Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008076.1 Hibiscus syriacus cultivar Beakdansim tig00110578_pilon, whole genome shotgun sequence
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: 1136582
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 6
Found at i:1000300 original size:75 final size:76
Alignment explanation
Indices: 1000199--1000354 Score: 305
Period size: 75 Copynumber: 2.1 Consensus size: 76
1000189 CCGTTTGTCC
1000199 ATTTTGATGTTTTTTTTTATAATTTTAACTTTGTATTATTTAATATTTATTATTAATAGAAAATA
1 ATTTTGATGTTTTTTTTTATAATTTTAACTTTGTATTATTTAATATTTATTATTAATAGAAAATA
1000264 AAGAAATATAT
66 AAGAAATATAT
1000275 ATTTTGATG-TTTTTTTTATAATTTTAACTTTGTATTATTTAATATTTATTATTAATAGAAAATA
1 ATTTTGATGTTTTTTTTTATAATTTTAACTTTGTATTATTTAATATTTATTATTAATAGAAAATA
1000339 AAGAAATATAT
66 AAGAAATATAT
1000350 ATTTT
1 ATTTT
1000355 AAAAATTCTT
Statistics
Matches: 80, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
75 71 0.89
76 9 0.11
ACGTcount: A:0.38, C:0.01, G:0.06, T:0.54
Consensus pattern (76 bp):
ATTTTGATGTTTTTTTTTATAATTTTAACTTTGTATTATTTAATATTTATTATTAATAGAAAATA
AAGAAATATAT
Found at i:1012590 original size:20 final size:20
Alignment explanation
Indices: 1012565--1012618 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
1012555 GACCAACAAA
1012565 TTCGCAACGCGAATTCCAAT
1 TTCGCAACGCGAATTCCAAT
* *
1012585 TTCGCAAC-CTAGTTTCCAAT
1 TTCGCAACGCGA-ATTCCAAT
1012605 TTCGCAACGCGAAT
1 TTCGCAACGCGAAT
1012619 ATGTAAATCG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 24 0.86
21 2 0.07
ACGTcount: A:0.28, C:0.30, G:0.15, T:0.28
Consensus pattern (20 bp):
TTCGCAACGCGAATTCCAAT
Found at i:1012655 original size:21 final size:21
Alignment explanation
Indices: 1012626--1012689 Score: 76
Period size: 21 Copynumber: 3.1 Consensus size: 21
1012616 AATATGTAAA
*
1012626 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATATTCCAAAT
*
1012647 TCGCGTTGCGATATTCCAAAT
1 TCGCATTGCGATATTCCAAAT
** *
1012668 TCGCAACGCGATAGT-CAAAT
1 TCGCATTGCGATATTCCAAAT
1012688 TC
1 TC
1012690 ACAACTGAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
20 7 0.19
21 30 0.81
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATATTCCAAAT
Found at i:1012721 original size:20 final size:20
Alignment explanation
Indices: 1012663--1012732 Score: 65
Period size: 19 Copynumber: 3.6 Consensus size: 20
1012653 TGCGATATTC
* *
1012663 CAAATTCGCAACGCG-ATAGT
1 CAAATTCGCAACGAGAAT-TT
* *
1012683 CAAATTCACAAC-TGAATTT
1 CAAATTCGCAACGAGAATTT
1012702 CAAATTCGCAACGAGAATTT
1 CAAATTCGCAACGAGAATTT
*
1012722 -AATTTCGCAAC
1 CAAATTCGCAAC
1012733 AGGTTTTAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 5
0.79 0.11 0.09
Matches are distributed among these distances:
19 23 0.55
20 19 0.45
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (20 bp):
CAAATTCGCAACGAGAATTT
Found at i:1012728 original size:19 final size:18
Alignment explanation
Indices: 1012691--1012751 Score: 59
Period size: 18 Copynumber: 3.3 Consensus size: 18
1012681 GTCAAATTCA
* *
1012691 CAACTGAATTTCAAATTCG
1 CAACAGAATTT-AATTTCG
1012710 CAACGAGAATTTAATTTCG
1 CAAC-AGAATTTAATTTCG
** *
1012729 CAACAGGTTTTAGTTTCG
1 CAACAGAATTTAATTTCG
1012747 CAACA
1 CAACA
1012752 CAAATGTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 16 0.44
19 14 0.39
20 6 0.17
ACGTcount: A:0.34, C:0.20, G:0.15, T:0.31
Consensus pattern (18 bp):
CAACAGAATTTAATTTCG
Found at i:1013492 original size:12 final size:12
Alignment explanation
Indices: 1013471--1013504 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
1013461 ACCACATTTC
*
1013471 CAATACCAAACA
1 CAATATCAAACA
1013483 CAATATCAAACA
1 CAATATCAAACA
*
1013495 CAATCTCAAA
1 CAATATCAAA
1013505 ACCCACAACC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:1013657 original size:24 final size:24
Alignment explanation
Indices: 1013630--1013683 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
1013620 GTATTCAAAA
*
1013630 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGATCAATACCCGGAC
* *
1013654 TTTGATCTTGATCAATACTCGGAT
1 TTTGATCTTGATCAATACCCGGAC
1013678 TTTGAT
1 TTTGAT
1013684 GATGTGATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGATCAATACCCGGAC
Found at i:1015969 original size:18 final size:18
Alignment explanation
Indices: 1015946--1015986 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
1015936 AGCAAAAAGG
*
1015946 AAATCAAAATCGCAATCA
1 AAATCAAAATCCCAATCA
1015964 AAATCAAAATCCCAATCA
1 AAATCAAAATCCCAATCA
*
1015982 CAATC
1 AAATC
1015987 GGCTTCACCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.54, C:0.27, G:0.02, T:0.17
Consensus pattern (18 bp):
AAATCAAAATCCCAATCA
Found at i:1016468 original size:25 final size:25
Alignment explanation
Indices: 1016430--1016479 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
1016420 AAATCAATTA
*
1016430 AACATTGTTGTGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1016455 AACATTGTTATGGGTACATTATTTG
1 AACATTGTTATGGGTACATTATTTG
1016480 GAAAAATAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.26, C:0.08, G:0.22, T:0.44
Consensus pattern (25 bp):
AACATTGTTATGGGTACATTATTTG
Found at i:1017162 original size:35 final size:35
Alignment explanation
Indices: 1017087--1017162 Score: 100
Period size: 35 Copynumber: 2.2 Consensus size: 35
1017077 AATGGCAACT
* *
1017087 AAAATCATAAGTCTGAAATGCTTCTGAGTACCATC
1 AAAATCATAAGTCCGAAATGCTTCCGAGTACCATC
* *
1017122 CAAATCATAAGTCCGAAATGCTTCCGA-TGCTCATC
1 AAAATCATAAGTCCGAAATGCTTCCGAGTAC-CATC
1017157 AAAATC
1 AAAATC
1017163 CAAAGCTCAT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 2 0.06
35 33 0.94
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (35 bp):
AAAATCATAAGTCCGAAATGCTTCCGAGTACCATC
Found at i:1017203 original size:39 final size:39
Alignment explanation
Indices: 1017154--1017240 Score: 156
Period size: 39 Copynumber: 2.2 Consensus size: 39
1017144 TCCGATGCTC
1017154 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
* *
1017193 ATCCAAATCCAAATCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1017232 ATCAAAATC
1 ATCAAAATC
1017241 TACAACTTGA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.17
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
Found at i:1017444 original size:20 final size:20
Alignment explanation
Indices: 1017415--1017454 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
1017405 ATGTTGCGAT
*
1017415 CAACGCGAAAGTTAAATTCG
1 CAACGCGAAAGTCAAATTCG
*
1017435 CAACGTGAAAGTCAAATTCG
1 CAACGCGAAAGTCAAATTCG
1017455 TAAACCGAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.40, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
CAACGCGAAAGTCAAATTCG
Found at i:1020899 original size:22 final size:22
Alignment explanation
Indices: 1020871--1020921 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
1020861 GATGGAGATA
*
1020871 GACGGATTTCGTCAGAAATGGG
1 GACGGATTTCATCAGAAATGGG
* *
1020893 GACGGATTTCATCGGAGATGGG
1 GACGGATTTCATCAGAAATGGG
1020915 GACGGAT
1 GACGGAT
1020922 GTCGCCGTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.25, C:0.14, G:0.39, T:0.22
Consensus pattern (22 bp):
GACGGATTTCATCAGAAATGGG
Found at i:1021074 original size:20 final size:20
Alignment explanation
Indices: 1021035--1021093 Score: 64
Period size: 20 Copynumber: 2.9 Consensus size: 20
1021025 TAATATTGTG
* *
1021035 TTTCGCATAAAAACATTTGAC
1 TTTCGCATTACAA-ATTTGAC
* *
1021056 TTTTGCGTTACAAATTTGAC
1 TTTCGCATTACAAATTTGAC
*
1021076 TTTCGCATTACGAATTTG
1 TTTCGCATTACAAATTTG
1021094 GAAAATCGCA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 22 0.71
21 9 0.29
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.41
Consensus pattern (20 bp):
TTTCGCATTACAAATTTGAC
Found at i:1021110 original size:21 final size:21
Alignment explanation
Indices: 1021086--1021125 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
1021076 TTTCGCATTA
1021086 CGAATTTGGAAAATCGCAACG
1 CGAATTTGGAAAATCGCAACG
1021107 CGAATTTGGAAAATCGCAA
1 CGAATTTGGAAAATCGCAA
1021126 TACGATTTAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
CGAATTTGGAAAATCGCAACG
Found at i:1021187 original size:20 final size:20
Alignment explanation
Indices: 1021138--1021191 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
1021128 CGATTTACAT
*
1021138 ATTCGCGTTACGAAATTGGA
1 ATTCGCGTTGCGAAATTGGA
* *
1021158 A-ACTGGGTTGCGAAATTGGA
1 ATTC-GCGTTGCGAAATTGGA
1021178 ATTCGCGTTGCGAA
1 ATTCGCGTTGCGAA
1021192 TTTGTTGGTC
Statistics
Matches: 27, Mismatches: 5, Indels: 4
0.75 0.14 0.11
Matches are distributed among these distances:
19 1 0.04
20 25 0.93
21 1 0.04
ACGTcount: A:0.28, C:0.15, G:0.30, T:0.28
Consensus pattern (20 bp):
ATTCGCGTTGCGAAATTGGA
Found at i:1021306 original size:22 final size:22
Alignment explanation
Indices: 1021281--1021323 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
1021271 TTTTCTCTAA
* * *
1021281 TTAAAATGTTATCTTATTTATT
1 TTAAAAAGTTATATAATTTATT
1021303 TTAAAAAGTTATATAATTTAT
1 TTAAAAAGTTATATAATTTAT
1021324 AATAATTTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (22 bp):
TTAAAAAGTTATATAATTTATT
Found at i:1030845 original size:17 final size:17
Alignment explanation
Indices: 1030811--1030862 Score: 54
Period size: 17 Copynumber: 3.2 Consensus size: 17
1030801 ACCGGACAAA
* *
1030811 TTTATTATTTTAGAGAG
1 TTTATTAATTTACAGAG
*
1030828 TTTATTAATTTACTGAG
1 TTTATTAATTTACAGAG
*
1030845 --TATTAATTTAAAGAG
1 TTTATTAATTTACAGAG
1030860 TTT
1 TTT
1030863 CTACTATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 13 0.46
17 15 0.54
ACGTcount: A:0.33, C:0.02, G:0.13, T:0.52
Consensus pattern (17 bp):
TTTATTAATTTACAGAG
Found at i:1032939 original size:19 final size:19
Alignment explanation
Indices: 1032912--1032952 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
1032902 AATATGAGAG
*
1032912 AGAAAAAATATAATAATAAT
1 AGAAAAATTA-AATAATAAT
*
1032932 AGAAAAATTAAATAATTAT
1 AGAAAAATTAAATAATAAT
1032951 AG
1 AG
1032953 TAATACAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.27
Consensus pattern (19 bp):
AGAAAAATTAAATAATAAT
Found at i:1034286 original size:2 final size:2
Alignment explanation
Indices: 1034279--1034346 Score: 127
Period size: 2 Copynumber: 33.5 Consensus size: 2
1034269 AGCCAAATTA
1034279 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1034321 AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT A-T AT A
1034347 AATAAAAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 63 0.97
3 2 0.03
ACGTcount: A:0.50, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1034750 original size:105 final size:105
Alignment explanation
Indices: 1034625--1035399 Score: 1487
Period size: 105 Copynumber: 7.4 Consensus size: 105
1034615 ATGTTGTTTC
* *
1034625 GAGTCCAATACCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATATTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
*
1034690 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
* *
1034730 GAGTCCAATATCCTTCGTTGTGAAGTTAAAATTGGCTCTGAAATTGAGAAATGTTTGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1034795 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1034835 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1034900 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
*
1034940 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGGAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1035005 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1035045 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
*
1035110 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1035150 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1035215 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1035255 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
1035320 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
66 CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
1035360 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1 GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTG
1035400 GGTAAAACCT
Statistics
Matches: 659, Mismatches: 11, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
105 659 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.33
Consensus pattern (105 bp):
GAGTCCAATATCCTTCGTTGTGAAGTTGAAATTGGCTCTGAAATTGAGAAATGTTCGTTGACAAC
CAGCGGTCCCTTCGTCGTGAAGTTGAACTTACGTTGTCTG
Found at i:1036216 original size:47 final size:48
Alignment explanation
Indices: 1036143--1036234 Score: 132
Period size: 47 Copynumber: 1.9 Consensus size: 48
1036133 TTTTTCTCTT
* ** *
1036143 TTTTCTTTTTTCAATTTAGGGTGCCCTTTCGGGTTTTCACCCTAAACA
1 TTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACA
*
1036191 TTTT-TTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCATCCTAA
1 TTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAA
1036235 GCGAAGTATT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
47 35 0.90
48 4 0.10
ACGTcount: A:0.16, C:0.24, G:0.14, T:0.46
Consensus pattern (48 bp):
TTTTCTTTTTTCAACTTAGGACGCCCTCTCGGGTTTTCACCCTAAACA
Found at i:1045644 original size:10 final size:10
Alignment explanation
Indices: 1045629--1045653 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1045619 AGTAAAATAG
1045629 AAATAGATAA
1 AAATAGATAA
1045639 AAATAGATAA
1 AAATAGATAA
1045649 AAATA
1 AAATA
1045654 AATGGTAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.72, C:0.00, G:0.08, T:0.20
Consensus pattern (10 bp):
AAATAGATAA
Found at i:1047010 original size:19 final size:21
Alignment explanation
Indices: 1046975--1047015 Score: 59
Period size: 19 Copynumber: 2.0 Consensus size: 21
1046965 GAGAGAGAGG
1046975 GAAAAATATATAATAATAATA
1 GAAAAATATATAATAATAATA
*
1046996 GAAAAAT-TA-AATAATTATA
1 GAAAAATATATAATAATAATA
1047015 G
1 G
1047016 TAATACAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
19 10 0.53
20 2 0.11
21 7 0.37
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
GAAAAATATATAATAATAATA
Found at i:1048350 original size:2 final size:2
Alignment explanation
Indices: 1048343--1048372 Score: 51
Period size: 2 Copynumber: 14.5 Consensus size: 2
1048333 AGCCAAATTA
1048343 AT AT AT AT AT AT AT AT AT AT AT AT ACT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A-T AT A
1048373 AATAAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 25 0.93
3 2 0.07
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:1049717 original size:18 final size:18
Alignment explanation
Indices: 1049693--1049729 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
1049683 TTTAAAGATT
*
1049693 TTTTTAATAATAATTTTAA
1 TTTTAAATAA-AATTTTAA
1049712 TTTTAAATAAAATTTTAA
1 TTTTAAATAAAATTTTAA
1049730 AAATTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTAAATAAAATTTTAA
Found at i:1058946 original size:48 final size:48
Alignment explanation
Indices: 1058875--1058992 Score: 182
Period size: 48 Copynumber: 2.5 Consensus size: 48
1058865 CAGCACTCCG
* * *
1058875 AGCACATCCTCCCGGAAGACAAGAATCCGACAACACAAGTAAAGTTCT
1 AGCACCTCCTCCCGGAAGACAAGAATCCGACAACACAACTAAAGGTCT
* *
1058923 AGCACCTCCTCTCGGGAGACAAGAATCCGACAACACAACTAAAGGTCT
1 AGCACCTCCTCCCGGAAGACAAGAATCCGACAACACAACTAAAGGTCT
*
1058971 AGCACCTCCTCCTGGAAGACAA
1 AGCACCTCCTCCCGGAAGACAA
1058993 TTCTGACAAC
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
48 62 1.00
ACGTcount: A:0.36, C:0.31, G:0.18, T:0.14
Consensus pattern (48 bp):
AGCACCTCCTCCCGGAAGACAAGAATCCGACAACACAACTAAAGGTCT
Found at i:1060838 original size:163 final size:163
Alignment explanation
Indices: 1060566--1060893 Score: 583
Period size: 163 Copynumber: 2.0 Consensus size: 163
1060556 ATATATTGTA
1060566 AAAAAAAACCAAATTAATGATATATTTATTTATTAATTTTACTATTAAAGTTTGTAATTTAAATT
1 AAAAAAAACCAAATTAATGA-ATATTTATTTATTAATTTTACTATTAAAGTTTGTAATTTAAATT
1060631 TTATTTGTCTTAGTTTAAATTTTTATACGTTATATATATTTTTAAATAAATTGAG-AAACAATCT
65 TTATTTGTCTTAGTTTAAATTTTTATACGTTATATATATTTTTAAATAAATTGAGAAAACAATCT
1060695 GAGTTATATGATCTTCTGTAATTTATCTATGATTTT
130 GAGTTATATGATCTTCTGTAA-TT-TCTATGATTTT
1060731 AAAAAAAACCAAATTAATG-ATATTTATTTATTAATTTTACTATTAAAGTTTGTAATTTAAATTT
1 AAAAAAAACCAAATTAATGAATATTTATTTATTAATTTTACTATTAAAGTTTGTAATTTAAATTT
1060795 TATTTGTCTTAGTTTAAAATTTTTATTACG-T-TATATATTTTTAAATAAATTGAGAAAACAATC
66 TATTTGTCTTAGTTT-AAATTTTTA-TACGTTATATATATTTTTAAATAAATTGAGAAAACAATC
1060858 TGAGTTATATGATCTTCTGTAATTTCTATGATTTT
129 TGAGTTATATGATCTTCTGTAATTTCTATGATTTT
1060893 A
1 A
1060894 GGGTTTAAAA
Statistics
Matches: 160, Mismatches: 0, Indels: 9
0.95 0.00 0.05
Matches are distributed among these distances:
162 12 0.08
163 85 0.53
164 40 0.25
165 23 0.14
ACGTcount: A:0.38, C:0.06, G:0.08, T:0.48
Consensus pattern (163 bp):
AAAAAAAACCAAATTAATGAATATTTATTTATTAATTTTACTATTAAAGTTTGTAATTTAAATTT
TATTTGTCTTAGTTTAAATTTTTATACGTTATATATATTTTTAAATAAATTGAGAAAACAATCTG
AGTTATATGATCTTCTGTAATTTCTATGATTTT
Found at i:1077820 original size:224 final size:224
Alignment explanation
Indices: 1077430--1077882 Score: 870
Period size: 224 Copynumber: 2.0 Consensus size: 224
1077420 TTGACAAAAT
1077430 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
1 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
*
1077495 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGTATTGCC
66 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
*
1077560 GTTCGACCACTTTGATGATGAAGATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
131 GTTCGACCACTTTGATGATGAAAATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
1077625 CTCAAGTAAGTCGTACTACCCTTAGAAGA
196 CTCAAGTAAGTCGTACTACCCTTAGAAGA
*
1077654 CATGCAAGGCACTTCGCTCAAGATTGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
1 CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
1077719 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
66 TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
1077784 GTTCGACCACTTTGATGATGAAAATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
131 GTTCGACCACTTTGATGATGAAAATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
1077849 CTCAAGTAAGTCGTACTACCCTTAGAAGA
196 CTCAAGTAAGTCGTACTACCCTTAGAAGA
*
1077878 GATGC
1 CATGC
1077883 TATAAAAATG
Statistics
Matches: 225, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
224 225 1.00
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (224 bp):
CATGCAAGGCACTTCGCTCAAGATCGGATCCTAGTCAATCGAATCTTACACCGCAAGGTGGTGTT
TTTGTTTACGACAACGAAAAATTACGAGAAGCGTTTACAAAGTTCGTGATTACAAAAGCATTGCC
GTTCGACCACTTTGATGATGAAAATTTCACGACAACAATTCAACAACTAATGCAACCACGTTATA
CTCAAGTAAGTCGTACTACCCTTAGAAGA
Found at i:1079558 original size:21 final size:21
Alignment explanation
Indices: 1079534--1079573 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1079524 TTTATTTTAT
1079534 AACTTTATTTCAATTATCGTA
1 AACTTTATTTCAATTATCGTA
*
1079555 AACTTTGTTTCAATTATCG
1 AACTTTATTTCAATTATCG
1079574 AACTTGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.30, C:0.15, G:0.07, T:0.47
Consensus pattern (21 bp):
AACTTTATTTCAATTATCGTA
Found at i:1079622 original size:33 final size:32
Alignment explanation
Indices: 1079568--1079658 Score: 146
Period size: 33 Copynumber: 2.8 Consensus size: 32
1079558 TTTGTTTCAA
1079568 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
1079600 TTATCGAACTTGAAAGTTTTTAAGTATTTGAAT
1 TTATCGAACTTG-AAGTTTTTAAGTATTTGAAT
* *
1079633 TTATCAAACTTGGAAGTATTTAAGTA
1 TTATCGAACTT-GAAGTTTTTAAGTA
1079659 ATTCAATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 3
0.92 0.03 0.05
Matches are distributed among these distances:
32 12 0.22
33 42 0.76
34 1 0.02
ACGTcount: A:0.34, C:0.07, G:0.15, T:0.44
Consensus pattern (32 bp):
TTATCGAACTTGAAGTTTTTAAGTATTTGAAT
Found at i:1079695 original size:13 final size:13
Alignment explanation
Indices: 1079677--1079706 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1079667 ATGTTGAGTT
1079677 AATTAAGTATTTC
1 AATTAAGTATTTC
*
1079690 AATTAAGTATTTG
1 AATTAAGTATTTC
1079703 AATT
1 AATT
1079707 TATCGAACTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.47
Consensus pattern (13 bp):
AATTAAGTATTTC
Found at i:1079928 original size:21 final size:21
Alignment explanation
Indices: 1079902--1079958 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
1079892 TGGAGCATGG
*
1079902 GGGAATCGGTACCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
*
1079923 GGGAATCGGTTTCCTCTCATA
1 GGGAATCGGTTCCCTCTCATA
1079944 GGGAATCGGTTCCCT
1 GGGAATCGGTTCCCT
1079959 AAATGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 33 1.00
ACGTcount: A:0.19, C:0.26, G:0.26, T:0.28
Consensus pattern (21 bp):
GGGAATCGGTTCCCTCTCATA
Found at i:1080152 original size:15 final size:15
Alignment explanation
Indices: 1080127--1080165 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1080117 ATCTGGAATA
*
1080127 TTAAAATCGGTTTTT
1 TTAAAACCGGTTTTT
*
1080142 TTATAACCGGTTTTT
1 TTAAAACCGGTTTTT
1080157 TTAAAACCG
1 TTAAAACCG
1080166 AAACCGATTA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.28, C:0.13, G:0.13, T:0.46
Consensus pattern (15 bp):
TTAAAACCGGTTTTT
Found at i:1080282 original size:15 final size:17
Alignment explanation
Indices: 1080256--1080287 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
1080246 TTCTATGGGA
1080256 AAAAACCGGAT-CGGAT
1 AAAAACCGGATCCGGAT
1080272 AAAAACC-GATCCGGAT
1 AAAAACCGGATCCGGAT
1080288 CGGATTGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 3 0.20
16 12 0.80
ACGTcount: A:0.44, C:0.22, G:0.22, T:0.12
Consensus pattern (17 bp):
AAAAACCGGATCCGGAT
Found at i:1085968 original size:34 final size:33
Alignment explanation
Indices: 1085930--1086013 Score: 96
Period size: 34 Copynumber: 2.5 Consensus size: 33
1085920 TTGATATCTC
* * **
1085930 AAACCAGAATTCATTCTCTTTAATTTCCAAATTG
1 AAACCAAAATTC-TTCTCTTCAATACCCAAATTG
*
1085964 AAACCAAAATTTCTTCTCTTCGATACCCAAATTG
1 AAACCAAAA-TTCTTCTCTTCAATACCCAAATTG
1085998 AAACCAAAATTTCTTC
1 AAACCAAAA-TTCTTC
1086014 GATGTCCTAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
34 41 0.93
35 3 0.07
ACGTcount: A:0.37, C:0.24, G:0.05, T:0.35
Consensus pattern (33 bp):
AAACCAAAATTCTTCTCTTCAATACCCAAATTG
Found at i:1087756 original size:2 final size:2
Alignment explanation
Indices: 1087749--1087774 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1087739 AATTAATGTG
1087749 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
1087775 CCCCTAAGGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1093659 original size:57 final size:58
Alignment explanation
Indices: 1093592--1093700 Score: 186
Period size: 57 Copynumber: 1.9 Consensus size: 58
1093582 CTAGTGGAAA
*
1093592 TACCTAATTTTCCAATATTCAATGAGCA-TTACCT-ATTTTCCAATAATCAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGACCATTTACCTAATTTTCCAAT-ATCAATGAGCAT
1093649 TACCTAATTTTCCAATATTCAATGACCATTTACCTAATTTTCCAATATCAAT
1 TACCTAATTTTCCAATATTCAATGACCATTTACCTAATTTTCCAATATCAAT
1093701 ATTCAATGAG
Statistics
Matches: 49, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
57 27 0.55
58 12 0.24
59 10 0.20
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (58 bp):
TACCTAATTTTCCAATATTCAATGACCATTTACCTAATTTTCCAATATCAATGAGCAT
Found at i:1093670 original size:29 final size:29
Alignment explanation
Indices: 1093592--1093700 Score: 177
Period size: 29 Copynumber: 3.8 Consensus size: 29
1093582 CTAGTGGAAA
1093592 TACCTAATTTTCCAATATTCAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGAGCAT
*
1093621 TACCT-ATTTTCCAATAATCAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGAGCAT
*
1093649 TACCTAATTTTCCAATATTCAATGACCATT
1 TACCTAATTTTCCAATATTCAATGAGCA-T
1093679 TACCTAATTTTCCAATA-TCAAT
1 TACCTAATTTTCCAATATTCAAT
1093701 ATTCAATGAG
Statistics
Matches: 75, Mismatches: 3, Indels: 4
0.91 0.04 0.05
Matches are distributed among these distances:
28 27 0.36
29 30 0.40
30 18 0.24
ACGTcount: A:0.35, C:0.22, G:0.05, T:0.39
Consensus pattern (29 bp):
TACCTAATTTTCCAATATTCAATGAGCAT
Found at i:1094305 original size:31 final size:31
Alignment explanation
Indices: 1094270--1094363 Score: 179
Period size: 31 Copynumber: 3.0 Consensus size: 31
1094260 AATTCGGTGA
*
1094270 ATTCAATATGTCCTTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
1094301 ATTCAATATGTCATTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
1094332 ATTCAATATGTCATTCTCACTAGGAACTCCC
1 ATTCAATATGTCATTCTCACTAGGAACTCCC
1094363 A
1 A
1094364 AACTCTTAGG
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 62 1.00
ACGTcount: A:0.29, C:0.30, G:0.10, T:0.32
Consensus pattern (31 bp):
ATTCAATATGTCATTCTCACTAGGAACTCCC
Found at i:1098926 original size:29 final size:29
Alignment explanation
Indices: 1098850--1099046 Score: 353
Period size: 29 Copynumber: 6.8 Consensus size: 29
1098840 CTAGTGGAAA
*
1098850 TACCTAATTTTCCAATATTAAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGAGCAT
1098879 TACCT-ATTTTCCAATATTCAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGAGCAT
1098907 TACCTAATTTTCCAATATTCAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGAGCAT
1098936 TACCTAATTTTCCAATATTCAATGAGCATT
1 TACCTAATTTTCCAATATTCAATGAGCA-T
1098966 TACCTAATTTTCCAATATTCAATGAGCAT
1 TACCTAATTTTCCAATATTCAATGAGCAT
1098995 TACCTAATTTTCCAATATTCAATGAGCATT
1 TACCTAATTTTCCAATATTCAATGAGCA-T
1099025 TACCTAATTTTCCAATA-TCAAT
1 TACCTAATTTTCCAATATTCAAT
1099047 ATTCAATGAG
Statistics
Matches: 164, Mismatches: 1, Indels: 6
0.96 0.01 0.04
Matches are distributed among these distances:
28 27 0.16
29 90 0.55
30 47 0.29
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (29 bp):
TACCTAATTTTCCAATATTCAATGAGCAT
Found at i:1098988 original size:59 final size:59
Alignment explanation
Indices: 1098850--1099046 Score: 364
Period size: 59 Copynumber: 3.4 Consensus size: 59
1098840 CTAGTGGAAA
*
1098850 TACCTAATTTTCCAATATTAAATGAGCATTACCT-ATTTTCCAATATTCAATGAGCA-T
1 TACCTAATTTTCCAATATTCAATGAGCATTACCTAATTTTCCAATATTCAATGAGCATT
1098907 TACCTAATTTTCCAATATTCAATGAGCATTACCTAATTTTCCAATATTCAATGAGCATT
1 TACCTAATTTTCCAATATTCAATGAGCATTACCTAATTTTCCAATATTCAATGAGCATT
1098966 TACCTAATTTTCCAATATTCAATGAGCATTACCTAATTTTCCAATATTCAATGAGCATT
1 TACCTAATTTTCCAATATTCAATGAGCATTACCTAATTTTCCAATATTCAATGAGCATT
1099025 TACCTAATTTTCCAATA-TCAAT
1 TACCTAATTTTCCAATATTCAAT
1099047 ATTCAATGAG
Statistics
Matches: 137, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
57 33 0.24
58 27 0.20
59 77 0.56
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (59 bp):
TACCTAATTTTCCAATATTCAATGAGCATTACCTAATTTTCCAATATTCAATGAGCATT
Found at i:1099000 original size:88 final size:87
Alignment explanation
Indices: 1098850--1099046 Score: 353
Period size: 88 Copynumber: 2.3 Consensus size: 87
1098840 CTAGTGGAAA
*
1098850 TACCTAATTTTCCAATATTAAATGAGCATTACCTATTTTCCAATATTCAATGAGCATTACCTAAT
1 TACCTAATTTTCCAATATTCAATGAGCATTACCTATTTTCCAATATTCAATGAGCATTACCTAAT
1098915 TTTCCAATATTCAATGAGCA-T
66 TTTCCAATATTCAATGAGCATT
1098936 TACCTAATTTTCCAATATTCAATGAGCATTTACCTAATTTTCCAATATTCAATGAGCATTACCTA
1 TACCTAATTTTCCAATATTCAATGAGCA-TTACCT-ATTTTCCAATATTCAATGAGCATTACCTA
1099001 ATTTTCCAATATTCAATGAGCATT
64 ATTTTCCAATATTCAATGAGCATT
1099025 TACCTAATTTTCCAATA-TCAAT
1 TACCTAATTTTCCAATATTCAAT
1099047 ATTCAATGAG
Statistics
Matches: 107, Mismatches: 1, Indels: 4
0.96 0.01 0.04
Matches are distributed among these distances:
86 27 0.25
87 6 0.06
88 56 0.52
89 18 0.17
ACGTcount: A:0.35, C:0.20, G:0.06, T:0.39
Consensus pattern (87 bp):
TACCTAATTTTCCAATATTCAATGAGCATTACCTATTTTCCAATATTCAATGAGCATTACCTAAT
TTTCCAATATTCAATGAGCATT
Found at i:1118957 original size:5 final size:5
Alignment explanation
Indices: 1118944--1118976 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
1118934 AAGGAAAAAG
*
1118944 AAACG AAACA AAACA AAACA AAACA AAACA AAA
1 AAACA AAACA AAACA AAACA AAACA AAACA AAA
1118977 AGGTCCTCTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.79, C:0.18, G:0.03, T:0.00
Consensus pattern (5 bp):
AAACA
Found at i:1126545 original size:3 final size:3
Alignment explanation
Indices: 1126537--1126566 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
1126527 TAAGTAATAT
1126537 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1126567 AAGTTAAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:1128979 original size:63 final size:63
Alignment explanation
Indices: 1128880--1129008 Score: 258
Period size: 63 Copynumber: 2.0 Consensus size: 63
1128870 ATGAGCCGCC
1128880 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGGACTTTTGGGTTCT
1 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGGACTTTTGGGTTCT
1128943 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGGACTTTTGGGTTCT
1 ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGGACTTTTGGGTTCT
1129006 ACT
1 ACT
1129009 TTGGACGTCG
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (63 bp):
ACTAAGTAGATTCCCCATGCAATGTAGAATATTTCACCTTTGTCTAAGGGACTTTTGGGTTCT
Found at i:1130189 original size:71 final size:71
Alignment explanation
Indices: 1130043--1130241 Score: 341
Period size: 70 Copynumber: 2.8 Consensus size: 71
1130033 CATTCATTCA
* * * *
1130043 TTCATTTACACTAACATTCCCCTTGCAACCTTCATCTTCAAACCTCCTTCAAAACTC-AATTGAA
1 TTCATTTACACTAACATTCCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAAACTCAAATTGAA
1130107 CTAATG
66 CTAATG
1130113 TTCATTTACACTAACATTCCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAAACTCAAATTGAA
1 TTCATTTACACTAACATTCCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAAACTCAAATTGAA
1130178 CTAATG
66 CTAATG
1130184 TTCATTTACACTAACATTCCCCCTGCAATC-TCAACTTCAAACCTTCTTC-AAACTCAAA
1 TTCATTTACACTAACATTCCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAAACTCAAA
1130242 CTGATCTGCT
Statistics
Matches: 124, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
69 9 0.07
70 72 0.58
71 43 0.35
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (71 bp):
TTCATTTACACTAACATTCCCCCTGCAATCTTCAACTTCAAACCTTCTTCAAAACTCAAATTGAA
CTAATG
Done.