Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A09
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: 77927517
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1491452 characters in sequence are not A, C, G, or T
File 119 of 250
Found at i:38355710 original size:40 final size:40
Alignment explanation
Indices: 38355626--38355808 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
38355616 TTGAATGCTG
* * * *
38355626 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACT-AT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGC-GAGTTATTAAT
** *
38355665 ATCCGGACTAAGAT-CCGAAGGTATTTGTGCGAGTTATTAAT
1 -TCCGGGTTAAG-TCCCGAAGGCATTTGTGCGAGTTATTAAT
* * *
38355706 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAGATACTAAT
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
* *
38355746 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTT-TTAAAA
1 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATT-AAT
38355786 TCCGGGTTAAGT-CCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
38355809 GAATGAGTTA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 13 0.11
40 99 0.81
41 10 0.08
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTATTAAT
Found at i:38355763 original size:80 final size:81
Alignment explanation
Indices: 38355626--38355805 Score: 212
Period size: 80 Copynumber: 2.3 Consensus size: 81
38355616 TTGAATGCTG
* * *
38355626 TCCGGGCTAAGTCCCGAAGG-CTTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGTATT
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
* *
38355690 TGTGCGAGTTATT-AAT
66 CGTGCGAGTT-TTAAAA
**
38355706 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCG-AGAT-ACTA-ATTCCGGGTTAAG-TCCCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAG-TGACTATA-TCCGGACTAAGAT-CCGAAGGC
38355767 ATTCGTGCGAGTTTTAAAA
63 ATTCGTGCGAGTTTTAAAA
38355786 TCCGGGTTAAGT-CCGAAGGC
1 TCCGGGTTAAGTCCCGAAGGC
38355806 ATTGAATGAG
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 12 0.14
80 67 0.76
81 9 0.10
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (81 bp):
TCCGGGTTAAGTCCCGAAGGCCTTTGTGCGAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGTTTTAAAA
Found at i:38369013 original size:25 final size:25
Alignment explanation
Indices: 38368979--38369036 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
38368969 TCCTGTACAT
*
38368979 GTATGCTCATACGAGTTATGAATTG
1 GTATGCTCATACGAGTTATGAATTA
*
38369004 GTATGCTCATATGAGTTATGAATTA
1 GTATGCTCATACGAGTTATGAATTA
38369029 GTATGCTC
1 GTATGCTC
38369037 TCATAAGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (25 bp):
GTATGCTCATACGAGTTATGAATTA
Found at i:38369072 original size:26 final size:25
Alignment explanation
Indices: 38369033--38369112 Score: 85
Period size: 26 Copynumber: 3.1 Consensus size: 25
38369023 GAATTAGTAT
38369033 GCTCTCAT-AAGCTGTAAATCGGTAA
1 GCTCTCATGAAGCTG-AAATCGGTAA
38369058 GCTCAT-ATGAAGCTGAGAATCGGTAA
1 GCTC-TCATGAAGCTGA-AATCGGTAA
*
38369084 GGCTCTCATG-AGCTACAAATCGGTAA
1 -GCTCTCATGAAGCT-GAAATCGGTAA
38369110 GCT
1 GCT
38369113 TATACGAGTT
Statistics
Matches: 48, Mismatches: 1, Indels: 12
0.79 0.02 0.20
Matches are distributed among these distances:
25 10 0.21
26 30 0.62
27 8 0.17
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (25 bp):
GCTCTCATGAAGCTGAAATCGGTAA
Found at i:38370031 original size:16 final size:18
Alignment explanation
Indices: 38369997--38370031 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
38369987 GCTTTATTTT
38369997 ATTAAGTTTACTATAATC
1 ATTAAGTTTACTATAATC
38370015 ATTAA-TTTACT-TAATC
1 ATTAAGTTTACTATAATC
38370031 A
1 A
38370032 ACCTTTATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.35
17 6 0.35
18 5 0.29
ACGTcount: A:0.40, C:0.11, G:0.03, T:0.46
Consensus pattern (18 bp):
ATTAAGTTTACTATAATC
Found at i:38382965 original size:25 final size:25
Alignment explanation
Indices: 38382931--38382988 Score: 98
Period size: 25 Copynumber: 2.3 Consensus size: 25
38382921 TCCTGTACAT
*
38382931 GTATGCTCATACGAGTTATGAATTG
1 GTATGCTCATACGAGTTATGAATTA
*
38382956 GTATGCTCATATGAGTTATGAATTA
1 GTATGCTCATACGAGTTATGAATTA
38382981 GTATGCTC
1 GTATGCTC
38382989 TCATAAGCTG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.28, C:0.12, G:0.22, T:0.38
Consensus pattern (25 bp):
GTATGCTCATACGAGTTATGAATTA
Found at i:38383014 original size:50 final size:49
Alignment explanation
Indices: 38382955--38383072 Score: 128
Period size: 50 Copynumber: 2.4 Consensus size: 49
38382945 GTTATGAATT
* * * **
38382955 GGTATGCTCATATGAGTTATGAATTAGTATGCTCTCATAAGCTGTAAATC
1 GGTAAGCTCATATGAGTTA-GAATCAGTAAGCTCTCATAAGCTACAAATC
* * *
38383005 GGTAAGCTCATATGAGCTGAGAATCGGTAAGCTCTCATGAGCTACAAATC
1 GGTAAGCTCATATGAG-TTAGAATCAGTAAGCTCTCATAAGCTACAAATC
* *
38383055 GGTAAGCTTATACGAGTT
1 GGTAAGCTCATATGAGTT
38383073 GTGGTGTGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
49 1 0.02
50 53 0.95
51 2 0.04
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.31
Consensus pattern (49 bp):
GGTAAGCTCATATGAGTTAGAATCAGTAAGCTCTCATAAGCTACAAATC
Found at i:38383022 original size:25 final size:24
Alignment explanation
Indices: 38382985--38383062 Score: 95
Period size: 25 Copynumber: 3.1 Consensus size: 24
38382975 GAATTAGTAT
*
38382985 GCTCTCATAAGCTGTAAATCGGTAA
1 GCTCTCATGAGCTG-AAATCGGTAA
38383010 GCTCAT-ATGAGCTGAGAATCGGTAA
1 GCTC-TCATGAGCTGA-AATCGGTAA
*
38383035 GCTCTCATGAGCTACAAATCGGTAA
1 GCTCTCATGAGCT-GAAATCGGTAA
38383060 GCT
1 GCT
38383063 TATACGAGTT
Statistics
Matches: 47, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
24 2 0.04
25 43 0.91
26 2 0.04
ACGTcount: A:0.31, C:0.21, G:0.23, T:0.26
Consensus pattern (24 bp):
GCTCTCATGAGCTGAAATCGGTAA
Found at i:38392059 original size:50 final size:50
Alignment explanation
Indices: 38391965--38392075 Score: 150
Period size: 50 Copynumber: 2.2 Consensus size: 50
38391955 GTACATGTAT
* * * * *
38391965 GCTCATACGAGCTATGAATTAGTATGCTCTCATGAACTATAAATCGGTAA
1 GCTCATACGAGATAAGAATTAGTAAGCTCTCACGAACTACAAATCGGTAA
* *
38392015 GCTCATACGAGATAAGAATTAGTAAGCTTTCACGAGCTACAAATCGGTAA
1 GCTCATACGAGATAAGAATTAGTAAGCTCTCACGAACTACAAATCGGTAA
*
38392065 GCTCAAACGAG
1 GCTCATACGAG
38392076 CTATGGTGTG
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 53 1.00
ACGTcount: A:0.36, C:0.19, G:0.20, T:0.25
Consensus pattern (50 bp):
GCTCATACGAGATAAGAATTAGTAAGCTCTCACGAACTACAAATCGGTAA
Found at i:38392074 original size:25 final size:24
Alignment explanation
Indices: 38392005--38392078 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 24
38391995 CATGAACTAT
* *
38392005 AAATCGGTAAGCTCATACGAGATA
1 AAATCGGTAAGCTCAAACGAGCTA
** ***
38392029 AGAATTAGTAAGCTTTCACGAGCTA
1 A-AATCGGTAAGCTCAAACGAGCTA
38392054 CAAATCGGTAAGCTCAAACGAGCTA
1 -AAATCGGTAAGCTCAAACGAGCTA
38392079 TGGTGTGTCC
Statistics
Matches: 37, Mismatches: 11, Indels: 3
0.73 0.22 0.06
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (24 bp):
AAATCGGTAAGCTCAAACGAGCTA
Found at i:38399632 original size:29 final size:29
Alignment explanation
Indices: 38399537--38399624 Score: 131
Period size: 29 Copynumber: 3.0 Consensus size: 29
38399527 TGGCCCATCT
*
38399537 CATTCATACGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
38399566 CATTCATATGGCCCATCAGGCCCAATTCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
* * * *
38399595 TATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCCATCAGGCCCAATTCA
38399624 C
1 C
38399625 CTTTATATTC
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 53 1.00
ACGTcount: A:0.28, C:0.33, G:0.14, T:0.25
Consensus pattern (29 bp):
CATTCATATGGCCCATCAGGCCCAATTCA
Found at i:38399966 original size:24 final size:24
Alignment explanation
Indices: 38399936--38399982 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
38399926 CAATTTCCTT
*
38399936 AGCCAAAACCTGCAATCGATATCC
1 AGCCAAAACCTACAATCGATATCC
38399960 AGCCAAAACCTACAATCGATATC
1 AGCCAAAACCTACAATCGATATC
38399983 ACTTAAAGAT
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:0.40, C:0.32, G:0.11, T:0.17
Consensus pattern (24 bp):
AGCCAAAACCTACAATCGATATCC
Found at i:38404069 original size:29 final size:29
Alignment explanation
Indices: 38404020--38404089 Score: 115
Period size: 29 Copynumber: 2.4 Consensus size: 29
38404010 TTGGCCCATT
38404020 CATTCATAT-GCCCATCAAGCCCAATTCA
1 CATTCATATGGCCCATCAAGCCCAATTCA
* *
38404048 TATTCATATGGCTCATCAAGCCCAATTCA
1 CATTCATATGGCCCATCAAGCCCAATTCA
38404077 CATTCATATGGCC
1 CATTCATATGGCC
38404090 TATTAGGCCC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 8 0.22
29 29 0.78
ACGTcount: A:0.30, C:0.31, G:0.10, T:0.29
Consensus pattern (29 bp):
CATTCATATGGCCCATCAAGCCCAATTCA
Found at i:38404099 original size:29 final size:29
Alignment explanation
Indices: 38404020--38404106 Score: 106
Period size: 29 Copynumber: 3.0 Consensus size: 29
38404010 TTGGCCCATT
*
38404020 CATTCATAT-GCCCATCAAGCCCAATTCA
1 CATTCATATGGCCTATCAAGCCCAATTCA
*
38404048 TATTCATATGG-CTCATCAAGCCCAATTCA
1 CATTCATATGGCCT-ATCAAGCCCAATTCA
* * *
38404077 CATTCATATGGCCTATTAGGCCCAAATCA
1 CATTCATATGGCCTATCAAGCCCAATTCA
38404106 C
1 C
38404107 CTTTATATTC
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
28 9 0.18
29 39 0.78
30 2 0.04
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (29 bp):
CATTCATATGGCCTATCAAGCCCAATTCA
Found at i:38404216 original size:19 final size:18
Alignment explanation
Indices: 38404183--38404219 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
38404173 TGGGCCCAAG
38404183 AGCCCATCAGGCCCATTT
1 AGCCCATCAGGCCCATTT
*
38404201 AGCCCATTCCGGCCCATTT
1 AGCCCA-TCAGGCCCATTT
38404220 GGCCAATTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.19, C:0.41, G:0.16, T:0.24
Consensus pattern (18 bp):
AGCCCATCAGGCCCATTT
Found at i:38404228 original size:19 final size:19
Alignment explanation
Indices: 38404192--38404228 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
38404182 GAGCCCATCA
*
38404192 GGCCCATTTAGCCCATTCC
1 GGCCCATTTAGCCAATTCC
*
38404211 GGCCCATTTGGCCAATTC
1 GGCCCATTTAGCCAATTC
38404229 TCAACCCAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.16, C:0.38, G:0.19, T:0.27
Consensus pattern (19 bp):
GGCCCATTTAGCCAATTCC
Found at i:38412038 original size:25 final size:26
Alignment explanation
Indices: 38412005--38412059 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 26
38411995 GAGTTTCGAA
* *
38412005 TTCTTTTTTCTCTTCTCC-TCTCTTC
1 TTCTATTTTATCTTCTCCTTCTCTTC
* *
38412030 TTCTATTTTATTTTCTCCTTCTTTTC
1 TTCTATTTTATCTTCTCCTTCTCTTC
38412056 TTCT
1 TTCT
38412060 CTGGTCGAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
25 15 0.60
26 10 0.40
ACGTcount: A:0.04, C:0.29, G:0.00, T:0.67
Consensus pattern (26 bp):
TTCTATTTTATCTTCTCCTTCTCTTC
Found at i:38414610 original size:16 final size:16
Alignment explanation
Indices: 38414585--38414615 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
38414575 AAGTTTGAGA
38414585 TTTCGAGATTTTTGGG
1 TTTCGAGATTTTTGGG
*
38414601 TTTCGGGATTTTTGG
1 TTTCGAGATTTTTGG
38414616 AGTGTTACAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.32, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:38419415 original size:48 final size:48
Alignment explanation
Indices: 38419355--38419585 Score: 226
Period size: 48 Copynumber: 4.9 Consensus size: 48
38419345 TAGGGTTATG
* * *
38419355 TGTGATCCCATGTAAGACCATGTTTGGGACATGGAATTGACATTGATA
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
* * *
38419403 TGAT-ATCCCATGTAAGACCATGTTTTGGACATGGCATTGGCATCGATA
1 TG-TGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
* * * * *
38419451 TGTCATTCCGTGTAAGACCATAG-CTGGG-C-T---ATCGACATCGAAA
1 TGTGATCCCATGTAAGACCAT-GTCTGGGACATGGCATTGACATCGATA
* *
38419494 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATC-ATTT
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGA-TA
* * * *
38419542 TGTGATCCCATGTAAGACCATATCCGGGATATGGCATTGGCATC
1 TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATC
38419586 TTACTATGTG
Statistics
Matches: 152, Mismatches: 21, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
42 1 0.01
43 33 0.22
44 1 0.01
45 1 0.01
46 1 0.01
47 3 0.02
48 110 0.72
49 2 0.01
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.29
Consensus pattern (48 bp):
TGTGATCCCATGTAAGACCATGTCTGGGACATGGCATTGACATCGATA
Found at i:38422003 original size:54 final size:53
Alignment explanation
Indices: 38421953--38422179 Score: 145
Period size: 54 Copynumber: 4.2 Consensus size: 53
38421943 TGCCCTCAAC
* *
38421953 TTGTAAAATTATCAAAGTACTCC-CGATTTACAGAATTACCGTTTTACCCTCGA
1 TTGTAAAATTACCAAAGTAC-CCTCGATTTACAGAATTACCGTATTACCCTCGA
****
38422006 TT-TACAGAATTACCGTTTTACCCTCGATTTACAGAATTACCGTATTACCCTCGA
1 TTGTA-A-AATTACCAAAGTACCCTCGATTTACAGAATTACCGTATTACCCTCGA
*** * * * *
38422060 TTTGTAAAATTACCATTTTACCCTTGATTTATAGAATTACTGGT-TTACCCTCAGT
1 -TTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTAC-CGTATTACCCTC-GA
** * **** * * * * *
38422115 TTACAAAATTATCGTTTTACCCTTGATTCATAGAATTACCGTTTTACCCTTGA
1 TTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTATTACCCTCGA
*
38422168 TTGTGAAATTAC
1 TTGTAAAATTAC
38422180 TGAAATACCC
Statistics
Matches: 143, Mismatches: 23, Indels: 16
0.79 0.13 0.09
Matches are distributed among these distances:
52 2 0.01
53 16 0.11
54 117 0.82
55 6 0.04
56 2 0.01
ACGTcount: A:0.29, C:0.21, G:0.11, T:0.39
Consensus pattern (53 bp):
TTGTAAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTATTACCCTCGA
Found at i:38422006 original size:27 final size:27
Alignment explanation
Indices: 38421976--38422169 Score: 237
Period size: 27 Copynumber: 7.2 Consensus size: 27
38421966 AAAGTACTCC
38421976 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
38422003 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
38422030 CGATTTACAGAATTACCGTATTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** * *
38422057 CGATTTGTAAAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * * *
38422084 TGATTTATAGAATTACTGGTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
38422111 C-AGTTTACAAAATTATCGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* * *
38422138 TGATTCATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
38422165 TGATT
1 CGATT
38422170 GTGAAATTAC
Statistics
Matches: 142, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
26 1 0.01
27 140 0.99
28 1 0.01
ACGTcount: A:0.27, C:0.22, G:0.11, T:0.40
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:38422204 original size:27 final size:27
Alignment explanation
Indices: 38422174--38422368 Score: 232
Period size: 27 Copynumber: 7.2 Consensus size: 27
38422164 TTGATTGTGA
38422174 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* *
38422201 AATT-TTCGAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* * *
38422228 AATTACTGAAATACCCTTATAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
**
38422255 AATTACCAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
38422282 AATTA-TCGAAATACCCTTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
38422309 AAATACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
38422336 AATTACCGAGATACCCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
38422363 AATTAC
1 AATTAC
38422369 CATTTTGCCC
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
26 1 0.01
27 140 0.98
28 2 0.01
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:38422277 original size:81 final size:81
Alignment explanation
Indices: 38422182--38422367 Score: 264
Period size: 81 Copynumber: 2.3 Consensus size: 81
38422172 GAAATTACTG
* * *
38422182 AAATACCCCTGTAGGGTAGAATTTTCGAAATACCCCTATAGGGTAGAATTACTGAAATACCCTTA
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTA
38422247 TAGGATAGAATTACCA
66 TAGGATAGAATTACCA
* * *
38422263 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCTTGTAGGGTAGAAATACTGAAATACCCCTG
1 AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTA
* *
38422328 TAGGGTAGAATTACCG
66 TAGGATAGAATTACCA
* * * *
38422344 AGATACCCTTGTGGGGTAAAATTA
1 AAATACCCCTGTAGGGTAGAATTA
38422368 CCATTTTGCC
Statistics
Matches: 93, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
81 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.26
Consensus pattern (81 bp):
AAATACCCCTGTAGGGTAGAATTATCGAAATACCCCTATAGGGTAGAAATACTGAAATACCCCTA
TAGGATAGAATTACCA
Found at i:38422606 original size:27 final size:26
Alignment explanation
Indices: 38422568--38422646 Score: 95
Period size: 27 Copynumber: 3.0 Consensus size: 26
38422558 CGGAGGAAGC
38422568 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
38422595 GTTCTGGTGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
38422621 GTATTTGGTGACTCTGTCACAATATC
1 GT-TCTGGTGGCTATGCCACAATATC
38422647 CGTTGACCGA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
26 9 0.19
27 38 0.81
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:38422772 original size:22 final size:22
Alignment explanation
Indices: 38422738--38422795 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
38422728 CCCGTTATTA
* *
38422738 ATGGCTCTATGCCATCCTAAAT
1 ATGGCTTTGTGCCATCCTAAAT
* * *
38422760 ATGGCTTTGTGCCATCTTGACT
1 ATGGCTTTGTGCCATCCTAAAT
*
38422782 ATGGCTTCGTGCCA
1 ATGGCTTTGTGCCA
38422796 AACGTATTTA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.34
Consensus pattern (22 bp):
ATGGCTTTGTGCCATCCTAAAT
Found at i:38422983 original size:27 final size:27
Alignment explanation
Indices: 38422969--38423034 Score: 73
Period size: 27 Copynumber: 2.5 Consensus size: 27
38422959 TTTGCCATAT
38422969 TATCTG-ATTCTGGTGGCTCTGCCACAA
1 TATCTGTA-TCTGGTGGCTCTGCCACAA
* * * *
38422996 TATCTGTATCTGGTGACTTTGTCACGA
1 TATCTGTATCTGGTGGCTCTGCCACAA
38423023 TATCTGT-TCTGG
1 TATCTGTATCTGG
38423035 CAGCCATGCT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
26 5 0.15
27 28 0.82
28 1 0.03
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (27 bp):
TATCTGTATCTGGTGGCTCTGCCACAA
Found at i:38423186 original size:6 final size:6
Alignment explanation
Indices: 38423177--38423326 Score: 148
Period size: 6 Copynumber: 24.8 Consensus size: 6
38423167 CTGTCACGTA
* *
38423177 ATTCTG ATTCTG ATTCTG ATTCT- ATTACTA ATACTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG ATTCTG
* *
38423225 ATTCTG ATTCTG ATTCT- ATCACCTA ATTCTG ATTCTG ATTCTG ATTCTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
* * *
38423274 -TTACTA ATAT-TG ATTCTA ATTCTG ATTCTG -TTACTG ATTCTA ATTCTG
1 ATT-CTG AT-TCTG ATTCTG ATTCTG ATTCTG ATT-CTG ATTCTG ATTCTG
38423322 ATTCT
1 ATTCT
38423327 CATTTTGGTT
Statistics
Matches: 121, Mismatches: 12, Indels: 22
0.78 0.08 0.14
Matches are distributed among these distances:
5 10 0.08
6 101 0.83
7 7 0.06
8 3 0.02
ACGTcount: A:0.23, C:0.17, G:0.11, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:38423216 original size:30 final size:31
Alignment explanation
Indices: 38423156--38423229 Score: 114
Period size: 30 Copynumber: 2.4 Consensus size: 31
38423146 ATTCACATTA
* *
38423156 TGATTCTGATTCTGTCACGTAATTCTGATTC
1 TGATTCTGATTCTATCACGTAATACTGATTC
*
38423187 TGATTCTGATTCTATTAC-TAATACTGATTC
1 TGATTCTGATTCTATCACGTAATACTGATTC
38423217 TGATTCTGATTCT
1 TGATTCTGATTCT
38423230 GATTCTGATT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
30 24 0.60
31 16 0.40
ACGTcount: A:0.22, C:0.18, G:0.14, T:0.47
Consensus pattern (31 bp):
TGATTCTGATTCTATCACGTAATACTGATTC
Found at i:38423269 original size:73 final size:73
Alignment explanation
Indices: 38423156--38423315 Score: 259
Period size: 73 Copynumber: 2.2 Consensus size: 73
38423146 ATTCACATTA
* * *
38423156 TGATTCTGATTCTGTCACGTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTGAT
1 TGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTAAT
38423221 TCTGATTC
66 TCTGATTC
* *
38423229 TGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTGTTACTAATATTGATTCTAAT
1 TGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTAAT
38423294 TCTGATTC
66 TCTGATTC
38423302 TG-TTACTGATTCTA
1 TGATT-CTGATTCTA
38423316 ATTCTGATTC
Statistics
Matches: 81, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
72 2 0.02
73 79 0.98
ACGTcount: A:0.23, C:0.17, G:0.12, T:0.47
Consensus pattern (73 bp):
TGATTCTGATTCTATCACCTAATTCTGATTCTGATTCTGATTCTATTACTAATACTGATTCTAAT
TCTGATTC
Found at i:38426833 original size:13 final size:12
Alignment explanation
Indices: 38426809--38426847 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 12
38426799 AATGATTCAA
38426809 TAAATTAAAAAAT
1 TAAA-TAAAAAAT
38426822 TAAATAATAAAAT
1 TAAATAA-AAAAT
*
38426835 AAAATAAAAAAT
1 TAAATAAAAAAT
38426847 T
1 T
38426848 TAGGAGAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
12 8 0.35
13 15 0.65
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAATAAAAAAT
Found at i:38427777 original size:30 final size:30
Alignment explanation
Indices: 38427721--38427777 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
38427711 GTTTTGAAAA
* * *
38427721 TATTTACAAAATGAGGCATCTAATTTTTAT
1 TATTTACAAAAAGAGGCAACCAATTTTTAT
38427751 TATTTACAAAAAGA-GCAACCATATTTT
1 TATTTACAAAAAGAGGCAACCA-ATTTT
38427778 AAAAATACTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 5 0.22
30 18 0.78
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (30 bp):
TATTTACAAAAAGAGGCAACCAATTTTTAT
Found at i:38430761 original size:50 final size:51
Alignment explanation
Indices: 38430650--38430825 Score: 180
Period size: 50 Copynumber: 3.5 Consensus size: 51
38430640 CTGGTACGCA
* * * * **
38430650 TAGTAGCCTACACTTAGTATTACACATGCGACC-AA-TTATCCAG-TACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCAT-CAGATACACG
* *
38430699 TAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
* * ** * * *
38430749 TAGTAGCTTGCACTTAGTACTACACACGTGATCGAAGTTATCAGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
38430800 TAGTAGCCTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
38430826 TGCAACCTCA
Statistics
Matches: 107, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
49 31 0.29
50 43 0.40
51 33 0.31
ACGTcount: A:0.31, C:0.26, G:0.17, T:0.26
Consensus pattern (51 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCGAAGCCATCAGATACACG
Found at i:38431252 original size:43 final size:42
Alignment explanation
Indices: 38431205--38431502 Score: 298
Period size: 43 Copynumber: 7.0 Consensus size: 42
38431195 GGCGTTTTTT
* * *
38431205 AAGACCAAGATCTTTAGCGGCGTTTTTTATAAAAGCGCCGCTA
1 AAGACCAGGACCTTTAGCGGCGTTTTTTA-AAAAACGCCGCTA
* * * *
38431248 AAGACCAAGACCTTTAGCGGCG-CTCTTATAAAAACGCCGCCA
1 AAGACCAGGACCTTTAGCGGCGTTTTTTA-AAAAACGCCGCTA
*
38431290 AAGACCAGGACCTTTAGCAGCGCTTTTTTAAAAAACGCCGCTA
1 AAGACCAGGACCTTTAGCGGCG-TTTTTTAAAAAACGCCGCTA
* * * *
38431333 GAA-ACCAGGACCTTTAGCGGCG-CTTTTAAAAAATGCCACTG
1 -AAGACCAGGACCTTTAGCGGCGTTTTTTAAAAAACGCCGCTA
* * * * * * *
38431374 TAGACCTGTACTTTTAGCGGTG-CTTTTATAAAAACGCAGCTA
1 AAGACCAGGACCTTTAGCGGCGTTTTTTA-AAAAACGCCGCTA
38431416 AAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTA
1 AAGACCAGGACCTTTAGCGGCG-TTTTTTAAAAAACGCCGCTA
* * * *
38431459 TAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTA
1 AAGACCAGGACCTTTAGCGGCG-TTTTTTAAAAAACGCCGCTA
38431502 A
1 A
38431503 TTTGCCCAGT
Statistics
Matches: 212, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
40 1 0.00
41 36 0.17
42 62 0.29
43 102 0.48
44 11 0.05
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (42 bp):
AAGACCAGGACCTTTAGCGGCGTTTTTTAAAAAACGCCGCTA
Found at i:38431329 original size:85 final size:85
Alignment explanation
Indices: 38431205--38431502 Score: 343
Period size: 85 Copynumber: 3.5 Consensus size: 85
38431195 GGCGTTTTTT
* * * *
38431205 AAGACCAAGATCTTTAGCGGCG-TTTTTTATAAAAGCGCCGCTAAAGACCAAGACCTTTAGCGGC
1 AAGACCAGGACCTTTAGCGGCGCTTTTTTA-AAAAACGCCGCTAAAGACCAGGACCTTTAGCGGC
* *
38431269 GCTCTTATAAAAACGCCGCCA
65 GCTTTTATAAAAACGCCGCTA
*
38431290 AAGACCAGGACCTTTAGCAGCGCTTTTTTAAAAAACGCCGCTAGAA-ACCAGGACCTTTAGCGGC
1 AAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTA-AAGACCAGGACCTTTAGCGGC
* * *
38431354 GCTTTTA-AAAAATGCCACTG
65 GCTTTTATAAAAACGCCGCTA
* * * * * * *
38431374 TAGACCTGTACTTTTAGCGGTGCTTTTAT-AAAAACGCAGCTAAAGACCAGGACCTTTAGCGGCG
1 AAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCG
*
38431438 CTTTTTTAAAAAACGCCGCTA
66 CTTTTAT-AAAAACGCCGCTA
* * * *
38431459 TAGACCTGTACTTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
1 AAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAA
38431503 TTTGCCCAGT
Statistics
Matches: 182, Mismatches: 25, Indels: 11
0.83 0.11 0.05
Matches are distributed among these distances:
82 2 0.01
83 36 0.20
84 31 0.17
85 91 0.50
86 22 0.12
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.26
Consensus pattern (85 bp):
AAGACCAGGACCTTTAGCGGCGCTTTTTTAAAAAACGCCGCTAAAGACCAGGACCTTTAGCGGCG
CTTTTATAAAAACGCCGCTA
Found at i:38432435 original size:18 final size:18
Alignment explanation
Indices: 38432403--38432440 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
38432393 TACAATATAG
38432403 TAGTAAAAATATTATTTAA
1 TAGTAAAAATATTA-TTAA
*
38432422 TAGTAAAAA-GTTATTAA
1 TAGTAAAAATATTATTAA
38432439 TA
1 TA
38432441 CTTGATAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 6 0.33
18 3 0.17
19 9 0.50
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TAGTAAAAATATTATTAA
Found at i:38438276 original size:12 final size:12
Alignment explanation
Indices: 38438259--38438286 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
38438249 CCTCATTAAG
38438259 GTCATCCTCCTC
1 GTCATCCTCCTC
38438271 GTCATCCTCCTC
1 GTCATCCTCCTC
38438283 GTCA
1 GTCA
38438287 GATTCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.11, C:0.46, G:0.11, T:0.32
Consensus pattern (12 bp):
GTCATCCTCCTC
Found at i:38441443 original size:7 final size:7
Alignment explanation
Indices: 38441431--38441461 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
38441421 AGACATTTAA
38441431 AAATATT
1 AAATATT
38441438 AAATATT
1 AAATATT
38441445 AAATATT
1 AAATATT
38441452 AAATATT
1 AAATATT
38441459 AAA
1 AAA
38441462 ATCAATTGCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (7 bp):
AAATATT
Found at i:38442714 original size:23 final size:23
Alignment explanation
Indices: 38442687--38442733 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
38442677 CAGCAATTTG
38442687 GTATAACATTAACAGGAGAAATA
1 GTATAACATTAACAGGAGAAATA
*
38442710 GTATACCATTAACAGGAGAAATA
1 GTATAACATTAACAGGAGAAATA
38442733 G
1 G
38442734 GACCAAGCTC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (23 bp):
GTATAACATTAACAGGAGAAATA
Found at i:38445701 original size:25 final size:25
Alignment explanation
Indices: 38445667--38445714 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
38445657 TAGCTAATAA
38445667 TTCAACAAATGCTAATTCCACATAG
1 TTCAACAAATGCTAATTCCACATAG
38445692 TTCAACAAATGCTAATTCCACAT
1 TTCAACAAATGCTAATTCCACAT
38445715 TCAAAATCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.40, C:0.25, G:0.06, T:0.29
Consensus pattern (25 bp):
TTCAACAAATGCTAATTCCACATAG
Found at i:38447447 original size:39 final size:40
Alignment explanation
Indices: 38447290--38447514 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
38447280 GCTCCTCGTT
* *
38447290 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
38447330 CAAATGCCTTCGGGACTTAACCCGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
38447370 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * * *
38447410 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* ** * * *
38447449 CAAATGCCTTC-GGATCTTAATCCGGACATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
38447490 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
38447515 CATCATTCAA
Statistics
Matches: 161, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
38 2 0.01
39 32 0.20
40 114 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:38447468 original size:119 final size:120
Alignment explanation
Indices: 38447292--38447514 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
38447282 TCCTCGTTCA
* *
38447292 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAC
* * *
38447357 TTTGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATGGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * *
38447412 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAATCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* *
38447474 ACATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ACATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
38447515 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAC
ATGGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:38449470 original size:41 final size:41
Alignment explanation
Indices: 38449261--38449440 Score: 290
Period size: 41 Copynumber: 4.4 Consensus size: 41
38449251 GTTCTATGAC
*
38449261 TTTTAGCGGCGTTTTACCGAAAGCGCTGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
38449302 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* * *
38449343 TTTTAGCGGCGTTTTATCGAAAGCGCCGCTAATGATCTGGG
1 TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
* *
38449384 TTTTAGCGACGTTTTACCCG-AAGCGCCGCTAATGATCTGGT
1 TTTTAGCGGCGTTTTA-CCGAAAGCGCCGCTAATGCTCTGGT
38449425 TTTTAGCGGCGTTTTA
1 TTTTAGCGGCGTTTTA
38449441 AGAAAAACGC
Statistics
Matches: 130, Mismatches: 8, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
41 128 0.98
42 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.34
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCGAAAGCGCCGCTAATGCTCTGGT
Found at i:38449511 original size:12 final size:12
Alignment explanation
Indices: 38449494--38449519 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
38449484 GTTTGTTGAT
38449494 AAAACGCCGCTA
1 AAAACGCCGCTA
38449506 AAAACGCCGCTA
1 AAAACGCCGCTA
38449518 AA
1 AA
38449520 GCCCTATTTT
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:0.46, C:0.31, G:0.15, T:0.08
Consensus pattern (12 bp):
AAAACGCCGCTA
Found at i:38454621 original size:51 final size:50
Alignment explanation
Indices: 38454491--38454932 Score: 472
Period size: 51 Copynumber: 8.8 Consensus size: 50
38454481 TAGCCAAAGC
* * * *
38454491 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAAC
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAAT
* * * * * * * *
38454541 CATCTGATACACGTAGTAGCTTGCACTTAGTACTACACACATGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAA-T
*
38454592 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAA-T
* *
38454643 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAAT
* * * * *
38454692 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAAC
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAAT
* *** *** *
38454742 CATCTAATACATGTAGTAGCCTGCACTTAGTACTACAGACGTGATCTAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAA-T
* * * * *
38454793 TATCGGGTATGCATAGTAGCCTACAGTTAGTACTACACACGTGACCTAAC
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAAT
* * * * * * *
38454843 CATCTGATACACGTAGTAGCCTGCACTTAGTACTATACACGTGATCGAAGT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAA-T
*
38454894 TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
38454933 TGCGACCTCA
Statistics
Matches: 323, Mismatches: 65, Indels: 7
0.82 0.16 0.02
Matches are distributed among these distances:
49 41 0.13
50 126 0.39
51 156 0.48
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (50 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCTAAT
Found at i:38454940 original size:101 final size:101
Alignment explanation
Indices: 38454491--38454932 Score: 627
Period size: 101 Copynumber: 4.4 Consensus size: 101
38454481 TAGCCAAAGC
* *
38454491 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACAAACGTGACCTAACCATCTGATACACGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
* *
38454556 GTAGCTTGCACTTAGTACTACACACATGATCGAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * ** * * * *
38454592 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGGGTACGCAT
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAA-CCATCTGATACACGT
* *
38454657 AGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-T
65 AGTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * * * *
38454692 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTAATACATGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
* *
38454757 GTAGCCTGCACTTAGTACTACAGACGTGATCTAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
* * *
38454793 TATCGGGTATGCATAGTAGCCTACAGTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
*
38454858 GTAGCCTGCACTTAGTACTATACACGTGATCGAAGT
66 GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
*
38454894 TATCGGGTACGCATAGTAGCCTGCACTTAATACTACACA
1 TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACA
38454933 TGCGACCTCA
Statistics
Matches: 293, Mismatches: 45, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
99 35 0.12
100 48 0.16
101 174 0.59
102 36 0.12
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (101 bp):
TATCGGGTACGCATAGTAGCCTGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
GTAGCCTGCACTTAGTACTACACACGTGATCGAAGT
Found at i:38458632 original size:28 final size:28
Alignment explanation
Indices: 38458584--38458648 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
38458574 ATTTACTAGA
** * *
38458584 ATACCCCTATGTATGCCAAATTACCAT-T
1 ATACCCCTATGTACACAAAATGACC-TCT
38458612 ATACCCCTATGTACACAAAATGACCTCT
1 ATACCCCTATGTACACAAAATGACCTCT
38458640 ATACCCCTA
1 ATACCCCTA
38458649 GGGTTAATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.03
28 31 0.97
ACGTcount: A:0.34, C:0.32, G:0.06, T:0.28
Consensus pattern (28 bp):
ATACCCCTATGTACACAAAATGACCTCT
Found at i:38458812 original size:27 final size:28
Alignment explanation
Indices: 38458754--38458843 Score: 103
Period size: 27 Copynumber: 3.2 Consensus size: 28
38458744 AGGAAGCGTC
* *
38458754 CTGGTGGCTA-TGCCATAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAAATATCTGTT
* **
38458782 CTGGTGGCCCTGCCAC-GTATATCTGTT
1 CTGGTGGCACTGCCACAAAATATCTGTT
38458809 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAAATATCTGT-T
38458838 CTGGTG
1 CTGGTG
38458844 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 23 0.45
28 21 0.41
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAAATATCTGTT
Found at i:38458854 original size:29 final size:28
Alignment explanation
Indices: 38458764--38458854 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
38458754 CTGGTGGCTA
* * * *
38458764 TGCCATAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
** *
38458792 TGCCAC-GTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
38458819 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
38458848 TGTCACA
1 TGCCACA
38458855 TTTTTTGTAT
Statistics
Matches: 51, Mismatches: 10, Indels: 3
0.80 0.16 0.05
Matches are distributed among these distances:
27 23 0.45
28 13 0.25
29 15 0.29
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:38461985 original size:27 final size:28
Alignment explanation
Indices: 38461955--38462007 Score: 81
Period size: 27 Copynumber: 1.9 Consensus size: 28
38461945 CCCATACTGA
**
38461955 TAAAATGACTGTTATACCC-CTATGAGG
1 TAAAATGACTAATATACCCTCTATGAGG
38461982 TAAAATGACTAATATACCCTCTATGA
1 TAAAATGACTAATATACCCTCTATGA
38462008 TATGTATGAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
27 17 0.74
28 6 0.26
ACGTcount: A:0.38, C:0.19, G:0.13, T:0.30
Consensus pattern (28 bp):
TAAAATGACTAATATACCCTCTATGAGG
Found at i:38462574 original size:13 final size:13
Alignment explanation
Indices: 38462556--38462586 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
38462546 ATCTTTAAGC
38462556 TATTTAATTTGGG
1 TATTTAATTTGGG
38462569 TATTTAATTTGGG
1 TATTTAATTTGGG
38462582 TATTT
1 TATTT
38462587 GCTATGTAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (13 bp):
TATTTAATTTGGG
Found at i:38474949 original size:41 final size:40
Alignment explanation
Indices: 38474884--38475019 Score: 143
Period size: 40 Copynumber: 3.4 Consensus size: 40
38474874 TATTATAATC
* *
38474884 TCGCACACTAAGTGCATGAC--ATAGCCAAAGCTATCTCAGAC
1 TCGCACACTAAGTGC-T-ACATATAGCCGAAGCTATCTC-GAA
* * *
38474925 TCACACACTAAGTGCTACATATAGCCGAAGCTACCCCGAA
1 TCGCACACTAAGTGCTACATATAGCCGAAGCTATCTCGAA
* *
38474965 TCGCACACTAAGTGCT-CTATATAGTCGAAGTTATCTCGAA
1 TCGCACACTAAGTGCTAC-ATATAGCCGAAGCTATCTCGAA
*
38475005 ACGCACACTAAGTGC
1 TCGCACACTAAGTGC
38475020 CAAACACATT
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
39 3 0.04
40 50 0.62
41 28 0.35
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (40 bp):
TCGCACACTAAGTGCTACATATAGCCGAAGCTATCTCGAA
Found at i:38476364 original size:40 final size:40
Alignment explanation
Indices: 38476320--38476422 Score: 100
Period size: 40 Copynumber: 2.6 Consensus size: 40
38476310 ATAATTGTAG
* * *
38476320 CTTGTGTACAACACTAGTGG-TTTATCCATATTACTGGCAA
1 CTTGTCTACAACACTAGTGGCTTT-TCAACATTACTGGCAA
* * * * *
38476360 CTTGTTTGCAACACTGGTGGCTTTTCAACATTATTGGTAA
1 CTTGTCTACAACACTAGTGGCTTTTCAACATTACTGGCAA
**
38476400 CTTGTCTACAATTCTAGTGGCTT
1 CTTGTCTACAACACTAGTGGCTT
38476423 GTCTAGATTA
Statistics
Matches: 50, Mismatches: 12, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 47 0.94
41 3 0.06
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (40 bp):
CTTGTCTACAACACTAGTGGCTTTTCAACATTACTGGCAA
Found at i:38484918 original size:20 final size:20
Alignment explanation
Indices: 38484893--38484936 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
38484883 GGTCCCACAT
38484893 GCCCGTATGGCTTAGGACAC
1 GCCCGTATGGCTTAGGACAC
* *
38484913 GCCCGTGTGGCTTGGGACAC
1 GCCCGTATGGCTTAGGACAC
38484933 GCCC
1 GCCC
38484937 ATGTAACTCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.14, C:0.34, G:0.34, T:0.18
Consensus pattern (20 bp):
GCCCGTATGGCTTAGGACAC
Found at i:38485254 original size:42 final size:42
Alignment explanation
Indices: 38485207--38485298 Score: 175
Period size: 42 Copynumber: 2.2 Consensus size: 42
38485197 CATGGGGCAC
*
38485207 ACCGTGTGTCACATATGGCCTAGACACACACCCATGTGTCTA
1 ACCGTGTGTCACACATGGCCTAGACACACACCCATGTGTCTA
38485249 ACCGTGTGTCACACATGGCCTAGACACACACCCATGTGTCTA
1 ACCGTGTGTCACACATGGCCTAGACACACACCCATGTGTCTA
38485291 ACCGTGTG
1 ACCGTGTG
38485299 GACAACTTCT
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.25, C:0.32, G:0.21, T:0.23
Consensus pattern (42 bp):
ACCGTGTGTCACACATGGCCTAGACACACACCCATGTGTCTA
Found at i:38486883 original size:27 final size:26
Alignment explanation
Indices: 38486853--38486911 Score: 73
Period size: 26 Copynumber: 2.2 Consensus size: 26
38486843 CAAATTTTAA
38486853 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACC-AAGTACCCTCGATTTATAG
*** *
38486880 AATTACCGTTTGCCCTCGATTTATAG
1 AATTACCAAGTACCCTCGATTTATAG
38486906 AATTAC
1 AATTAC
38486912 TGTTTTACCC
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.34
Consensus pattern (26 bp):
AATTACCAAGTACCCTCGATTTATAG
Found at i:38486895 original size:26 final size:26
Alignment explanation
Indices: 38486866--38486916 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
38486856 TACCAAAGTA
38486866 CCCTCGATTTATAGAATTACCGTTTG
1 CCCTCGATTTATAGAATTACCGTTTG
*
38486892 CCCTCGATTTATAGAATTACTGTTT
1 CCCTCGATTTATAGAATTACCGTTT
38486917 TACCCTTGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.24, C:0.22, G:0.14, T:0.41
Consensus pattern (26 bp):
CCCTCGATTTATAGAATTACCGTTTG
Found at i:38486934 original size:27 final size:27
Alignment explanation
Indices: 38486864--38486966 Score: 127
Period size: 27 Copynumber: 3.9 Consensus size: 27
38486854 ATTACCAAAG
* *
38486864 TACCCTCGATTTATAGAATTACCG-TT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
38486890 TGCCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* * *
38486917 TACCCTTGATTCACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
38486944 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
38486967 AAAATACCCT
Statistics
Matches: 66, Mismatches: 10, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
26 22 0.33
27 44 0.67
ACGTcount: A:0.28, C:0.22, G:0.10, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:38486974 original size:27 final size:27
Alignment explanation
Indices: 38486819--38487003 Score: 88
Period size: 27 Copynumber: 6.9 Consensus size: 27
38486809 AATACTTTAG
* * *
38486819 TTTACCAAATTACTAAAATGCCCTCAAA
1 TTTACAAAATTACTAAAATACCCTC-GA
* * *
38486847 TTT-TAAAATTACCAAAGTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * **** *
38486873 TTTATAGAATTAC-CGTTTGCCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * **** *
38486899 TTTATAGAATTACTGTTTTACCCTTGA
1 TTTACAAAATTACTAAAATACCCTCGA
* * ***
38486926 TTCACAGAATTACTATTTTACCCTCGA
1 TTTACAAAATTACTAAAATACCCTCGA
*
38486953 TTTACAAAATTACTAAAATACCCT-TA
1 TTTACAAAATTACTAAAATACCCTCGA
*
38486979 GTTTACAAAATTACCAAAATACCCT
1 -TTTACAAAATTACTAAAATACCCT
38487004 AGTCTGTAAA
Statistics
Matches: 127, Mismatches: 27, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
26 26 0.20
27 98 0.77
28 3 0.02
ACGTcount: A:0.36, C:0.22, G:0.07, T:0.35
Consensus pattern (27 bp):
TTTACAAAATTACTAAAATACCCTCGA
Found at i:38487054 original size:27 final size:27
Alignment explanation
Indices: 38486958--38487050 Score: 109
Period size: 27 Copynumber: 3.5 Consensus size: 27
38486948 CTCGATTTAC
* **
38486958 AAAATTACTAAAATACCCTTAGTTTAC
1 AAAATTACTAAAATACCCCTAGTTTGT
* *
38486985 AAAATTACCAAAATA-CCCTAGTCTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
* *
38487011 AAAATTGCTAAAATACCCCTGGTTTGT
1 AAAATTACTAAAATACCCCTAGTTTGT
38487038 AAAATTAC-AAAAT
1 AAAATTACTAAAAT
38487051 TACCAAAATT
Statistics
Matches: 55, Mismatches: 10, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
26 25 0.45
27 30 0.55
ACGTcount: A:0.44, C:0.18, G:0.08, T:0.30
Consensus pattern (27 bp):
AAAATTACTAAAATACCCCTAGTTTGT
Found at i:38487607 original size:26 final size:26
Alignment explanation
Indices: 38487578--38487752 Score: 273
Period size: 26 Copynumber: 6.8 Consensus size: 26
38487568 GAGGAAGTGC
* *
38487578 AAAAGGGCTTATGCCCTAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
* *
38487604 AAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
38487630 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
38487656 AAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACTG
*
38487682 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
38487708 AAAAGGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTACTG
38487733 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
38487753 ATTAAAGAGG
Statistics
Matches: 137, Mismatches: 12, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
25 34 0.25
26 103 0.75
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACTG
Found at i:38487656 original size:52 final size:52
Alignment explanation
Indices: 38487578--38487752 Score: 309
Period size: 52 Copynumber: 3.4 Consensus size: 52
38487568 GAGGAAGTGC
* *
38487578 AAAAGGGCTTATGCCCTAGTTTATTGAAAATGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
38487630 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
*
38487682 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTT-TGCCCCAGTTTACTG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
38487733 AAAAGGGCTT-TGCCCCAGTT
1 AAAAGGGCTTATGCCCCAGTT
38487753 ATTAAAGAGG
Statistics
Matches: 120, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
50 10 0.08
51 24 0.20
52 86 0.72
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (52 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTTATGCCCCAGTTTACCG
Found at i:38487956 original size:42 final size:42
Alignment explanation
Indices: 38487897--38487988 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
38487887 TAGTCTCCCC
* ** *
38487897 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
38487939 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
38487981 AAATGGGC
1 AAATGGGC
38487989 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:38489278 original size:41 final size:42
Alignment explanation
Indices: 38489232--38489322 Score: 121
Period size: 41 Copynumber: 2.2 Consensus size: 42
38489222 GGTGAGGTAC
* *
38489232 CAATGCCATATCCCAAATATGATCTTACAT-GGACCACATAT
1 CAATGCCATATCCCAAACATGATCTTACATGGGACCACATAA
* * *
38489273 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAA
1 CAATGCCATATCCCAAACATGATCTTACATGGGACCACATAA
*
38489315 CGATGCCA
1 CAATGCCA
38489323 AAGCCATGTC
Statistics
Matches: 43, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
41 27 0.63
42 16 0.37
ACGTcount: A:0.34, C:0.27, G:0.14, T:0.24
Consensus pattern (42 bp):
CAATGCCATATCCCAAACATGATCTTACATGGGACCACATAA
Found at i:38489377 original size:48 final size:48
Alignment explanation
Indices: 38489273--38489367 Score: 145
Period size: 48 Copynumber: 2.0 Consensus size: 48
38489263 GACCACATAT
* *
38489273 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCACATAACGATGC
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACAACGATGC
* * *
38489321 CAAAGCCATGTCCCATACATGGTCTTACATGGGATCTCACATCGATG
1 CAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACAACGATG
38489368 TTGATGCCAT
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 42 1.00
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.24
Consensus pattern (48 bp):
CAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCACAACGATGC
Found at i:38496755 original size:48 final size:48
Alignment explanation
Indices: 38496689--38496953 Score: 185
Period size: 48 Copynumber: 5.6 Consensus size: 48
38496679 CATAGTAAGG
** * *
38496689 TGCCAATGCCATAACCCAGATATGGTCTTACATGGGACCACATATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
38496737 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATAT--A
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* * * *
38496783 CTG--AA-GCCGATAG-CCTAG-CTATGGTCTTACA--CGATGCCTCATACCGA
1 -TGCCAATGCC-AT-GTCCCAGAC-ATGGTCTTACATGGGAT--CACATATCGA
* *
38496830 TACCAATACCATGTCCCAGACATGGT-TT-CATGGGATCACATAAT-GA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACAT-ATCGA
* ** * * * *
38496876 TGCCAAAGCTGTGTCCCAAACATGATCTTACATGGGATCTCACATCGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
* * * **
38496924 TGCCGATGCCATATTCCAGGTATGGTCTTA
1 TGCCAATGCCATGTCCCAGACATGGTCTTA
38496954 TACGAGATCT
Statistics
Matches: 165, Mismatches: 33, Indels: 38
0.70 0.14 0.16
Matches are distributed among these distances:
43 3 0.02
44 4 0.02
45 24 0.15
46 30 0.18
47 11 0.07
48 90 0.55
49 3 0.02
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (48 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACATATCGA
Found at i:38503798 original size:42 final size:41
Alignment explanation
Indices: 38503745--38503826 Score: 114
Period size: 40 Copynumber: 2.0 Consensus size: 41
38503735 GCATTTTTAA
38503745 AAAATTCCAAAAAAATATTTTACATT-TTTGTTTTTAATTTTTG
1 AAAATTCC--AAAAATATTTTAC-TTCTTTGTTTTTAATTTTTG
*
38503788 AAAA-TCCAAAAATATTTTTCTTCTTTGTTTTTAATTTTT
1 AAAATTCCAAAAATATTTTACTTCTTTGTTTTTAATTTTT
38503827 TTAATCGCAT
Statistics
Matches: 37, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
39 2 0.05
40 28 0.76
42 3 0.08
43 4 0.11
ACGTcount: A:0.34, C:0.09, G:0.04, T:0.54
Consensus pattern (41 bp):
AAAATTCCAAAAATATTTTACTTCTTTGTTTTTAATTTTTG
Found at i:38511304 original size:29 final size:30
Alignment explanation
Indices: 38511248--38511306 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
38511238 ATGCAATTGT
* *
38511248 GATGTGTTGGTGGTTGTGTGTACGTGATGA
1 GATGTGTTGGTGGTTATGTATACGTGATGA
* *
38511278 GATGTGTT-GTGGTTATGTATGCTTGATGA
1 GATGTGTTGGTGGTTATGTATACGTGATGA
38511307 TTTAATTGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.15, C:0.03, G:0.39, T:0.42
Consensus pattern (30 bp):
GATGTGTTGGTGGTTATGTATACGTGATGA
Found at i:38513105 original size:43 final size:42
Alignment explanation
Indices: 38513039--38513196 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 42
38513029 AGCATATACA
*
38513039 ATGCCAATGTCCCAGAC-GTGGTCTTACATGTAATCAAACATCG
1 ATGCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAACA-CG
* * * *
38513082 ATGCCACTGTCCAAGACAGGGTCTTACACGAAATCAAATACG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAACACG
* * * * **
38513124 ATGCCAATGTCCCGGACATGGTCTTACACGTAAAACAGGAGTCG
1 ATGCCAATGTCCCAGACAGGGTCTTACACGT-AATCA-AACACG
38513168 ATGCCAATGTCCCAGAC-GTGGTCTTACAC
1 ATGCCAATGTCCCAGACAG-GGTCTTACAC
38513197 AATAACACAT
Statistics
Matches: 95, Mismatches: 16, Indels: 7
0.81 0.14 0.06
Matches are distributed among these distances:
42 28 0.29
43 37 0.39
44 30 0.32
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACAGGGTCTTACACGTAATCAAACACG
Found at i:38517731 original size:48 final size:48
Alignment explanation
Indices: 38517660--38517757 Score: 160
Period size: 48 Copynumber: 2.0 Consensus size: 48
38517650 CAAGATAAAT
* * *
38517660 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
*
38517708 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
38517756 AT
1 AT
38517758 GTGTGTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.35, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATATATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
Found at i:38519301 original size:40 final size:40
Alignment explanation
Indices: 38519246--38519360 Score: 180
Period size: 40 Copynumber: 2.9 Consensus size: 40
38519236 TGAGAGTTAT
*
38519246 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG
*
38519286 ATATATCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG
*
38519326 ATATATCCGGGCTAA-ACCTCGAAG-GCATTCATGCT
1 ATATATCCGGGCTAAGTCC-CGAAGAGCATTCATGCT
38519361 GGAGTTATGA
Statistics
Matches: 70, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
39 12 0.17
40 58 0.83
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.26
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTG
Found at i:38519435 original size:29 final size:28
Alignment explanation
Indices: 38519400--38519528 Score: 109
Period size: 29 Copynumber: 4.5 Consensus size: 28
38519390 CTTCAACCGA
* *
38519400 GCACTATGTGTGCCAGATCAGTAGTTGAG
1 GCACTATGTGTGCGAGATC-GTAATTGAG
* * *
38519429 GCACTATGTGTGCGAGTTCTTCAATCGA-
1 GCACTATGTGTGCGAGATCGT-AATTGAG
*
38519457 GCACTATGTGTGCGAGATTGGTAATTGAG
1 GCACTATGTGTGCGAGA-TCGTAATTGAG
* * * *
38519486 GCGCTATGTGTGCGAGTTCTTTAATCGA-
1 GCACTATGTGTGCGAGATC-GTAATTGAG
*
38519514 GCGCTATGTGTGCGA
1 GCACTATGTGTGCGA
38519529 AATCAGTCAG
Statistics
Matches: 82, Mismatches: 14, Indels: 9
0.78 0.13 0.09
Matches are distributed among these distances:
28 38 0.46
29 44 0.54
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGTAATTGAG
Found at i:38519458 original size:57 final size:57
Alignment explanation
Indices: 38519368--38519535 Score: 228
Period size: 57 Copynumber: 2.9 Consensus size: 57
38519358 GCTGGAGTTA
* * * * * *
38519368 TGAGGTACTGTGTGTGCAAGTTCTTCAACCGAGCACTATGTGTGCCAGATCAGTAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
**
38519425 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATTGGTAAT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
* * * *
38519482 TGAGGCGCTATGTGTGCGAGTTCTTTAATCGAGCGCTATGTGTGCGAAATCAGT
1 TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGT
38519536 CAGTGGGCAT
Statistics
Matches: 97, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 97 1.00
ACGTcount: A:0.22, C:0.17, G:0.30, T:0.31
Consensus pattern (57 bp):
TGAGGCACTATGTGTGCGAGTTCTTCAATCGAGCACTATGTGTGCGAGATCAGTAAT
Found at i:38519469 original size:28 final size:27
Alignment explanation
Indices: 38519378--38519528 Score: 131
Period size: 28 Copynumber: 5.3 Consensus size: 27
38519368 TGAGGTACTG
* *
38519378 TGTGTGCAAGTTCTTCAACCGAGCACTA
1 TGTGTGCGAGTTCTT-AATCGAGCACTA
* * * * *
38519406 TGTGTGCCAGATCAGTAGTTGAGGCACTA
1 TGTGTGCGAGTTC-TTAATCGA-GCACTA
38519435 TGTGTGCGAGTTCTTCAATCGAGCACTA
1 TGTGTGCGAGTTCTT-AATCGAGCACTA
** * *
38519463 TGTGTGCGAGATTGGTAATTGAGGCGCTA
1 TGTGTGCGAG-TTCTTAATCGA-GCACTA
*
38519492 TGTGTGCGAGTTCTTTAATCGAGCGCTA
1 TGTGTGCGAGTTC-TTAATCGAGCACTA
38519520 TGTGTGCGA
1 TGTGTGCGA
38519529 AATCAGTCAG
Statistics
Matches: 99, Mismatches: 18, Indels: 12
0.77 0.14 0.09
Matches are distributed among these distances:
28 53 0.54
29 46 0.46
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (27 bp):
TGTGTGCGAGTTCTTAATCGAGCACTA
Found at i:38523085 original size:48 final size:48
Alignment explanation
Indices: 38523014--38523159 Score: 256
Period size: 48 Copynumber: 3.0 Consensus size: 48
38523004 CAAGATAAAT
* *
38523014 ATATATATGTGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
38523062 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
38523110 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
38523158 AT
1 AT
38523160 GTGTGTATAT
Statistics
Matches: 94, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 94 1.00
ACGTcount: A:0.34, C:0.06, G:0.29, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:38528557 original size:45 final size:45
Alignment explanation
Indices: 38528504--38528636 Score: 203
Period size: 45 Copynumber: 3.0 Consensus size: 45
38528494 CAATATCATT
* * *
38528504 TCACCGGCATTATAGCCTGCTTGGCTCGAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
38528549 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * **
38528594 TCACTGGCATCATAGCCTGCTAGGCTCAAAGGAACGAATAGTA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
38528637 CCGTACGATA
Statistics
Matches: 81, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 81 1.00
ACGTcount: A:0.27, C:0.26, G:0.23, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:38535425 original size:45 final size:45
Alignment explanation
Indices: 38535321--38535491 Score: 233
Period size: 45 Copynumber: 3.9 Consensus size: 45
38535311 ATTCATCCAT
* * * *
38535321 CGGCATT-TCGCCTGCTAGGCTCGAA-GCTCG-ATA-TCATTTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGT-ATCTCAC
* * *
38535363 CGGCATTATAGCTTGCTAGGCTCGAAGGCCCGAATAGTATCTCAT
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
38535408 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
*
38535453 CGGCATCATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
1 CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTA
38535492 CCGTACGGTA
Statistics
Matches: 116, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
42 7 0.06
43 16 0.14
44 4 0.03
45 88 0.76
46 1 0.01
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (45 bp):
CGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATCTCAC
Found at i:38537141 original size:26 final size:26
Alignment explanation
Indices: 38537081--38537169 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 26
38537071 GTGACAGAGT
38537081 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAG-GC
*
38537110 CACCAGAACAGATATATGTGGCAGGC
1 CACCAGAACAGATATTTGTGGCAGGC
* *
38537136 CACCAGAACAAATAATTTGTGGCATAGC
1 CACCAGAACAGAT-ATTTGTGGCA-GGC
38537164 CACCAG
1 CACCAG
38537170 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
26 14 0.26
27 18 0.33
28 15 0.28
29 7 0.13
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.20
Consensus pattern (26 bp):
CACCAGAACAGATATTTGTGGCAGGC
Found at i:38539623 original size:46 final size:46
Alignment explanation
Indices: 38539550--38539725 Score: 165
Period size: 46 Copynumber: 3.8 Consensus size: 46
38539540 TATTTGGGCA
* *
38539550 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *** * * ** *
38539596 TTCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-ACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGC-AAACG
* * *
38539643 TCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
38539689 CCCGAGCTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
38539726 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 27, Indels: 6
0.75 0.20 0.05
Matches are distributed among these distances:
46 67 0.67
47 33 0.33
ACGTcount: A:0.22, C:0.19, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:38539705 original size:93 final size:93
Alignment explanation
Indices: 38539546--38539718 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
38539536 GGGATATTTG
* * * ** *
38539546 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCAAATGTTCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCATTGAG
38539611 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
38539639 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCGAACGCCCGAGCTCATTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCATTGAG
38539704 TTGAGTCCGAGTTCG
66 TTGAGTCCGAGTTCG
38539719 CTTATGGGCG
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.23, C:0.20, G:0.29, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTAACTTATGGATGCAAACGCCCGAACTCATTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:38542724 original size:228 final size:228
Alignment explanation
Indices: 38542327--38542753 Score: 836
Period size: 228 Copynumber: 1.9 Consensus size: 228
38542317 ATACATCATG
38542327 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
1 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
* *
38542392 TCACAAAGCATAATTTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACGTCATAA
66 TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
38542457 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
131 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
38542522 TGACAATTTAACAATATATACTCAATATTCAAA
196 TGACAATTTAACAATATATACTCAATATTCAAA
38542555 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
1 GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
38542620 TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
66 TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
38542685 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
131 TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
38542750 TGAC
196 TGAC
38542754 CGAAACCTCC
Statistics
Matches: 197, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
228 197 1.00
ACGTcount: A:0.35, C:0.25, G:0.05, T:0.34
Consensus pattern (228 bp):
GCATTTAACATCACTTCATCATAATTTTACATCATGGCCGAATGCTCCTTTTAAACCATTTACCC
TCACAAAGCATAAATTTCACCATCAAACTTACAAGCTTATAATCCCATGAATTTTAACATCATAA
TATCTATCCAACTCTCACTCATTAACTTCTATCATAAATCTCAAAATCTATAGTTTTTCTACCCA
TGACAATTTAACAATATATACTCAATATTCAAA
Found at i:38546797 original size:119 final size:120
Alignment explanation
Indices: 38546615--38546837 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
38546605 TCCTCGTTCA
*
38546615 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* *
38546680 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * **
38546735 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
38546797 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
38546838 CATCATTCAA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 66 0.73
120 20 0.22
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:38546837 original size:40 final size:40
Alignment explanation
Indices: 38546613--38546837 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
38546603 GCTCCTCGTT
* *
38546613 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
38546653 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
38546693 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
38546733 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
38546772 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
38546813 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
38546838 CATCATTCAA
Statistics
Matches: 164, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
38 2 0.01
39 31 0.19
40 119 0.73
41 12 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:38549569 original size:55 final size:55
Alignment explanation
Indices: 38549480--38549594 Score: 212
Period size: 55 Copynumber: 2.1 Consensus size: 55
38549470 ACATTCATTC
*
38549480 ATCACAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
1 ATCAAAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
*
38549535 ATCAAAATTCAATATCAAATGGATAATAATTTAATTCAAACAAGCTTATTTGTAT
1 ATCAAAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
38549590 ATCAA
1 ATCAA
38549595 CTTACTTCAT
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
55 58 1.00
ACGTcount: A:0.46, C:0.12, G:0.06, T:0.36
Consensus pattern (55 bp):
ATCAAAATTCAATATCAAATGAATAATAATTTAATTCAAACAAGCTTATTTGTAT
Found at i:38549822 original size:8 final size:8
Alignment explanation
Indices: 38549809--38549838 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
38549799 AGTTCCTAAT
38549809 TCACAAAA
1 TCACAAAA
38549817 TCACAAAA
1 TCACAAAA
38549825 TCACAAAA
1 TCACAAAA
38549833 TACACA
1 T-CACA
38549839 TAATTTGCTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 17 0.81
9 4 0.19
ACGTcount: A:0.60, C:0.27, G:0.00, T:0.13
Consensus pattern (8 bp):
TCACAAAA
Found at i:38551977 original size:40 final size:40
Alignment explanation
Indices: 38551898--38552144 Score: 313
Period size: 40 Copynumber: 6.2 Consensus size: 40
38551888 CGGATGATAA
* *
38551898 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
38551938 CCGGGCTATGTCCCGAAGGCATTTATGCTAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
38551978 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* * * * *
38552018 CCGGGCTATGTCCCGAAGGCATTTATG-TAG-TGATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATAT
38552057 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
* **
38552097 CCGGGCTAAGACCCGAGGGCATTTGTGCGAGTTATTATAT
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
38552137 CC-GGCTAA
1 CCGGGCTAA
38552145 ATCTCGAAGA
Statistics
Matches: 177, Mismatches: 25, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
38 2 0.01
39 39 0.22
40 132 0.75
41 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATAT
Found at i:38552153 original size:79 final size:80
Alignment explanation
Indices: 38551898--38552144 Score: 408
Period size: 79 Copynumber: 3.1 Consensus size: 80
38551888 CGGATGATAA
* *
38551898 CCGGACTAAGATCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
38551963 TGCTAGTGATTATAT
66 TGCTAGTGATTATAT
38551978 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
38552043 TG-TAGTGATTATAT
66 TGCTAGTGATTATAT
* * * *
38552057 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTAAGACCCGAGGGCATTTG
1 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
* *
38552122 TGCGAGTTATTATAT
66 TGCTAGTGATTATAT
38552137 CC-GGCTAA
1 CCGGGCTAA
38552145 ATCTCGAAGA
Statistics
Matches: 158, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
79 81 0.51
80 77 0.49
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCTATATCCGGGCTATGTCCCGAAGGCATTTA
TGCTAGTGATTATAT
Found at i:38558750 original size:28 final size:29
Alignment explanation
Indices: 38558719--38558783 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
38558709 AAAGTAATTT
*
38558719 TTGATAAAAATATCAATT-AGGGATTAAA
1 TTGATAAAAATATAAATTGAGGGATTAAA
* * * *
38558747 TTGAGAAAAGTGTAAATTGAGGGGTTAAA
1 TTGATAAAAATATAAATTGAGGGATTAAA
38558776 TTG-TAAAA
1 TTGATAAAA
38558784 TAAATGAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.46, C:0.02, G:0.22, T:0.31
Consensus pattern (29 bp):
TTGATAAAAATATAAATTGAGGGATTAAA
Found at i:38561166 original size:13 final size:13
Alignment explanation
Indices: 38561148--38561172 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38561138 ACCAGGGGAC
38561148 ACATGACCGTGTA
1 ACATGACCGTGTA
38561161 ACATGACCGTGT
1 ACATGACCGTGT
38561173 GTTACACACG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.24
Consensus pattern (13 bp):
ACATGACCGTGTA
Found at i:38563009 original size:14 final size:14
Alignment explanation
Indices: 38562966--38563016 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
38562956 AATATTTTAA
38562966 AATTTATTT-TGTG
1 AATTTATTTGTGTG
38562979 --TTTATTATGTGTG
1 AATTTATT-TGTGTG
*
38562992 AATTTATTTGTTTG
1 AATTTATTTGTGTG
38563006 AATTT-TTTGTG
1 AATTTATTTGTG
38563017 CTTTAATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
11 6 0.19
12 1 0.03
13 9 0.28
14 10 0.31
15 6 0.19
ACGTcount: A:0.20, C:0.00, G:0.18, T:0.63
Consensus pattern (14 bp):
AATTTATTTGTGTG
Found at i:38568646 original size:23 final size:23
Alignment explanation
Indices: 38568616--38568665 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
38568606 TTACGTGAGG
* * *
38568616 TCAGTTTTTTGGGTCATGTTGTA
1 TCAGTTTTCTAGGCCATGTTGTA
38568639 TCAGTTTTCTAGGCCATGTTGTA
1 TCAGTTTTCTAGGCCATGTTGTA
38568662 TCAG
1 TCAG
38568666 CATCCGGTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.16, C:0.14, G:0.24, T:0.46
Consensus pattern (23 bp):
TCAGTTTTCTAGGCCATGTTGTA
Found at i:38570917 original size:11 final size:10
Alignment explanation
Indices: 38570889--38570922 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
38570879 AGCCTGTAAG
38570889 TATTCTGAAT
1 TATTCTGAAT
*
38570899 TTTTCTGAAT
1 TATTCTGAAT
38570909 ATATTCTGAAT
1 -TATTCTGAAT
38570920 TAT
1 TAT
38570923 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:38575021 original size:23 final size:23
Alignment explanation
Indices: 38574993--38575042 Score: 91
Period size: 23 Copynumber: 2.2 Consensus size: 23
38574983 TTACGTGAAG
*
38574993 TCAGTTTTCTGGGTCATGTTGTA
1 TCAGTTTTCTGGGCCATGTTGTA
38575016 TCAGTTTTCTGGGCCATGTTGTA
1 TCAGTTTTCTGGGCCATGTTGTA
38575039 TCAG
1 TCAG
38575043 CATCGGGTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.14, C:0.16, G:0.26, T:0.44
Consensus pattern (23 bp):
TCAGTTTTCTGGGCCATGTTGTA
Found at i:38582539 original size:27 final size:26
Alignment explanation
Indices: 38582500--38582610 Score: 123
Period size: 27 Copynumber: 4.1 Consensus size: 26
38582490 GGAAGCGTCT
*
38582500 TGGTGGCTATGCCACAATTATCTGATC
1 TGGTGGCTCTGCCAC-ATTATCTGATC
* *
38582527 TGGTGGCTCTGCCATATATATCTGTTC
1 TGGTGGCTCTGCCACAT-TATCTGATC
*
38582554 TGGTGGTTCTGCCACGATTATCTGTATC
1 TGGTGGCTCTGCCAC-ATTATCTG-ATC
* * *
38582582 TGGTGACTCTGTCACATTATCTGTTC
1 TGGTGGCTCTGCCACATTATCTGATC
38582608 TGG
1 TGG
38582611 CAGCCATGCT
Statistics
Matches: 71, Mismatches: 10, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
26 7 0.10
27 48 0.68
28 16 0.23
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (26 bp):
TGGTGGCTCTGCCACATTATCTGATC
Found at i:38582603 original size:54 final size:54
Alignment explanation
Indices: 38582500--38582610 Score: 152
Period size: 54 Copynumber: 2.1 Consensus size: 54
38582490 GGAAGCGTCT
* *
38582500 TGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATATCTGTTC
1 TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
* * * *
38582554 TGGTGGTTCTGCCACGATTATCTGTATCTGGTGACTCTGTCACAT-TATCTGTTC
1 TGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTGCCACATATATCTGTTC
38582608 TGG
1 TGG
38582611 CAGCCATGCT
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (54 bp):
TGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCACATATATCTGTTC
Found at i:38585653 original size:11 final size:11
Alignment explanation
Indices: 38585637--38585661 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
38585627 GCTATAAAAA
38585637 ATTAAAATAAT
1 ATTAAAATAAT
38585648 ATTAAAATAAT
1 ATTAAAATAAT
38585659 ATT
1 ATT
38585662 TCAACCTCAG
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:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
ATTAAAATAAT
Found at i:38587626 original size:50 final size:51
Alignment explanation
Indices: 38587578--38587677 Score: 146
Period size: 52 Copynumber: 1.9 Consensus size: 51
38587568 ACAATATACG
* *
38587578 CACATCGCCTGCATATTTCACACTAGCCATTCGGCTTTACCACATATACATA
1 CACATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACA-A
* * *
38587630 CATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATA
1 CACATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATA
38587678 TGCATGTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (51 bp):
CACATCGCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAA
Found at i:38587699 original size:47 final size:47
Alignment explanation
Indices: 38587647--38587773 Score: 182
Period size: 48 Copynumber: 2.7 Consensus size: 47
38587637 CATACATATT
* * * * *
38587647 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
38587694 TCACATTGGACCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGG-CCATTCGGCCTTATCACATATATGCATGCTCACATTCA
*
38587742 TCACATTGGCCATTCGGCCTTATCTCATATAT
1 TCACATTGGCCATTCGGCCTTATCACATATAT
38587774 ACACATTCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
47 29 0.41
48 42 0.59
ACGTcount: A:0.26, C:0.28, G:0.12, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTCA
Found at i:38587787 original size:47 final size:47
Alignment explanation
Indices: 38587647--38587794 Score: 188
Period size: 47 Copynumber: 3.1 Consensus size: 47
38587637 CATACATATT
* * * *
38587647 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
38587694 TCACATTGGACCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGG-CCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * ** *
38587742 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCCCATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38587789 TCACAT
1 TCACAT
38587795 ACAATCCTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
47 45 0.52
48 42 0.48
ACGTcount: A:0.27, C:0.30, G:0.10, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:38592029 original size:40 final size:40
Alignment explanation
Indices: 38591997--38592588 Score: 977
Period size: 40 Copynumber: 14.8 Consensus size: 40
38591987 CCAGCATGAT
* * *
38591997 TGCTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
** *
38592037 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
38592077 TGCTCTTCGGAACTTAGCTCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38592117 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38592157 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38592197 TGCTCTTCGGTACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38592237 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* * *
38592277 TGCTCTTCGGAACTTAGCCCGAATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38592317 TGCTCTTTGGGACTTAGCTCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38592357 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38592397 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
*
38592437 TGCTCTTCGAGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
* *
38592477 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38592517 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
38592557 TGCTCTTCGGGACTTAGCCCGGATATATCACT
1 TGCTCTTCGGGACTTAGCCCGGATATATCACT
38592589 CTCAATTCTC
Statistics
Matches: 521, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 521 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
Found at i:38592134 original size:23 final size:23
Alignment explanation
Indices: 38592108--38592174 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
38592098 GATACATCAC
38592108 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
* * * *
38592131 TAGCCCGGAT--ACATC---AC-
1 TAGCACGAATGCTCTTCGGAACT
38592148 TAGCACGAATGCTCTTCGGAACT
1 TAGCACGAATGCTCTTCGGAACT
38592171 TAGC
1 TAGC
38592175 CCGGATACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 2 0.07
19 3 0.10
21 3 0.10
22 2 0.07
23 12 0.40
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGAACT
Found at i:38592374 original size:23 final size:23
Alignment explanation
Indices: 38592348--38592414 Score: 56
Period size: 23 Copynumber: 3.2 Consensus size: 23
38592338 GATATATCAC
38592348 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
* * * *
38592371 TAGCCCGGAT-AT-ATC---AC-
1 TAGCACGAATGCTCTTCGGGACT
38592388 TAGCACGAATGCTCTTCGGGACT
1 TAGCACGAATGCTCTTCGGGACT
38592411 TAGC
1 TAGC
38592415 CCGGATATAT
Statistics
Matches: 30, Mismatches: 8, Indels: 12
0.60 0.16 0.24
Matches are distributed among these distances:
17 8 0.27
18 3 0.10
19 2 0.07
21 2 0.07
22 3 0.10
23 12 0.40
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (23 bp):
TAGCACGAATGCTCTTCGGGACT
Found at i:38594270 original size:47 final size:47
Alignment explanation
Indices: 38594134--38594280 Score: 195
Period size: 47 Copynumber: 3.1 Consensus size: 47
38594124 CATACATATT
* * * *
38594134 TCACATTAGCCATTCGGCTTTACCACATATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* *
38594181 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
* * ** *
38594228 TCACATTGGCCATTCGGCCTTATCTCATATATACACATTCACATTGA
1 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
38594275 TCACAT
1 TCACAT
38594281 ACAATCCTAA
Statistics
Matches: 87, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
47 87 1.00
ACGTcount: A:0.27, C:0.29, G:0.11, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
Found at i:38600214 original size:19 final size:19
Alignment explanation
Indices: 38600192--38600288 Score: 79
Period size: 19 Copynumber: 5.2 Consensus size: 19
38600182 GCATAGTACT
*
38600192 TTTAGGCTCGCATAAAACA
1 TTTAAGCTCGCATAAAACA
* *
38600211 TTTAAGCTTGTATAAAACA
1 TTTAAGCTCGCATAAAACA
* ** *
38600230 TTT-GGCTCTTATAAAATA
1 TTTAAGCTCGCATAAAACA
* * * *
38600248 GTTAAGTTCACATGAAACA
1 TTTAAGCTCGCATAAAACA
*
38600267 ATTAAGCTCGCATAAAACA
1 TTTAAGCTCGCATAAAACA
38600286 TTT
1 TTT
38600289 GAAAGCAGGA
Statistics
Matches: 58, Mismatches: 19, Indels: 2
0.73 0.24 0.03
Matches are distributed among these distances:
18 13 0.22
19 45 0.78
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (19 bp):
TTTAAGCTCGCATAAAACA
Found at i:38600424 original size:22 final size:22
Alignment explanation
Indices: 38600396--38600447 Score: 68
Period size: 22 Copynumber: 2.4 Consensus size: 22
38600386 AAGCTCACTC
**
38600396 ACTTTTATAGAGTTCGTACAAT
1 ACTTTTATAGAGTTCACACAAT
* *
38600418 ACTTTTATTGGGTTCACACAAT
1 ACTTTTATAGAGTTCACACAAT
38600440 ACTTTTAT
1 ACTTTTAT
38600448 TATGTTTGCA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.12, T:0.44
Consensus pattern (22 bp):
ACTTTTATAGAGTTCACACAAT
Found at i:38608441 original size:27 final size:27
Alignment explanation
Indices: 38608387--38608440 Score: 72
Period size: 28 Copynumber: 2.0 Consensus size: 27
38608377 CTTTTTGAAA
* *
38608387 CTTTGAAATTTAATTTATGTACTTTTT
1 CTTTGAAATATAATTTATCTACTTTTT
*
38608414 CTTTAGAAATATAATTTCTCTACTTTT
1 CTTT-GAAATATAATTTATCTACTTTT
38608441 CAAATTTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.28, C:0.11, G:0.06, T:0.56
Consensus pattern (27 bp):
CTTTGAAATATAATTTATCTACTTTTT
Found at i:38610759 original size:11 final size:11
Alignment explanation
Indices: 38610723--38610764 Score: 57
Period size: 11 Copynumber: 3.6 Consensus size: 11
38610713 AAAATATTAC
38610723 TTTATTAATAT
1 TTTATTAATAT
*
38610734 TTTAATGAGATAT
1 TTT-ATTA-ATAT
38610747 TTTATTAATAT
1 TTTATTAATAT
38610758 TTTATTA
1 TTTATTA
38610765 TAAATAGCTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 14 0.52
12 6 0.22
13 7 0.26
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:38612024 original size:14 final size:13
Alignment explanation
Indices: 38611996--38612032 Score: 58
Period size: 14 Copynumber: 2.8 Consensus size: 13
38611986 ATCCTGGAAT
38611996 ATTAA-AACAATA
1 ATTAAGAACAATA
38612008 ATTAAGAACACATA
1 ATTAAGAACA-ATA
38612022 ATTAAGAACAA
1 ATTAAGAACAA
38612033 GTCAAATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 5 0.22
13 5 0.22
14 13 0.57
ACGTcount: A:0.62, C:0.11, G:0.05, T:0.22
Consensus pattern (13 bp):
ATTAAGAACAATA
Found at i:38616698 original size:39 final size:39
Alignment explanation
Indices: 38616637--38616817 Score: 236
Period size: 39 Copynumber: 4.6 Consensus size: 39
38616627 AACACAAATG
* * *
38616637 CCTTCGGGACTTAGCCCAGATATAACACCTGTACGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * * *
38616676 CCTTCAGGACTAAGCTCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * * *
38616715 CCTTTGGGACTAAGCCCGGATATAACACCATCATGAATA
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
* * *
38616754 CCTTTGAGACTTAGCCCGGATATAACACCAGCACGAATG
1 CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
38616793 CCTTCGGGACTTAGCCCGGATATAA
1 CCTTCGGGACTTAGCCCGGATATAA
38616818 ATCTCACACA
Statistics
Matches: 122, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 122 1.00
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.22
Consensus pattern (39 bp):
CCTTCGGGACTTAGCCCGGATATAACACCAGCACGAATA
Found at i:38616774 original size:78 final size:78
Alignment explanation
Indices: 38616633--38616817 Score: 266
Period size: 78 Copynumber: 2.4 Consensus size: 78
38616623 TTCCAACACA
* * *
38616633 AATGCCTTCGGGACTTAGCCCAGATATAACACCTGTACGAATACCTTCAGGACTAAGCTCGGATA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATACCTTCAGGACTAAGCCCGGATA
38616698 TAACACCAGCACG
66 TAACACCAGCACG
* * * * *
38616711 AATGCCTTTGGGACTAAGCCCGGATATAACACCAT-CATGAATACCTT-TGAGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGATATAACACC-TGCACGAATACCTTCAG-GACTAAGCCCGGA
38616774 TATAACACCAGCACG
64 TATAACACCAGCACG
38616789 AATGCCTTCGGGACTTAGCCCGGATATAA
1 AATGCCTTCGGGACTTAGCCCGGATATAA
38616818 ATCTCACACA
Statistics
Matches: 95, Mismatches: 10, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
77 1 0.01
78 93 0.98
79 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.22
Consensus pattern (78 bp):
AATGCCTTCGGGACTTAGCCCGGATATAACACCTGCACGAATACCTTCAGGACTAAGCCCGGATA
TAACACCAGCACG
Found at i:38624281 original size:19 final size:20
Alignment explanation
Indices: 38624257--38624294 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
38624247 TGGTACCACC
38624257 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
38624276 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
38624295 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:38624632 original size:93 final size:92
Alignment explanation
Indices: 38624524--38624693 Score: 268
Period size: 93 Copynumber: 1.8 Consensus size: 92
38624514 GCCCCTAAGT
* * *
38624524 GAACTCGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAATGAACTCGGACTTAACTCAAC
1 GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
38624589 GAGTTCAGATGCCTAGTTACATCTCAC
66 GAGTTCAGATGCCTAGTTACATCTCAC
* * *
38624616 GAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTC-GACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAA
*
38624681 CGAGTTCGGATGC
65 CGAGTTCAGATGC
38624694 TCAACCATCC
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
92 6 0.09
93 64 0.91
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (92 bp):
GAACTCGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAATGAACTCGGACTCAACTCAAC
GAGTTCAGATGCCTAGTTACATCTCAC
Found at i:38624676 original size:46 final size:46
Alignment explanation
Indices: 38624519--38624690 Score: 172
Period size: 46 Copynumber: 3.7 Consensus size: 46
38624509 AACCCGCCCC
* * * *
38624519 TAAGTGAACTC-GACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
* * * * *
38624564 TAAATGAACTCGGACTTAACTCAACGAGTTCAGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC-G--GAC-ATTTGCATCCA
* * *
38624612 TCA-CGAACTCAGACTCAACTCAACGAGTTCGGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
38624657 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38624691 TGCTCAACCA
Statistics
Matches: 101, Mismatches: 18, Indels: 15
0.75 0.13 0.11
Matches are distributed among these distances:
43 6 0.06
44 3 0.03
45 12 0.12
46 46 0.46
47 25 0.25
48 2 0.02
49 3 0.03
50 4 0.04
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.23
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCA
Found at i:38629711 original size:23 final size:23
Alignment explanation
Indices: 38629685--38629728 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
38629675 CGCAAAAATA
* *
38629685 ATTAAATGTTAAATTTCATGTCT
1 ATTAAATGTGAAATTACATGTCT
*
38629708 ATTATATGTGAAATTACATGT
1 ATTAAATGTGAAATTACATGT
38629729 GTGAAATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.45
Consensus pattern (23 bp):
ATTAAATGTGAAATTACATGTCT
Found at i:38636473 original size:13 final size:13
Alignment explanation
Indices: 38636455--38636479 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
38636445 CGTGTGTAAC
38636455 ACACGGTCATGTT
1 ACACGGTCATGTT
38636468 ACACGGTCATGT
1 ACACGGTCATGT
38636480 GTCCCATGGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (13 bp):
ACACGGTCATGTT
Found at i:38645499 original size:46 final size:45
Alignment explanation
Indices: 38645432--38645602 Score: 197
Period size: 46 Copynumber: 3.8 Consensus size: 45
38645422 AACCCGCCCC
* *
38645432 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTT-GCATCCA
* *
38645478 TAAGTGAACTCGGACTCAACTCAACGAGTTCGATGCCTAGTTACAT-C-
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCG--GAC--GTTGCATCCA
* * *
38645525 TCA-CGAACTCGGACTCAACTCAACGAGTTC-GACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGAC-GTTGCATCCA
38645569 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38645603 TGCTCAACCA
Statistics
Matches: 107, Mismatches: 10, Indels: 16
0.80 0.08 0.12
Matches are distributed among these distances:
42 6 0.06
43 3 0.03
44 2 0.02
45 26 0.24
46 59 0.55
47 2 0.02
48 3 0.03
49 3 0.03
50 3 0.03
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (45 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTGCATCCA
Found at i:38645593 original size:91 final size:93
Alignment explanation
Indices: 38645437--38645605 Score: 288
Period size: 91 Copynumber: 1.8 Consensus size: 93
38645427 GCCCCTAAGT
* *
38645437 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38645502 CGAGTTC-GATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
38645529 GAACTCGGACTCAACTCAACGAGTTC-GACATTTGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
38645593 CGAGTTCGGATGC
66 CGAGTTCGGATGC
38645606 TCAACCATCC
Statistics
Matches: 72, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
91 42 0.58
92 30 0.42
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:38653025 original size:46 final size:46
Alignment explanation
Indices: 38652958--38653083 Score: 198
Period size: 46 Copynumber: 2.7 Consensus size: 46
38652948 AACCCGCCCC
* ***
38652958 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
* *
38653004 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGACATTTGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
38653050 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
38653084 TGCTCAACCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.26, G:0.21, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:38653102 original size:46 final size:45
Alignment explanation
Indices: 38652960--38653102 Score: 146
Period size: 46 Copynumber: 3.1 Consensus size: 45
38652950 CCCGCCCCTA
* * *
38652960 AGTGAACTCGGACTCAACTCAACGAGCTCGGGTGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
* ** **
38653005 AAGTGAACTCGGACTCAACTCAACGAGTTCAGACATT-TGCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCC-T
*
38653051 AAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTC-ACCATCCT
38653098 AGTGA
1 AGTGA
38653103 CATGTCACTT
Statistics
Matches: 83, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
46 77 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCACCATCCT
Found at i:38662571 original size:43 final size:42
Alignment explanation
Indices: 38662430--38662593 Score: 224
Period size: 42 Copynumber: 3.9 Consensus size: 42
38662420 TTAGGGTTAC
38662430 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
38662472 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
* *
38662514 TGAGACTTT-GTGTAAGACCATAGT-TGGGCTATTGGCATCGATA
1 TGAGA-TTTCGTGTAAGACCATA-TCTAGGATA-TGGCATCGATA
* * * * *
38662557 CGAGATTACATGTAAGACCATATCTGGGATATTGCAT
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCAT
38662594 TGGTACGGTA
Statistics
Matches: 110, Mismatches: 7, Indels: 10
0.87 0.06 0.08
Matches are distributed among these distances:
42 73 0.66
43 37 0.34
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATA
Found at i:38662572 original size:85 final size:84
Alignment explanation
Indices: 38662430--38662593 Score: 224
Period size: 85 Copynumber: 1.9 Consensus size: 84
38662420 TTAGGGTTAC
* * *
38662430 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATATGAGATTTCGTGTAAGACCATAT
1 TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATACGAGATTACATGTAAGACCATAT
38662495 CTAGGATATGGCATCGATA
66 CTAGGATATGGCATCGATA
* *
38662514 TGAGACTTT-GTGTAAGACCATAGT-TGGGCTATTGGCATCGATACGAGATTACATGTAAGACCA
1 TGAGA-TTTCGTGTAAGACCATA-TCTAGGATA-TGGCATCGATACGAGATTACATGTAAGACCA
* *
38662577 TATCTGGGATATTGCAT
63 TATCTAGGATATGGCAT
38662594 TGGTACGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 5
0.85 0.09 0.06
Matches are distributed among these distances:
84 23 0.33
85 47 0.67
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (84 bp):
TGAGATTTCGTGTAAGACCATATCTAGGATATGGCATCGATACGAGATTACATGTAAGACCATAT
CTAGGATATGGCATCGATA
Done.