Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 115 of 199
Found at i:38072556 original size:51 final size:50
Alignment explanation
Indices: 38072412--38072706 Score: 308
Period size: 51 Copynumber: 5.8 Consensus size: 50
38072402 ACTTTTATCA
* * * *
38072412 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATCAAG-TT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
* * * *
38072461 TTACGGTTCACGTAGTGGCCTTCACATAGTACTACACACATGACCAAAGCTT
1 TT-CGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * *
38072513 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
38072563 TATCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACC-AAGCTT
* * * * *
38072615 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACC-ATCATT
1 TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGC-TT
* * *
38072665 TATCGGTTCACGTAGTAGCCTTCACACAGTACTACACACGTG
1 T-TCGGTACACATAGTAGCCTTCACATAGTACTACACACGTG
38072707 TTCATTGATA
Statistics
Matches: 203, Mismatches: 34, Indels: 16
0.80 0.13 0.06
Matches are distributed among these distances:
49 6 0.03
50 41 0.20
51 148 0.73
52 6 0.03
53 2 0.01
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (50 bp):
TTCGGTACACATAGTAGCCTTCACATAGTACTACACACGTGACCAAGCTT
Found at i:38072607 original size:102 final size:102
Alignment explanation
Indices: 38072412--38072706 Score: 439
Period size: 102 Copynumber: 2.9 Consensus size: 102
38072402 ACTTTTATCA
* * * * * * ***
38072412 TTCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATCAAGTTTTA-CGGTTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGGTTCACGTAG
* * *
38072476 TGGCCTTCACATAGTACTACACACATGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* *
38072513 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGATTCACATAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGGTTCACGTAG
38072578 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
66 TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
* *
38072615 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGGTTCACGTAG
1 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGGTTCACGTAG
38072680 TAGCCTTCACACAGTACTACACACGTG
66 TAGCCTTCACACAGTACTACACACGTG
38072707 TTCATTGATA
Statistics
Matches: 175, Mismatches: 18, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
101 43 0.25
102 132 0.75
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (102 bp):
TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACCATCATTTATCGGTTCACGTAG
TAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
Found at i:38072696 original size:153 final size:151
Alignment explanation
Indices: 38072413--38072702 Score: 359
Period size: 153 Copynumber: 1.9 Consensus size: 151
38072403 CTTTTATCAT
* * * * * * * *
38072413 TCGATACACGTAGTAGCCTTCACATAGTACTACATACGTGATCAAGTTTTACGGTTCACGTAGTG
1 TCGATACACATAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
**
38072478 GCCTTCACATAGTACTACACACATGACCAAAGCTTTTCGGTACACATAGTAGCCTTCACTTAGTA
66 GCCTTCACATAGTACTACACACATGACCAAA-CTTTTCGGTACACATAGTAGCCTTCACACAGTA
38072543 CTACACATGTGACCATCATTTA
130 CTACACATGTGACCATCATTTA
* *
38072565 TCGATTCACATAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
1 TCGATACACATAGTAGCCTTCACACAGTACTACACACGTGACC-AAG-TTCTACGGTACACATAG
* ** * * *
38072629 TAGCCTTCACTTAGTACTACACATGTGACC-ATCATTTATCGGTTCACGTAGTAGCCTTCACACA
64 TAGCCTTCACATAGTACTACACACATGACCAAAC-TTT-TCGGTACACATAGTAGCCTTCACACA
38072693 GTACTACACA
127 GTACTACACA
38072703 CGTGTTCATT
Statistics
Matches: 116, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
151 1 0.01
152 42 0.36
153 70 0.60
154 3 0.03
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (151 bp):
TCGATACACATAGTAGCCTTCACACAGTACTACACACGTGACCAAGTTCTACGGTACACATAGTA
GCCTTCACATAGTACTACACACATGACCAAACTTTTCGGTACACATAGTAGCCTTCACACAGTAC
TACACATGTGACCATCATTTA
Found at i:38083547 original size:18 final size:17
Alignment explanation
Indices: 38083521--38083556 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
38083511 ATTTCTGTCG
*
38083521 GTTTGTTTGGTTTTCTAA
1 GTTTCTTTGGTTTT-TAA
38083539 GTTTCTTTGGTTTTTAA
1 GTTTCTTTGGTTTTTAA
38083556 G
1 G
38083557 AACTTAGAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.11, C:0.06, G:0.22, T:0.61
Consensus pattern (17 bp):
GTTTCTTTGGTTTTTAA
Found at i:38096681 original size:49 final size:50
Alignment explanation
Indices: 38096574--38096869 Score: 301
Period size: 50 Copynumber: 5.8 Consensus size: 50
38096564 GATAAGAACA
* * ** * *
38096574 TGCCAAAGCCATGTCCCAGAAATGGTCTTACATGGGATGTTTCATGTAC--
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
38096623 TGCCGATGCCATATCCCAGATATGGTCTTTCATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
38096673 TGCC-ATGCCATGCCCCAGACATGCTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* * * *
38096722 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
38096772 TGCCAACGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATGATCTCAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC--GG
*
38096827 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
38096870 TTACCCAAAT
Statistics
Matches: 209, Mismatches: 29, Indels: 11
0.84 0.12 0.04
Matches are distributed among these distances:
48 1 0.00
49 78 0.37
50 87 0.42
53 2 0.01
55 2 0.01
56 39 0.19
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:38098695 original size:21 final size:21
Alignment explanation
Indices: 38098671--38098719 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
38098661 ACCCAGTTCC
**
38098671 AAAGAAGACTTGGGTTAAGTT
1 AAAGAAGACTCAGGTTAAGTT
**
38098692 AAAGACTACTCAGGTTAAGTT
1 AAAGAAGACTCAGGTTAAGTT
38098713 AAAGAAG
1 AAAGAAG
38098720 GGTTGCCTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.43, C:0.08, G:0.24, T:0.24
Consensus pattern (21 bp):
AAAGAAGACTCAGGTTAAGTT
Found at i:38099465 original size:54 final size:53
Alignment explanation
Indices: 38099406--38099559 Score: 166
Period size: 54 Copynumber: 2.9 Consensus size: 53
38099396 CATAGTAAGA
** *
38099406 AGACCATATAGTGTAAGACCTAGCCTGGGACTATGGCATCATATGGGGATACGG
1 AGACCATATAGTGTAAGACCTAGCCTGGGACTATGGCATCATATGGAAAGA-GG
** * ** *
38099460 AGACCATATAGTGTAAGGTCTAGCAGTTTG-CTAAGGCATCATATGGAAAGAGG
1 AGACCATATAGTGTAAGACCTAGC-CTGGGACTATGGCATCATATGGAAAGAGG
* ** *
38099513 AGACCACATAGTGTAAGACCTAGTTTGGGACTATGGCATCATGTGGA
1 AGACCATATAGTGTAAGACCTAGCCTGGGACTATGGCATCATATGGA
38099560 GAAAGAAGAT
Statistics
Matches: 80, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
52 2 0.03
53 37 0.46
54 39 0.49
55 2 0.03
ACGTcount: A:0.31, C:0.16, G:0.29, T:0.24
Consensus pattern (53 bp):
AGACCATATAGTGTAAGACCTAGCCTGGGACTATGGCATCATATGGAAAGAGG
Found at i:38100684 original size:19 final size:19
Alignment explanation
Indices: 38100660--38100701 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
38100650 TTCTAAATGG
*
38100660 AATACTTGAGGTACTTCAA
1 AATACTTGAGGTAATTCAA
*
38100679 AATACTTGAGGTAATTCAG
1 AATACTTGAGGTAATTCAA
38100698 AATA
1 AATA
38100702 AGGGTTAAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (19 bp):
AATACTTGAGGTAATTCAA
Found at i:38113581 original size:16 final size:17
Alignment explanation
Indices: 38113562--38113594 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38113552 ATTTAGAGGT
38113562 TAATTAATT-TAATTTA
1 TAATTAATTCTAATTTA
*
38113578 TAATTATTTCTAATTTA
1 TAATTAATTCTAATTTA
38113595 GGCTCGTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTAATTCTAATTTA
Found at i:38114723 original size:17 final size:16
Alignment explanation
Indices: 38114692--38114726 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
38114682 CGTCATATTA
*
38114692 TTTTATTTTATTTTAT
1 TTTTATTTTAGTTTAT
38114708 TTTTATTTTTAGTTTAT
1 TTTTA-TTTTAGTTTAT
38114725 TT
1 TT
38114727 CTCATTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (16 bp):
TTTTATTTTAGTTTAT
Found at i:38123538 original size:19 final size:19
Alignment explanation
Indices: 38123510--38123554 Score: 81
Period size: 19 Copynumber: 2.4 Consensus size: 19
38123500 GCAGTGACAA
*
38123510 CCACAGCTATAAAGATTGT
1 CCACAACTATAAAGATTGT
38123529 CCACAACTATAAAGATTGT
1 CCACAACTATAAAGATTGT
38123548 CCACAAC
1 CCACAAC
38123555 ATGCAAAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.40, C:0.27, G:0.11, T:0.22
Consensus pattern (19 bp):
CCACAACTATAAAGATTGT
Found at i:38132125 original size:73 final size:73
Alignment explanation
Indices: 38131999--38132218 Score: 377
Period size: 73 Copynumber: 3.0 Consensus size: 73
38131989 CTAACTAAGT
* * * * *
38131999 CAAAATAACGTATTCACGTTTCATTAAATCATAAAACTATCATATATTTTTACATGCAATTACAC
1 CAAAATAACATATTCACGTTTCATTAAATCATACAACTAGCATATACTCTTACATGCAATTACAC
38132064 TCAACTCG
66 TCAACTCG
38132072 CAAAATAACATATTCACGTTTCATTAAATCATACAACTAGCATATACTCTTACATGCAATTACAC
1 CAAAATAACATATTCACGTTTCATTAAATCATACAACTAGCATATACTCTTACATGCAATTACAC
*
38132137 TCAACTCA
66 TCAACTCG
*
38132145 CAAAATAACATATTCATGTTTCATTAAATCATACAACTAGCATATACTCTTACATGCAATTACAC
1 CAAAATAACATATTCACGTTTCATTAAATCATACAACTAGCATATACTCTTACATGCAATTACAC
38132210 TCAACTCG
66 TCAACTCG
38132218 C
1 C
38132219 TTATATATAT
Statistics
Matches: 139, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
73 139 1.00
ACGTcount: A:0.40, C:0.23, G:0.05, T:0.32
Consensus pattern (73 bp):
CAAAATAACATATTCACGTTTCATTAAATCATACAACTAGCATATACTCTTACATGCAATTACAC
TCAACTCG
Found at i:38134295 original size:168 final size:168
Alignment explanation
Indices: 38134017--38134343 Score: 654
Period size: 168 Copynumber: 1.9 Consensus size: 168
38134007 ATGGTGTTCT
38134017 TGGATGTTTTTCTTGAAATACTATGGAGATTTATGGCTTGGGAAATGATAGAACTCAAAGGAATG
1 TGGATGTTTTTCTTGAAATACTATGGAGATTTATGGCTTGGGAAATGATAGAACTCAAAGGAATG
38134082 AAGTTTGGGAATCAAAATTGAATGAGAAGAGCTTTGGAATGCAATGGACGTCAAAAGAAAAATAT
66 AAGTTTGGGAATCAAAATTGAATGAGAAGAGCTTTGGAATGCAATGGACGTCAAAAGAAAAATAT
38134147 GGAGAAGTGACTAACATAGGTCTTATAAAGATGAAGGG
131 GGAGAAGTGACTAACATAGGTCTTATAAAGATGAAGGG
38134185 TGGATGTTTTTCTTGAAATACTATGGAGATTTATGGCTTGGGAAATGATAGAACTCAAAGGAATG
1 TGGATGTTTTTCTTGAAATACTATGGAGATTTATGGCTTGGGAAATGATAGAACTCAAAGGAATG
38134250 AAGTTTGGGAATCAAAATTGAATGAGAAGAGCTTTGGAATGCAATGGACGTCAAAAGAAAAATAT
66 AAGTTTGGGAATCAAAATTGAATGAGAAGAGCTTTGGAATGCAATGGACGTCAAAAGAAAAATAT
38134315 GGAGAAGTGACTAACATAGGTCTTATAAA
131 GGAGAAGTGACTAACATAGGTCTTATAAA
38134344 AGCGGAAAAT
Statistics
Matches: 159, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
168 159 1.00
ACGTcount: A:0.39, C:0.08, G:0.26, T:0.27
Consensus pattern (168 bp):
TGGATGTTTTTCTTGAAATACTATGGAGATTTATGGCTTGGGAAATGATAGAACTCAAAGGAATG
AAGTTTGGGAATCAAAATTGAATGAGAAGAGCTTTGGAATGCAATGGACGTCAAAAGAAAAATAT
GGAGAAGTGACTAACATAGGTCTTATAAAGATGAAGGG
Found at i:38148465 original size:20 final size:20
Alignment explanation
Indices: 38148437--38148475 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
38148427 TTTTAAGTGA
* *
38148437 AATATAATGTTATTTAATTT
1 AATAAAATGTTATTAAATTT
38148457 AATAAAATGTTATTAAATT
1 AATAAAATGTTATTAAATT
38148476 AATTAATTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (20 bp):
AATAAAATGTTATTAAATTT
Found at i:38154748 original size:129 final size:129
Alignment explanation
Indices: 38154513--38154749 Score: 307
Period size: 129 Copynumber: 1.8 Consensus size: 129
38154503 AAAGGCTTCA
* * * * *
38154513 TATGCTTCTGCAATAGGAAGCCTCATGTGTGCTATGTTATGCACACGCCCAGATATATGTTTCGT
1 TATGCTTCTACAATAGAAAGCCTCATGTATGCTATGTTATGCACACACCCAGATATATGTTTCAT
* ** *
38154578 AGTAGGGTTGGTGAGTTGATATCAAGCAAATCCAAGACCAAGAGAAAACATGAGAATGTTTCCT
66 AGTAGGGTTGGTGAATCAATATCAAACAAATCCAAGACCAAGAGAAAACATGAGAATGTTTCCT
* *
38154642 TATGCTTCTACAATAGAAAGTCC-CATGTATG-TCATGTTATGCACACATCCAGATATTTGTTTC
1 TATGCTTCTACAATAGAAAG-CCTCATGTATGCT-ATGTTATGCACACACCCAGATATATGTTTC
* * * *
38154705 ATAGTGGGGTTGGTGAATCAATATCAAACGAATCCAGGGCCAAGA
64 ATAGTAGGGTTGGTGAATCAATATCAAACAAATCCAAGACCAAGA
38154750 CATTGGTAAG
Statistics
Matches: 91, Mismatches: 15, Indels: 4
0.83 0.14 0.04
Matches are distributed among these distances:
128 1 0.01
129 88 0.97
130 2 0.02
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (129 bp):
TATGCTTCTACAATAGAAAGCCTCATGTATGCTATGTTATGCACACACCCAGATATATGTTTCAT
AGTAGGGTTGGTGAATCAATATCAAACAAATCCAAGACCAAGAGAAAACATGAGAATGTTTCCT
Found at i:38157659 original size:23 final size:22
Alignment explanation
Indices: 38157607--38157659 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
38157597 TCCACGTCTT
*
38157607 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
38157629 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
38157652 TTTCTTTT
1 TTTCTTTT
38157660 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:38161065 original size:20 final size:20
Alignment explanation
Indices: 38161040--38161077 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
38161030 TGTCATTAGG
38161040 GAGAACTCAGTCATGATATT
1 GAGAACTCAGTCATGATATT
38161060 GAGAACTCAGTCATGATA
1 GAGAACTCAGTCATGATA
38161078 CTATAGTGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (20 bp):
GAGAACTCAGTCATGATATT
Found at i:38175738 original size:18 final size:17
Alignment explanation
Indices: 38175684--38175738 Score: 74
Period size: 18 Copynumber: 3.1 Consensus size: 17
38175674 TTGTTTTATG
38175684 TTATTTTTATTTTTATTT
1 TTATTTTTATTTTT-TTT
*
38175702 TTATTTTTATTCTTATTT
1 TTATTTTTATT-TTTTTT
*
38175720 TTATTTTTATTTTCTTT
1 TTATTTTTATTTTTTTT
38175737 TT
1 TT
38175739 CCCAAATTTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
17 7 0.21
18 25 0.74
19 2 0.06
ACGTcount: A:0.15, C:0.04, G:0.00, T:0.82
Consensus pattern (17 bp):
TTATTTTTATTTTTTTT
Found at i:38175739 original size:6 final size:6
Alignment explanation
Indices: 38175684--38175732 Score: 89
Period size: 6 Copynumber: 8.2 Consensus size: 6
38175674 TTGTTTTATG
*
38175684 TTATTT TTATTT TTATTT TTATTT TTATTC TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
38175732 T
1 T
38175733 CTTTTTCCCA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (6 bp):
TTATTT
Found at i:38179041 original size:20 final size:20
Alignment explanation
Indices: 38178990--38179041 Score: 86
Period size: 20 Copynumber: 2.6 Consensus size: 20
38178980 TTTATGTTGA
*
38178990 TAAATGGAATGCAAAGTAAG
1 TAAATGGAATGGAAAGTAAG
38179010 TAAATGGAATGGAAAGTAAG
1 TAAATGGAATGGAAAGTAAG
*
38179030 TAGATGGAATGG
1 TAAATGGAATGG
38179042 TTCATAGTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.46, C:0.02, G:0.31, T:0.21
Consensus pattern (20 bp):
TAAATGGAATGGAAAGTAAG
Found at i:38189406 original size:47 final size:47
Alignment explanation
Indices: 38189353--38189447 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
38189343 TTCCATAGGT
38189353 TTATAACTTAACCATTAGAACGCTTACCATTTCTTCACTTTTCATGC
1 TTATAACTTAACCATTAGAACGCTTACCATTTCTTCACTTTTCATGC
38189400 TTATAACTTAACCATTAGAACGCTTACCATTTCTTCACTTTTCATGC
1 TTATAACTTAACCATTAGAACGCTTACCATTTCTTCACTTTTCATGC
38189447 T
1 T
38189448 CGTTGAATCA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.41
Consensus pattern (47 bp):
TTATAACTTAACCATTAGAACGCTTACCATTTCTTCACTTTTCATGC
Found at i:38194833 original size:20 final size:20
Alignment explanation
Indices: 38194808--38194846 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
38194798 AACATTCAAA
38194808 ATACCATAATCACAA-CCAAT
1 ATACCATAA-CACAAGCCAAT
38194828 ATACCATAACACAAGCCAA
1 ATACCATAACACAAGCCAA
38194847 ACCATATGGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.51, C:0.31, G:0.03, T:0.15
Consensus pattern (20 bp):
ATACCATAACACAAGCCAAT
Found at i:38216271 original size:35 final size:35
Alignment explanation
Indices: 38216232--38216302 Score: 124
Period size: 35 Copynumber: 2.0 Consensus size: 35
38216222 GATATTTCCG
*
38216232 TTTGTTTCCTTTGAAAATAGACTCGTTAAGAATTC
1 TTTGTTTCCTTTGAAAATAGACTCATTAAGAATTC
*
38216267 TTTGTTTCCTTTGAATATAGACTCATTAAGAATTC
1 TTTGTTTCCTTTGAAAATAGACTCATTAAGAATTC
38216302 T
1 T
38216303 AAGCATATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.28, C:0.14, G:0.13, T:0.45
Consensus pattern (35 bp):
TTTGTTTCCTTTGAAAATAGACTCATTAAGAATTC
Found at i:38216916 original size:51 final size:49
Alignment explanation
Indices: 38216787--38216917 Score: 145
Period size: 50 Copynumber: 2.6 Consensus size: 49
38216777 TATCATTAGA
*
38216787 TACGCGTAGTAGCCTTCACATAGTACTACACACGTGATCAAACTTTCCCG
1 TACGCGTAGTAG-CTTCACATAGTACTACACACGTGATCAAACTATCCCG
* ** * * * *
38216837 TTCATGTAGTAGCCTGCACATAGTACTACACACGTGTTCGAAGCTATCCGG
1 TACGCGTAGTAG-CTTCACATAGTACTACACACGTGATC-AAACTATCCCG
*
38216888 TACGCATAGTAGCTTACACATAGTACTACA
1 TACGCGTAGTAGCTT-CACATAGTACTACA
38216918 AATGCGACCT
Statistics
Matches: 66, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
50 36 0.55
51 30 0.45
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.27
Consensus pattern (49 bp):
TACGCGTAGTAGCTTCACATAGTACTACACACGTGATCAAACTATCCCG
Found at i:38222677 original size:51 final size:51
Alignment explanation
Indices: 38222555--38222797 Score: 208
Period size: 51 Copynumber: 4.8 Consensus size: 51
38222545 TATCATTCGA
* * * * * *
38222555 TACACGCAGTAGCCTTCACATAGTGCTACACACGTGATCA--AACTTTCTGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAA-TATCCGG
* * *
38222605 TTCACGTAGTAGCCTGCACATAGTAATACACACGTGACCATTAATATCCGA
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
* * * * *
38222656 TACACGTAGTAGTCTGCACATAGTACTACACATGTGATCGA--AGCTATTCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCATTA-ATATCCGG
* * * * * * * * *
38222707 TACGCATAGTAGCTTGCACACAGTACTACAAATGCGACCTTTCAT-TCCGG
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
*
38222757 TACACGTAGTAGCCTACACATAGTACTACACACGTGACCAT
1 TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
38222798 CACTTTCACT
Statistics
Matches: 149, Mismatches: 38, Indels: 12
0.75 0.19 0.06
Matches are distributed among these distances:
50 72 0.48
51 73 0.49
52 4 0.03
ACGTcount: A:0.30, C:0.26, G:0.18, T:0.26
Consensus pattern (51 bp):
TACACGTAGTAGCCTGCACATAGTACTACACACGTGACCATTAATATCCGG
Found at i:38222693 original size:101 final size:101
Alignment explanation
Indices: 38222552--38222793 Score: 281
Period size: 101 Copynumber: 2.4 Consensus size: 101
38222542 TATTATCATT
* * * * *
38222552 CGATACACGCAGTAGCCTTCACATAGTGCTACACACGTGATC-AAACT-TTCTGGTTCACGTAGT
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATTC-GGTACACATAGT
* * *
38222615 AGCCTGCACATAGTAATACACACGTGACCATTAATATC
65 AGCCTGCACACAGTAATACAAACGCGACCATTAAT-TC
* * * * *
38222653 CGATACACGTAGTAGTCTGCACATAGTACTACACATGTGATCGAAGCTATTCGGTACGCATAGTA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATTCGGTACACATAGTA
* * * * *
38222718 GCTTGCACACAGTACTACAAATGCGACCTTTCATTC
66 GCCTGCACACAGTAATACAAACGCGACCATTAATTC
*
38222754 CGGTACACGTAGTAGCCTACACATAGTACTACACACGTGA
1 CGATACACGTAGTAGCCTACACATAGTACTACACACGTGA
38222794 CCATCACTTT
Statistics
Matches: 118, Mismatches: 21, Indels: 4
0.83 0.15 0.03
Matches are distributed among these distances:
101 75 0.64
102 40 0.34
103 3 0.03
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (101 bp):
CGATACACGTAGTAGCCTACACATAGTACTACACACGTGATCGAAACTATTCGGTACACATAGTA
GCCTGCACACAGTAATACAAACGCGACCATTAATTC
Found at i:38222816 original size:101 final size:98
Alignment explanation
Indices: 38222547--38222831 Score: 259
Period size: 101 Copynumber: 2.8 Consensus size: 98
38222537 TTAAATATTA
* * * * *
38222547 TCATT-CGATACACGCAGTAGCCTTCACATAGTGCTACACACGTGATCAAACTTTCTGGTTCACG
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAACTTTC-GGTTCACA
* * *
38222611 TAGTAGCCTGCACATAGTAATACACACGTGACCAT
64 TAGTAGCCTGCACACAGTAATACAAACGCGACCAT
* * * * * * *
38222646 TAATATCCGATACACGTAGTAGTCTGCACATAGTACTACACATGTGATCGAAGCTATTCGGTACG
1 TCAT-TCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGA-CCAA-CT-TTCGGTTCA
* * * *
38222711 CATAGTAGCTTGCACACAGTACTACAAATGCGACCTT
62 CATAGTAGCCTGCACACAGTAATACAAACGCGACCAT
* **
38222748 TCATTCCGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCATCACTTTCACTTTCAC
1 TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCA--ACTTTC-GGTTCAC
*
38222813 ATAGT-GACCTACACACAGT
63 ATAGTAG-CCTGCACACAGT
38222832 CCATGTCACA
Statistics
Matches: 149, Mismatches: 29, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
99 3 0.02
100 7 0.05
101 97 0.65
102 39 0.26
103 3 0.02
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (98 bp):
TCATTCCGATACACGTAGTAGCCTACACATAGTACTACACACGTGACCAACTTTCGGTTCACATA
GTAGCCTGCACACAGTAATACAAACGCGACCAT
Found at i:38223224 original size:13 final size:14
Alignment explanation
Indices: 38223192--38223222 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
38223182 GTTTTCGCTG
*
38223192 AAAATTGTTTAGCA
1 AAAATTGTTTAACA
38223206 AAAATTGTTTAACA
1 AAAATTGTTTAACA
38223220 AAA
1 AAA
38223223 TTCTAAGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (14 bp):
AAAATTGTTTAACA
Found at i:38224697 original size:22 final size:19
Alignment explanation
Indices: 38224672--38224713 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 19
38224662 TGATAATAAT
38224672 TAATATATAATTATATCTATTA
1 TAATATAT-ATTA-AT-TATTA
38224694 TAATATATATTAATTATTA
1 TAATATATATTAATTATTA
38224713 T
1 T
38224714 CAACTTTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 2 0.10
21 4 0.20
22 8 0.40
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (19 bp):
TAATATATATTAATTATTA
Found at i:38226241 original size:3 final size:3
Alignment explanation
Indices: 38226233--38226309 Score: 154
Period size: 3 Copynumber: 25.7 Consensus size: 3
38226223 GGATCCCGAT
38226233 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
38226281 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GA
38226310 TCCCATAGAG
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 74 1.00
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:38234325 original size:20 final size:20
Alignment explanation
Indices: 38234298--38234377 Score: 90
Period size: 20 Copynumber: 4.0 Consensus size: 20
38234288 GATGTGTAAT
38234298 AGAGGCACCGAAGTGCAATC
1 AGAGGCACCGAAGTGCAATC
* * *
38234318 AAAGGCACTGAAGAGCAAAT-
1 AGAGGCACCGAAGTGC-AATC
* * *
38234338 AGAGGGACCAAAGTGCAAAC
1 AGAGGCACCGAAGTGCAATC
38234358 AGAGGCACCGAAGTGCAATC
1 AGAGGCACCGAAGTGCAATC
38234378 CCATACAAGC
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
19 2 0.04
20 41 0.89
21 3 0.07
ACGTcount: A:0.41, C:0.21, G:0.29, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAATC
Found at i:38234342 original size:40 final size:40
Alignment explanation
Indices: 38234295--38234375 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
38234285 AAAGATGTGT
* * *
38234295 AATAGAGGCACCGAAGTGCAATCAAAGGCACTGAAGAGCA
1 AATAGAGGCACCAAAGTGCAAACAAAGGCACCGAAGAGCA
* * *
38234335 AATAGAGGGACCAAAGTGCAAACAGAGGCACCGAAGTGCA
1 AATAGAGGCACCAAAGTGCAAACAAAGGCACCGAAGAGCA
38234375 A
1 A
38234376 TCCCATACAA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.43, C:0.20, G:0.28, T:0.09
Consensus pattern (40 bp):
AATAGAGGCACCAAAGTGCAAACAAAGGCACCGAAGAGCA
Found at i:38238012 original size:20 final size:20
Alignment explanation
Indices: 38237989--38238055 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 20
38237979 AGGCAAAAAT
38237989 GTGCAATCAGAGGCACCGAA
1 GTGCAATCAGAGGCACCGAA
* *
38238009 GTGCAAACA-AGGGCACCAAA
1 GTGCAATCAGA-GGCACCGAA
**
38238029 GTATAAAT-AGAGGCACCGAA
1 GT-GCAATCAGAGGCACCGAA
38238049 GTGCAAT
1 GTGCAAT
38238056 TCTGTACAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 7
0.71 0.16 0.14
Matches are distributed among these distances:
19 4 0.11
20 29 0.81
21 3 0.08
ACGTcount: A:0.40, C:0.21, G:0.27, T:0.12
Consensus pattern (20 bp):
GTGCAATCAGAGGCACCGAA
Found at i:38245624 original size:81 final size:79
Alignment explanation
Indices: 38245438--38245671 Score: 258
Period size: 81 Copynumber: 2.9 Consensus size: 79
38245428 ACACCCTCGA
* * * * * *
38245438 AGGGTAAAATGACTGA-AATGCCCCTATAGGGTAAAATGA-TCGAAATACCCCCGTAGGGTAGAA
1 AGGGTAAAATGAC-CATAATACCCCTGTA-GGTAAAATGACT-GTAATACCCCTGTAGGGTAAAA
* *
38245501 TACCGAAATATCCCCAT
63 TACCGTAATGTCCCCAT
* *
38245518 AGGGTAAAA-AACCATAATACCCCTGTAGGTTAAAATGACTGTAATGCCCCTGTAGGGTAAAATA
1 AGGGTAAAATGACCATAATACCCCTGTAGG-TAAAATGACTGTAATACCCCTGTAGGGTAAAAT-
* **
38245582 ACTGTAATGTCCCTGT
64 ACCGTAATGTCCCCAT
*
38245598 AGGGTAAAATGACCATAATACCCCTGTATGGTAAAATGACTGTAATACCCTTGTAGGGTAAAATG
1 AGGGTAAAATGACCATAATACCCCTGTA-GGTAAAATGACTGTAATACCCCTGTAGGGTAAAAT-
38245663 ACCGTAATG
64 ACCGTAATG
38245672 CCTTGGTGAG
Statistics
Matches: 130, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
78 3 0.02
79 39 0.30
80 30 0.23
81 56 0.43
82 2 0.02
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (79 bp):
AGGGTAAAATGACCATAATACCCCTGTAGGTAAAATGACTGTAATACCCCTGTAGGGTAAAATAC
CGTAATGTCCCCAT
Found at i:38245669 original size:27 final size:27
Alignment explanation
Indices: 38245438--38245670 Score: 229
Period size: 27 Copynumber: 8.7 Consensus size: 27
38245428 ACACCCTCGA
* * * *
38245438 AGGGTAAAATGACTGAAATGCCCCTAT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * *
38245465 AGGGTAAAATGATCGAAATACCCCCGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * *
38245492 AGGGTAGAAT-ACCGAAATATCCCC-AT
1 AGGGTAAAATGACCGTAATA-CCCCTGT
* *
38245518 AGGGTAAAA-AACCATAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * *
38245544 AGGTTAAAATGACTGTAATGCCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * **
38245571 AGGGTAAAATAACTGTAATGTCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
*
38245598 AGGGTAAAATGACCATAATACCCCTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
* * *
38245625 ATGGTAAAATGACTGTAATACCCTTGT
1 AGGGTAAAATGACCGTAATACCCCTGT
38245652 AGGGTAAAATGACCGTAAT
1 AGGGTAAAATGACCGTAAT
38245671 GCCTTGGTGA
Statistics
Matches: 171, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
25 4 0.02
26 33 0.19
27 134 0.78
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (27 bp):
AGGGTAAAATGACCGTAATACCCCTGT
Found at i:38245766 original size:24 final size:24
Alignment explanation
Indices: 38245710--38245791 Score: 96
Period size: 24 Copynumber: 3.5 Consensus size: 24
38245700 CTCTAGGTCA
* * * *
38245710 AATGATTGTTTTGTCTGTG-GTTA
1 AATGACTGATTTGTCTGTGATTTG
38245733 AATGACTGATTTGTCTGTG-TTTGG
1 AATGACTGATTTGTCTGTGATTT-G
*
38245757 TATGACTGATTTGTCTGTGATTTG
1 AATGACTGATTTGTCTGTGATTTG
38245781 AATGACTGATT
1 AATGACTGATT
38245792 CTGAGCATGG
Statistics
Matches: 51, Mismatches: 6, Indels: 3
0.85 0.10 0.05
Matches are distributed among these distances:
23 19 0.37
24 29 0.57
25 3 0.06
ACGTcount: A:0.20, C:0.07, G:0.26, T:0.48
Consensus pattern (24 bp):
AATGACTGATTTGTCTGTGATTTG
Found at i:38245903 original size:27 final size:26
Alignment explanation
Indices: 38245855--38245925 Score: 65
Period size: 27 Copynumber: 2.7 Consensus size: 26
38245845 ATGGAGGAAG
* *
38245855 TACTA-TACTGGTGGCTCTGCCAGA-A
1 TACTATTACTGGTAGCT-TGCCACATA
*
38245880 TCACTGTTACTGGTAGCTTAGCCACATA
1 T-ACTATTACTGGTAGCTT-GCCACATA
*
38245908 TACTATTACTGGCAGCTT
1 TACTATTACTGGTAGCTT
38245926 TGCTGCGATA
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
25 1 0.03
26 4 0.11
27 30 0.81
28 2 0.05
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.32
Consensus pattern (26 bp):
TACTATTACTGGTAGCTTGCCACATA
Found at i:38246004 original size:32 final size:32
Alignment explanation
Indices: 38245960--38246177 Score: 231
Period size: 32 Copynumber: 6.8 Consensus size: 32
38245950 TTTGCTGCGA
**
38245960 TGCTACTGATGGCTTTGTGTAGATCATAGT-AC
1 TGCTACTGATGGCTTTGTGCCGATCATA-TCAC
* * * *
38245992 CGTTACTGATGGCTGTGTTCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATCAC
* *
38246024 TGCTACTGATGGCTTTGTGCCGATCATGTTAC
1 TGCTACTGATGGCTTTGTGCCGATCATATCAC
* * * *
38246056 AGTTACTGATGGCTGTGTGCCGGTCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATCAC
* * *
38246088 TGCTACTGATGGATTTGTGCCGATCATGTTAC
1 TGCTACTGATGGCTTTGTGCCGATCATATCAC
* * * *
38246120 CGTTACTAATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATATCAC
* *
38246152 TGCTACTGATGGCTTTATGCCAATCA
1 TGCTACTGATGGCTTTGTGCCGATCA
38246178 CATTATTATA
Statistics
Matches: 147, Mismatches: 38, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
31 1 0.01
32 146 0.99
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (32 bp):
TGCTACTGATGGCTTTGTGCCGATCATATCAC
Found at i:38246061 original size:64 final size:64
Alignment explanation
Indices: 38245960--38246177 Score: 339
Period size: 64 Copynumber: 3.4 Consensus size: 64
38245950 TTTGCTGCGA
** *
38245960 TGCTACTGATGGCTTTGTGTAGATCATAG-TACCGTTACTGATGGCTGTGTTCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCAT-GTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
* *
38246024 TGCTACTGATGGCTTTGTGCCGATCATGTTACAGTTACTGATGGCTGTGTGCCGGTCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
* *
38246088 TGCTACTGATGGATTTGTGCCGATCATGTTACCGTTACTAATGGCTGTGTGCCGATCATATCAC
1 TGCTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
* *
38246152 TGCTACTGATGGCTTTATGCCAATCA
1 TGCTACTGATGGCTTTGTGCCGATCA
38246178 CATTATTATA
Statistics
Matches: 141, Mismatches: 12, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
63 1 0.01
64 140 0.99
ACGTcount: A:0.20, C:0.22, G:0.24, T:0.35
Consensus pattern (64 bp):
TGCTACTGATGGCTTTGTGCCGATCATGTTACCGTTACTGATGGCTGTGTGCCGATCATATCAC
Found at i:38246276 original size:26 final size:26
Alignment explanation
Indices: 38246247--38246299 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
38246237 GGCTCTTAGC
* *
38246247 CATTCTGACTACTGGCAGCTCTGCTG
1 CATTATGACTACTGGCAGCTATGCTG
*
38246273 CATTATTACTACTGGCAGCTATGCTG
1 CATTATGACTACTGGCAGCTATGCTG
38246299 C
1 C
38246300 GATATTAGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.21, T:0.32
Consensus pattern (26 bp):
CATTATGACTACTGGCAGCTATGCTG
Found at i:38246448 original size:28 final size:28
Alignment explanation
Indices: 38246415--38246468 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
38246405 CATACTGATA
*
38246415 CTGTATCGGGCTTAA-GCCCACACTGTTT
1 CTGTATCAGGC-TAAGGCCCACACTGTTT
*
38246443 CTGTATTAGGCTAAGGCCCACACTGT
1 CTGTATCAGGCTAAGGCCCACACTGT
38246469 ACTGTTACTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 3 0.13
28 20 0.87
ACGTcount: A:0.20, C:0.28, G:0.22, T:0.30
Consensus pattern (28 bp):
CTGTATCAGGCTAAGGCCCACACTGTTT
Found at i:38253905 original size:37 final size:37
Alignment explanation
Indices: 38253844--38253989 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
38253834 TACGTATGAT
* *
38253844 CACTTATCAC-TTG-TCCCTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
*
38253879 CACCTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
38253916 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
**
38253953 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGC
1 CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
38253990 TAAAGCTATC
Statistics
Matches: 103, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
35 9 0.09
36 3 0.03
37 91 0.88
ACGTcount: A:0.25, C:0.22, G:0.16, T:0.36
Consensus pattern (37 bp):
CACTTATCACTTTGTTTCTTGATCAGATAAGTGTAGC
Found at i:38254004 original size:46 final size:46
Alignment explanation
Indices: 38253953--38254175 Score: 284
Period size: 52 Copynumber: 4.6 Consensus size: 46
38253943 TAAGTGTAGC
**
38253953 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
38253999 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
38254045 CACTTATCACTTTTCACTTATCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
*
38254097 CACTTATCACTTTCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTAT
1 CACTTATCAC--T----TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
38254149 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
38254176 AGTACTCAAA
Statistics
Matches: 161, Mismatches: 9, Indels: 14
0.88 0.05 0.08
Matches are distributed among these distances:
46 68 0.42
49 1 0.01
50 1 0.01
51 3 0.02
52 88 0.55
ACGTcount: A:0.28, C:0.22, G:0.14, T:0.35
Consensus pattern (46 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:38254054 original size:7 final size:7
Alignment explanation
Indices: 38254042--38254075 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
38254032 TAGCCGAAGC
38254042 TATCACT
1 TATCACT
38254049 TATCACT
1 TATCACT
*
38254056 TTTCACT
1 TATCACT
38254063 TATCACT
1 TATCACT
38254070 TGATCA
1 T-ATCA
38254076 GATAAGTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 20 0.83
8 4 0.17
ACGTcount: A:0.26, C:0.26, G:0.03, T:0.44
Consensus pattern (7 bp):
TATCACT
Found at i:38259349 original size:19 final size:18
Alignment explanation
Indices: 38259325--38259362 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
38259315 TGGAAATGAA
38259325 TCATTTCTCATTTTCATTT
1 TCATTTCT-ATTTTCATTT
*
38259344 TCATTTCTATTTTTATTT
1 TCATTTCTATTTTCATTT
38259362 T
1 T
38259363 GAGAAAACCA
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:0.16, C:0.16, G:0.00, T:0.68
Consensus pattern (18 bp):
TCATTTCTATTTTCATTT
Found at i:38273059 original size:47 final size:47
Alignment explanation
Indices: 38273008--38273558 Score: 944
Period size: 47 Copynumber: 11.7 Consensus size: 47
38272998 TTAGGATTCT
* * *
38273008 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
38273055 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38273102 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
38273149 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATCGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38273196 ATGTGATGAATGTGAAA-TGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38273242 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
38273289 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38273336 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38273383 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
38273430 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
38273477 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
38273524 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
38273559 TCCCGAAGGG
Statistics
Matches: 481, Mismatches: 21, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
46 45 0.09
47 436 0.91
ACGTcount: A:0.33, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:38273733 original size:37 final size:37
Alignment explanation
Indices: 38273677--38273755 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
38273667 CCGAGCTCTA
* * *
38273677 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
38273714 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
38273751 AAGAC
1 AAGAC
38273756 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:38284223 original size:19 final size:19
Alignment explanation
Indices: 38284199--38284235 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
38284189 AGGAAAGCGA
*
38284199 GTTTTATTCGGTCACTGAT
1 GTTTTATGCGGTCACTGAT
38284218 GTTTTATGCGGTCACTGA
1 GTTTTATGCGGTCACTGA
38284236 CCCTAGTGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.16, C:0.16, G:0.24, T:0.43
Consensus pattern (19 bp):
GTTTTATGCGGTCACTGAT
Found at i:38286415 original size:22 final size:23
Alignment explanation
Indices: 38286385--38286429 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
38286375 TCGGATATAA
* *
38286385 AATAGTGCGATACAATCGCCAAT
1 AATAGTGCGATAAAATCACCAAT
38286408 AATA-TGCGATAAAATCACCAAT
1 AATAGTGCGATAAAATCACCAAT
38286430 CCCCTCGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.44, C:0.20, G:0.13, T:0.22
Consensus pattern (23 bp):
AATAGTGCGATAAAATCACCAAT
Found at i:38295743 original size:39 final size:39
Alignment explanation
Indices: 38295698--38295774 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
38295688 CTAATTAGAA
38295698 AGAAATTTCAATTAATCAACCTAAAGTCAATTGCTCTTT
1 AGAAATTTCAATTAATCAACCTAAAGTCAATTGCTCTTT
* *
38295737 AGAAATTTCAATTAATCAACCTAAAGTCAGTTGGTCTT
1 AGAAATTTCAATTAATCAACCTAAAGTCAATTGCTCTT
38295775 ACTCTCGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.38, C:0.17, G:0.10, T:0.35
Consensus pattern (39 bp):
AGAAATTTCAATTAATCAACCTAAAGTCAATTGCTCTTT
Found at i:38297256 original size:22 final size:21
Alignment explanation
Indices: 38297230--38297276 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
38297220 CACATAGCAC
*
38297230 ATTGTGGGTAAACCACCACATA
1 ATTGTGGAT-AACCACCACATA
* *
38297252 ATTGTTGATAACGACCACATA
1 ATTGTGGATAACCACCACATA
38297273 ATTG
1 ATTG
38297277 CTAGTTAAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 15 0.68
22 7 0.32
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (21 bp):
ATTGTGGATAACCACCACATA
Found at i:38317137 original size:18 final size:18
Alignment explanation
Indices: 38317116--38317151 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
38317106 TTGCACCTGT
38317116 AGAAGAAGAAGTTGTTGC
1 AGAAGAAGAAGTTGTTGC
* *
38317134 AGAAGAGGAGGTTGTTGC
1 AGAAGAAGAAGTTGTTGC
38317152 TAAAGGAGAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.33, C:0.06, G:0.39, T:0.22
Consensus pattern (18 bp):
AGAAGAAGAAGTTGTTGC
Found at i:38326964 original size:43 final size:42
Alignment explanation
Indices: 38326916--38327041 Score: 121
Period size: 42 Copynumber: 2.9 Consensus size: 42
38326906 TCCCCGACGT
* * * * *
38326916 GGTCTTATATGTAATCAAATATCGATGTCACTGTCCTAGACAG
1 GGTCTTACATGAAATCAAATA-CGATGCCAATGTCCCAGACAG
* *
38326959 GGTCTTACATGAAATCATATACGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAG
*
38327001 GGTCTTACACAT-AAATCTCAAAT-CGATGCCAACGTCCCAGA
1 GGTCTT--ACATGAAA--TCAAATACGATGCCAATGTCCCAGA
38327042 TGTGGTCTTA
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
42 23 0.33
43 21 0.30
44 21 0.30
45 5 0.07
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (42 bp):
GGTCTTACATGAAATCAAATACGATGCCAATGTCCCAGACAG
Found at i:38326999 original size:42 final size:43
Alignment explanation
Indices: 38326916--38327041 Score: 123
Period size: 43 Copynumber: 2.9 Consensus size: 43
38326906 TCCCCGACGT
* * * * *
38326916 GGTCTTATATGTAATCAAATATCGATGTCACTGTCCTAGACAG
1 GGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAGACAG
* *
38326959 GGTCTTACATGAAATCATATA-CGATGCCAATGTCCCAGACAT
1 GGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAGACAG
* *
38327001 GGTCTTACACAT-AAATCTCAA-ATCGATGCCAACGTCCCAGA
1 GGTCTT--ACATGAAATC-AAATATCGATGCCAATGTCCCAGA
38327042 TGTGGTCTTA
Statistics
Matches: 69, Mismatches: 10, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
42 23 0.33
43 24 0.35
44 22 0.32
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
GGTCTTACATGAAATCAAATATCGATGCCAATGTCCCAGACAG
Found at i:38352073 original size:25 final size:25
Alignment explanation
Indices: 38352028--38352097 Score: 72
Period size: 24 Copynumber: 2.8 Consensus size: 25
38352018 ATGATCATAC
* * *
38352028 GAGCTATGAATCGGTATGCTCCCACA
1 GAGCTGTGAATCGATAAGCT-CCACA
*
38352054 -AGCTGTGAATCGATAAGCT-CATA
1 GAGCTGTGAATCGATAAGCTCCACA
*
38352077 GAGCTGAGAATCGATAAGCTC
1 GAGCTGTGAATCGATAAGCTC
38352098 ATAAGAGTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
23 3 0.08
24 18 0.49
25 16 0.43
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.23
Consensus pattern (25 bp):
GAGCTGTGAATCGATAAGCTCCACA
Found at i:38352087 original size:24 final size:24
Alignment explanation
Indices: 38352054--38352100 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38352044 TGCTCCCACA
*
38352054 AGCTGTGAATCGATAAGCTCATAG
1 AGCTGAGAATCGATAAGCTCATAG
38352078 AGCTGAGAATCGATAAGCTCATA
1 AGCTGAGAATCGATAAGCTCATA
38352101 AGAGTTGTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.36, C:0.17, G:0.23, T:0.23
Consensus pattern (24 bp):
AGCTGAGAATCGATAAGCTCATAG
Found at i:38353972 original size:16 final size:17
Alignment explanation
Indices: 38353946--38353990 Score: 53
Period size: 16 Copynumber: 2.8 Consensus size: 17
38353936 TTGATCAATT
38353946 TCCATATACATATATCA
1 TCCATATACATATATCA
38353963 TCCA-ATACAT-T-T-A
1 TCCATATACATATATCA
38353976 TCCATATATCATATA
1 TCCATATA-CATATA
38353991 ACAACATTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 8
0.75 0.00 0.25
Matches are distributed among these distances:
13 5 0.21
14 4 0.17
15 4 0.17
16 7 0.29
17 4 0.17
ACGTcount: A:0.40, C:0.22, G:0.00, T:0.38
Consensus pattern (17 bp):
TCCATATACATATATCA
Found at i:38354199 original size:25 final size:25
Alignment explanation
Indices: 38354168--38354238 Score: 106
Period size: 25 Copynumber: 2.8 Consensus size: 25
38354158 GGAGCTGTAG
38354168 ATCGGTATGCTCTCACGAGTTACAA
1 ATCGGTATGCTCTCACGAGTTACAA
* * * *
38354193 ATTGGTATGCTCTTACGAGCTATAA
1 ATCGGTATGCTCTCACGAGTTACAA
38354218 ATCGGTATGCTCTCACGAGTT
1 ATCGGTATGCTCTCACGAGTT
38354239 GTTGAGTTTC
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 39 1.00
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.32
Consensus pattern (25 bp):
ATCGGTATGCTCTCACGAGTTACAA
Found at i:38362616 original size:30 final size:30
Alignment explanation
Indices: 38362577--38362638 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 30
38362567 TACATGAAAT
38362577 ACATGGAAAT-GAT-ATTACATGATATATTGAA
1 ACATGGAAATGGATGA-TACATG-TATA-TGAA
38362608 ACAT-GAAATGGATGATACATGTATATGAA
1 ACATGGAAATGGATGATACATGTATATGAA
38362637 AC
1 AC
38362639 TTGCTTAATG
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
29 6 0.21
30 9 0.31
31 13 0.45
32 1 0.03
ACGTcount: A:0.45, C:0.08, G:0.18, T:0.29
Consensus pattern (30 bp):
ACATGGAAATGGATGATACATGTATATGAA
Found at i:38369540 original size:9 final size:9
Alignment explanation
Indices: 38369526--38369551 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
38369516 ATATATAACA
38369526 TTTATTTTT
1 TTTATTTTT
38369535 TTTATTTTT
1 TTTATTTTT
38369544 TTTATTTT
1 TTTATTTT
38369552 GCTGTGGAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (9 bp):
TTTATTTTT
Found at i:38370662 original size:843 final size:845
Alignment explanation
Indices: 38368677--38371134 Score: 4619
Period size: 843 Copynumber: 2.9 Consensus size: 845
38368667 CTACCAATAC
* *
38368677 AACATTTATTTTTTTATTTTGCTTTGGAATAAGGGATATCATTTCATTTTTGTACCCTTGTTCTT
1 AACATTTATTTTTTTATTTTGCTTTGGAATAAGGGATATCATTGCATTATTGTACCCTTGTTCTT
38368742 GAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGACACTCATA
66 GAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGACACTCATA
*
38368807 CAACGATAGCCTTTAGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTCATTAACAT
131 CAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTCATTAACAT
38368872 TCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATTGTAAAAGC
196 TCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATTGTAAAAGC
*
38368937 ATATTCATTCAAGATTTAAGGAATAATAGTAGTCATCCATTACTAATGCAACCTAATCTATTCAT
261 ATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAATCTATTCAT
*
38369002 CAAATAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATTCACATGAT
326 CAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATTCACATGAT
38369067 TCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAATTAAACCT
391 TCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAATTAAACCT
38369132 TGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTGCATTCCCC
456 TGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTGCATTCCCC
38369197 CAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAAAAATGCAA
521 CAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAAAAATGCAA
*
38369262 TGACAATGTGTACTTATCGAAATAAAACTTACAACTACATGCAATGCATGAATACTATACCTAAA
586 TGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACTATACCTAAA
38369327 GCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTCTTTCTCCT
651 GCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTCTTTCTCCT
*
38369392 CATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAACGCTTTCTCTTCATCAATGCAAGCA
716 CATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATCAATGCAAGCA
38369457 TTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTAAGTATATAT
781 TTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTAAGTATATAT
*
38369522 AACATTTATTTTTTTTATTTTTTTTATTTTGCTGTGGAATAAGGGATATCATTGCATTATTGTAC
1 AAC----A-----TTTA-TTTTTTTATTTTGCTTTGGAATAAGGGATATCATTGCATTATTGTAC
38369587 CCTTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATA
56 CCTTGTTCTTGAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATA
*
38369652 GACACTCATACAACAATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCT
121 GACACTCATACAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCT
38369717 TCATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAA
186 TCATTAACATTCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAA
38369782 TTGTAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTA
251 TTGTAAAAGCATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTA
*
38369847 ATCTATTCATCAAAGAATTGAAGCAACAACCTTCTATCAAATTTATCCAACTCATTCATTGATAA
316 ATCTATTCATCAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAA
38369912 TTCACATGATTCAAGAATTAAGCATCAAATGTAACAAAAA-TTTTGAACAATTTTAATTTACTAC
381 TTCACATGATTCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTAC
*
38369976 AATTAAACCTTGCATGCTTCATTATAGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATG
446 AATTAAACCTTGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATG
38370041 TGCATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGT
511 TGCATTCCCCCAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGT
38370106 AAAAATGCAATGACAATGT-TACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATAC
576 AAAAATGCAATGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATAC
38370170 TATACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTT
641 TATACCTAAAGCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTT
38370235 TCTTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATC
706 TCTTTCTCCTCATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATC
38370300 AATGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACT
771 AATGCAAGCATTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACT
38370365 AAGTATATAT
836 AAGTATATAT
38370375 AACATTTATTTTTTTATTTTGCTTTGGAATAAGGGATATCATTGCATTATTGTACCCTTGTTCTT
1 AACATTTATTTTTTTATTTTGCTTTGGAATAAGGGATATCATTGCATTATTGTACCCTTGTTCTT
**
38370440 GAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGTACCAATAGACACTCATA
66 GAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGACACTCATA
38370505 CAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTCATTAACAT
131 CAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTCATTAACAT
38370570 TCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATTGTAAAAGC
196 TCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATTGTAAAAGC
38370635 ATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAATCTATTCAT
261 ATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAATCTATTCAT
38370700 CAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATTCACATGAT
326 CAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATTCACATGAT
38370765 TCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAATTAAACCT
391 TCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAATTAAACCT
38370830 TGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTGCATTCCCC
456 TGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTGCATTCCCC
*
38370895 CAAAGTTAAACTTTGCATTATCCCCAATGCATTAACATGAAATTGTAATGACAGTAAAAATGCAA
521 CAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAAAAATGCAA
*
38370960 TGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATTCAATGCATGAATACTATACCTAAA
586 TGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACTATACCTAAA
*
38371025 GCTTAAAATAAACTAACTTAGTTATCCTCATCCATCGATGTGGCTGCACGATGTTTCTTTCTCCT
651 GCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTCTTTCTCCT
38371090 CATTTTG------TTC-TCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTC
716 CATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTC
38371135 TTTTCTTTGG
Statistics
Matches: 1581, Mismatches: 20, Indels: 31
0.97 0.01 0.02
Matches are distributed among these distances:
838 35 0.02
839 3 0.00
843 407 0.26
844 175 0.11
845 128 0.08
849 2 0.00
853 251 0.16
854 176 0.11
855 404 0.26
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (845 bp):
AACATTTATTTTTTTATTTTGCTTTGGAATAAGGGATATCATTGCATTATTGTACCCTTGTTCTT
GAGAAGTAACGATGGAGTGCAGCAAACCCCCAAGGAGTACATCATTGCGCCAATAGACACTCATA
CAACGATAGCCTTTGGCCAGATTGATTTTTCTAATGCTTGTATTGGAGTGTTCCTTCATTAACAT
TCCATACTACACCCACTTTGGAGTGTCTCTAATTTCTAACTATATATATAAGCAATTGTAAAAGC
ATATTCATTCAAGATTTAAGGAATGATAGTAGTCATCCATTACTAATGCAACCTAATCTATTCAT
CAAAGAATTGAAGCAACAACCTTCTGTCAAATTTATCCAACTCATTCATTGATAATTCACATGAT
TCAAGAATTAAGCATCAAATGTAACAAAAATTTTTGAACAATTTTAATTTACTACAATTAAACCT
TGCATGCTTCATTATCGAAAAAAATTGAAATGTGGGTGCATTTCCAAACCCCATGTGCATTCCCC
CAAAGTTAAACTTTGCATTATCCCCAATGCACTAACATGAAATTGTAATGACAGTAAAAATGCAA
TGACAATGTGTACTTATCGAAATAAAACTTGCAACTACATGCAATGCATGAATACTATACCTAAA
GCTTAAAATAAACTAACTTAGTTATCCTCAGCCATCGATGTGGCTGCACGATGTTTCTTTCTCCT
CATTTTGTTCTCTTTCATCTTTCATTTTTTATCATTAGAGCGCTTTCTCTTCATCAATGCAAGCA
TTATGCTTCAAACCTTAAGTTCTATCTACCAATACAACATTTATTGTACAATACTAAGTATATAT
Found at i:38380769 original size:52 final size:52
Alignment explanation
Indices: 38380699--38380821 Score: 164
Period size: 52 Copynumber: 2.4 Consensus size: 52
38380689 TGAATTAAAA
* *
38380699 AAAACTCTTTTAAATAATAAT--TTAAATTCT-ATTTAATTATCT-TTTATTT
1 AAAACTCTTTTAAATAATAATAATTAAATTATGATTTAATTAT-TATTTATCT
* * *
38380748 AAAATTGTTTTAAATAATAATAATTAAATTATGTTTTAATTATTATTTATCT
1 AAAACTCTTTTAAATAATAATAATTAAATTATGATTTAATTATTATTTATCT
38380800 AAAACTCTTTTAAATAATAATA
1 AAAACTCTTTTAAATAATAATA
38380822 TAATTACTAT
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
49 19 0.30
51 9 0.14
52 35 0.56
ACGTcount: A:0.43, C:0.06, G:0.02, T:0.50
Consensus pattern (52 bp):
AAAACTCTTTTAAATAATAATAATTAAATTATGATTTAATTATTATTTATCT
Found at i:38380826 original size:38 final size:38
Alignment explanation
Indices: 38380784--38380858 Score: 132
Period size: 38 Copynumber: 2.0 Consensus size: 38
38380774 AATTATGTTT
*
38380784 TAATTATTATTTATCTAAAACTCTTTTAAATAATAATA
1 TAATTACTATTTATCTAAAACTCTTTTAAATAATAATA
*
38380822 TAATTACTATTTATCTAAATCTCTTTTAAATAATAAT
1 TAATTACTATTTATCTAAAACTCTTTTAAATAATAAT
38380859 TAAAATCTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.43, C:0.09, G:0.00, T:0.48
Consensus pattern (38 bp):
TAATTACTATTTATCTAAAACTCTTTTAAATAATAATA
Found at i:38392006 original size:242 final size:242
Alignment explanation
Indices: 38391581--38392059 Score: 949
Period size: 242 Copynumber: 2.0 Consensus size: 242
38391571 AAGACCCTAA
38391581 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
1 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
38391646 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
66 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
38391711 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
131 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
38391776 TCTTACTTTACAGATTATTAAAAGCTCGATTACTTTGGAAGCCCCTG
196 TCTTACTTTACAGATTATTAAAAGCTCGATTACTTTGGAAGCCCCTG
38391823 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
1 TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
38391888 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
66 TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
38391953 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
131 TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
*
38392018 TCTTACTTTACAGATTATTAAAAGCTCGATTGCTTTGGAAGC
196 TCTTACTTTACAGATTATTAAAAGCTCGATTACTTTGGAAGC
38392060 TAGTTGGAGA
Statistics
Matches: 236, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
242 236 1.00
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.43
Consensus pattern (242 bp):
TATGTTATAAATGTAATGTATTCGGGATGTTAATGAATCTATTCATTTGTGAGTTGATAGTTATG
TAATTTGATAAATCTTGAGACATTGGTATAGGTTTATTTATGACTTATAAAGTTCATATTTGAAA
TGGAATATTATGTTTAAATTTTATACGAGCTTACTAGGCATTCATTGCTTATATGGTTATCTTTC
TCTTACTTTACAGATTATTAAAAGCTCGATTACTTTGGAAGCCCCTG
Found at i:38393771 original size:49 final size:50
Alignment explanation
Indices: 38393637--38393772 Score: 168
Period size: 49 Copynumber: 2.8 Consensus size: 50
38393627 AGGGAATGAG
* * * *
38393637 ATCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACTATATGAGAAC
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACTACATGAAAAC
* * *
38393687 -TCCCATGTAAGACCATATCTAGGATATGGCATTGGCAGTACA-GAAAAC
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACTACATGAAAAC
* * *
38393735 ATCCCATGTAAGACTATGTCTAGGACATAGCTTTGGCA
1 ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCA
38393773 TTTATTATCA
Statistics
Matches: 73, Mismatches: 12, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
48 5 0.07
49 68 0.93
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.24
Consensus pattern (50 bp):
ATCCCATGTAAGACCATGTCTAGGACATGGCATTGGCACTACATGAAAAC
Found at i:38405895 original size:44 final size:44
Alignment explanation
Indices: 38405832--38405919 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
38405822 AAAGAACCTA
*
38405832 ATTTTTTTTACTTTTAAGGGAATTTCGTCCAAGGCCTTTAATGG
1 ATTTTTTTTACTTTCAAGGGAATTTCGTCCAAGGCCTTTAATGG
38405876 ATTTTTTTTACTTTCAAGGGAATTTCGTCCAAGGCCTTTAATGG
1 ATTTTTTTTACTTTCAAGGGAATTTCGTCCAAGGCCTTTAATGG
38405920 GCCTCTTTGG
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.23, C:0.15, G:0.18, T:0.44
Consensus pattern (44 bp):
ATTTTTTTTACTTTCAAGGGAATTTCGTCCAAGGCCTTTAATGG
Found at i:38407967 original size:27 final size:27
Alignment explanation
Indices: 38407936--38408384 Score: 592
Period size: 27 Copynumber: 16.6 Consensus size: 27
38407926 ACGGCCATAC
38407936 ATTTCGGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
38407963 ATTTCGATCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
*
38407990 ATTTCGGTCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* * * * *
38408017 AATTCAGTTATTCTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
38408044 ATTTTGCTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* * * *
38408071 ATTTCGGTTATTCTACCATATGAGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
38408098 ATTTCGGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
*
38408125 ATTTCAGTCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
*
38408152 ATTTCGATCATTTTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
38408179 ATTTCGATCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
*
38408206 ATTTCGGTCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
38408233 ATTTTGGTCATTTTTCCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* * * *
38408260 ATTTTGGTCATTTTACCCAATAGGGTT
1 ATTTCGGTCATTTTACCCTATGGGGGT
* *
38408287 ATTTCGATCATTCTACCCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
** *
38408314 ATTTCAATCATTTTAACCTATGGGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
** *
38408341 ATTTCAATCATTTTACCCTATGAGGGT
1 ATTTCGGTCATTTTACCCTATGGGGGT
*
38408368 ATTTCAGTCATTTTACC
1 ATTTCGGTCATTTTACC
38408385 TATTTTGGAT
Statistics
Matches: 374, Mismatches: 48, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 374 1.00
ACGTcount: A:0.19, C:0.19, G:0.22, T:0.41
Consensus pattern (27 bp):
ATTTCGGTCATTTTACCCTATGGGGGT
Found at i:38414613 original size:51 final size:50
Alignment explanation
Indices: 38414503--38414692 Score: 195
Period size: 51 Copynumber: 3.8 Consensus size: 50
38414493 GTACCTGGTT
* * * **
38414503 CACATAGTTGCCTACACATAGTACTACACATGTGACCATTTCCA-TCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCATTCCGATA
* * *
38414554 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATT-CGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGC-ATTCCGATA
* * * * * *
38414605 CGCATAGTAGCCTGTACATAGTACTACACATGCGACCCATCATTCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCGATA
*
38414655 CACGTAGTAGCCTGCACATAGTACTACACACGTGACCA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCA
38414693 TCACTTTCAC
Statistics
Matches: 112, Mismatches: 23, Indels: 9
0.78 0.16 0.06
Matches are distributed among these distances:
49 3 0.03
50 40 0.36
51 66 0.59
52 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.24
Consensus pattern (50 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCGATA
Found at i:38414713 original size:101 final size:101
Alignment explanation
Indices: 38414503--38414689 Score: 270
Period size: 101 Copynumber: 1.8 Consensus size: 101
38414493 GTACCTGGTT
* *
38414503 CACATAGTTGCCTACACATAGTACTACACATGTGACCATTTCCATCCGATACACGTAGTAGCCTG
1 CACATAGTAGCCTACACATAGTACTACACATGCGACCA-TTCCATCCGATACACGTAGTAGCCTG
* *
38414568 CACATAGTACTACACACGTGATCGAAGCTATTCGGTA
65 CACATAGTACTACACACGTGATCCAAGCTATTCCGTA
* **
38414605 CGCATAGTAGCCTGTACATAGTACTACACATGCGACCCA-T-CATTCCGATACACGTAGTAGCCT
1 CACATAGTAGCCTACACATAGTACTACACATGCGA-CCATTCCA-TCCGATACACGTAGTAGCCT
38414668 GCACATAGTACTACACACGTGA
64 GCACATAGTACTACACACGTGA
38414690 CCATCACTTT
Statistics
Matches: 78, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
100 2 0.03
101 43 0.55
102 30 0.38
103 3 0.04
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.24
Consensus pattern (101 bp):
CACATAGTAGCCTACACATAGTACTACACATGCGACCATTCCATCCGATACACGTAGTAGCCTGC
ACATAGTACTACACACGTGATCCAAGCTATTCCGTA
Found at i:38421055 original size:50 final size:50
Alignment explanation
Indices: 38420945--38421194 Score: 306
Period size: 50 Copynumber: 4.9 Consensus size: 50
38420935 ACATTAAGAG
*
38420945 GATGAGA--TCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA
* *
38420996 GATTATGAGAGGTCCCATGTAAGACCATGTATGGGACATGGCGTTGGCACCGA
1 G---ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* * *
38421049 GATGAGAGGTCCCATGTAAGACCATGTCTCGGACATGGCGTTGGCACTGA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
** * *
38421099 GATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
* ** *
38421149 TATGAGAACTCCCATGTAAGACCATGTCTGGGATATGGCATTGGCA
1 GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
38421195 GTACAAGAAA
Statistics
Matches: 174, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
50 128 0.74
51 1 0.01
53 3 0.02
54 6 0.03
55 1 0.01
56 35 0.20
ACGTcount: A:0.26, C:0.21, G:0.30, T:0.23
Consensus pattern (50 bp):
GATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGA
Found at i:38429742 original size:24 final size:24
Alignment explanation
Indices: 38429715--38429765 Score: 102
Period size: 24 Copynumber: 2.1 Consensus size: 24
38429705 ATAATTGTAT
38429715 ATATGTTTATAATTGATGTAGGTA
1 ATATGTTTATAATTGATGTAGGTA
38429739 ATATGTTTATAATTGATGTAGGTA
1 ATATGTTTATAATTGATGTAGGTA
38429763 ATA
1 ATA
38429766 AAGTATGCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (24 bp):
ATATGTTTATAATTGATGTAGGTA
Found at i:38460193 original size:25 final size:25
Alignment explanation
Indices: 38460165--38460248 Score: 107
Period size: 25 Copynumber: 3.4 Consensus size: 25
38460155 CTCATGTAAA
* *
38460165 CATACCGATTTATAGCTC-ATGAGAG
1 CATACCGATCTATAGCTCGA-GTGAG
* *
38460190 CATACTGATCTACAGCTCGAGTGAG
1 CATACCGATCTATAGCTCGAGTGAG
*
38460215 CATATCGATCTATAGCTCGAGTGAG
1 CATACCGATCTATAGCTCGAGTGAG
38460240 CATACCGAT
1 CATACCGAT
38460249 TCACAGCTCG
Statistics
Matches: 50, Mismatches: 8, Indels: 2
0.83 0.13 0.03
Matches are distributed among these distances:
25 49 0.98
26 1 0.02
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
CATACCGATCTATAGCTCGAGTGAG
Found at i:38460232 original size:50 final size:50
Alignment explanation
Indices: 38460165--38460267 Score: 122
Period size: 50 Copynumber: 2.1 Consensus size: 50
38460155 CTCATGTAAA
* *
38460165 CATACCGATTTATAGCTC-ATGAGAGCATACTGA-TCTACAGCTCG-AGTGAG
1 CATACCGATCTATAGCTCGA-GAGAGCATACCGATTC-ACAGCTCGTA-TGAG
* *
38460215 CATATCGATCTATAGCTCGAGTGAGCATACCGATTCACAGCTCGTATGAG
1 CATACCGATCTATAGCTCGAGAGAGCATACCGATTCACAGCTCGTATGAG
38460265 CAT
1 CAT
38460268 CCATGTACAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
50 42 0.91
51 4 0.09
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (50 bp):
CATACCGATCTATAGCTCGAGAGAGCATACCGATTCACAGCTCGTATGAG
Found at i:38460256 original size:25 final size:25
Alignment explanation
Indices: 38460165--38460267 Score: 104
Period size: 25 Copynumber: 4.1 Consensus size: 25
38460155 CTCATGTAAA
* * *
38460165 CATACCGATTTATAGCTC-ATGAGAG
1 CATACCGATCTACAGCTCGA-GTGAG
*
38460190 CATACTGATCTACAGCTCGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAG
* *
38460215 CATATCGATCTATAGCTCGAGTGAG
1 CATACCGATCTACAGCTCGAGTGAG
38460240 CATACCGAT-TCACAGCTCGTA-TGAG
1 CATACCGATCT-ACAGCTCG-AGTGAG
38460265 CAT
1 CAT
38460268 CCATGTACAT
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
24 1 0.02
25 63 0.95
26 2 0.03
ACGTcount: A:0.29, C:0.23, G:0.21, T:0.26
Consensus pattern (25 bp):
CATACCGATCTACAGCTCGAGTGAG
Found at i:38461917 original size:16 final size:16
Alignment explanation
Indices: 38461875--38461917 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
38461865 ACTCGGATCT
* *
38461875 TTACTTTCTTCTTTAC
1 TTACTTACTTGTTTAC
*
38461891 TTACTCACTTGTTTAC
1 TTACTTACTTGTTTAC
*
38461907 TTACTTGCTTG
1 TTACTTACTTG
38461918 CTTAAATAAC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.14, C:0.23, G:0.07, T:0.56
Consensus pattern (16 bp):
TTACTTACTTGTTTAC
Found at i:38462252 original size:50 final size:50
Alignment explanation
Indices: 38462174--38462366 Score: 192
Period size: 50 Copynumber: 3.7 Consensus size: 50
38462164 TTTCCTGTAC
* * * *
38462174 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* * *
38462224 TGCCCATGCCATGTCCCAGACATAGTCTTACGA-GGGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGA-CTTCTCATATCGG
* * *
38462274 TGCCAATGCCATGTCCTAGACATGGTCATACATGGGACCTCTCATAATCTCAGTG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCAT-A--TC-G-G
* *
38462329 ATGCCAATGCCATGTCCCAGGCATGGTCTTACGTGGGA
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
38462367 TCTCTTTACC
Statistics
Matches: 116, Mismatches: 17, Indels: 14
0.79 0.12 0.10
Matches are distributed among these distances:
49 3 0.03
50 73 0.63
51 3 0.03
53 2 0.02
54 1 0.01
55 1 0.01
56 33 0.28
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:38462291 original size:100 final size:105
Alignment explanation
Indices: 38462174--38462366 Score: 261
Period size: 100 Copynumber: 1.9 Consensus size: 105
38462164 TTTCCTGTAC
* * ** *
38462174 TGCCAATGCCATATCCTAGATATGGTCTTACATGGGATTTCTCAT-A-TC-G-G-TGCCCATGCC
1 TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAACTCAGTGATGCCAATGCC
38462234 ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
66 ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
*
38462274 TGCCAATGCCATGTCCTAGACATGGTCATACATGGGACCTCTCATAATCTCAGTGATGCCAATGC
1 TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAA-CTCAGTGATGCCAATGC
* * *
38462339 CATGTCCCAGGCATGGTCTTACGTGGGA
65 CATGTCCCAGACATAGTCTTACGAGGGA
38462367 TCTCTTTACC
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
100 40 0.51
101 1 0.01
103 2 0.03
104 1 0.01
105 1 0.01
106 33 0.42
ACGTcount: A:0.23, C:0.27, G:0.22, T:0.28
Consensus pattern (105 bp):
TGCCAATGCCATATCCTAGACATGGTCATACATGGGACCTCTCATAACTCAGTGATGCCAATGCC
ATGTCCCAGACATAGTCTTACGAGGGACCTTTCATCTCGG
Found at i:38466810 original size:30 final size:30
Alignment explanation
Indices: 38466776--38466957 Score: 206
Period size: 30 Copynumber: 6.1 Consensus size: 30
38466766 AGCAAACTCA
* **
38466776 TTTCATAATTCGATAGTCGAAGCTATCTAT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
38466806 TTTCATAATTTGATAGTCGAAGCTATCCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
* * * * * *
38466836 TTACATAGTTTGATGGTCGTCA-CCATCTCT
1 TTTCATAATTTGATAGTCG-AAGCTATCCCT
38466866 TTTCATAATTTGATAGTCGAAGCTATCCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
* * * *
38466896 TTTCATTATTTGATGGTCGTCA-CCATCCCT
1 TTTCATAATTTGATAGTCG-AAGCTATCCCT
*
38466926 TTTCATAATTTGATAGTTGAAGCTATCCCT
1 TTTCATAATTTGATAGTCGAAGCTATCCCT
38466956 TT
1 TT
38466958 CCAGTAGTCG
Statistics
Matches: 124, Mismatches: 24, Indels: 8
0.79 0.15 0.05
Matches are distributed among these distances:
29 2 0.02
30 120 0.97
31 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.14, T:0.42
Consensus pattern (30 bp):
TTTCATAATTTGATAGTCGAAGCTATCCCT
Found at i:38466878 original size:60 final size:60
Alignment explanation
Indices: 38466800--38466957 Score: 264
Period size: 60 Copynumber: 2.6 Consensus size: 60
38466790 AGTCGAAGCT
*
38466800 ATCTATTTTCATAATTTGATAGTCGAAGCTATCCCTTTACA-TAGTTTGATGGTCGTCACC
1 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATTA-TTTGATGGTCGTCACC
*
38466860 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCACC
1 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATTATTTGATGGTCGTCACC
* *
38466920 ATCCCTTTTCATAATTTGATAGTTGAAGCTATCCCTTT
1 ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTT
38466958 CCAGTAGTCG
Statistics
Matches: 93, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
60 91 0.98
61 2 0.02
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.42
Consensus pattern (60 bp):
ATCTCTTTTCATAATTTGATAGTCGAAGCTATCCCTTTACATTATTTGATGGTCGTCACC
Found at i:38466938 original size:90 final size:90
Alignment explanation
Indices: 38466776--38466939 Score: 231
Period size: 90 Copynumber: 1.8 Consensus size: 90
38466766 AGCAAACTCA
* *
38466776 TTTCATAATTCGATAGTCGAAGCTATCTATTTTCATAATTTGATAGTCGAAGCTATCCCTTTACA
1 TTTCATAATTCGATAGTCGAAGCTATCCATTTTCATAATTTGATAGTCGAAGCCATCCCTTTACA
*
38466841 TAGTTTGATGGTCGTCACCATCTCT
66 TAATTTGATGGTCGTCACCATCTCT
* * * * * *
38466866 TTTCATAATTTGATAGTCGAAGCTATCCCTTTTCATTATTTGATGGTCGTCA-CCATCCCTTTTC
1 TTTCATAATTCGATAGTCGAAGCTATCCATTTTCATAATTTGATAGTCG-AAGCCATCCCTTTAC
38466930 ATAATTTGAT
65 ATAATTTGAT
38466940 AGTTGAAGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
90 63 0.98
91 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.13, T:0.42
Consensus pattern (90 bp):
TTTCATAATTCGATAGTCGAAGCTATCCATTTTCATAATTTGATAGTCGAAGCCATCCCTTTACA
TAATTTGATGGTCGTCACCATCTCT
Found at i:38469075 original size:18 final size:19
Alignment explanation
Indices: 38469052--38469087 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38469042 CTTGAACATC
38469052 TTAATTAT-TTTAGCTCAT
1 TTAATTATGTTTAGCTCAT
*
38469070 TTAATTTTGTTTAGCTCA
1 TTAATTATGTTTAGCTCA
38469088 CTACAGCTTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 7 0.44
19 9 0.56
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (19 bp):
TTAATTATGTTTAGCTCAT
Found at i:38487103 original size:25 final size:25
Alignment explanation
Indices: 38487075--38487214 Score: 140
Period size: 25 Copynumber: 5.6 Consensus size: 25
38487065 CCGACCCGCG
* *
38487075 GCTCGTGAGAGAATACCGATTTACA
1 GCTCATGAGAGCATACCGATTTACA
* *
38487100 GCTCATGAGAGCATACCAATCTACA
1 GCTCATGAGAGCATACCGATTTACA
* * *
38487125 GCTCGTGTGAGCATACCGATTTATA
1 GCTCATGAGAGCATACCGATTTACA
* *
38487150 GCTCATGAGAGCATACCGGTCT-CA
1 GCTCATGAGAGCATACCGATTTACA
* * * *
38487174 GCTCAGGTGAGCATACAGATTCACA
1 GCTCATGAGAGCATACCGATTTACA
38487199 GCTCAT-ATGAGCATAC
1 GCTCATGA-GAGCATAC
38487215 ATGTACATGA
Statistics
Matches: 91, Mismatches: 22, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
24 17 0.19
25 74 0.81
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (25 bp):
GCTCATGAGAGCATACCGATTTACA
Found at i:38487202 original size:49 final size:50
Alignment explanation
Indices: 38487075--38487214 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 50
38487065 CCGACCCGCG
* *
38487075 GCTCGTGAGAGAATACCGATTTACAGCTCATGAGAGCATACCAATCTACA
1 GCTCGTGTGAGCATACCGATTTACAGCTCATGAGAGCATACCAATCTACA
* **
38487125 GCTCGTGTGAGCATACCGATTTATAGCTCATGAGAGCATACCGGTCT-CA
1 GCTCGTGTGAGCATACCGATTTACAGCTCATGAGAGCATACCAATCTACA
* *
38487174 GCTCAG-GTGAGCATACAGATTCACAGCTCAT-ATGAGCATAC
1 GCTC-GTGTGAGCATACCGATTTACAGCTCATGA-GAGCATAC
38487215 ATGTACATGA
Statistics
Matches: 80, Mismatches: 8, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
48 1 0.01
49 36 0.45
50 43 0.54
ACGTcount: A:0.30, C:0.24, G:0.22, T:0.24
Consensus pattern (50 bp):
GCTCGTGTGAGCATACCGATTTACAGCTCATGAGAGCATACCAATCTACA
Found at i:38489183 original size:79 final size:81
Alignment explanation
Indices: 38489048--38489231 Score: 225
Period size: 79 Copynumber: 2.3 Consensus size: 81
38489038 TGAATGATGT
*
38489048 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
38489112 GTGCGAGATACTA-ATT
66 GTGCGAGATACTATA-A
* * * * **
38489128 CTGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCATT
*
38489190 TGTGCGAGTTACTATAA
65 TGTGCGAGATACTATAA
*
38489207 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38489232 AACGAGTAGC
Statistics
Matches: 89, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.64
80 31 0.35
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (81 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTATAA
Found at i:38489238 original size:40 final size:40
Alignment explanation
Indices: 38489047--38489231 Score: 225
Period size: 40 Copynumber: 4.7 Consensus size: 40
38489037 TTGAATGATG
* * * *
38489047 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* * *
38489087 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38489127 TCTGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
38489166 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
38489207 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38489232 AACGAGTAGC
Statistics
Matches: 125, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
39 34 0.27
40 81 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:38489253 original size:79 final size:79
Alignment explanation
Indices: 38489100--38489264 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
38489090 GGACTAAGAT
* * **
38489100 CCGAAGGCATTTGTGCGAGATACTAATTCTGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38489165 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38489179 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38489242 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38489258 CCGAAGG
1 CCGAAGG
38489265 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38497135 original size:79 final size:81
Alignment explanation
Indices: 38496999--38497183 Score: 236
Period size: 79 Copynumber: 2.3 Consensus size: 81
38496989 TTGAATGATG
*
38496999 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
38497063 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
38497078 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
38497140 TTTGTGCGAGTTACTATA
64 TTTGTGCGAGATACTATA
* *
38497158 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
38497184 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 1 0.01
79 58 0.63
80 33 0.36
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTGCGAGATACTATA
Found at i:38497197 original size:40 final size:40
Alignment explanation
Indices: 38497000--38497183 Score: 216
Period size: 40 Copynumber: 4.6 Consensus size: 40
38496990 TGAATGATGT
* * * *
38497000 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
38497040 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
38497080 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38497118 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
38497159 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
38497184 AACGAGTAGC
Statistics
Matches: 126, Mismatches: 11, Indels: 14
0.83 0.07 0.09
Matches are distributed among these distances:
39 35 0.28
40 81 0.64
41 10 0.08
ACGTcount: A:0.24, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:38497205 original size:79 final size:79
Alignment explanation
Indices: 38497052--38497216 Score: 210
Period size: 79 Copynumber: 2.1 Consensus size: 79
38497042 GGACTAAGAT
* **
38497052 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
38497117 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
38497131 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
38497194 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
38497210 CCGAAGG
1 CCGAAGG
38497217 TACGTGATTT
Statistics
Matches: 75, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
78 2 0.03
79 48 0.64
80 25 0.33
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:38499447 original size:20 final size:20
Alignment explanation
Indices: 38499410--38499448 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
38499400 GCCATATGGT
*
38499410 TTGGCTTGTGTTATGGTATC
1 TTGGCTTGTGTTACGGTATC
38499430 TTGG-TTGTGATTACGGTAT
1 TTGGCTTGTG-TTACGGTAT
38499449 TTTGAATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.13, C:0.08, G:0.31, T:0.49
Consensus pattern (20 bp):
TTGGCTTGTGTTACGGTATC
Found at i:38500570 original size:11 final size:11
Alignment explanation
Indices: 38500556--38500580 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38500546 TTCAACATAA
38500556 TATTTTATTAT
1 TATTTTATTAT
38500567 TATTTTATTAT
1 TATTTTATTAT
38500578 TAT
1 TAT
38500581 CATAATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (11 bp):
TATTTTATTAT
Found at i:38505501 original size:20 final size:20
Alignment explanation
Indices: 38505478--38505545 Score: 95
Period size: 20 Copynumber: 3.4 Consensus size: 20
38505468 TAACGAGTTC
38505478 AATGAGCTGAATTGAGCTCG
1 AATGAGCTGAATTGAGCTCG
38505498 AATGAGCTGACA-TGAGCTCG
1 AATGAGCTGA-ATTGAGCTCG
*
38505518 AATGAGCTGACTTGAGCTC-
1 AATGAGCTGAATTGAGCTCG
38505537 AAGTGAGCT
1 AA-TGAGCT
38505546 AAACCAAGGA
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
19 2 0.05
20 41 0.93
21 1 0.02
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (20 bp):
AATGAGCTGAATTGAGCTCG
Found at i:38505535 original size:10 final size:9
Alignment explanation
Indices: 38505478--38505527 Score: 64
Period size: 10 Copynumber: 5.1 Consensus size: 9
38505468 TAACGAGTTC
38505478 AATGAGCTG
1 AATGAGCTG
38505487 AATTGAGCTCG
1 AA-TGAGCT-G
38505498 AATGAGCTG
1 AATGAGCTG
38505507 ACATGAGCTCG
1 A-ATGAGCT-G
38505518 AATGAGCTG
1 AATGAGCTG
38505527 A
1 A
38505528 CTTGAGCTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.16
10 26 0.70
11 5 0.14
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (9 bp):
AATGAGCTG
Found at i:38506319 original size:16 final size:17
Alignment explanation
Indices: 38506298--38506330 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
38506288 CGAGGGGACC
*
38506298 ATGAAGTTTATT-TAAT
1 ATGAAGCTTATTATAAT
38506314 ATGAAGCTTATTATAAT
1 ATGAAGCTTATTATAAT
38506331 TCTTGCATGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.39, C:0.03, G:0.12, T:0.45
Consensus pattern (17 bp):
ATGAAGCTTATTATAAT
Found at i:38508206 original size:30 final size:30
Alignment explanation
Indices: 38508166--38508226 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
38508156 GCCTTCCCTT
*
38508166 CCCATTATTGGTGCTTAAAGGGAAGGATAA
1 CCCATGATTGGTGCTTAAAGGGAAGGATAA
38508196 CCCATGATTGGTGCTTAAAGGGAAGGATAA
1 CCCATGATTGGTGCTTAAAGGGAAGGATAA
38508226 C
1 C
38508227 GACTTGTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.25
Consensus pattern (30 bp):
CCCATGATTGGTGCTTAAAGGGAAGGATAA
Found at i:38510199 original size:39 final size:39
Alignment explanation
Indices: 38510156--38510265 Score: 130
Period size: 39 Copynumber: 2.8 Consensus size: 39
38510146 ACAGAGGTAT
38510156 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
* * ** ** * *
38510195 ATTTTGCTTAAAACCGCCGGATTGAGAATACGGAGATGG
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
**
38510234 ATCCTGCTGAAAACTGCTTGAGCGAGAATAGG
1 ATTTTGCTGAAAACTGCTTGAGCGAGAATAGG
38510266 ACTTCGGGTT
Statistics
Matches: 54, Mismatches: 17, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
39 54 1.00
ACGTcount: A:0.32, C:0.15, G:0.29, T:0.25
Consensus pattern (39 bp):
ATTTTGCTGAAAACTGCTTGAGCGAGAATAGGGAGATGA
Found at i:38515028 original size:14 final size:14
Alignment explanation
Indices: 38515009--38515042 Score: 59
Period size: 14 Copynumber: 2.4 Consensus size: 14
38514999 GGAGGTCATT
38515009 TAGCCCAACCAAAC
1 TAGCCCAACCAAAC
38515023 TAGCCCAACCAAAC
1 TAGCCCAACCAAAC
*
38515037 TGGCCC
1 TAGCCC
38515043 GGTGATTGGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.35, C:0.44, G:0.12, T:0.09
Consensus pattern (14 bp):
TAGCCCAACCAAAC
Found at i:38520148 original size:14 final size:14
Alignment explanation
Indices: 38520126--38520158 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
38520116 AGGTCATTTA
*
38520126 GCCCAACCAAACTG
1 GCCCGACCAAACTG
38520140 GCCCGACCAAACTG
1 GCCCGACCAAACTG
38520154 GCCCG
1 GCCCG
38520159 GTGATTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.27, C:0.45, G:0.21, T:0.06
Consensus pattern (14 bp):
GCCCGACCAAACTG
Found at i:38523776 original size:12 final size:12
Alignment explanation
Indices: 38523759--38523784 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38523749 GGTCACGCGC
38523759 CCGTGTGCTAGG
1 CCGTGTGCTAGG
38523771 CCGTGTGCTAGG
1 CCGTGTGCTAGG
38523783 CC
1 CC
38523785 ATGCAACTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.31, G:0.38, T:0.23
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:38526072 original size:79 final size:82
Alignment explanation
Indices: 38525961--38526145 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
38525951 GCTACTCGTT
* * *
38525961 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38526024 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38526041 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38526104 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38526121 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38526146 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38526145 original size:40 final size:40
Alignment explanation
Indices: 38525942--38526145 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
38525932 CGGAATTTAA
** *
38525942 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38525982 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38526022 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38526061 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38526101 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38526141 CCGGA
1 CCGGA
38526146 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38534034 original size:79 final size:82
Alignment explanation
Indices: 38533923--38534107 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 82
38533913 GCTACTCGTT
* * *
38533923 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAATTGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
* *
38533986 GGATTTAGTAAC-TCGCA
65 GGATATAGTAACTTAGCA
* **
38534003 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
* *
38534066 GATATGGTCACTTAGCA
66 GATATAGTAACTTAGCA
38534083 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38534108 CATCATTCAA
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 3 0.03
79 54 0.59
80 34 0.37
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:38534107 original size:40 final size:40
Alignment explanation
Indices: 38533904--38534107 Score: 229
Period size: 40 Copynumber: 5.1 Consensus size: 40
38533894 CGGAATTTAA
** *
38533904 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
38533944 CCGGTTATAGTAACTCGCACAATTGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
38533984 CCGGATTTAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
38534023 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
38534063 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
38534103 CCGGA
1 CCGGA
38534108 CATCATTCAA
Statistics
Matches: 139, Mismatches: 18, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.24
40 92 0.66
41 12 0.09
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:38536932 original size:13 final size:13
Alignment explanation
Indices: 38536914--38536966 Score: 70
Period size: 13 Copynumber: 4.1 Consensus size: 13
38536904 AGTTTTTCAT
38536914 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
38536927 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
* ** *
38536940 TACGGTGGAAAAG
1 TGCTTTTGAAAAG
38536953 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
38536966 T
1 T
38536967 TTGGTTTAAA
Statistics
Matches: 32, Mismatches: 8, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:38546176 original size:26 final size:26
Alignment explanation
Indices: 38546135--38546221 Score: 84
Period size: 26 Copynumber: 3.3 Consensus size: 26
38546125 TGTAGTTGTG
*
38546135 GCTTTGCCACATATACTGTTACTGGCA
1 GCTTTGCTACA-ATACTGTTACTGGCA
* *
38546162 GCTTTGCTATAATACTGATACTGGCA
1 GCTTTGCTACAATACTGTTACTGGCA
* ** ** *
38546188 GATTCACCGCAATACTATTACTGGCA
1 GCTTTGCTACAATACTGTTACTGGCA
38546214 GCTTTGCT
1 GCTTTGCT
38546222 GCGATATTGG
Statistics
Matches: 45, Mismatches: 15, Indels: 1
0.74 0.25 0.02
Matches are distributed among these distances:
26 36 0.80
27 9 0.20
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.33
Consensus pattern (26 bp):
GCTTTGCTACAATACTGTTACTGGCA
Found at i:38565947 original size:43 final size:43
Alignment explanation
Indices: 38565880--38566009 Score: 140
Period size: 43 Copynumber: 3.0 Consensus size: 43
38565870 CATAGGATTT
* * *
38565880 TCGATATGTG-TTATCGTGTAAGACCACATCGGGGACGTTGGCA
1 TCGATATGTGATTA-CATGTAAGACCACGTCTGGGACGTTGGCA
* **
38565923 TCGACT-TGTGTTTACATGTAAGACC-CTGTCTGGGACAATGGCA
1 TCGA-TATGTGATTACATGTAAGACCAC-GTCTGGGACGTTGGCA
* *
38565966 TCGATATGTGATTGCATGTAAGACCACGTTTGGGACGTTGGCA
1 TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
38566009 T
1 T
38566010 TGTACGAGTT
Statistics
Matches: 72, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
42 2 0.03
43 65 0.90
44 5 0.07
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.30
Consensus pattern (43 bp):
TCGATATGTGATTACATGTAAGACCACGTCTGGGACGTTGGCA
Found at i:38581049 original size:16 final size:16
Alignment explanation
Indices: 38581028--38581061 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
38581018 AACCTCCTTC
38581028 GGCTTGTGTGTTCATT
1 GGCTTGTGTGTTCATT
38581044 GGCTTGTGTGTTCATT
1 GGCTTGTGTGTTCATT
38581060 GG
1 GG
38581062 TTTTGGGACC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.06, C:0.12, G:0.35, T:0.47
Consensus pattern (16 bp):
GGCTTGTGTGTTCATT
Found at i:38590066 original size:22 final size:22
Alignment explanation
Indices: 38590037--38590081 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
38590027 AAAATGGATT
38590037 AAAAAATA-ATTCAAAAAATTA
1 AAAAAATATATTCAAAAAATTA
*
38590058 AAAATAATATTTTCAAAAAATTA
1 AAAA-AATATATTCAAAAAATTA
38590081 A
1 A
38590082 TTTTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 4 0.19
22 4 0.19
23 13 0.62
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.29
Consensus pattern (22 bp):
AAAAAATATATTCAAAAAATTA
Found at i:38592623 original size:26 final size:26
Alignment explanation
Indices: 38592593--38592671 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
38592583 ACAACTCTTA
*
38592593 TGAGCGTCCCG-TTATATGGCTCTTTG
1 TGAGCGTCCCGATTA-AAGGCTCTTTG
* *
38592619 TGAGCTTCCTGATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTTG
* * *
38592645 TGAGCTTTCCAATTAAAGGCTCTTTG
1 TGAGCGTCCCGATTAAAGGCTCTTTG
38592671 T
1 T
38592672 CAGCTTCCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
26 43 0.93
27 3 0.07
ACGTcount: A:0.18, C:0.20, G:0.23, T:0.39
Consensus pattern (26 bp):
TGAGCGTCCCGATTAAAGGCTCTTTG
Found at i:38592676 original size:26 final size:27
Alignment explanation
Indices: 38592610--38592677 Score: 104
Period size: 26 Copynumber: 2.6 Consensus size: 27
38592600 CCCGTTATAT
*
38592610 GGCTCTTTGTGAGC-TTCCTGATTAAA
1 GGCTCTTTGTGAGCTTTCCTAATTAAA
38592636 GGCTCTTTGTGAGCTTTCC-AATTAAA
1 GGCTCTTTGTGAGCTTTCCTAATTAAA
*
38592662 GGCTCTTTGTCAGCTT
1 GGCTCTTTGTGAGCTT
38592678 CCTGGTAGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
26 35 0.90
27 4 0.10
ACGTcount: A:0.18, C:0.21, G:0.22, T:0.40
Consensus pattern (27 bp):
GGCTCTTTGTGAGCTTTCCTAATTAAA
Found at i:38597565 original size:120 final size:120
Alignment explanation
Indices: 38597427--38597664 Score: 377
Period size: 120 Copynumber: 2.0 Consensus size: 120
38597417 GCTAACATCT
* * * *
38597427 TCCACTAACTCATATATGGGCTAATTACCATATAAGGACCTTCACTTTAAAGTTCTATAGCTATT
1 TCCACTAACTCATATATGGGCTAATTACAATAAAAGAACCTTCACTTTAAAGTTCTATAGCTATG
* *
38597492 ATACACCTTTAACTATTAGAACCCAACTTTTTCACTTTACGCGATTTAGTCCTCC
66 AGACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCTCC
* *
38597547 TCCACTAACTCATTTATGGGCTAATTACAATAAAAGAACCTTCACTTTAAAGTTCTATAGCTGTG
1 TCCACTAACTCATATATGGGCTAATTACAATAAAAGAACCTTCACTTTAAAGTTCTATAGCTATG
* * *
38597612 AGACACCTTTAGCTATTAGAACCTAACTTTTGCACTTTATGCGATTTAGTCCT
66 AGACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCT
38597665 TTTATCAAAT
Statistics
Matches: 107, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
120 107 1.00
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (120 bp):
TCCACTAACTCATATATGGGCTAATTACAATAAAAGAACCTTCACTTTAAAGTTCTATAGCTATG
AGACACCTTTAACTATTAGAACCCAACTTTTGCACTTTACGCGATTTAGTCCTCC
Found at i:38602105 original size:24 final size:24
Alignment explanation
Indices: 38602073--38602120 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
38602063 AAGTGCTTCA
38602073 ACCAACGGGATGTTGACATGAAGT
1 ACCAACGGGATGTTGACATGAAGT
38602097 ACCAACGGGATGTTGACATGAAGT
1 ACCAACGGGATGTTGACATGAAGT
38602121 TGCTTGAGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (24 bp):
ACCAACGGGATGTTGACATGAAGT
Found at i:38603588 original size:18 final size:19
Alignment explanation
Indices: 38603562--38603598 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
38603552 AATTTTGGAC
38603562 TGGAAAGAAGAGA-GAAAG
1 TGGAAAGAAGAGAGGAAAG
*
38603580 TGGAGAGAAGAGAGGAAAG
1 TGGAAAGAAGAGAGGAAAG
38603599 ATGTGAATGC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.51, C:0.00, G:0.43, T:0.05
Consensus pattern (19 bp):
TGGAAAGAAGAGAGGAAAG
Found at i:38608676 original size:106 final size:106
Alignment explanation
Indices: 38608484--38608716 Score: 342
Period size: 106 Copynumber: 2.2 Consensus size: 106
38608474 TGACTAGTGC
* * *
38608484 CACACGG-TGAAGCCACACACCCATGTGCTAGGCTGTGTGAGGTTACCTAAATGCTTGCTTTAGA
1 CACACGGCTG-AGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTAAATGCTTGCTTTAGA
* *
38608548 AGTTACAGGGGACACTCAACCATGTCCCCTAGCAGTGCGTCA
65 AGTTACAGGGGACACGCAACCATGTCCCCTAGCAGTGCATCA
*
38608590 CACACGGCTGAGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTATATGCTTGCTTTAGAA
1 CACACGGCTGAGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTAAATGCTTGCTTTAGAA
* * * * *
38608655 GTTACAGGGGACACGCGACCATGTCTCCTGGCCGTGTATCA
66 GTTACAGGGGACACGCAACCATGTCCCCTAGCAGTGCATCA
*
38608696 CACACGACTGAGACACACGCC
1 CACACGGCTGAGACACACGCC
38608717 TGTGTCTCTA
Statistics
Matches: 114, Mismatches: 12, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
106 112 0.98
107 2 0.02
ACGTcount: A:0.24, C:0.29, G:0.25, T:0.21
Consensus pattern (106 bp):
CACACGGCTGAGACACACGCCCATGTGCTAGGCCGTGTGAGGTTACCTAAATGCTTGCTTTAGAA
GTTACAGGGGACACGCAACCATGTCCCCTAGCAGTGCATCA
Found at i:38615267 original size:23 final size:20
Alignment explanation
Indices: 38615240--38615293 Score: 56
Period size: 23 Copynumber: 2.5 Consensus size: 20
38615230 TTCTAAGTCG
38615240 ATATTCAATTCAATTCCACACCT
1 ATATTCAATTCAATT--ACA-CT
38615263 ATATTCATTATTCAATTACACT
1 ATATTCA--ATTCAATTACACT
38615285 -TATTCAATT
1 ATATTCAATT
38615294 TCCTGATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
19 3 0.10
21 6 0.21
22 2 0.07
23 10 0.34
25 8 0.28
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (20 bp):
ATATTCAATTCAATTACACT
Found at i:38615395 original size:45 final size:45
Alignment explanation
Indices: 38615331--38615416 Score: 145
Period size: 45 Copynumber: 1.9 Consensus size: 45
38615321 AGATACTCGG
* *
38615331 TGGAATCAGCACATAGCAACCACCTTATTAATCAATGATGTCCGA
1 TGGAACCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGA
*
38615376 TGGAACCAGCACATAGCAACCACTTTACTAATCAATGATGT
1 TGGAACCAGCACATAGCAACCACCTTACTAATCAATGATGT
38615417 TCGGTTCACA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.36, C:0.24, G:0.15, T:0.24
Consensus pattern (45 bp):
TGGAACCAGCACATAGCAACCACCTTACTAATCAATGATGTCCGA
Found at i:38615485 original size:51 final size:51
Alignment explanation
Indices: 38615427--38615562 Score: 179
Period size: 51 Copynumber: 2.7 Consensus size: 51
38615417 TCGGTTCACA
38615427 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TTCGATACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTTCG-TACACG
* * *
38615478 TAGTAGCCTGCACATAGTACTACATATGCGACC--TATCATTTTCGTACACG
1 TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCA-TTTCGTACACG
* * *
38615528 TAGTAGCCTACACATAGTACTAAACACGTGACCAT
1 TAGTAGCCTGCACATAGTACTACACATGTGACCAT
38615563 CACTTTCACC
Statistics
Matches: 73, Mismatches: 8, Indels: 7
0.83 0.09 0.08
Matches are distributed among these distances:
49 4 0.05
50 34 0.47
51 35 0.48
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACATGTGACCATTACCATTTCGTACACG
Found at i:38621071 original size:45 final size:45
Alignment explanation
Indices: 38621007--38621100 Score: 152
Period size: 45 Copynumber: 2.1 Consensus size: 45
38620997 AATAGATACT
* *
38621007 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
* *
38621052 CGGTGGAATCAGCACATAGCAACCACTTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
38621097 CGGT
1 CGGT
38621101 TCACATAGTA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTC
Found at i:38621160 original size:51 final size:51
Alignment explanation
Indices: 38621095--38621342 Score: 263
Period size: 51 Copynumber: 4.9 Consensus size: 51
38621085 ATCAATGATG
* *
38621095 TTCGGTTCACATAGTAGCCTACACATAGTACTACACATGTGACCATTACCA-
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCA-TACCAT
* * *
38621146 TTCGATACACATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCATT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCA-T
* * * ** * *
38621197 TTC-GTACACGTAGTAGCCTACACATAGTACTACACACGTGATTGAAACTA-
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGA-CCATACCAT
* * *
38621247 TTCGGTACGCATAGTAGCCTGCACATAGTACTACACATGCGACC-TATCAT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCAT
* * * *
38621297 TTTGGGACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCAT
38621343 CACTTTCACC
Statistics
Matches: 159, Mismatches: 31, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
49 6 0.04
50 74 0.47
51 77 0.48
52 2 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.26
Consensus pattern (51 bp):
TTCGGTACACATAGTAGCCTGCACATAGTACTACACATGTGACCATACCAT
Found at i:38621281 original size:101 final size:101
Alignment explanation
Indices: 38621106--38621342 Score: 368
Period size: 101 Copynumber: 2.3 Consensus size: 101
38621096 TCGGTTCACA
* *
38621106 TAGTAGCCTACACATAGTACTACACATGTGACCATTACCATTCGATACACATAGTAGCCTGCACA
1 TAGTAGCCTACACATAGTACTACACACGTGACCATAACCATTCGATACACATAGTAGCCTGCACA
*
38621171 TAGTACTACACATGCGACCTATCATTTTCGTACACG
66 TAGTACTACACATGCGACCTATCATTTTCGGACACG
** * * *
38621207 TAGTAGCCTACACATAGTACTACACACGTGATTGA-AACTATTCGGTACGCATAGTAGCCTGCAC
1 TAGTAGCCTACACATAGTACTACACACGTGA-CCATAACCATTCGATACACATAGTAGCCTGCAC
*
38621271 ATAGTACTACACATGCGACCTATCATTTTGGGACACG
65 ATAGTACTACACATGCGACCTATCATTTTCGGACACG
*
38621308 TAGTAGCCTGCACATAGTACTACACACGTGACCAT
1 TAGTAGCCTACACATAGTACTACACACGTGACCAT
38621343 CACTTTCACC
Statistics
Matches: 122, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
100 1 0.01
101 120 0.98
102 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.16, T:0.26
Consensus pattern (101 bp):
TAGTAGCCTACACATAGTACTACACACGTGACCATAACCATTCGATACACATAGTAGCCTGCACA
TAGTACTACACATGCGACCTATCATTTTCGGACACG
Done.