAATCGCAATACCCATTTGCCTCAAACG
AAAACGTTTCCGAACAAGGAATAAAAATTTTAGTGGCGTTTTTCACAAACGCCACGAATTTGCCA
TACCAACTTGT
Found at i:34315498 original size:21 final size:21
Alignment explanation
Indices: 34315424--34315504 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
34315414 AGAGGCTATG
*
34315424 GTTTAAGGTTTATGGTTTCAAA
1 GTTTAATGTTTATGGTTT-AAA
* * * *
34315446 -TTTATTGGTTATGATTTTAAG
1 GTTTAATGTTTATG-GTTTAAA
*
34315467 GTTTAGTGTTTATGGTTTAAA
1 GTTTAATGTTTATGGTTTAAA
* *
34315488 GTTTAAAGTTTAGGGTT
1 GTTTAATGTTTATGGTT
34315505 AGGGTTAGGT
Statistics
Matches: 45, Mismatches: 12, Indels: 5
0.73 0.19 0.08
Matches are distributed among these distances:
21 31 0.69
22 14 0.31
ACGTcount: A:0.25, C:0.01, G:0.23, T:0.51
Consensus pattern (21 bp):
GTTTAATGTTTATGGTTTAAA
Found at i:34315742 original size:7 final size:7
Alignment explanation
Indices: 34315681--34315756 Score: 66
Period size: 7 Copynumber: 10.7 Consensus size: 7
34315671 TGGCTATATA
34315681 GTTTAGG
1 GTTTAGG
34315688 GTTT-GTG
1 GTTTAG-G
34315695 GTTTAGG
1 GTTTAGG
*
34315702 ATTTAGG
1 GTTTAGG
*
34315709 GTTCTATG
1 GTT-TAGG
* *
34315717 G-CTAAG
1 GTTTAGG
*
34315723 GTTATATG
1 GTT-TAGG
34315731 GTTTAGG
1 GTTTAGG
34315738 GTTTAGG
1 GTTTAGG
34315745 GTTTAGG
1 GTTTAGG
34315752 GTTTA
1 GTTTA
34315757 AAGTTTTAAG
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
6 5 0.09
7 40 0.71
8 11 0.20
ACGTcount: A:0.17, C:0.03, G:0.36, T:0.45
Consensus pattern (7 bp):
GTTTAGG
Found at i:34316438 original size:19 final size:19
Alignment explanation
Indices: 34316414--34316465 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
34316404 TTTCCCTTAA
*
34316414 AAAATTTCCCCAAATCCCT
1 AAAATTTCCCCAAAACCCT
*
34316433 AAAATTTCCCCAAAACCTT
1 AAAATTTCCCCAAAACCCT
34316452 AAAATTTCCCCAAA
1 AAAATTTCCCCAAA
34316466 CAAAAATCGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.42, C:0.33, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATTTCCCCAAAACCCT
Found at i:34318599 original size:9 final size:9
Alignment explanation
Indices: 34318571--34318691 Score: 138
Period size: 9 Copynumber: 13.6 Consensus size: 9
34318561 AATACCATAT
34318571 CATAACTTA
1 CATAACTTA
34318580 C-TAACTTA
1 CATAACTTA
*
34318588 CATAATTTA
1 CATAACTTA
*
34318597 CATCACTTA
1 CATAACTTA
34318606 CATAACTTA
1 CATAACTTA
*
34318615 CATAATTTA
1 CATAACTTA
34318624 CATAACTTA
1 CATAACTTA
*
34318633 CATAA-ATA
1 CATAACTTA
* * *
34318641 AATATCATA
1 CATAACTTA
34318650 TCATAACTTA
1 -CATAACTTA
34318660 CATAACTTA
1 CATAACTTA
* *
34318669 CGTAATTTA
1 CATAACTTA
34318678 CATAACTTA
1 CATAACTTA
34318687 CATAA
1 CATAA
34318692 ATATATATCA
Statistics
Matches: 93, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
8 13 0.14
9 74 0.80
10 6 0.06
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.36
Consensus pattern (9 bp):
CATAACTTA
Found at i:34318613 original size:27 final size:27
Alignment explanation
Indices: 34318571--34318691 Score: 158
Period size: 27 Copynumber: 4.5 Consensus size: 27
34318561 AATACCATAT
34318571 CATAACTTAC-TAACTTACATAATTTA
1 CATAACTTACATAACTTACATAATTTA
*
34318597 CATCACTTACATAACTTACATAATTTA
1 CATAACTTACATAACTTACATAATTTA
* * *
34318624 CATAACTTACATAA-ATAAAT-ATCATA
1 CATAACTTACATAACTTACATAAT-TTA
*
34318650 TCATAACTTACATAACTTACGTAATTTA
1 -CATAACTTACATAACTTACATAATTTA
34318678 CATAACTTACATAA
1 CATAACTTACATAA
34318692 ATATATATCA
Statistics
Matches: 81, Mismatches: 9, Indels: 9
0.82 0.09 0.09
Matches are distributed among these distances:
25 2 0.02
26 15 0.19
27 57 0.70
28 5 0.06
29 2 0.02
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.36
Consensus pattern (27 bp):
CATAACTTACATAACTTACATAATTTA
Found at i:34318664 original size:54 final size:54
Alignment explanation
Indices: 34318601--34318703 Score: 188
Period size: 54 Copynumber: 1.9 Consensus size: 54
34318591 AATTTACATC
34318601 ACTTACATAACTTACATAATTTACATAACTTACATAAATAAATATCATATCATA
1 ACTTACATAACTTACATAATTTACATAACTTACATAAATAAATATCATATCATA
* *
34318655 ACTTACATAACTTACGTAATTTACATAACTTACATAAATATATATCATA
1 ACTTACATAACTTACATAATTTACATAACTTACATAAATAAATATCATA
34318704 ACTTACATAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.47, C:0.17, G:0.01, T:0.36
Consensus pattern (54 bp):
ACTTACATAACTTACATAATTTACATAACTTACATAAATAAATATCATATCATA
Found at i:34324218 original size:21 final size:21
Alignment explanation
Indices: 34324194--34324234 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
34324184 AGAGCGAAGG
34324194 CAGCAACGAGAGAAGCAGAGA
1 CAGCAACGAGAGAAGCAGAGA
*
34324215 CAGCAGCGAGAGAAGCAGAG
1 CAGCAACGAGAGAAGCAGAG
34324235 CAGAGCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.44, C:0.20, G:0.37, T:0.00
Consensus pattern (21 bp):
CAGCAACGAGAGAAGCAGAGA
Found at i:34324480 original size:19 final size:19
Alignment explanation
Indices: 34324445--34324505 Score: 88
Period size: 19 Copynumber: 3.2 Consensus size: 19
34324435 ATCATATAGA
* *
34324445 TTTGCTATTT-CTAGTTGAC
1 TTTG-TATTTACTGGTTGGC
34324464 TTTGTATTTACTGGTTGGC
1 TTTGTATTTACTGGTTGGC
34324483 TTTGTATTTACTGGTTGGC
1 TTTGTATTTACTGGTTGGC
34324502 TTTG
1 TTTG
34324506 ATTGTTACAA
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
18 5 0.13
19 34 0.87
ACGTcount: A:0.11, C:0.11, G:0.23, T:0.54
Consensus pattern (19 bp):
TTTGTATTTACTGGTTGGC
Found at i:34324623 original size:43 final size:43
Alignment explanation
Indices: 34324575--34324681 Score: 142
Period size: 43 Copynumber: 2.5 Consensus size: 43
34324565 GCGGCGTTTT
**
34324575 TAAAAAACGCCGCTAAAGAACAAGACTTTTAGCGATGCTTCCA
1 TAAAAAACGCCGCTAAAGAACAAGACTTTTAGCGACACTTCCA
* * *
34324618 TAAAAAACGCCACTAAAGAATAAGACTTTTAGCGGCACTTCCA
1 TAAAAAACGCCGCTAAAGAACAAGACTTTTAGCGACACTTCCA
* * *
34324661 TGAAAAATGCCGCTATAGAAC
1 TAAAAAACGCCGCTAAAGAAC
34324682 GTGACCTTTA
Statistics
Matches: 54, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
43 54 1.00
ACGTcount: A:0.41, C:0.22, G:0.16, T:0.21
Consensus pattern (43 bp):
TAAAAAACGCCGCTAAAGAACAAGACTTTTAGCGACACTTCCA
Found at i:34324935 original size:128 final size:129
Alignment explanation
Indices: 34324707--34324996 Score: 347
Period size: 128 Copynumber: 2.3 Consensus size: 129
34324697 GTTTTTCACT
* * * *
34324707 AAAGCACCGCTAAAGGTAATGTTCTATTGCGGCGTTTGTAGTAAAAGCGCCACTAAAGGTCATGT
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTCTAG-AAAAGCGCCACTAAAGGTCATGT
* * *
34324772 TCTATAGCGGCGTTTGTGGTAAAAGCGCCGCTAAAGGTAACATTCTATAGTGGCGTTTGATGT-A
65 TCTATAACGGCGTTGGTGGTAAAAGCGCCGCTAAAGGTAACATTCTATAGCGGCGTTT-ATGTGA
34324836 -
129 G
* *
34324836 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGTGTTTCTCA-ACAAA-CGCCGCTAAAGGTCATG
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTCT-AGA-AAAGCGCCACTAAAGGTCATG
* * * * * ** *
34324899 TTCTATAATGGCGTTGGTTGTAAAAGTGCCGTTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGA
64 TTCTATAACGGCGTTGGTGGTAAAAGCGCCGCTAAAGGTAACATTCTATAGCGGCGTTTATGTGA
34324964 G
129 G
*
34324965 AAA-CGCCACTAAAGGTCATGTTCTATAGCGGC
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGC
34324997 ATTTTTTCAA
Statistics
Matches: 138, Mismatches: 19, Indels: 9
0.83 0.11 0.05
Matches are distributed among these distances:
127 3 0.02
128 94 0.68
129 40 0.29
130 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (129 bp):
AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTCTAGAAAAGCGCCACTAAAGGTCATGTT
CTATAACGGCGTTGGTGGTAAAAGCGCCGCTAAAGGTAACATTCTATAGCGGCGTTTATGTGAG
Found at i:34325002 original size:43 final size:42
Alignment explanation
Indices: 34324707--34325002 Score: 317
Period size: 43 Copynumber: 6.9 Consensus size: 42
34324697 GTTTTTCACT
* * * *
34324707 AAAGCACCGCTAAAGGTAATGTTCTATTGCGGCGTTTGTAGTA
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT-TTGTA
* *
34324750 AAAGCGCCACTAAAGGTCATGTTCTATAGCGGCGTTTGTGGTA
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT-TTGTA
* ** * *
34324793 AAAGCGCCGCTAAAGGTAACATTCTATAGTGGCGTTTGATGTA
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTT-TTGTA
* * *
34324836 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGTGTTTCT-CA
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTA
* ** *
34324877 ACAAACGCCGCTAAAGGTCATGTTCTATAATGGCGTTGGTTGTA
1 A-AAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTT-TTTGTA
* *
34324921 AAAGTGCCGTTAAAGGTCATGTTCTATAGCGGCGTTTTTGTGA
1 AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGT-A
* *
34324964 GAAA-CGCCACTAAAGGTCATGTTCTATAGCGGCATTTTT
1 -AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTT
34325003 TCAAATAAAC
Statistics
Matches: 212, Mismatches: 36, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
41 2 0.01
42 36 0.17
43 169 0.80
44 5 0.02
ACGTcount: A:0.27, C:0.18, G:0.25, T:0.30
Consensus pattern (42 bp):
AAAGCGCCGCTAAAGGTCATGTTCTATAGCGGCGTTTTTGTA
Found at i:34327002 original size:13 final size:13
Alignment explanation
Indices: 34326984--34327008 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34326974 GCACCAAATG
34326984 TTTATTGTTAGTA
1 TTTATTGTTAGTA
34326997 TTTATTGTTAGT
1 TTTATTGTTAGT
34327009 TTCAAAATCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (13 bp):
TTTATTGTTAGTA
Found at i:34329402 original size:4 final size:4
Alignment explanation
Indices: 34329387--34329422 Score: 54
Period size: 4 Copynumber: 9.0 Consensus size: 4
34329377 AGATTACTGT
* *
34329387 ATAG AAAG ATAG ATAG ATAG ATAG ATAA ATAG ATAG
1 ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG ATAG
34329423 GCATGCATAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.56, C:0.00, G:0.22, T:0.22
Consensus pattern (4 bp):
ATAG
Found at i:34332966 original size:18 final size:18
Alignment explanation
Indices: 34332943--34332978 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
34332933 TACATGTTTA
34332943 AACATAACATTATTGAAT
1 AACATAACATTATTGAAT
34332961 AACATAACATTATTGAAT
1 AACATAACATTATTGAAT
34332979 TAAGTAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.11, G:0.06, T:0.33
Consensus pattern (18 bp):
AACATAACATTATTGAAT
Found at i:34335398 original size:49 final size:46
Alignment explanation
Indices: 34335326--34335432 Score: 142
Period size: 49 Copynumber: 2.3 Consensus size: 46
34335316 TCTAAATAAG
** *
34335326 AAAAGGCAAAACAACGTTGTTTTGATAAATGTTTACTACTTCTAAAGTT
1 AAAAGGCAAAACAACGTCATTTTGATAAATGTTTACT-CAT-T-AAGTT
* *
34335375 AAAAGTCAAAACTACGTCATTTTGATAAATGTTTACTCATTAAGTT
1 AAAAGGCAAAACAACGTCATTTTGATAAATGTTTACTCATTAAGTT
34335421 AAAAGGCAAAAC
1 AAAAGGCAAAAC
34335433 CATTATATTT
Statistics
Matches: 52, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
46 16 0.31
47 1 0.02
48 2 0.04
49 33 0.63
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (46 bp):
AAAAGGCAAAACAACGTCATTTTGATAAATGTTTACTCATTAAGTT
Found at i:34338196 original size:42 final size:41
Alignment explanation
Indices: 34338079--34338284 Score: 218
Period size: 42 Copynumber: 4.9 Consensus size: 41
34338069 TACCGTACCA
* ** *
34338079 ATGCCATATCCCAGATATGGTCTTACATGTAA-TCTTGTACCG
1 ATGCCATATCCCAGATAT-GTCTTACACG-AAGTCTCATATCG
* * *
34338121 ATGCGA-ATGGCCCAGCTATGGTCTTACATGAAGTCTCATATCG
1 ATGCCATAT--CCCAGATAT-GTCTTACACGAAGTCTCATATCG
*
34338164 ATGCCATATCCTAGATATAGTCTTACACGAAGTCTCATATCG
1 ATGCCATATCCCAGATAT-GTCTTACACGAAGTCTCATATCG
* *
34338206 ATGCCATATCCCAAATATGTTCTTACATGAAGTCTCATATCG
1 ATGCCATATCCCAGATATG-TCTTACACGAAGTCTCATATCG
* *
34338248 ATGTCATATCCCAGATATGGTCTTACACGAAATCTCA
1 ATGCCATATCCCAGATAT-GTCTTACACGAAGTCTCA
34338285 ATAACCCTAA
Statistics
Matches: 141, Mismatches: 17, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
41 3 0.02
42 104 0.74
43 32 0.23
44 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (41 bp):
ATGCCATATCCCAGATATGTCTTACACGAAGTCTCATATCG
Found at i:34357412 original size:26 final size:26
Alignment explanation
Indices: 34357364--34357415 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
34357354 AAGATAGTTA
* *
34357364 CAAATCTTAAATATGAATTATAAAAT
1 CAAATCCTAAATATGAATAATAAAAT
34357390 CAAATCCTAAATATCG-ATAATAAAAT
1 CAAATCCTAAATAT-GAATAATAAAAT
34357416 TAATATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.31
Consensus pattern (26 bp):
CAAATCCTAAATATGAATAATAAAAT
Found at i:34368089 original size:34 final size:33
Alignment explanation
Indices: 34368045--34368108 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
34368035 TCAGACACAG
*
34368045 ATCTTAAAACCAATACTAATTT-AAGAAAAGATGA
1 ATCTTAAAACCAAGACT-ATTTGAA-AAAAGATGA
*
34368079 ATCTTGAAACCAAGACTATTTGAAAAAAGA
1 ATCTTAAAACCAAGACTATTTGAAAAAAGA
34368109 GAGAAGAATC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
33 10 0.37
34 17 0.63
ACGTcount: A:0.52, C:0.12, G:0.11, T:0.25
Consensus pattern (33 bp):
ATCTTAAAACCAAGACTATTTGAAAAAAGATGA
Found at i:34371581 original size:21 final size:21
Alignment explanation
Indices: 34371554--34371600 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
34371544 TAATAGAAGC
34371554 AAAAAGACAA-AAAAAATCAA
1 AAAAAGACAATAAAAAATCAA
* *
34371574 AGAAAAGAGAATAAAATATCAA
1 A-AAAAGACAATAAAAAATCAA
34371596 AAAAA
1 AAAAA
34371601 TGAAACTAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.04
21 12 0.52
22 10 0.43
ACGTcount: A:0.77, C:0.06, G:0.09, T:0.09
Consensus pattern (21 bp):
AAAAAGACAATAAAAAATCAA
Found at i:34373627 original size:3 final size:3
Alignment explanation
Indices: 34373619--34373645 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34373609 CATGATTGCA
34373619 AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT
34373646 TGGCATAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:34376729 original size:46 final size:46
Alignment explanation
Indices: 34376662--34376981 Score: 417
Period size: 46 Copynumber: 7.0 Consensus size: 46
34376652 TTATCTTTGA
* * * *
34376662 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCA-TTTCATGT
* **
34376708 CATGTTACCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
34376754 CACGTTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * **
34376800 CACGCTGCCATGGTATCTTTCAACCATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* *
34376846 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * * *
34376892 CATGTTGTCATGATATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
* * *
34376938 CATGTTACCATGTTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCAT
34376982 TTCAAAAAGC
Statistics
Matches: 248, Mismatches: 25, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
45 4 0.02
46 244 0.98
ACGTcount: A:0.22, C:0.24, G:0.13, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACTCATTTCATGT
Found at i:34376887 original size:21 final size:21
Alignment explanation
Indices: 34376863--34376934 Score: 65
Period size: 21 Copynumber: 3.2 Consensus size: 21
34376853 CCATGGTATC
34376863 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
* * *
34376884 TTTCATATCATGTTGTCATGATATC-
1 TTTCA-ACCATG--GTC-TTACA-CA
34376909 TTTCAACCATGGTCTTACACA
1 TTTCAACCATGGTCTTACACA
34376930 TTTCA
1 TTTCA
34376935 TATCATGTTA
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
20 1 0.03
21 13 0.33
22 8 0.21
24 8 0.21
25 8 0.21
26 1 0.03
ACGTcount: A:0.26, C:0.24, G:0.10, T:0.40
Consensus pattern (21 bp):
TTTCAACCATGGTCTTACACA
Found at i:34378828 original size:24 final size:22
Alignment explanation
Indices: 34378798--34378856 Score: 82
Period size: 24 Copynumber: 2.6 Consensus size: 22
34378788 CTTTATATAC
34378798 TAATAAAATAATAATAAAATATCT
1 TAATAAAATAATAATAAAATA--T
* *
34378822 TATTAAAATATTAATAAAATAT
1 TAATAAAATAATAATAAAATAT
34378844 TAATAAAATAATA
1 TAATAAAATAATA
34378857 TTTATCTAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
22 12 0.39
24 19 0.61
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.36
Consensus pattern (22 bp):
TAATAAAATAATAATAAAATAT
Found at i:34378858 original size:14 final size:11
Alignment explanation
Indices: 34378798--34378853 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
34378788 CTTTATATAC
*
34378798 TAATAAAATAA
1 TAATAAAATAT
34378809 TAATAAAATATCT
1 TAATAAAATA--T
*
34378822 TATTAAAATAT
1 TAATAAAATAT
34378833 TAATAAAATAT
1 TAATAAAATAT
34378844 TAATAAAATA
1 TAATAAAATA
34378854 ATATTTATCT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
11 31 0.77
13 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (11 bp):
TAATAAAATAT
Found at i:34390316 original size:20 final size:20
Alignment explanation
Indices: 34390268--34390316 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
34390258 TTTTTTTCTT
* * **
34390268 TTTACTTTCCCCTCAAAACT
1 TTTACTTTCTCCTAAAAAAA
34390288 TTTAC-TTCTCCTAAAAAAA
1 TTTACTTTCTCCTAAAAAAA
34390307 TTTACTTTCT
1 TTTACTTTCT
34390317 TCCAAACCCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.29, C:0.27, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTACTTTCTCCTAAAAAAA
Found at i:34390446 original size:51 final size:54
Alignment explanation
Indices: 34390317--34390434 Score: 154
Period size: 52 Copynumber: 2.3 Consensus size: 54
34390307 TTTACTTTCT
* *
34390317 TCCAAACCCTTAAATTTTTTTCCTTTTACTTTCTCCCCAAAAATGTTACTTCCC
1 TCCAAACCCCTAAATTTTTTTCCTTTTACTTTCTCCCCAAAAATGTCACTTCCC
** * *
34390371 -CTGAACCCCT-AATTTTTTTCCTTTTTCTTTC-CCCCAAAACT-TCACTTCCC
1 TCCAAACCCCTAAATTTTTTTCCTTTTACTTTCTCCCCAAAAATGTCACTTCCC
34390421 TCCAAACCCCTAAA
1 TCCAAACCCCTAAA
34390435 ACTTTTTCTT
Statistics
Matches: 54, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
50 8 0.15
51 17 0.31
52 22 0.41
53 7 0.13
ACGTcount: A:0.24, C:0.36, G:0.02, T:0.39
Consensus pattern (54 bp):
TCCAAACCCCTAAATTTTTTTCCTTTTACTTTCTCCCCAAAAATGTCACTTCCC
Found at i:34391778 original size:31 final size:30
Alignment explanation
Indices: 34391741--34391806 Score: 80
Period size: 32 Copynumber: 2.1 Consensus size: 30
34391731 ATTTTTATAT
34391741 TTTTATAATGATTTCTT-TTAATTTTATAAAA
1 TTTTATAAT-ATTT-TTATTAATTTTATAAAA
*
34391772 TTTTATAATATTTTTAACTTAATTTTGTAAAA
1 TTTTATAATATTTTT-A-TTAATTTTATAAAA
34391804 TTT
1 TTT
34391807 AAAATAATAT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
29 2 0.06
30 4 0.13
31 9 0.29
32 16 0.52
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.59
Consensus pattern (30 bp):
TTTTATAATATTTTTATTAATTTTATAAAA
Found at i:34403207 original size:30 final size:28
Alignment explanation
Indices: 34403166--34403226 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 28
34403156 TTTGTTTGTT
* * *
34403166 TATTTTGAGTTTGTTTAATGATATATTA
1 TATTTTGAGTTTATTAAATAATATATTA
*
34403194 TATTTGTGAAGTTTATTAAATAATATTTTA
1 TATTT-TG-AGTTTATTAAATAATATATTA
34403224 TAT
1 TAT
34403227 AGTTAATGAG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
28 5 0.19
29 2 0.07
30 20 0.74
ACGTcount: A:0.33, C:0.00, G:0.11, T:0.56
Consensus pattern (28 bp):
TATTTTGAGTTTATTAAATAATATATTA
Found at i:34403420 original size:14 final size:14
Alignment explanation
Indices: 34403403--34403430 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
34403393 TTATATACAT
34403403 ATATAAAATATTTA
1 ATATAAAATATTTA
34403417 ATATAAAATATTTA
1 ATATAAAATATTTA
34403431 CAAATATCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
ATATAAAATATTTA
Found at i:34414393 original size:163 final size:164
Alignment explanation
Indices: 34414189--34414517 Score: 633
Period size: 163 Copynumber: 2.0 Consensus size: 164
34414179 TCCAACGAAA
*
34414189 AGAGCTATATGTACTTCAATATTCATGACCTCAATAAGCAGTAATTGCCGCTTGTAGAATTCATA
1 AGAGCTATATGTACTTCAAGA-TCATGACCTCAATAAGCAGTAATTGCCGCTTGTAGAATTCATA
34414254 AAATAAATTCTTTGATTCTCAACCTGTGAGCCATCATTGAATAAAGATTCTTTTGTGTTGAAGCA
65 AAATAAATTCTTTGATTCTCAACCTGTGAGCCATCATTGAATAAAGATTCTTTTGTGTTGAAGCA
34414319 AATTTGCTGTAATAATCTACTGTTATTTGACAACT
130 AATTTGCTGTAATAATCTACTGTTATTTGACAACT
34414354 AGAGCTATATGTACTTCAAGA-CATGACCTCAATAAGCAGTAATTGCCGCTTGTAGAATTCATAA
1 AGAGCTATATGTACTTCAAGATCATGACCTCAATAAGCAGTAATTGCCGCTTGTAGAATTCATAA
34414418 AATAAATTCTTTGATTCTCAACCTGTGAGCCATCATTGAATAAAGATTCTTTTGTGTTGAAGCAA
66 AATAAATTCTTTGATTCTCAACCTGTGAGCCATCATTGAATAAAGATTCTTTTGTGTTGAAGCAA
34414483 ATTTGCTGTAATAATCTACTGTTATTTGACAACT
131 ATTTGCTGTAATAATCTACTGTTATTTGACAACT
34414517 A
1 A
34414518 CATTACAAGT
Statistics
Matches: 163, Mismatches: 1, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
163 143 0.88
165 20 0.12
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (164 bp):
AGAGCTATATGTACTTCAAGATCATGACCTCAATAAGCAGTAATTGCCGCTTGTAGAATTCATAA
AATAAATTCTTTGATTCTCAACCTGTGAGCCATCATTGAATAAAGATTCTTTTGTGTTGAAGCAA
ATTTGCTGTAATAATCTACTGTTATTTGACAACT
Found at i:34414685 original size:22 final size:22
Alignment explanation
Indices: 34414655--34414696 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
34414645 CCATATCAGA
34414655 AAAAAAAAAAAAAAAACAAAAC
1 AAAAAAAAAAAAAAAACAAAAC
* * *
34414677 AAAACAAAACAAAAAGCAAA
1 AAAAAAAAAAAAAAAACAAA
34414697 TTTCAGCTAT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.86, C:0.12, G:0.02, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAAAAAAACAAAAC
Found at i:34417077 original size:9 final size:10
Alignment explanation
Indices: 34417061--34417107 Score: 51
Period size: 9 Copynumber: 4.5 Consensus size: 10
34417051 TGTATAGGAG
34417061 TATATATTTT
1 TATATATTTT
34417071 T-TATATTTT
1 TATATATTTT
34417080 TATATATTTAT
1 TATATATTT-T
*
34417091 ATACATACTTTT
1 -TATATA-TTTT
34417103 TATAT
1 TATAT
34417108 TTTATGATAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
9 9 0.29
10 8 0.26
11 5 0.16
12 6 0.19
13 3 0.10
ACGTcount: A:0.32, C:0.04, G:0.00, T:0.64
Consensus pattern (10 bp):
TATATATTTT
Found at i:34417814 original size:109 final size:109
Alignment explanation
Indices: 34417617--34417824 Score: 346
Period size: 109 Copynumber: 1.9 Consensus size: 109
34417607 AAATGTTTCC
34417617 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
* * *
34417682 CTCGTTCGACCAAATAGCTAAATATCCTTTTGAAAACTTTTCAA
66 CTCATTCAACCAAATAGCTAAATATCCTATTGAAAACTTTTCAA
*
34417726 AAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
1 AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
* *
34417791 CTCATTTAACCAAATTG-TCAAATATCCTATTGAA
66 CTCATTCAACCAAATAGCT-AAATATCCTATTGAA
34417825 TTTAAACTCA
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
108 1 0.01
109 91 0.99
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (109 bp):
AAATAAGGCAATATTTTGCGTTTGGAAATTCGAGGAACGTGCCCTAAGGTACTGGGTTTCGATTT
CTCATTCAACCAAATAGCTAAATATCCTATTGAAAACTTTTCAA
Found at i:34419228 original size:19 final size:20
Alignment explanation
Indices: 34419188--34419231 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
34419178 GTCTCTTTAG
* *
34419188 GCATT-CATTTCATGCATCT
1 GCATTACATTGCATGCATAT
34419207 GCATTACATTGCAT-CATAT
1 GCATTACATTGCATGCATAT
34419226 GCATTA
1 GCATTA
34419232 GATTTTCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (20 bp):
GCATTACATTGCATGCATAT
Found at i:34421164 original size:18 final size:18
Alignment explanation
Indices: 34421130--34421164 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34421120 GCCAATATTC
* *
34421130 TTTCATTCTTTTTGATTA
1 TTTCATTCTGTTGGATTA
34421148 TTTCATTCTGTTGGATT
1 TTTCATTCTGTTGGATT
34421165 TTCTTCCACA
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:0.14, C:0.11, G:0.11, T:0.63
Consensus pattern (18 bp):
TTTCATTCTGTTGGATTA
Found at i:34421887 original size:7 final size:8
Alignment explanation
Indices: 34421866--34421895 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
34421856 TCTCATGAAT
34421866 TCAAAAAA
1 TCAAAAAA
34421874 TCAAAAAA
1 TCAAAAAA
34421882 TCAAAAAAA
1 TC-AAAAAA
34421891 TCAAA
1 TCAAA
34421896 GTCAAAATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.73, C:0.13, G:0.00, T:0.13
Consensus pattern (8 bp):
TCAAAAAA
Found at i:34424103 original size:44 final size:44
Alignment explanation
Indices: 34424054--34424192 Score: 113
Period size: 44 Copynumber: 3.2 Consensus size: 44
34424044 AGTTACAGAT
34424054 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
* * * ** * * * * *
34424098 CTTGCC-TCTTTCGGTTGTGATG-G-AGCTGGTTGAAGACAAAAGAT
1 CTTGCCTTCCTGC-ATTGACA-GCGAAGCAGATCGAAGACACAA-AC
* * *
34424142 CTTGCTTTTCTGCATTGACAGCGAAACAGATCGAAGACACAAAC
1 CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
34424186 CTTGCCT
1 CTTGCCT
34424193 CTTTCGGTTG
Statistics
Matches: 65, Mismatches: 24, Indels: 12
0.64 0.24 0.12
Matches are distributed among these distances:
43 19 0.29
44 29 0.45
45 17 0.26
ACGTcount: A:0.28, C:0.24, G:0.22, T:0.25
Consensus pattern (44 bp):
CTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAAC
Found at i:34424135 original size:43 final size:43
Alignment explanation
Indices: 34424086--34424223 Score: 120
Period size: 43 Copynumber: 3.2 Consensus size: 43
34424076 GAAGCAGATC
34424086 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
* * ** * * * * *
34424129 GAAGACAAAAGATCTTG-CT-TTTCTGCAT-TGACAGCGAAACAGATC
1 GAAGACACAA-ACCTTGCCTCTTTC-GGTTGTGA-TG-G-AGCTGGTT
*
34424174 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATAGAGCTGGTT
1 GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
34424217 GAAGACA
1 GAAGACA
34424224 AAAGATCTTG
Statistics
Matches: 68, Mismatches: 19, Indels: 16
0.66 0.18 0.16
Matches are distributed among these distances:
42 7 0.10
43 25 0.37
44 12 0.18
45 17 0.25
46 7 0.10
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
GAAGACACAAACCTTGCCTCTTTCGGTTGTGATGGAGCTGGTT
Found at i:34424199 original size:88 final size:88
Alignment explanation
Indices: 34424050--34424347 Score: 379
Period size: 88 Copynumber: 3.4 Consensus size: 88
34424040 ATGAAGTTAC
34424050 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
*
34424115 TGATGGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * *
34424138 AGATCTTGCTTTTCTGCATTGACAGCGAAACAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
34424203 TGATAGAGCTGGTTGAAGACAAA
66 TGATAGAGCTGGTTGAAGACAAA
* * * * ** *
34424226 AGATCTTGCCTTCCTACATTAACAGCGAAGCATATCGAA-A-ACAAAGCCTTGCGTCCATCGATT
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCTTTCGGTT
* * * * **
34424289 G-CAGTGGAGCTAGTTAAAGA-AGC
65 GTGA-TAGAGCTGGTTGAAGACAAA
* *
34424312 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC
1 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATC
34424348 AAAAACAAAG
Statistics
Matches: 185, Mismatches: 23, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
86 40 0.22
87 28 0.15
88 117 0.63
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
TGATAGAGCTGGTTGAAGACAAA
Found at i:34424322 original size:86 final size:88
Alignment explanation
Indices: 34424050--34424393 Score: 378
Period size: 88 Copynumber: 3.9 Consensus size: 88
34424040 ATGAAGTTAC
* **
34424050 AGATCTTGCCTTCCTGCATTGACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCCATCGGTTG
* *
34424115 TGATGGAGCTGGTTGAAGACAAA
66 AGATGGAGCTGGTTAAAGACAAA
* * * * **
34424138 AGATCTTGCTTTTCTGCATTGACAGCGAAACAGATCGAAGACACAAACCTTGCCTCTTTCGGTTG
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCCATCGGTTG
* * *
34424203 TGATAGAGCTGGTTGAAGACAAA
66 AGATGGAGCTGGTTAAAGACAAA
* * * *
34424226 AGATCTTGCCTTCCTACATTAACAGCGAAGCATATCGAA-A-ACAAAGCCTTGCGTCCATCGATT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCCATCGGTT
* **
34424289 GCAG-TGGAGCTAGTTAAAGA-AGC
65 G-AGATGGAGCTGGTTAAAGACAAA
* * *
34424312 AGATCTTGCCTTCCTGCATTAACAGCAAAGCAGATC-AA-AAACAAAGTCTTGCCTCCATCGGTT
1 AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAA-CCTTGCCTCCATCGGTT
*
34424375 GCA-TTGGAGCTGGTTAAAG
65 G-AGATGGAGCTGGTTAAAG
34424394 GTTACAGATT
Statistics
Matches: 225, Mismatches: 27, Indels: 10
0.86 0.10 0.04
Matches are distributed among these distances:
85 3 0.01
86 76 0.34
87 28 0.12
88 118 0.52
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.25
Consensus pattern (88 bp):
AGATCTTGCCTTCCTGCATTAACAGCGAAGCAGATCGAAGACACAAACCTTGCCTCCATCGGTTG
AGATGGAGCTGGTTAAAGACAAA
Found at i:34424872 original size:169 final size:170
Alignment explanation
Indices: 34424571--34424898 Score: 439
Period size: 169 Copynumber: 1.9 Consensus size: 170
34424561 CTAAAGCAAG
* * **
34424571 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGATAGTAATCCTATCTCCTTGAGATT
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGACACTAATCCTATCTCCCCGAGATT
* * * * *
34424636 ACAATGGAGCGGATTAAAGGATTTTATCTCTCTGAAGTTACAGTAGAGAAGATCACGTTAGGTCT
66 ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
*
34424701 TATCTCCCTG-AGATTACAGTGGAACAGACCAAAGAATTTC
131 TATCTCCCTGAAGA-TACAGCGGAACAGACCAAAGAATTTC
34424741 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCGAA-GACACT-ATCCTATCTCCCCGA-AG
1 AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATC-AAGGACACTAATCCTATCTCCCCGAGA-
* * * * * *
34424803 TTACAGTGGAGTGGATTAAAGGGTCTTATCTCTCTGAGGTTACAGCAGAGTAGATCGCATCAAGT
64 TTACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGT
* *
34424868 CTTATTTCCCTGAAGATGCAGCGGAACAGAC
129 CTTATCTCCCTGAAGATACAGCGGAACAGAC
34424899 TGAAAACAAT
Statistics
Matches: 137, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
168 1 0.01
169 91 0.66
170 43 0.31
171 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.27
Consensus pattern (170 bp):
AGATCTTATCTCCCTGAGATTACAGCGGAGCAGATCAAGGACACTAATCCTATCTCCCCGAGATT
ACAATGGAGCGGATTAAAGGATCTTATCTCTCTGAAGTTACAGCAGAGAAGATCACATCAAGTCT
TATCTCCCTGAAGATACAGCGGAACAGACCAAAGAATTTC
Found at i:34426740 original size:13 final size:13
Alignment explanation
Indices: 34426722--34426760 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
34426712 TGCACATTTT
34426722 TATATATATTATA
1 TATATATATTATA
34426735 TATATATATT-TA
1 TATATATATTATA
34426747 TATA-ATATTCATA
1 TATATATATT-ATA
34426760 T
1 T
34426761 GCATTTGCGC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.21
12 6 0.25
13 13 0.54
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (13 bp):
TATATATATTATA
Found at i:34429790 original size:18 final size:20
Alignment explanation
Indices: 34429769--34429814 Score: 60
Period size: 18 Copynumber: 2.4 Consensus size: 20
34429759 TTTTTAGGAG
34429769 TTTTATAAA-TATTTTGA-A
1 TTTTATAAATTATTTTGATA
* *
34429787 TTTTAAAAATTATTTTGATT
1 TTTTATAAATTATTTTGATA
34429807 TTTTATAA
1 TTTTATAA
34429815 TTTTTGTTAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
18 8 0.35
19 8 0.35
20 7 0.30
ACGTcount: A:0.37, C:0.00, G:0.04, T:0.59
Consensus pattern (20 bp):
TTTTATAAATTATTTTGATA
Found at i:34429816 original size:19 final size:19
Alignment explanation
Indices: 34429769--34429816 Score: 60
Period size: 19 Copynumber: 2.5 Consensus size: 19
34429759 TTTTTAGGAG
*
34429769 TTTTATAAATATTTTGAAT
1 TTTTATAATTATTTTGAAT
* * *
34429788 TTTAAAAATTATTTTGATT
1 TTTTATAATTATTTTGAAT
34429807 TTTTATAATT
1 TTTTATAATT
34429817 TTTGTTAAGA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.60
Consensus pattern (19 bp):
TTTTATAATTATTTTGAAT
Found at i:34429993 original size:22 final size:23
Alignment explanation
Indices: 34429948--34429993 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34429938 TTGAGTTGAC
34429948 TCGAATAATTTGAATAATTAAAT
1 TCGAATAATTTGAATAATTAAAT
* *
34429971 TCGATTAATTTGAA-ATTTAAAT
1 TCGAATAATTTGAATAATTAAAT
34429993 T
1 T
34429994 TTTAAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (23 bp):
TCGAATAATTTGAATAATTAAAT
Found at i:34430485 original size:5 final size:5
Alignment explanation
Indices: 34430475--34430501 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
34430465 TTTAGATTTA
34430475 AAAAT AAAAT AAAAT AAAAT AAAAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AA
34430502 GATTGATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:34438381 original size:3 final size:3
Alignment explanation
Indices: 34438373--34438399 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34438363 ATATTTAATT
34438373 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
34438400 CACTAATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:34447423 original size:131 final size:131
Alignment explanation
Indices: 34447204--34447458 Score: 386
Period size: 131 Copynumber: 1.9 Consensus size: 131
34447194 AAAATTCTCT
34447204 AAAACGAAGGCAATACTCGATGTTTGGCAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGAT
1 AAAACGAAGGCAATACTCGATGTTTGGCAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGAT
* * * * *
34447269 TTCCCGTTTGTTTAAAACAATCGAATATTTCTTTGGAATTTCGCTCATG-TCTTTAAAAACCCTT
66 TTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGATCTTTAAAAACCCTT
34447333 C
131 C
* * * *
34447334 AAAACGAAGGTAATACTCGATGTTTGGTAATTCGGGGAATCGTGCCCTATCGTGCTGGGTTGCGA
1 AAAACGAAGGCAATACTCGATGTTTGGCAATTC-GAGAATCATGCCCTATCGTGCTGGGTTGCGA
* *
34447399 TTTCCTATTTGTTCAAAATAATCGAATATTCCTTTAGAATTTCACTCATGATTCTTTAAA
65 TTTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGA-TCTTTAAA
34447459 TTCTAAAATA
Statistics
Matches: 111, Mismatches: 11, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
130 31 0.28
131 72 0.65
133 8 0.07
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.35
Consensus pattern (131 bp):
AAAACGAAGGCAATACTCGATGTTTGGCAATTCGAGAATCATGCCCTATCGTGCTGGGTTGCGAT
TTCCCATTTGTTCAAAACAATCGAATATTCCTTTAGAATTTCACTCATGATCTTTAAAAACCCTT
C
Found at i:34461161 original size:176 final size:176
Alignment explanation
Indices: 34460869--34461327 Score: 650
Period size: 176 Copynumber: 2.6 Consensus size: 176
34460859 TTCAGAGGGG
* * *
34460869 TAAGGCTGGTGGCTAAAATCTGCTCCATAGCCAATACATGGAGATAAGACTCACCATCTTCGATC
1 TAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATC
* * * * * *
34460934 TGCTCTATAGCCAATACATAGAGATAAGATCTGTAATCTTCGGTTTGCTTCCTACAACTCCAGGA
66 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTCCAGGA
*
34460999 AGACAAGACTTGTATCTTCAACCTGCTCTCTGCAACTTCA-AAAAGA
131 AGACAAGACTTGTATCTTCAACCTGCTCTCCGCAACTTCAGAAAA-A
* * *
34461045 TAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCGCCATTTTTGATT
1 TAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATC
* * * * *
34461110 TGCTCGATAGCCGATACATGGAGATAAGATTTGTAATTTTTAGTCTGCTTCCTGCAACTTCAGGA
66 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTCCAGGA
* * * *
34461175 AGATAAGACTTGTATCTTCAACCTGCTCTCCGTAAGTTCAGAGAAA
131 AGACAAGACTTGTATCTTCAACCTGCTCTCCGCAACTTCAGAAAAA
* * * *
34461221 TAAGGTTGGTAGCTAAAATCAACTCCATAACCGATACATGGAGATAAGACTCACCATTTTCGATC
1 TAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATC
* *
34461286 TACTCCATAACCGATACATGGAGATAAGATCTGTAATTTTCA
66 TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCA
34461328 CCGATGTCGC
Statistics
Matches: 249, Mismatches: 33, Indels: 2
0.88 0.12 0.01
Matches are distributed among these distances:
176 246 0.99
177 3 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (176 bp):
TAAGGCTGGTGGCTAAAATCTACTCCATAGCCGATACATGGAGATAAGACTCACCATTTTCGATC
TGCTCCATAGCCGATACATGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTACAACTCCAGGA
AGACAAGACTTGTATCTTCAACCTGCTCTCCGCAACTTCAGAAAAA
Found at i:34471216 original size:30 final size:30
Alignment explanation
Indices: 34471180--34471237 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
34471170 CCTCGACTCT
34471180 AACTTTT-TCAAAATTACAATTTTGCCCCTA
1 AACTTTTAT-AAAATTACAATTTTGCCCCTA
* *
34471210 AACTTTTATATAATTACATTTTTGCCCC
1 AACTTTTATAAAATTACAATTTTGCCCC
34471238 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.31, C:0.22, G:0.03, T:0.43
Consensus pattern (30 bp):
AACTTTTATAAAATTACAATTTTGCCCCTA
Found at i:34471806 original size:25 final size:25
Alignment explanation
Indices: 34471778--34471835 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
34471768 TGCTCTCTGT
34471778 TTCTTTCTCTGTTTC-GTCTCTTCTA
1 TTCTTTCTCT-TTTCTGTCTCTTCTA
* *
34471803 TTCTGTT-TCTTTTCTTTCTTTTCTA
1 TTCT-TTCTCTTTTCTGTCTCTTCTA
34471828 TTCTTTCT
1 TTCTTTCT
34471836 TTTGTTTCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
24 6 0.21
25 20 0.71
26 2 0.07
ACGTcount: A:0.03, C:0.24, G:0.05, T:0.67
Consensus pattern (25 bp):
TTCTTTCTCTTTTCTGTCTCTTCTA
Found at i:34471825 original size:14 final size:14
Alignment explanation
Indices: 34471798--34471838 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
34471788 GTTTCGTCTC
*
34471798 TTCTATTCTGTTTCTT
1 TTCT-TTCT-TTTCTA
34471814 TTCTTTCTTTTCTA
1 TTCTTTCTTTTCTA
34471828 TTCTTTCTTTT
1 TTCTTTCTTTT
34471839 GTTTCAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 16 0.67
15 4 0.17
16 4 0.17
ACGTcount: A:0.05, C:0.20, G:0.02, T:0.73
Consensus pattern (14 bp):
TTCTTTCTTTTCTA
Done.