Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A01
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: 115637255
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5450143 characters in sequence are not A, C, G, or T
File 95 of 349
Found at i:29358699 original size:30 final size:31
Alignment explanation
Indices: 29358618--29358700 Score: 143
Period size: 31 Copynumber: 2.7 Consensus size: 31
29358608 TCAGTCTCGA
29358618 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
29358648 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
29358679 CATATCACT-GGCCAAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
29358701 ACTGTAAGCG
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 17 0.33
31 34 0.67
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:29358948 original size:25 final size:25
Alignment explanation
Indices: 29358920--29358989 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
29358910 CTCTTTTAAT
* *
29358920 AACTGGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
29358945 AACTGGGGCAAAGCCCTTCTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
* *
29358970 AACTAGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
29358990 AGCACTTCCT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:29359898 original size:27 final size:27
Alignment explanation
Indices: 29359868--29359953 Score: 102
Period size: 27 Copynumber: 3.1 Consensus size: 27
29359858 GTAAATCTAC
*
29359868 AAACCAAGGGTATTTCAATAATTTTGT
1 AAACCAAGGGTATTTCTATAATTTTGT
* *
29359895 AAACAAATGGTATTTCTATAATTTT-T
1 AAACCAAGGGTATTTCTATAATTTTGT
*
29359921 AAAAAGTCAAGGGTATTTCTATAATTTTGT
1 --AAA-CCAAGGGTATTTCTATAATTTTGT
29359951 AAA
1 AAA
29359954 TTAGGGGTAT
Statistics
Matches: 49, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
26 1 0.02
27 22 0.45
28 6 0.12
29 19 0.39
30 1 0.02
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.40
Consensus pattern (27 bp):
AAACCAAGGGTATTTCTATAATTTTGT
Found at i:29359939 original size:29 final size:28
Alignment explanation
Indices: 29359872--29359953 Score: 105
Period size: 29 Copynumber: 2.9 Consensus size: 28
29359862 ATCTACAAAC
* *
29359872 CAAGGGTATTTCAATAATTTTGTAAACA
1 CAAGGGTATTTCTATAATTTTGTAAAAA
*
29359900 -AATGGTATTTCTATAATTTT-TAAAAA
1 CAAGGGTATTTCTATAATTTTGTAAAAA
29359926 GTCAAGGGTATTTCTATAATTTTGTAAA
1 --CAAGGGTATTTCTATAATTTTGTAAA
29359954 TTAGGGGTAT
Statistics
Matches: 46, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
26 5 0.11
27 18 0.39
29 19 0.41
30 4 0.09
ACGTcount: A:0.38, C:0.07, G:0.13, T:0.41
Consensus pattern (28 bp):
CAAGGGTATTTCTATAATTTTGTAAAAA
Found at i:29359972 original size:27 final size:27
Alignment explanation
Indices: 29359955--29360053 Score: 121
Period size: 27 Copynumber: 3.7 Consensus size: 27
29359945 TTTTGTAAAT
*
29359955 TAGGGGTATTTTGGTAATTCTACAAA-
1 TAGGGGTATTTTGGTAATTTTACAAAC
* * *
29359981 TTGAGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
* *
29360008 CAGTGGTATTTTGGTAATTTTAC-AAC
1 TAGGGGTATTTTGGTAATTTTACAAAC
29360034 TAGGGGGTATTTTGGTAATT
1 TA-GGGGTATTTTGGTAATT
29360054 CTACCCTATA
Statistics
Matches: 61, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 26 0.43
27 35 0.57
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTACAAAC
Found at i:29360067 original size:27 final size:26
Alignment explanation
Indices: 29359955--29360072 Score: 119
Period size: 27 Copynumber: 4.4 Consensus size: 26
29359945 TTTTGTAAAT
29359955 TAGGGGTATTTTGGTAATTCTACAAA
1 TAGGGGTATTTTGGTAATTCTACAAA
* * * *
29359981 TTGAGGTATTTCGGTAATTTTACAAA
1 TAGGGGTATTTTGGTAATTCTACAAA
* * * *
29360007 CCAGTGGTATTTTGGTAATTTTACAAC
1 -TAGGGGTATTTTGGTAATTCTACAAA
**
29360034 TAGGGGGTATTTTGGTAATTCTACCCTA
1 TA-GGGGTATTTTGGTAATTCTA-CAAA
29360062 TAGGGGTATTT
1 TAGGGGTATTT
29360073 CAGTAATTTC
Statistics
Matches: 74, Mismatches: 15, Indels: 5
0.79 0.16 0.05
Matches are distributed among these distances:
26 23 0.31
27 48 0.65
28 3 0.04
ACGTcount: A:0.26, C:0.10, G:0.23, T:0.41
Consensus pattern (26 bp):
TAGGGGTATTTTGGTAATTCTACAAA
Found at i:29360072 original size:54 final size:53
Alignment explanation
Indices: 29359955--29360057 Score: 125
Period size: 53 Copynumber: 1.9 Consensus size: 53
29359945 TTTTGTAAAT
* * *
29359955 TAGGGGTATTTTGGTAATTCTACAAATTGAGGTATTTCGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTACAAATGGAGGTATTTCGGTAATTCTACAAAC
* * * * *
29360008 CAGTGGTATTTTGGTAATTTTACAACTAGGGGGTATTTTGGTAATTCTAC
1 TAGGGGTATTTTGGTAATTTTACAAAT-GGAGGTATTTCGGTAATTCTAC
29360058 CCTATAGGGG
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
53 23 0.56
54 18 0.44
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (53 bp):
TAGGGGTATTTTGGTAATTTTACAAATGGAGGTATTTCGGTAATTCTACAAAC
Found at i:29360122 original size:27 final size:27
Alignment explanation
Indices: 29360085--29360149 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
29360075 GTAATTTCAC
* * ** *
29360085 AATCGAAGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATCCTATA
*
29360112 AATCGAGGGTAAAATAGTAATCCTATA
1 AATCGAGGGTAAAACAGTAATCCTATA
29360139 AATCGAGGGTA
1 AATCGAGGGTA
29360150 CTTTTGTAAT
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.42, C:0.09, G:0.23, T:0.26
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATCCTATA
Found at i:29362405 original size:40 final size:40
Alignment explanation
Indices: 29362350--29362566 Score: 273
Period size: 40 Copynumber: 5.5 Consensus size: 40
29362340 CGGATGATAA
* *
29362350 CCGGGCTAAGTCCCGAAGGCATTTGCT-CTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTA-TAT
*
29362390 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
29362430 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
29362470 CCGGGCTAAGT-CCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
29362509 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
29362549 CC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
29362567 TACCTGGCTT
Statistics
Matches: 159, Mismatches: 14, Indels: 9
0.87 0.08 0.05
Matches are distributed among these distances:
39 54 0.34
40 105 0.66
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:29362524 original size:79 final size:80
Alignment explanation
Indices: 29362350--29362566 Score: 273
Period size: 79 Copynumber: 2.7 Consensus size: 80
29362340 CGGATGATAA
* *
29362350 CCGGGCTAAGTCCCGAAGGCATTTGCT-CTAGTGACTAGT-TCCGGGCTAAGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTTG-TGCGAGTTACTA-TATCCGGGCTAAGTCCCGAAGGCATT
* *
29362413 TGTGCTAGTTACTATAT
64 TGTGCGAGTTACTACAT
* *
29362430 CCGGGTTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGT-CCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
29362494 TGCGAGTTACTACAT
66 TGCGAGTTACTACAT
* * * * *
29362509 CCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
29362567 TACCTGGCTT
Statistics
Matches: 120, Mismatches: 13, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
78 8 0.07
79 69 0.57
80 43 0.36
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.26
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTTACTACAT
Found at i:29366074 original size:24 final size:25
Alignment explanation
Indices: 29366047--29366123 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
29366037 GCCTAGCCTC
*
29366047 TTTTAAT-AACTGGGGTAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
*
29366071 TTTTGATAAACTGGGGCAAAGCCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
* *** * *
29366096 TCTCGGTAAACTGGGGCATAGTCCT
1 TTTTAATAAACTGGGGCAAAGCCCT
29366121 TTT
1 TTT
29366124 AGCACTTCCT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 6 0.14
25 38 0.86
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.32
Consensus pattern (25 bp):
TTTTAATAAACTGGGGCAAAGCCCT
Found at i:29366082 original size:25 final size:25
Alignment explanation
Indices: 29366054--29366113 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
29366044 CTCTTTTAAT
* * *
29366054 AACTGGGGTAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTCTCGATA
*
29366079 AACTGGGGCAAAGCCCTTCTCGGTA
1 AACTGGGGCAAAGCCCTTCTCGATA
29366104 AACTGGGGCA
1 AACTGGGGCA
29366114 TAGTCCTTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTCTCGATA
Found at i:29367034 original size:27 final size:27
Alignment explanation
Indices: 29367004--29367166 Score: 82
Period size: 27 Copynumber: 6.0 Consensus size: 27
29366994 GTAAATCTAC
*
29367004 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTAT
* *
29367031 AAACCAATGGTATTTCTA-TAATTTTTTAG
1 AAACCAAGGGTATTTC-AGTAA--TTTTAT
** *
29367060 AAAGTTAAGGGTATTTCTA-TAATTTTGT
1 AAA-CCAAGGGTATTTC-AGTAATTTTAT
** ** *
29367088 AAA-TTAGGGTATTTTGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
*** * *
29367114 AAATTGAGGGTATTTCGGTAATTTTAC
1 AAACCAAGGGTATTTCAGTAATTTTAT
**
29367141 AAACC-AGTGGTATTTTTGTAATTTTA
1 AAACCAAG-GGTATTTCAGTAATTTTA
29367167 CAACTAGGGG
Statistics
Matches: 110, Mismatches: 19, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
26 22 0.20
27 58 0.53
28 8 0.07
29 7 0.06
30 15 0.14
ACGTcount: A:0.32, C:0.07, G:0.17, T:0.44
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTAT
Found at i:29367187 original size:26 final size:26
Alignment explanation
Indices: 29367094--29367189 Score: 120
Period size: 27 Copynumber: 3.6 Consensus size: 26
29367084 TTGTAAATTA
* *
29367094 GGGTATTTTGGTAATTTTACAAATTG
1 GGGTATTTTGGTAATTTTACAACTAG
* *
29367120 AGGGTATTTCGGTAATTTTACAAACCAG
1 -GGGTATTTTGGTAATTTTAC-AACTAG
* *
29367148 TGGTATTTTTGTAATTTTACAACTAG
1 GGGTATTTTGGTAATTTTACAACTAG
29367174 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
29367190 CTACCGTATA
Statistics
Matches: 58, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
26 19 0.33
27 36 0.62
28 3 0.05
ACGTcount: A:0.27, C:0.07, G:0.22, T:0.44
Consensus pattern (26 bp):
GGGTATTTTGGTAATTTTACAACTAG
Found at i:29367258 original size:27 final size:27
Alignment explanation
Indices: 29367221--29367339 Score: 121
Period size: 27 Copynumber: 4.4 Consensus size: 27
29367211 GTAATTTCAC
* * *
29367221 AATCGACGGTAAAATGGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *
29367248 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAATAGTAATTTTATA
*
29367275 AATCGAGGGTAAAATAGTAATTCTATA
1 AATCGAGGGTAAAATAGTAATTTTATA
* *** * *
29367302 AATAGAGGGTACTTTGGTAATTTTACA
1 AATCGAGGGTAAAATAGTAATTTTATA
*
29367329 AGTCGAGGGTA
1 AATCGAGGGTA
29367340 TTTCTGTAAT
Statistics
Matches: 77, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.38, C:0.08, G:0.24, T:0.31
Consensus pattern (27 bp):
AATCGAGGGTAAAATAGTAATTTTATA
Found at i:29370147 original size:46 final size:46
Alignment explanation
Indices: 29370092--29370241 Score: 180
Period size: 46 Copynumber: 3.3 Consensus size: 46
29370082 GAGTGCTAGA
* * *
29370092 GTAAGACATGTTTGGGACATGCATCAGGCTCGAGACGTAAGCCAGT
1 GTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTAAGCCAGT
* *
29370138 GTAAGACATGTCTAGGACATGTATCAGCCTCGAGACGTAAGCTAGT
1 GTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTAAGCCAGT
* * * *
29370184 GTAAGACATATCTAGGACATGCATCTG-CTACGAGA--TATGTCAGT
1 GTAAGACATGTCTAGGACATGCATCAGCCT-CGAGACGTAAGCCAGT
29370228 GTAAGACTATGTCT
1 GTAAGAC-ATGTCT
29370242 GGGATATAGA
Statistics
Matches: 90, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
44 13 0.14
45 7 0.08
46 70 0.78
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.25
Consensus pattern (46 bp):
GTAAGACATGTCTAGGACATGCATCAGCCTCGAGACGTAAGCCAGT
Found at i:29371064 original size:21 final size:20
Alignment explanation
Indices: 29371038--29371077 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
29371028 GATTTAATGG
*
29371038 CTACACATGCGTGTTGCCCTT
1 CTACACAGGCGTG-TGCCCTT
*
29371059 CTACACGGGCGTGTGCCCT
1 CTACACAGGCGTGTGCCCT
29371078 GTTCTAGAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.12, C:0.35, G:0.25, T:0.28
Consensus pattern (20 bp):
CTACACAGGCGTGTGCCCTT
Found at i:29376941 original size:47 final size:47
Alignment explanation
Indices: 29376890--29377399 Score: 853
Period size: 47 Copynumber: 10.7 Consensus size: 47
29376880 TTAGGATTCT
* *
29376890 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
29376937 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29376984 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29377031 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29377080 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29377127 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29377174 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29377223 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29377272 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
** * * *
29377319 ATGTGATGAATGTGAAAGTGTATATATGTGA-CGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
29377365 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29377400 TCCCGAAGGG
Statistics
Matches: 445, Mismatches: 12, Indels: 12
0.95 0.03 0.03
Matches are distributed among these distances:
46 39 0.09
47 263 0.59
49 143 0.32
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29377069 original size:143 final size:143
Alignment explanation
Indices: 29376911--29377399 Score: 867
Period size: 143 Copynumber: 3.4 Consensus size: 143
29376901 GTGAACATGC
29376911 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
29376976 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
29377041 TGTGAAAGTGTAT
131 TGTGAAAGTGTAT
29377054 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
29377119 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
66 AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
29377184 TGTGAAAGTGTAT
131 TGTGAAAGTGTAT
29377197 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGC
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGC
29377262 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64 CTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
29377327 AATGTGAAAGTG--T
129 AATGTGAAAGTGTAT
** * * * * * *
29377340 ATATATGTGA-CGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29377400 TCCCGAAGGG
Statistics
Matches: 336, Mismatches: 8, Indels: 7
0.96 0.02 0.02
Matches are distributed among these distances:
140 14 0.04
142 28 0.08
143 200 0.60
145 94 0.28
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (143 bp):
ATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAA
TGTGAAAGTGTAT
Found at i:29377110 original size:96 final size:94
Alignment explanation
Indices: 29376890--29377399 Score: 853
Period size: 96 Copynumber: 5.4 Consensus size: 94
29376880 TTAGGATTCT
* *
29376890 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
29376954 GTGTATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATGTGATAAGGCCTAATGGCCG
29376984 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
29377049 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TG--TATATATGTGATAAGGCCTAATGGCCG
29377080 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
29377145 TGTATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATGTGATAAGGCCTAATGGCCG
29377174 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
29377239 AGTGTATATATATGTGATAAGGCCTAATGGCCG
64 AGTG--TATATATGTGATAAGGCCTAATGGCCG
29377272 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
** * * *
29377337 TGTATATATGTGA-CGGGCCGAGTGGCCA
66 TGTATATATGTGATAAGGCCTAATGGCCG
* * *
29377365 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29377400 TCCCGAAGGG
Statistics
Matches: 399, Mismatches: 10, Indels: 15
0.94 0.02 0.04
Matches are distributed among these distances:
93 43 0.11
94 121 0.30
96 188 0.47
98 47 0.12
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (94 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29377573 original size:36 final size:37
Alignment explanation
Indices: 29377518--29377595 Score: 122
Period size: 36 Copynumber: 2.1 Consensus size: 37
29377508 CCGAGCTCTA
* *
29377518 AAGACCCGATGACTACGTGTGG-GATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
29377554 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
29377591 AAGAC
1 AAGAC
29377596 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
36 20 0.53
37 18 0.47
ACGTcount: A:0.24, C:0.19, G:0.31, T:0.26
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:29379053 original size:40 final size:40
Alignment explanation
Indices: 29378810--29379041 Score: 365
Period size: 40 Copynumber: 5.8 Consensus size: 40
29378800 GAGAATTGAG
29378810 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
29378850 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
*
29378890 AGTGATATATCCGGGCTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29378930 AGTGATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * **
29378970 AGAGATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29379010 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCGGGCTAAGTCCCGAAGAGCA
29379042 ATCATGCTGG
Statistics
Matches: 173, Mismatches: 19, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 173 1.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:29383017 original size:49 final size:47
Alignment explanation
Indices: 29382784--29383630 Score: 1356
Period size: 47 Copynumber: 17.7 Consensus size: 47
29382774 TTAGGATTCT
* *
29382784 ATGTGATGGATGTGAACA-TGCATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
29382831 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29382878 ATCTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29382925 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29382972 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29383021 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC-AATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
29383069 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
29383118 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29383165 ATGTGATGAATGTGAAAGTGTATCTATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29383212 ATCTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29383259 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
29383308 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
* *
29383357 ATGCGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
29383406 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCCAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
29383455 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29383502 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
29383549 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
29383596 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29383631 TCCCGAAGGG
Statistics
Matches: 768, Mismatches: 26, Indels: 12
0.95 0.03 0.01
Matches are distributed among these distances:
46 1 0.00
47 434 0.57
48 48 0.06
49 285 0.37
ACGTcount: A:0.32, C:0.10, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29383818 original size:37 final size:37
Alignment explanation
Indices: 29383749--29383827 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
29383739 CCGAGCTCTA
* * * *
29383749 AAGACCCGATGACTACGTATGGGGATTTTGTCCTGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
* *
29383786 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
29383823 AAGAC
1 AAGAC
29383828 TTTGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
Found at i:29385846 original size:13 final size:13
Alignment explanation
Indices: 29385828--29385852 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29385818 CCCCTTACAC
29385828 GGGCGTGTCACAT
1 GGGCGTGTCACAT
29385841 GGGCGTGTCACA
1 GGGCGTGTCACA
29385853 CGATCGTGTC
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
GGGCGTGTCACAT
Found at i:29398370 original size:24 final size:23
Alignment explanation
Indices: 29398337--29398381 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
29398327 TACATCAGTG
29398337 AAAGATTTCTTGA-TTAGAAGCGT
1 AAAGATTTCTTGAGTT-GAAGCGT
29398360 AAAGAGTTTCTTGAGTTGAAGC
1 AAAGA-TTTCTTGAGTTGAAGC
29398382 AGGGCAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 5 0.25
24 13 0.65
25 2 0.10
ACGTcount: A:0.33, C:0.09, G:0.24, T:0.33
Consensus pattern (23 bp):
AAAGATTTCTTGAGTTGAAGCGT
Found at i:29402551 original size:11 final size:11
Alignment explanation
Indices: 29402535--29402563 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
29402525 CAAGATAGAA
29402535 ATAATTAATTT
1 ATAATTAATTT
29402546 ATAATTAATTT
1 ATAATTAATTT
29402557 ATAATTA
1 ATAATTA
29402564 TTTTTAGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATAATTAATTT
Found at i:29407760 original size:17 final size:17
Alignment explanation
Indices: 29407738--29407770 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
29407728 AAGAAGCAAG
29407738 GAATTACTCAAGGAAAA
1 GAATTACTCAAGGAAAA
29407755 GAATTACTCAAGGAAA
1 GAATTACTCAAGGAAA
29407771 GCCGATTGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.52, C:0.12, G:0.18, T:0.18
Consensus pattern (17 bp):
GAATTACTCAAGGAAAA
Found at i:29410194 original size:46 final size:46
Alignment explanation
Indices: 29410109--29410278 Score: 141
Period size: 46 Copynumber: 3.7 Consensus size: 46
29410099 TATGAAAGCC
* * * *
29410109 AGTGTAAGACCATGTCTA-GATATTGCATCGGCATTGAGACGGGTGCT
1 AGTGTAAGA-CATGTTTAGGACA-TGCATCGGCCTCGAGACGGGTGCT
* ** *** *
29410156 AGTGTAAGACATCTCAAGGACATGCATCGGCCTCGAGACGTAAGCC
1 AGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGGGTGCT
* * *
29410202 AGTGTCAGACATGTTTGGGACATGCATCGGCCTCAAGA--GGTG-T
1 AGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGGGTGCT
29410245 CAGTGTAAGACCATGTTTAGGACATGGCATCGGC
1 -AGTGTAAGA-CATGTTTAGGACAT-GCATCGGC
29410279 ACAGATATGC
Statistics
Matches: 98, Mismatches: 21, Indels: 9
0.77 0.16 0.07
Matches are distributed among these distances:
44 9 0.09
45 13 0.13
46 64 0.65
47 12 0.12
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGGGTGCT
Found at i:29415033 original size:18 final size:18
Alignment explanation
Indices: 29415010--29415045 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
29415000 TAAACACATG
29415010 ATAGTTTAGCCGATTTTA
1 ATAGTTTAGCCGATTTTA
*
29415028 ATAGTTTCGCCGATTTTA
1 ATAGTTTAGCCGATTTTA
29415046 TCTTCTGAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.14, G:0.17, T:0.44
Consensus pattern (18 bp):
ATAGTTTAGCCGATTTTA
Found at i:29418791 original size:8 final size:8
Alignment explanation
Indices: 29418778--29418808 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
29418768 ATATATTTAA
29418778 ACCCAACT
1 ACCCAACT
29418786 ACCCAACT
1 ACCCAACT
29418794 ACCCAACT
1 ACCCAACT
29418802 ACCCAAC
1 ACCCAAC
29418809 CTAATTTCCG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.39, C:0.52, G:0.00, T:0.10
Consensus pattern (8 bp):
ACCCAACT
Found at i:29422509 original size:36 final size:37
Alignment explanation
Indices: 29422454--29422550 Score: 169
Period size: 36 Copynumber: 2.6 Consensus size: 37
29422444 TGTTAATTTC
29422454 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
*
29422491 AAGACTTATGTAAT-TTTTTTATTATGTAGTGATTCA
1 AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
*
29422527 AAGACTTATGTAATGTTTTTAATT
1 AAGACTTATGTAATATTTTTAATT
29422551 CGGTTAATTC
Statistics
Matches: 57, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
36 35 0.61
37 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.13, T:0.48
Consensus pattern (37 bp):
AAGACTTATGTAATATTTTTAATTATGTAGTGATTCA
Found at i:29422557 original size:9 final size:9
Alignment explanation
Indices: 29422545--29422613 Score: 93
Period size: 9 Copynumber: 7.7 Consensus size: 9
29422535 TGTAATGTTT
29422545 TTAATTCGG
1 TTAATTCGG
29422554 TTAATTCGG
1 TTAATTCGG
**
29422563 TTAATTAAG
1 TTAATTCGG
29422572 TTAATTCGG
1 TTAATTCGG
**
29422581 TTAATTCAA
1 TTAATTCGG
29422590 TTAATTCGG
1 TTAATTCGG
*
29422599 TTAATTCAG
1 TTAATTCGG
29422608 TTAATT
1 TTAATT
29422614 TTTAACCAAA
Statistics
Matches: 51, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 51 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.46
Consensus pattern (9 bp):
TTAATTCGG
Found at i:29422566 original size:18 final size:18
Alignment explanation
Indices: 29422545--29422613 Score: 111
Period size: 18 Copynumber: 3.8 Consensus size: 18
29422535 TGTAATGTTT
*
29422545 TTAATTCGGTTAATTCGG
1 TTAATTCAGTTAATTCGG
*
29422563 TTAATTAAGTTAATTCGG
1 TTAATTCAGTTAATTCGG
*
29422581 TTAATTCAATTAATTCGG
1 TTAATTCAGTTAATTCGG
29422599 TTAATTCAGTTAATT
1 TTAATTCAGTTAATT
29422614 TTTAACCAAA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.30, C:0.09, G:0.14, T:0.46
Consensus pattern (18 bp):
TTAATTCAGTTAATTCGG
Found at i:29422878 original size:27 final size:27
Alignment explanation
Indices: 29422856--29423106 Score: 129
Period size: 27 Copynumber: 9.3 Consensus size: 27
29422846 AGAATTACTG
*
29422856 AAATACCCTTTGTTTACAAAATTACCA
1 AAATACCCTTCGTTTACAAAATTACCA
*
29422883 AAATACCC-TCGATTAGCAAAATTACCA
1 AAATACCCTTCGTTTA-CAAAATTACCA
* **
29422910 AAATACCCTTGGTTTGTAAAATTACCA
1 AAATACCCTTCGTTTACAAAATTACCA
* ** *** *
29422937 AAATACCCCTAATTTGTGAAATTATCA
1 AAATACCCTTCGTTTACAAAATTACCA
* ** *
29422964 AAATACCCTT-GACTTGTAAAATTACCG
1 AAATACCCTTCG-TTTACAAAATTACCA
* ** *
29422991 AAATACCC-TCAATTTGTAAAGTTACCA
1 AAATACCCTTC-GTTTACAAAATTACCA
* ** **
29423018 AAATACCCCTAATTTGGAAAATTACCA
1 AAATACCCTTCGTTTACAAAATTACCA
** *
29423045 AAATACCCTT-GATTTGGAAAATTACAA
1 AAATACCCTTCG-TTTACAAAATTACCA
*
29423072 AAATATCCC-T-GATTTACAAAA-TAACA
1 AAATA-CCCTTCG-TTTACAAAATTACCA
29423098 GAAATACCC
1 -AAATACCC
29423107 ATGACTTTCA
Statistics
Matches: 184, Mismatches: 31, Indels: 19
0.79 0.13 0.08
Matches are distributed among these distances:
26 12 0.07
27 164 0.89
28 8 0.04
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (27 bp):
AAATACCCTTCGTTTACAAAATTACCA
Found at i:29422931 original size:54 final size:54
Alignment explanation
Indices: 29422856--29423086 Score: 252
Period size: 54 Copynumber: 4.3 Consensus size: 54
29422846 AGAATTACTG
** * * *
29422856 AAATACCCTTTG-TTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCA
1 AAATACCC-TTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
* * *
29422910 AAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAATTTGTGAAATTATCA
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTC-AATTTGTAAAATTACCA
* * *
29422964 AAATACCCTTGACTTGTAAAATTACCGAAATACCCTCAATTTGTAAAGTTACCA
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
* * * ** * *
29423018 AAATACCCCTAATTTGGAAAATTACCAAAATACCCTTGATTTGGAAAATTACAA
1 AAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
29423072 AAATATCCC-TGATTT
1 AAATA-CCCTTGATTT
29423087 ACAAAATAAC
Statistics
Matches: 149, Mismatches: 24, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
53 4 0.03
54 141 0.95
55 4 0.03
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (54 bp):
AAATACCCTTGATTTGTAAAATTACCAAAATACCCTCAATTTGTAAAATTACCA
Found at i:29422959 original size:81 final size:80
Alignment explanation
Indices: 29422873--29423081 Score: 276
Period size: 81 Copynumber: 2.6 Consensus size: 80
29422863 CTTTGTTTAC
* ***
29422873 AAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGATT-GCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
29422938 AATACCCCTAATTTGTG
65 AATACCCCTAATTTG-G
* * * *
29422955 -AAATTATCAAAATACCCTTGACTTGTAAAATTACCGAAATACCCTCAATTTGTAAAGTTACCAA
1 AAAATTACCAAAATACCCTTGA-TTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAA
29423019 AATACCCCTAATTTGG
65 AATACCCCTAATTTGG
* *
29423035 AAAATTACCAAAATACCCTTGATTTGGAAAATTACAAAAATATCCCT
1 AAAATTACCAAAATACCCTTGA-TTGCAAAATTACCAAAATA-CCCT
29423082 GATTTACAAA
Statistics
Matches: 111, Mismatches: 13, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 1 0.01
81 104 0.94
82 6 0.05
ACGTcount: A:0.42, C:0.21, G:0.08, T:0.29
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTGATTGCAAAATTACCAAAATACCCTCAATTTGTAAAATTACCAAA
ATACCCCTAATTTGG
Found at i:29423093 original size:54 final size:54
Alignment explanation
Indices: 29422856--29423150 Score: 242
Period size: 54 Copynumber: 5.4 Consensus size: 54
29422846 AGAATTACTG
* * * *
29422856 AAATACCCTTTG-TTTACAAAATTACCAAAATACCCTCGATTAGCAAAATTACCA
1 AAATACCC-TTGATTTGCAAAATTACCAAAATACCCTCAATTTGGAAAATTACCA
* * *
29422910 AAATACCCTTGGTTTGTAAAATTACCAAAATACCC-CTAATTTGTG-AAATTATCA
1 AAATACCCTTGATTTGCAAAATTACCAAAATACCCTC-AATTTG-GAAAATTACCA
* * * * *
29422964 AAATACCCTTGACTTGTAAAATTACCGAAATACCCTCAATTTGTAAAGTTACCA
1 AAATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTTGGAAAATTACCA
* * * ** *
29423018 AAATACCCCTAATTTGGAAAATTACCAAAATACCCTTGATTTGGAAAATTACAA
1 AAATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTTGGAAAATTACCA
* * * * ** *
29423072 AAATATCCC-TGATTTACAAAA-TAACAGAAATACCCATGACTTTCAAAAATTA-TA
1 AAATA-CCCTTGATTTGCAAAATTACCA-AAATACCC-TCAATTTGGAAAATTACCA
* *
29423126 GAAATACCATTGGTTTGCAAAATTA
1 -AAATACCCTTGATTTGCAAAATTA
29423151 TGGAAATACC
Statistics
Matches: 195, Mismatches: 35, Indels: 20
0.78 0.14 0.08
Matches are distributed among these distances:
53 8 0.04
54 155 0.79
55 30 0.15
56 2 0.01
ACGTcount: A:0.42, C:0.20, G:0.08, T:0.29
Consensus pattern (54 bp):
AAATACCCTTGATTTGCAAAATTACCAAAATACCCTCAATTTGGAAAATTACCA
Found at i:29423103 original size:81 final size:80
Alignment explanation
Indices: 29422873--29423106 Score: 274
Period size: 81 Copynumber: 2.9 Consensus size: 80
29422863 CTTTGTTTAC
* * *
29422873 AAAATTACCAAAATACCCTCGATTAGCAAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAA
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCC-TGATTTGTAAAA-TACCAA
29422938 AATACCCCTAATTTGTG
64 AATACCCCTAATTTGTG
* * * * * *
29422955 -AAATTATCAAAATACCCTTGACTTGTAAAATTACCGAAATACCCTCAATTTGTAAAGTTACCAA
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCT-GATTTGTAAA-ATACCAA
29423019 AATACCCCTAATTTG-G
64 AATACCCCTAATTTGTG
* * ** *
29423035 AAAATTACCAAAATACCCTTGATTTGGAAAATTACAAAAATATCCCTGATTTACAAAATAACAGA
1 AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATA-CCCTGATTTGTAAAATACCA-A
29423100 AATACCC
64 AATACCC
29423107 ATGACTTTCA
Statistics
Matches: 128, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
80 6 0.05
81 118 0.92
82 4 0.03
ACGTcount: A:0.43, C:0.21, G:0.08, T:0.28
Consensus pattern (80 bp):
AAAATTACCAAAATACCCTTGATTTGCAAAATTACCAAAATACCCTGATTTGTAAAATACCAAAA
TACCCCTAATTTGTG
Found at i:29423118 original size:27 final size:26
Alignment explanation
Indices: 29422848--29423162 Score: 117
Period size: 27 Copynumber: 11.7 Consensus size: 26
29422838 TGTAGGATAG
*
29422848 AATTACTGAAATACCCTTTG-TTTACAA
1 AATTACAGAAATACCC--TGATTTACAA
29422875 AATTACCA-AAATACCCTCGA-TTAGCAA
1 AATTA-CAGAAATACCCT-GATTTA-CAA
* **
29422902 AATTACCA-AAATACCCTTGGTTTGTAA
1 AATTA-CAGAAATACCC-TGATTTACAA
* ***
29422929 AATTACCA-AAATACCCCTAATTTGTGA
1 AATTA-CAGAAATA-CCCTGATTTACAA
* **
29422956 AATTATCA-AAATACCCTTGACTTGTAA
1 AATTA-CAGAAATACCC-TGATTTACAA
* * **
29422983 AATTACCGAAATACCCTCAATTTGTAA
1 AATTACAGAAATACCCT-GATTTACAA
* * **
29423010 AGTTACCA-AAATACCCCTAATTTGGAA
1 AATTA-CAGAAATA-CCCTGATTTACAA
**
29423037 AATTACCA-AAATACCCTTGATTTGGAA
1 AATTA-CAGAAATACCC-TGATTTACAA
*
29423064 AATTACAAAAATATCCCTGATTTACAA
1 AATTACAGAAATA-CCCTGATTTACAA
*
29423091 AATAACAGAAATACCCATGACTTT-CAAA
1 AATTACAGAAATACCC-TGA-TTTAC-AA
* * * *
29423119 AATTATAGAAATACCATTGGTTTGCAA
1 AATTACAGAAATACC-CTGATTTACAA
**
29423146 AATTATGGAAATACCCT
1 AATTACAGAAATACCCT
29423163 TGGTTTGTAG
Statistics
Matches: 239, Mismatches: 29, Indels: 41
0.77 0.09 0.13
Matches are distributed among these distances:
25 1 0.00
26 18 0.08
27 184 0.77
28 36 0.15
ACGTcount: A:0.42, C:0.20, G:0.09, T:0.30
Consensus pattern (26 bp):
AATTACAGAAATACCCTGATTTACAA
Found at i:29423165 original size:27 final size:27
Alignment explanation
Indices: 29423117--29423169 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
29423107 ATGACTTTCA
29423117 AAAATTATAGAAATACCATTGGTTTGC
1 AAAATTATAGAAATACCATTGGTTTGC
* *
29423144 AAAATTATGGAAATACCCTTGGTTTG
1 AAAATTATAGAAATACCATTGGTTTG
29423170 TAGATTTACC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.38, C:0.11, G:0.17, T:0.34
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTGC
Found at i:29423301 original size:27 final size:27
Alignment explanation
Indices: 29423271--29423325 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
29423261 GTAAAGTTCC
*
29423271 TGTAGGGTAAAGTGACGATAATACCCT
1 TGTAGGGTAAAATGACGATAATACCCT
* * *
29423298 TGTATGGTAAAATGACGATTATGCCCT
1 TGTAGGGTAAAATGACGATAATACCCT
29423325 T
1 T
29423326 ATGTCTCATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.31
Consensus pattern (27 bp):
TGTAGGGTAAAATGACGATAATACCCT
Found at i:29423530 original size:27 final size:27
Alignment explanation
Indices: 29423463--29423531 Score: 84
Period size: 27 Copynumber: 2.6 Consensus size: 27
29423453 GTAGGGTGAG
* * * *
29423463 TATGTCACATTCACTGTTACTGGTGGC
1 TATGCCACATTTACTGATACAGGTGGC
*
29423490 TATGCCACAATTACTGATACAGGTGGC
1 TATGCCACATTTACTGATACAGGTGGC
*
29423517 TTTGCCACATTTACT
1 TATGCCACATTTACT
29423532 ATTTCTGGCA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.23, C:0.23, G:0.19, T:0.35
Consensus pattern (27 bp):
TATGCCACATTTACTGATACAGGTGGC
Found at i:29423740 original size:28 final size:27
Alignment explanation
Indices: 29423700--29423759 Score: 84
Period size: 28 Copynumber: 2.2 Consensus size: 27
29423690 ACTGTATTGT
*
29423700 TACTGCATTGGGCTTAGGCCCACACTG
1 TACTGCATAGGGCTTAGGCCCACACTG
* *
29423727 CTACTGTATAGGGCTTAGGCCCAGACTG
1 -TACTGCATAGGGCTTAGGCCCACACTG
29423755 TACTG
1 TACTG
29423760 ATACTGAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 5 0.17
28 24 0.83
ACGTcount: A:0.20, C:0.27, G:0.27, T:0.27
Consensus pattern (27 bp):
TACTGCATAGGGCTTAGGCCCACACTG
Found at i:29423771 original size:33 final size:33
Alignment explanation
Indices: 29423723--29423797 Score: 114
Period size: 33 Copynumber: 2.3 Consensus size: 33
29423713 TTAGGCCCAC
* *
29423723 ACTGCTACTGTATAGGGCTTAGGCCCAGACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
* *
29423756 ACTGATACTGAATAGGGCTTTGGCCTAGACTGT
1 ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
29423789 ACTGATACT
1 ACTGATACT
29423798 ATATTATTCA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.25, T:0.29
Consensus pattern (33 bp):
ACTGATACTGAATAGGGCTTAGGCCCAGACTGT
Found at i:29431276 original size:17 final size:18
Alignment explanation
Indices: 29431254--29431287 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
29431244 CTTATTTTTA
29431254 AATAAAATAATA-GCATT
1 AATAAAATAATATGCATT
*
29431271 AATAAATTAATATGCAT
1 AATAAAATAATATGCAT
29431288 ATATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.56, C:0.06, G:0.06, T:0.32
Consensus pattern (18 bp):
AATAAAATAATATGCATT
Found at i:29438604 original size:28 final size:27
Alignment explanation
Indices: 29438547--29438698 Score: 241
Period size: 27 Copynumber: 5.6 Consensus size: 27
29438537 TAAATTGTGC
*
29438547 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
29438574 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
29438602 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29438629 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
* *
29438657 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
29438684 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
29438699 GACTTAATAT
Statistics
Matches: 119, Mismatches: 4, Indels: 4
0.94 0.03 0.03
Matches are distributed among these distances:
27 66 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:29438611 original size:55 final size:55
Alignment explanation
Indices: 29438547--29438698 Score: 259
Period size: 55 Copynumber: 2.8 Consensus size: 55
29438537 TAAATTGTGC
*
29438547 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
29438602 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* * *
29438657 AGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
29438699 GACTTAATAT
Statistics
Matches: 92, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.31
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:29449102 original size:13 final size:13
Alignment explanation
Indices: 29449084--29449108 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29449074 AACTAATCGC
29449084 ACACGGGCGTGTA
1 ACACGGGCGTGTA
29449097 ACACGGGCGTGT
1 ACACGGGCGTGT
29449109 CCCTACCAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.20, C:0.24, G:0.40, T:0.16
Consensus pattern (13 bp):
ACACGGGCGTGTA
Found at i:29457527 original size:49 final size:49
Alignment explanation
Indices: 29457467--29457593 Score: 168
Period size: 49 Copynumber: 2.6 Consensus size: 49
29457457 ACCTCAAGCT
*
29457467 GATGCCATGTCCCAGATAGGTCTTCCACTAGCT-T-ACATATCTTGAGACC
1 GATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCACATATC-TGAG-CC
* * *
29457516 GATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCACTTATCTGTGTC
1 GATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCACATATCTGAGCC
* *
29457565 GATGCCATGTCCCAGACAGGTCCTACACT
1 GATGCCATGTCCCAGATAGGTCTTACACT
29457594 GACACATACA
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
49 60 0.86
50 4 0.06
51 6 0.09
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (49 bp):
GATGCCATGTCCCAGATAGGTCTTACACTAGCTCTCACATATCTGAGCC
Found at i:29457581 original size:142 final size:142
Alignment explanation
Indices: 29457325--29457599 Score: 365
Period size: 142 Copynumber: 1.9 Consensus size: 142
29457315 CATCTAAGTC
* * * *
29457325 GATGCCATGTTCCAAACAGGTCTTACACTAACTTACATACATTGAGGCTAATGCCATGCCTTAGA
1 GATGCCATGTCCCAAACAGGTCTTACACTAACTTACATACATTGAGACCAATGCCATGCCTCAGA
* * * *
29457390 CAGGTCTTATACTGGCTCTCACTTATCTATGTCGATTCCATATCCCAGACAGGTCTTACACTAAC
66 CAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATATCCCAGACAGGTCCTACACTAAC
29457455 ACACCTCAAGCT
131 ACACCTCAAGCT
* * * * *
29457467 GATGCCATGTCCCAGATAGGTCTTCCACTAGCTTACATATC-TTGAGACCGATGCCATGTCC-CA
1 GATGCCATGTCCCAAACAGGTCTTACACTAACTTACATA-CATTGAGACCAATGCCATG-CCTCA
* * * *
29457530 GATAGGTCTTACACTAGCTCTCACTTATCTGTGTCGATGCCATGTCCCAGACAGGTCCTACACTG
64 GACAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATATCCCAGACAGGTCCTACACTA
29457595 ACACA
129 ACACA
29457600 TACATCACCC
Statistics
Matches: 114, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
142 111 0.97
143 3 0.03
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.28
Consensus pattern (142 bp):
GATGCCATGTCCCAAACAGGTCTTACACTAACTTACATACATTGAGACCAATGCCATGCCTCAGA
CAGGTCTTACACTAGCTCTCACTTATCTATGTCGATGCCATATCCCAGACAGGTCCTACACTAAC
ACACCTCAAGCT
Found at i:29462685 original size:27 final size:27
Alignment explanation
Indices: 29462655--29462711 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
29462645 TTTATATGAA
*
29462655 AATATACTAATTAAGATTTAATTGCAT
1 AATATACTAATTAAGATTTAATTCCAT
*
29462682 AATATACTTATTAAGATTTAATTCCAT
1 AATATACTAATTAAGATTTAATTCCAT
29462709 AAT
1 AAT
29462712 TTATTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.44, C:0.09, G:0.05, T:0.42
Consensus pattern (27 bp):
AATATACTAATTAAGATTTAATTCCAT
Found at i:29462729 original size:24 final size:27
Alignment explanation
Indices: 29462655--29462729 Score: 84
Period size: 27 Copynumber: 2.9 Consensus size: 27
29462645 TTTATATGAA
* * *
29462655 AATATACTAATTAAGATTTAATTGCAT
1 AATATACTTATGAAGATTTAATTCCAT
*
29462682 AATATACTTATTAAGATTTAATTCCAT
1 AATATACTTATGAAGATTTAATTCCAT
*
29462709 AATTTA-TT-TGAA-ATTTAATTC
1 AATATACTTATGAAGATTTAATTC
29462730 AACTTACATA
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
24 9 0.20
25 3 0.07
26 2 0.05
27 30 0.68
ACGTcount: A:0.41, C:0.08, G:0.05, T:0.45
Consensus pattern (27 bp):
AATATACTTATGAAGATTTAATTCCAT
Found at i:29463094 original size:49 final size:49
Alignment explanation
Indices: 29463034--29463207 Score: 240
Period size: 49 Copynumber: 3.5 Consensus size: 49
29463024 CTAGTACGCA
*
29463034 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
* * * * ** * *
29463083 TAGTAGTCTGCACTTAGAACTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACC-AATAATCCGGTACACG
29463133 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
* *
29463182 TAGTATCCTGCACTTAGTACTGCACA
1 TAGTAGCCTGCACTTAGTACTACACA
29463208 CATGACCTCA
Statistics
Matches: 106, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
49 65 0.61
50 41 0.39
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACG
Found at i:29463208 original size:99 final size:99
Alignment explanation
Indices: 29463034--29463215 Score: 312
Period size: 99 Copynumber: 1.8 Consensus size: 99
29463024 CTAGTACGCA
*
29463034 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTCTGCACTTA
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGTCTGCACTTA
*
29463099 GAACTACACACGTGACCTAACCATCTGATACACG
66 GAACTACACACATGACCTAACCATCTGATACACG
29463133 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTA-TCCTGCACTT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGT-CTGCACTT
* *
29463197 AGTACTGCACACATGACCT
65 AGAACTACACACATGACCT
29463216 CACAATATAT
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
98 1 0.01
99 77 0.99
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.25
Consensus pattern (99 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGTAGTAGTCTGCACTTA
GAACTACACACATGACCTAACCATCTGATACACG
Found at i:29470679 original size:47 final size:47
Alignment explanation
Indices: 29470628--29471035 Score: 716
Period size: 47 Copynumber: 8.7 Consensus size: 47
29470618 TTAGGATTCT
* * *
29470628 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
29470675 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAG-CG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29470721 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29470768 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29470815 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29470862 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29470909 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29470956 ATGTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29471002 ACGTGATG-ATGTGAAAGTGTATATATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29471036 TCCGAAGGGC
Statistics
Matches: 348, Mismatches: 10, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
45 5 0.01
46 104 0.30
47 239 0.69
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29471099 original size:69 final size:70
Alignment explanation
Indices: 29471009--29471141 Score: 250
Period size: 70 Copynumber: 1.9 Consensus size: 70
29470999 CCGACGTGAT
*
29471009 GATGTGAAAGTGTATATATGTGATAAGT-CCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTT
1 GATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTT
29471073 TAGTG
66 TAGTG
29471078 GATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTT
1 GATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTT
29471142 AAAACCCCGC
Statistics
Matches: 62, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
69 27 0.44
70 35 0.56
ACGTcount: A:0.27, C:0.11, G:0.29, T:0.33
Consensus pattern (70 bp):
GATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGGTTT
TAGTG
Found at i:29471279 original size:37 final size:37
Alignment explanation
Indices: 29471223--29471301 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
29471213 CCGAGCTCTA
* * * *
29471223 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
* *
29471260 AAGACCCGATAACTTCGTGTGGAGATTATGTCCATGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
29471297 AAGAC
1 AAGAC
29471302 TTCGTAATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCAGGT
Found at i:29472581 original size:40 final size:40
Alignment explanation
Indices: 29472517--29472707 Score: 251
Period size: 40 Copynumber: 4.8 Consensus size: 40
29472507 GAGAATTGAG
*
29472517 AGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
* *
29472557 AGTGATATATCCAGGTTAAATCCCGAAGAGCATTCGTGCT
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
* * *
29472597 AGTGATGTATCCAGACTAAGTTCCGAAGAGCATTCGTGCT
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
**
29472637 AGTGATATATCC-GTGCTAAACCCCGAAGAGCATT-GTGCT
1 AGTGATATATCCAG-GCTAAGTCCCGAAGAGCATTCGTGCT
* * * *
29472676 GGTGTTATATCCGGGCTAGGTCCCGAAGAGCA
1 AGTGATATATCCAGGCTAAGTCCCGAAGAGCA
29472708 ATCATGCTGG
Statistics
Matches: 131, Mismatches: 18, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
39 31 0.24
40 100 0.76
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
AGTGATATATCCAGGCTAAGTCCCGAAGAGCATTCGTGCT
Found at i:29476597 original size:47 final size:47
Alignment explanation
Indices: 29476546--29476862 Score: 537
Period size: 47 Copynumber: 6.7 Consensus size: 47
29476536 TTAGGATTCT
* * *
29476546 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
*
29476593 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29476640 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCTG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
29476687 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29476734 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
29476781 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
29476828 ACGTGATGGATGTGAAAGTGTATATATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
29476863 TCCCGAAGGG
Statistics
Matches: 257, Mismatches: 12, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
46 1 0.00
47 256 1.00
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.30
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:29476919 original size:70 final size:70
Alignment explanation
Indices: 29476833--29476965 Score: 257
Period size: 70 Copynumber: 1.9 Consensus size: 70
29476823 GGCCAACGTG
*
29476833 ATGGATGTGAAAGTGTATATATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGG
1 ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGG
29476898 TTTTA
66 TTTTA
29476903 ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCG
1 ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCG
29476966 AGTTAAAACC
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.29, C:0.12, G:0.27, T:0.32
Consensus pattern (70 bp):
ATGGATGTGAAAGTGTATAAATGTGATAAGTCCCGAAGGGCATTTGTGTCAGTACTATATCCGGG
TTTTA
Found at i:29477109 original size:37 final size:37
Alignment explanation
Indices: 29477051--29477129 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
29477041 CCGAGCTCTA
* * * *
29477051 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACCTGTGGAGATTATGTCCGGGT
*
29477088 AAGACCCGATAACTTCCTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACCTGTGGAGATTATGTCCGGGT
29477125 AAGAC
1 AAGAC
29477130 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.20, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACCTGTGGAGATTATGTCCGGGT
Found at i:29481863 original size:17 final size:17
Alignment explanation
Indices: 29481842--29481901 Score: 77
Period size: 17 Copynumber: 3.5 Consensus size: 17
29481832 ATTTATTCTT
29481842 ATTTTTATTTTCTTTTC
1 ATTTTTATTTTCTTTTC
* *
29481859 -TTTTTCTTTTTCTTTTG
1 ATTTTT-ATTTTCTTTTC
*
29481876 ATTTTTATTTTCATTTC
1 ATTTTTATTTTCTTTTC
29481893 ATTTTTATT
1 ATTTTTATT
29481902 ATTTTATTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
16 5 0.14
17 26 0.72
18 5 0.14
ACGTcount: A:0.12, C:0.10, G:0.02, T:0.77
Consensus pattern (17 bp):
ATTTTTATTTTCTTTTC
Found at i:29481881 original size:7 final size:6
Alignment explanation
Indices: 29481823--29481916 Score: 54
Period size: 6 Copynumber: 16.0 Consensus size: 6
29481813 CATTGACTCC
* * * *
29481823 TATTTT T-TTATT TATTCT TATTTT TA-TTT T-CTTT TCTTTT TCTTTT
1 TATTTT TATT-TT TATTTT TATTTT TATTTT TATTTT TATTTT TATTTT
* * * *
29481869 TCTTTT GATTTT TATTTT CA-TTT CATTTT TATTATT T-TATTT TATTTT
1 TATTTT TATTTT TATTTT TATTTT TATTTT TATT-TT TAT-TTT TATTTT
29481917 GAAAGACATA
Statistics
Matches: 72, Mismatches: 8, Indels: 16
0.75 0.08 0.17
Matches are distributed among these distances:
5 15 0.21
6 50 0.69
7 7 0.10
ACGTcount: A:0.14, C:0.07, G:0.01, T:0.78
Consensus pattern (6 bp):
TATTTT
Found at i:29490169 original size:49 final size:47
Alignment explanation
Indices: 29490108--29490284 Score: 178
Period size: 49 Copynumber: 3.6 Consensus size: 47
29490098 TATAAGTCGG
29490108 TGCCATGTCCCAGACAGGTCTTACACTGACTTACATACATCAAGGCCGA
1 TGCCATGTCCCAGACAGGTCTTACACTGACTT-CATACATC-AGGCCGA
* * * * * * * *
29490157 CGCCATGTCCCAGATAGCTTTTACACTGGCTCTCACT-TATCTGTGTCGA
1 TGCCATGTCCCAGACAGGTCTTACACTGACT-TCA-TACATCAG-GCCGA
* *
29490206 TGCCATGTCCCAGACAGGTCTTACACT-AGCTTGCATATCTTGAGGCCGA
1 TGCCATGTCCCAGACAGGTCTTACACTGA-CTT-CATA-CATCAGGCCGA
29490255 TGCCATGTCCCAGACAGGTCTTACACTGAC
1 TGCCATGTCCCAGACAGGTCTTACACTGAC
29490285 ACGCATGTCA
Statistics
Matches: 102, Mismatches: 18, Indels: 16
0.75 0.13 0.12
Matches are distributed among these distances:
48 3 0.03
49 94 0.92
50 5 0.05
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.27
Consensus pattern (47 bp):
TGCCATGTCCCAGACAGGTCTTACACTGACTTCATACATCAGGCCGA
Found at i:29490221 original size:98 final size:96
Alignment explanation
Indices: 29490055--29490282 Score: 262
Period size: 98 Copynumber: 2.3 Consensus size: 96
29490045 AGGTTACGAT
* * * * *
29490055 GCCGACACCATGTTCCAAACATGGTCTTACACTGGCTCTCACATATAAGTCGGTGCCATGTCCCA
1 GCCGACGCCATGTCCCAGACA-GCTCTTACACTGGCTCTCACATATAAGTCGATGCCATGTCCCA
29490120 GACAGGTCTTACACT-GACTTACATA-CATCAAG
65 GACAGGTCTTACACTAG-CTTACATATC-TCAAG
* * * **
29490152 GCCGACGCCATGTCCCAGATAGCTTTTACACTGGCTCTCACTTATCTGTGTCGATGCCATGTCCC
1 GCCGACGCCATGTCCCAGACAGCTCTTACACTGGCTCTCAC--ATATAAGTCGATGCCATGTCCC
* **
29490217 AGACAGGTCTTACACTAGCTTGCATATCTTGAG
64 AGACAGGTCTTACACTAGCTTACATATCTCAAG
* *
29490250 GCCGATGCCATGTCCCAGACAGGTCTTACACTG
1 GCCGACGCCATGTCCCAGACAGCTCTTACACTG
29490283 ACACGCATGT
Statistics
Matches: 110, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
96 18 0.16
97 17 0.15
98 73 0.66
99 2 0.02
ACGTcount: A:0.24, C:0.30, G:0.20, T:0.26
Consensus pattern (96 bp):
GCCGACGCCATGTCCCAGACAGCTCTTACACTGGCTCTCACATATAAGTCGATGCCATGTCCCAG
ACAGGTCTTACACTAGCTTACATATCTCAAG
Found at i:29500556 original size:46 final size:45
Alignment explanation
Indices: 29500443--29500569 Score: 161
Period size: 46 Copynumber: 2.8 Consensus size: 45
29500433 GCTGTTATGT
*
29500443 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAA
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCGG-C-CATTATGAA
*
29500490 -ATGCTAGTGTAAGACATGTTTGGGACATGCATCGG-CATTGA-GACGA
1 GA-GCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATT-ATGA--A
29500536 GAGCCAGTGTAAGACATGTTTGGGACATGCATCG
1 GAGCCAGTGTAAGACATGTTTGGGACATGCATCG
29500570 ACTACGAGAT
Statistics
Matches: 72, Mismatches: 3, Indels: 11
0.84 0.03 0.13
Matches are distributed among these distances:
44 6 0.08
45 1 0.01
46 33 0.46
47 32 0.44
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.24
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTTTGGGACATGCATCGGCCATTATGAA
Found at i:29500626 original size:44 final size:44
Alignment explanation
Indices: 29500448--29500626 Score: 159
Period size: 44 Copynumber: 4.0 Consensus size: 44
29500438 TATGTGAGCC
* **
29500448 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAATGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGG-CACGA--A-GATGTGCT
* * *
29500495 AGTGTAAGACATGTTTGGGACATGCATCGGCATTGAGACGA-GAGCC
1 AGTGTAAGACATGTTTGGGACATGCATCGGCA-CGA-A-GATGTGCT
*
29500541 AGTGTAAGACATGTTTGGGACATGCATCGACTACG-AGATGTGCT
1 AGTGTAAGACATGTTTGGGACATGCATCGGC-ACGAAGATGTGCT
* * *
29500585 AGTGTAAGACAT-TTCTGTGACATGCATCGGGACGAATATGTG
1 AGTGTAAGACATGTT-TGGGACATGCATCGGCACGAAGATGTG
29500627 AATGCCAGTG
Statistics
Matches: 111, Mismatches: 15, Indels: 15
0.79 0.11 0.11
Matches are distributed among these distances:
43 7 0.06
44 35 0.32
46 35 0.32
47 33 0.30
48 1 0.01
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTTTGGGACATGCATCGGCACGAAGATGTGCT
Found at i:29504839 original size:40 final size:40
Alignment explanation
Indices: 29504795--29504949 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
29504785 TACTTACTCG
*
29504795 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
29504835 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCC-G-----G--A-T---ATAGTAACTCGCACA
29504887 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
29504927 AATGCCTTCGGGACTTAGCCCGG
1 AATGCCTTCGGGACTTAGCCCGG
29504950 TTATCATCTA
Statistics
Matches: 102, Mismatches: 1, Indels: 24
0.80 0.01 0.19
Matches are distributed among these distances:
40 58 0.57
41 1 0.01
43 1 0.01
44 1 0.01
46 2 0.02
48 1 0.01
49 1 0.01
51 1 0.01
52 36 0.35
ACGTcount: A:0.27, C:0.28, G:0.23, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:29504877 original size:12 final size:12
Alignment explanation
Indices: 29504860--29504884 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
29504850 TAGCCCGGAT
29504860 ATAGTAACTCGC
1 ATAGTAACTCGC
29504872 ATAGTAACTCGC
1 ATAGTAACTCGC
29504884 A
1 A
29504885 CAAATGCCTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ATAGTAACTCGC
Found at i:29504898 original size:52 final size:52
Alignment explanation
Indices: 29504820--29504924 Score: 210
Period size: 52 Copynumber: 2.0 Consensus size: 52
29504810 TAGCCCGGAT
29504820 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGC
1 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGC
29504872 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGC
1 ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGC
29504924 A
1 A
29504925 CAAATGCCTT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (52 bp):
ATAGTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGC
Found at i:29518364 original size:40 final size:40
Alignment explanation
Indices: 29518320--29518462 Score: 216
Period size: 40 Copynumber: 3.6 Consensus size: 40
29518310 TACTTACTCG
*
29518320 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
29518360 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
1 AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
* * **
29518400 AATGCCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGTGCA
1 AATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCACA
*
29518440 AATGCCTTCGGGACTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGG
29518463 TTATCATCCA
Statistics
Matches: 96, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
39 1 0.01
40 95 0.99
ACGTcount: A:0.27, C:0.28, G:0.24, T:0.22
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCACA
Found at i:29523281 original size:14 final size:14
Alignment explanation
Indices: 29523262--29523291 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
29523252 ATAAGAAAAC
*
29523262 ACACACACACACAT
1 ACACACACACAAAT
29523276 ACACACACACAAAT
1 ACACACACACAAAT
29523290 AC
1 AC
29523292 CAATTGGACT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.53, C:0.40, G:0.00, T:0.07
Consensus pattern (14 bp):
ACACACACACAAAT
Found at i:29524939 original size:3 final size:3
Alignment explanation
Indices: 29524933--29524957 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
29524923 TTTTTTTCTC
29524933 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
29524958 TACTAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:29525686 original size:22 final size:22
Alignment explanation
Indices: 29525637--29525686 Score: 59
Period size: 21 Copynumber: 2.3 Consensus size: 22
29525627 AACATAAACC
* *
29525637 CTAAACTTTTACCCCTTAATCT
1 CTAAACTCTTACCCCCTAATCT
29525659 CT-AACTCTTACCCCCT-ATCAT
1 CTAAACTCTTACCCCCTAATC-T
29525680 CTAAACT
1 CTAAACT
29525687 TTAAACGATT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
20 3 0.12
21 15 0.62
22 6 0.25
ACGTcount: A:0.28, C:0.36, G:0.00, T:0.36
Consensus pattern (22 bp):
CTAAACTCTTACCCCCTAATCT
Found at i:29525988 original size:14 final size:15
Alignment explanation
Indices: 29525950--29526009 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
29525940 ATACCCATGG
*
29525950 CCATTAAACCTTAAA
1 CCATTAAACCCTAAA
*
29525965 CCATAAAACCCTAAA
1 CCATTAAACCCTAAA
*
29525980 CCATT-AACCTTAAA
1 CCATTAAACCCTAAA
*
29525994 -TATTAAACCCTAAA
1 CCATTAAACCCTAAA
29526008 CC
1 CC
29526010 CCAAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
13 3 0.08
14 16 0.44
15 17 0.47
ACGTcount: A:0.47, C:0.30, G:0.00, T:0.23
Consensus pattern (15 bp):
CCATTAAACCCTAAA
Found at i:29526189 original size:38 final size:40
Alignment explanation
Indices: 29526132--29526216 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 40
29526122 GGTTTAAGGT
* * *
29526132 TTTAAGGGTTATAGTTTAGTGTTTATGGTTTTTT-A-GGG
1 TTTAGGGGTTATAGGTTAGTGTTTATGATTTTTTGAGGGG
29526170 TTTAGGGGTTATAGGTTAGTGTTTATGATTTTTTGAGGGG
1 TTTAGGGGTTATAGGTTAGTGTTTATGATTTTTTGAGGGG
29526210 TTTAGGG
1 TTTAGGG
29526217 TTTTAGGGGT
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
38 31 0.74
39 1 0.02
40 10 0.24
ACGTcount: A:0.18, C:0.00, G:0.33, T:0.49
Consensus pattern (40 bp):
TTTAGGGGTTATAGGTTAGTGTTTATGATTTTTTGAGGGG
Found at i:29526318 original size:41 final size:41
Alignment explanation
Indices: 29526235--29526470 Score: 237
Period size: 41 Copynumber: 5.8 Consensus size: 41
29526225 GTTATATGAC
* *
29526235 TTTTAGCGGCGTTTTGACCATAAACGCCGCTATTGCTTTGGT
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTGGT
* *
29526277 TTTTAGCGGCGTTTTACCAAAAACGCCACCATTGCTCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
*
29526318 TTTTAGTGGCGTTTTACCAAAAACGCCGCTATTGCTCTAGG-
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCT-GGT
* **** * *
29526359 TTTTAGTGGCGTTTTTGGTAAAACGCTGCTATTGCCCTGGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
*** * * *
29526400 TTTTAGCGGCGTTGTT-GGTAAAACGCCGCCATTTCTCT-AT
1 TTTTAGCGGCGTT-TTACCAAAAACGCCGCTATTGCTCTGGT
*
29526440 TTTTAGCGGCGTTTTTA-CTAAAACGCCGCTA
1 TTTTAGCGGCG-TTTTACCAAAAACGCCGCTA
29526471 ATGTATAATT
Statistics
Matches: 168, Mismatches: 21, Indels: 12
0.84 0.10 0.06
Matches are distributed among these distances:
40 28 0.17
41 121 0.72
42 19 0.11
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.36
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTGGT
Found at i:29529807 original size:44 final size:45
Alignment explanation
Indices: 29529693--29529816 Score: 157
Period size: 44 Copynumber: 2.8 Consensus size: 45
29529683 GCTATTATGT
*
29529693 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATC-GCACTGAGACGA
29529739 GAGCCAGTGTAATG-CATGTCTGGGACATGCATCG-ACT-ACGA-GA
1 GAGCCAGTGTAA-GACATGTCTGGGACATGCATCGCACTGA-GACGA
* *
29529782 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCG
1 -GAGCCAGTGTAAGACATGTCTGGGACATGCATCG
29529817 GCACGAATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
43 4 0.06
44 34 0.48
45 1 0.01
46 31 0.44
47 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (45 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCGCACTGAGACGA
Found at i:29529829 original size:44 final size:44
Alignment explanation
Indices: 29529695--29529856 Score: 150
Period size: 44 Copynumber: 3.5 Consensus size: 44
29529685 TATTATGTGA
* * *
29529695 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGAGACGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCA-CGA-A-GATGT
*
29529741 GCCAGTGTAATG-CATGTCTGGGACATGCATCGACTACG-AGATGT
1 GCCAGTGTAA-GACATGTCTGGGACATGCATCGGC-ACGAAGATGT
* *
29529785 GCTAGTGTAAGACATGTCTGGGACATGCATCGGCACGAATATGTGAAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGAAGA--TG--T
*
29529833 GCCAGTGTAAGACCATATCTGGGA
1 GCCAGTGTAAGA-CATGTCTGGGA
29529857 TATGGCTTTG
Statistics
Matches: 97, Mismatches: 9, Indels: 17
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.06
44 34 0.35
46 33 0.34
47 2 0.02
48 12 0.12
49 10 0.10
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGGCACGAAGATGT
Found at i:29532251 original size:31 final size:31
Alignment explanation
Indices: 29532211--29532285 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
29532201 CGGGCTGAGG
*
29532211 ACACGGGCGTGTGTGACCACACGGCCTACCC
1 ACACAGGCGTGTGTGACCACACGGCCTACCC
*
29532242 GCACAGGCGTGTGTGACCACACGGCCTACCC
1 ACACAGGCGTGTGTGACCACACGGCCTACCC
*
29532273 ACACGGGCGTGTG
1 ACACAGGCGTGTG
29532286 ACCCTGTTTC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.19, C:0.36, G:0.32, T:0.13
Consensus pattern (31 bp):
ACACAGGCGTGTGTGACCACACGGCCTACCC
Found at i:29534070 original size:40 final size:40
Alignment explanation
Indices: 29534020--29534227 Score: 206
Period size: 40 Copynumber: 5.1 Consensus size: 40
29534010 AAAAAAATTT
29534020 TAAAATACAGAGCAATAGCGGTGTTTTAATAAAAACGCCGC
1 TAAAA-ACAGAGCAATAGCGGTGTTTTAATAAAAACGCCGC
* *
29534061 TAAAAACAGAGTAACAGCGGTGTTTTAATAAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGTGTTTTAATAAAAACGCCGC
* * *
29534101 TAAAAACAGAGTAACAGCGGTGTTTT-TTACTAAAACGCCGC
1 TAAAAACAGAGCAATAGCGGTGTTTTAATA--AAAACGCCGC
* * * **
29534142 TAAAACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAAAACAGAGCAATAGCGGTG-TTTTAATAAAAACGCCGC
* * * **
29534182 TAAAGACCAGAGCATTAGCGGCGCTTTTGGT-AAAACGCCGC
1 TAAA-AACAGAGCAATAGCGGTG-TTTTAATAAAAACGCCGC
29534223 TAAAA
1 TAAAA
29534228 GTCATATAGC
Statistics
Matches: 153, Mismatches: 9, Indels: 11
0.88 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 74 0.48
41 72 0.47
42 4 0.03
43 1 0.01
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.21
Consensus pattern (40 bp):
TAAAAACAGAGCAATAGCGGTGTTTTAATAAAAACGCCGC
Found at i:29534161 original size:81 final size:81
Alignment explanation
Indices: 29534020--29534185 Score: 194
Period size: 81 Copynumber: 2.0 Consensus size: 81
29534010 AAAAAAATTT
* * *
29534020 TAAAATACAGAGCAATAGCGGTGTTTTAATAAAAACGCCGCTAAAAACAGAGTAACAGCGGTG-T
1 TAAAATACAGAGCAACAGCGGTGTTTTAATAAAAACGCCGCTAAAAACAGAGCAACAGCGGCGCT
29534084 TTTAATAAAAACGCCGC
66 TTTAAT-AAAACGCCGC
* * * **
29534101 TAAAA-ACAGAGTAACAGCGGTGTTTT-TTACTAAAACGCCGCTAAAACCAGAGCATTAGCGGCG
1 TAAAATACAGAGCAACAGCGGTGTTTTAATA--AAAACGCCGCTAAAAACAGAGCAACAGCGGCG
**
29534164 CTTTTGGTAAAACGCCGC
64 CTTTTAATAAAACGCCGC
29534182 TAAA
1 TAAA
29534186 GACCAGAGCA
Statistics
Matches: 72, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 2 0.03
80 19 0.26
81 46 0.64
82 5 0.07
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.22
Consensus pattern (81 bp):
TAAAATACAGAGCAACAGCGGTGTTTTAATAAAAACGCCGCTAAAAACAGAGCAACAGCGGCGCT
TTTAATAAAACGCCGC
Found at i:29535222 original size:21 final size:21
Alignment explanation
Indices: 29535205--29535245 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
29535195 TGTGTTTGTG
29535205 GTCTAAGGTTTAGGGTTTAGA
1 GTCTAAGGTTTAGGGTTTAGA
*
29535226 GTCTCAGGTTTAGGGATTTA
1 GTCTAAGGTTTAGGG-TTTA
29535246 AATTTAGAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.22, C:0.07, G:0.32, T:0.39
Consensus pattern (21 bp):
GTCTAAGGTTTAGGGTTTAGA
Found at i:29536795 original size:6 final size:6
Alignment explanation
Indices: 29536784--29536821 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
29536774 TTTTATATTA
29536784 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TT
1 TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TTGGTT TT
29536822 AATAAATCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (6 bp):
TTGGTT
Found at i:29539415 original size:9 final size:9
Alignment explanation
Indices: 29539392--29539431 Score: 66
Period size: 8 Copynumber: 4.7 Consensus size: 9
29539382 TCTCCAACCT
29539392 TATTTTAAA
1 TATTTTAAA
29539401 -ATTTTAAA
1 TATTTTAAA
29539409 TATTTTAAA
1 TATTTTAAA
29539418 TA-TTTAAA
1 TATTTTAAA
29539426 TATTTT
1 TATTTT
29539432 GGTTATTTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
8 16 0.55
9 13 0.45
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (9 bp):
TATTTTAAA
Found at i:29539440 original size:17 final size:17
Alignment explanation
Indices: 29539392--29539431 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
29539382 TCTCCAACCT
29539392 TATTTTAAA-ATTTTAAA
1 TATTTTAAATA-TTTAAA
29539409 TATTTTAAATATTTAAA
1 TATTTTAAATATTTAAA
29539426 TATTTT
1 TATTTT
29539432 GGTTATTTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 21 0.95
18 1 0.05
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TATTTTAAATATTTAAA
Found at i:29539663 original size:133 final size:133
Alignment explanation
Indices: 29539425--29539944 Score: 1004
Period size: 133 Copynumber: 3.9 Consensus size: 133
29539415 AAATATTTAA
29539425 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
*
29539490 TGTGGACTTAGATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
66 TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
29539555 GTT
131 GTT
29539558 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
29539623 TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
66 TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
*
29539688 ATT
131 GTT
29539691 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
* *
29539756 TGTGGACTTAGATTGATTTAAGAGTTTATTGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
66 TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
29539821 GTT
131 GTT
29539824 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
1 ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
29539889 TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
66 TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATAT
29539945 TGTTGAATTC
Statistics
Matches: 380, Mismatches: 7, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
133 380 1.00
ACGTcount: A:0.22, C:0.10, G:0.18, T:0.51
Consensus pattern (133 bp):
ATATTTTGGTTATTTAGATGTTCTTTTGGTCTGTTTTCATGTTTCTATCCAACTTATGTGTTTAG
TGTGGACTTAAATTGATTTAAGAGTTTAATGCTGTCTTGTTGCTCACGTTTTATATAATAAAATT
GTT
Found at i:29542048 original size:21 final size:21
Alignment explanation
Indices: 29542019--29542058 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
29542009 GTTTTTATAT
*
29542019 TTTGGTTCAACTTAAGTATTA
1 TTTGATTCAACTTAAGTATTA
29542040 TTTGATTCAACTTAAGTAT
1 TTTGATTCAACTTAAGTAT
29542059 GAATTAATTT
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:0.10, G:0.12, T:0.47
Consensus pattern (21 bp):
TTTGATTCAACTTAAGTATTA
Found at i:29548230 original size:21 final size:21
Alignment explanation
Indices: 29548204--29548251 Score: 96
Period size: 21 Copynumber: 2.3 Consensus size: 21
29548194 TCAACTTAGA
29548204 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
29548225 GCGGAGGCAGCAGCGAGGGAG
1 GCGGAGGCAGCAGCGAGGGAG
29548246 GCGGAG
1 GCGGAG
29548252 CAGAACAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.23, C:0.19, G:0.58, T:0.00
Consensus pattern (21 bp):
GCGGAGGCAGCAGCGAGGGAG
Found at i:29548603 original size:43 final size:43
Alignment explanation
Indices: 29548554--29549004 Score: 416
Period size: 43 Copynumber: 10.5 Consensus size: 43
29548544 CTGGGCACAC
*
29548554 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * **
29548597 TTGCGGCGTTTTTTTACAAAAGCGCCGCTAAAAGTACAAGTCTA
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * *
29548641 TAGCGGCATTTTTTATAAAAGCGCCGCT-AAAGTTCTTGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTAC-TGGTCTA
* * * *
29548684 TAGAGGCTTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * *
29548727 TAGCGGCATTTTTTATAAAAGCGCGGCTAAAAGTACAGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * *
29548770 TAGCAGCGTTTTTTATAAAAGCGCCGCT-AAAGTTCCTGGTCTA
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAG-TACTGGTCTA
* * * *
29548813 TAGCGGCGCTTTTATAAAAAA-CGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * *
29548856 TAACGGCGCTTTTATAAAAAA-CGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * * * * *
29548899 TGGCGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTT
1 TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
* * *
29548941 TAGCGACGCTTTTATAAAAAA-TGCCGCT-AAAG-ATCGTGGTCCT-
1 TAGCGGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTA-C-TGGT-CTA
29548984 TAGCGGCGTTTTTTAGAAAAA
1 TAGCGGCGTTTTTTA-AAAAA
29549005 AACGCCGCGA
Statistics
Matches: 351, Mismatches: 44, Indels: 26
0.83 0.10 0.06
Matches are distributed among these distances:
41 3 0.01
42 53 0.15
43 232 0.66
44 63 0.18
ACGTcount: A:0.28, C:0.20, G:0.23, T:0.30
Consensus pattern (43 bp):
TAGCGGCGTTTTTTAAAAAAGCGCCGCTAAAAGTACTGGTCTA
Found at i:29548792 original size:129 final size:128
Alignment explanation
Indices: 29548558--29548971 Score: 465
Period size: 129 Copynumber: 3.2 Consensus size: 128
29548548 GCACACTAGC
* *
29548558 GGCG-TTTTTTAAAAAAGCGCCGCTAAAAGTACAGGTCTATTGCGGCGTTTTTTTACAAAAGCGC
1 GGCGCTTTTTT-AAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGC--TTTTTTATAAAAGCGC
* * *
29548622 CGCTAAAAGTACAAGTCTATAGCGGCATTTTTTATAAAAGCGCCGCTAAAGTTCTTGGTCTATAG
63 CGCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGTCTATAG
29548687 A
128 A
* *
29548688 GGC-TTTTTTTACAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCATTTTTTATAAAAGCGCG
1 GGCGCTTTTTTA-AAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGC-TTTTTTATAAAAGCGCC
* *
29548752 GCTAAAAGTACAGGTCTATAGCAGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGTCTATAGC
64 GCTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGTCTATAGA
* * * * * * * ** *
29548817 GGCGCTTTTATAAAAAACGCCGCTAAAGGTCCTGGTCTTTAACGGCGCTTTTATAAAAAACGCCG
1 GGCGCTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCTTTTTTAT-AAAAGCGCCG
* * * * * * * * *
29548882 CTAAAGGTCCTGGTCTTTGGCGGCGTTTTTT-TAAGAGCGCCGCTAAAGGTCCTGGTCTTTAGC
65 CTAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGTCTATAGA
* * **
29548945 GACGCTTTTATAAAAAATGCCGCTAAA
1 GGCGCTTTTTTAAAAAGCGCCGCTAAA
29548972 GATCGTGGTC
Statistics
Matches: 248, Mismatches: 32, Indels: 10
0.86 0.11 0.03
Matches are distributed among these distances:
128 60 0.24
129 140 0.56
130 48 0.19
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.29
Consensus pattern (128 bp):
GGCGCTTTTTTAAAAAGCGCCGCTAAAAGTACAGGTCTATAGCGGCTTTTTTATAAAAGCGCCGC
TAAAAGTACAGGTCTATAGCGGCGTTTTTTATAAAAGCGCCGCTAAAGTTCCTGGTCTATAGA
Found at i:29550333 original size:20 final size:20
Alignment explanation
Indices: 29550308--29550346 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
29550298 CCGTGTATTC
29550308 ATTTGTTGCAATGTAAAAAT
1 ATTTGTTGCAATGTAAAAAT
29550328 ATTTGTTGCAATGTAAAAA
1 ATTTGTTGCAATGTAAAAA
29550347 CTTGAATTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.15, T:0.38
Consensus pattern (20 bp):
ATTTGTTGCAATGTAAAAAT
Found at i:29555494 original size:29 final size:29
Alignment explanation
Indices: 29555428--29555575 Score: 137
Period size: 29 Copynumber: 5.2 Consensus size: 29
29555418 CTAGATAATG
* *
29555428 CATATGGCCCACT-GGGCCCAA-TCTCATT
1 CATATGGCCCA-TATGGCCCAATTCACATT
* *
29555456 CATATGGCCCATATGGCCCAGTTCATATT
1 CATATGGCCCATATGGCCCAATTCACATT
* *
29555485 CTTATGGCCCACTA-GGCCAAATTCACATT
1 CATATGGCCCA-TATGGCCCAATTCACATT
*
29555514 CATATGGCCCAT-TAGGCCCAAATCACATT
1 CATATGGCCCATAT-GGCCCAATTCACATT
* *
29555543 TATATGGCCCGT-TAGGCCCAA-TCACATT
1 CATATGGCCCATAT-GGCCCAATTCACATT
29555571 CATAT
1 CATAT
29555576 TCATGCTCAC
Statistics
Matches: 101, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
27 1 0.01
28 29 0.29
29 69 0.68
30 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.28
Consensus pattern (29 bp):
CATATGGCCCATATGGCCCAATTCACATT
Found at i:29555520 original size:58 final size:57
Alignment explanation
Indices: 29555429--29555575 Score: 181
Period size: 58 Copynumber: 2.6 Consensus size: 57
29555419 TAGATAATGC
* * ** *
29555429 ATATGGCCCACTGGGCCCAATCTCATTCATATGGCCCA-TATGGCCCAGTTCATATTCT
1 ATATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTA-GGCCCAAATCACATT-T
*
29555487 -TATGGCCCACTAGGCCAAATTCACATTCATATGGCCCATTAGGCCCAAATCACATTT
1 ATATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATTAGGCCCAAATCACATTT
**
29555544 ATATGGCCCGTTAGGCCCAATCACATTCATAT
1 ATATGGCCCACTAGGCCCAATCACATTCATAT
29555576 TCATGCTCAC
Statistics
Matches: 77, Mismatches: 9, Indels: 7
0.83 0.10 0.08
Matches are distributed among these distances:
57 30 0.39
58 45 0.58
59 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.16, T:0.28
Consensus pattern (57 bp):
ATATGGCCCACTAGGCCCAATCACATTCATATGGCCCATTAGGCCCAAATCACATTT
Found at i:29562981 original size:28 final size:28
Alignment explanation
Indices: 29562949--29563013 Score: 96
Period size: 28 Copynumber: 2.3 Consensus size: 28
29562939 ATTTACCAGA
*
29562949 ATACCCCTATGTATG-TAAAATTACCATT
1 ATACCCCTATGTATGCT-AAATGACCATT
*
29562977 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCTAAATGACCATT
29563005 ATACCCCTA
1 ATACCCCTA
29563014 GGGTTAATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 33 0.97
29 1 0.03
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.34
Consensus pattern (28 bp):
ATACCCCTATGTATGCTAAATGACCATT
Found at i:29563202 original size:28 final size:28
Alignment explanation
Indices: 29563129--29563214 Score: 73
Period size: 33 Copynumber: 2.9 Consensus size: 28
29563119 CTGATGGATA
* * * *
29563129 TGCCACAAATTATTTATTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGGCAC
29563157 TGCCACAACCACATATATCTGTTCTGGTGGCAC
1 TGCCAC-A--A-A-ATATCTGTTCTGGTGGCAC
*
29563190 TGCCACAAAATATCTGCATCTGGTG
1 TGCCACAAAATATCTG-TTCTGGTG
29563215 ACTCTGTCAC
Statistics
Matches: 47, Mismatches: 5, Indels: 11
0.75 0.08 0.17
Matches are distributed among these distances:
28 13 0.28
29 9 0.19
30 1 0.02
31 1 0.02
32 2 0.04
33 21 0.45
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGGCAC
Found at i:29563225 original size:29 final size:28
Alignment explanation
Indices: 29563171--29563225 Score: 65
Period size: 29 Copynumber: 1.9 Consensus size: 28
29563161 ACAACCACAT
* *
29563171 ATATCTGTTCTGGTGGCACTGCCACAAA
1 ATATCTGATCTGGTGACACTGCCACAAA
* *
29563199 ATATCTGCATCTGGTGACTCTGTCACA
1 ATATCTG-ATCTGGTGACACTGCCACA
29563226 TTTTCTGTAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
28 7 0.32
29 15 0.68
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (28 bp):
ATATCTGATCTGGTGACACTGCCACAAA
Found at i:29563696 original size:18 final size:18
Alignment explanation
Indices: 29563657--29563697 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
29563647 TAATAAGGCC
* *
29563657 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
29563675 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
29563693 TTTTA
1 TTTTA
29563698 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:29564322 original size:11 final size:10
Alignment explanation
Indices: 29564294--29564327 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
29564284 AGCCTGTAAG
29564294 TATTCTGAAT
1 TATTCTGAAT
*
29564304 TTTTCTGAAT
1 TATTCTGAAT
29564314 ATATTCTGAAT
1 -TATTCTGAAT
29564325 TAT
1 TAT
29564328 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:29570557 original size:16 final size:15
Alignment explanation
Indices: 29570531--29570562 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
29570521 GCTAGATTGG
29570531 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
29570546 CAAAATGCCGAAAAGC
1 CAAAA-GCCGAAAAGC
29570562 C
1 C
29570563 GGTATTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.28, G:0.19, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:29570843 original size:28 final size:28
Alignment explanation
Indices: 29570811--29570931 Score: 197
Period size: 28 Copynumber: 4.3 Consensus size: 28
29570801 ATTTACCAGA
29570811 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
*
29570839 ATACCCCTATGTATACAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
29570867 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATTACCATT
** * *
29570895 ATACCCCTATGTATGCTGAATGACCTTT
1 ATACCCCTATGTATGCAAAATTACCATT
29570923 ATACCCCTA
1 ATACCCCTA
29570932 GGGTTAATTT
Statistics
Matches: 87, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 87 1.00
ACGTcount: A:0.34, C:0.26, G:0.07, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATTACCATT
Found at i:29571080 original size:28 final size:27
Alignment explanation
Indices: 29571047--29571118 Score: 99
Period size: 27 Copynumber: 2.6 Consensus size: 27
29571037 CTGGTGGCTA
*
29571047 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAA-TATCTGTTCTAGTGGCAC
* *
29571075 TGCCACATATATCTGTTCTGGTGGCAC
1 TGCCACAAATATCTGTTCTAGTGGCAC
29571102 TGCCACAAAATATCTGT
1 TGCCAC-AAATATCTGT
29571119 ATCTGGTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 22 0.56
28 17 0.44
ACGTcount: A:0.24, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
TGCCACAAATATCTGTTCTAGTGGCAC
Found at i:29571098 original size:27 final size:27
Alignment explanation
Indices: 29571037--29571126 Score: 110
Period size: 28 Copynumber: 3.2 Consensus size: 27
29571027 AGGAAGCGTC
29571037 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* * *
29571065 CTAGTGGCCCTGCCACATATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
29571092 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
29571121 CTGGTG
1 CTGGTG
29571127 ACTCTGTCAC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
27 22 0.42
28 24 0.45
29 7 0.13
ACGTcount: A:0.21, C:0.24, G:0.22, T:0.32
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:29571137 original size:29 final size:28
Alignment explanation
Indices: 29571047--29571137 Score: 94
Period size: 27 Copynumber: 3.2 Consensus size: 28
29571037 CTGGTGGCTA
* * * *
29571047 TGCCACAAATTATCTGTTCTAGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
* *
29571075 TGCCAC-ATATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
29571102 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
29571131 TGTCACA
1 TGCCACA
29571138 TTTTCTGTAT
Statistics
Matches: 53, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
27 23 0.43
28 15 0.28
29 15 0.28
ACGTcount: A:0.23, C:0.26, G:0.19, T:0.32
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:29571610 original size:9 final size:9
Alignment explanation
Indices: 29571580--29571620 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
29571570 TAATAAGGCC
29571580 TTTTAATTA
1 TTTTAATTA
* **
29571589 TTTTTATGG
1 TTTTAATTA
29571598 TTTTAATTA
1 TTTTAATTA
29571607 TTTTAATTA
1 TTTTAATTA
29571616 TTTTA
1 TTTTA
29571621 TTTTACTATG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (9 bp):
TTTTAATTA
Found at i:29572744 original size:29 final size:28
Alignment explanation
Indices: 29572673--29572817 Score: 114
Period size: 29 Copynumber: 5.1 Consensus size: 28
29572663 ATACATGCAA
*
29572673 ATGGCCCACTAGGCCCAATC-TCATTCAT
1 ATGGCCCACTAGGCCCATTCAT-ATTCAT
* *
29572701 ATGGCCTA-TATGGCCCAGTTCATATTCTT
1 ATGGCCCACTA-GGCCCA-TTCATATTCAT
* *
29572730 ATGGCCCACTAGGCCAAATTCACATTCAT
1 ATGGCCCACTAGGCC-CATTCATATTCAT
* * * *
29572759 ATGGCCCATTAGGCCCAAATCACATTTAT
1 ATGGCCCACTAGGCCC-ATTCATATTCAT
** * *
29572788 ATGGCCCGTTAGGCCCAATCACATTCAT
1 ATGGCCCACTAGGCCCATTCATATTCAT
29572816 AT
1 AT
29572818 TCATGCTCAT
Statistics
Matches: 98, Mismatches: 13, Indels: 12
0.80 0.11 0.10
Matches are distributed among these distances:
27 2 0.02
28 26 0.27
29 66 0.67
30 4 0.04
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (28 bp):
ATGGCCCACTAGGCCCATTCATATTCAT
Found at i:29572774 original size:58 final size:57
Alignment explanation
Indices: 29572673--29572817 Score: 177
Period size: 58 Copynumber: 2.5 Consensus size: 57
29572663 ATACATGCAA
* * ** *
29572673 ATGGCCCACTAGGCCCAATCTCATTCATATGGCCTATATGGCCCAGTTCATATTCT-T
1 ATGGCCCACTAGGCCCAATCACATTCATATGGCCCATATGGCCCAAATCACATT-TAT
*
29572730 ATGGCCCACTAGGCCAAATTCACATTCATATGGCCCAT-TAGGCCCAAATCACATTTAT
1 ATGGCCCACTAGGCCCAA-TCACATTCATATGGCCCATAT-GGCCCAAATCACATTTAT
**
29572788 ATGGCCCGTTAGGCCCAATCACATTCATAT
1 ATGGCCCACTAGGCCCAATCACATTCATAT
29572818 TCATGCTCAT
Statistics
Matches: 76, Mismatches: 9, Indels: 6
0.84 0.10 0.07
Matches are distributed among these distances:
57 31 0.41
58 45 0.59
ACGTcount: A:0.27, C:0.30, G:0.15, T:0.28
Consensus pattern (57 bp):
ATGGCCCACTAGGCCCAATCACATTCATATGGCCCATATGGCCCAAATCACATTTAT
Found at i:29588358 original size:47 final size:46
Alignment explanation
Indices: 29588304--29588484 Score: 183
Period size: 47 Copynumber: 3.9 Consensus size: 46
29588294 TATGTGAGCC
29588304 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGA-TATG-AATGCT
* * * *
29588351 AGTGTAAGACATGTTTGGGACATGCATCGACTACGAGATG--TGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATGAATGCT
*
29588395 AGTGTAAGACATGTCTGCGACATGCATCGG-CACGAATATGTGAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCCACG-ATA--TGAATGCT
* * *
29588443 AGTGTAAGGCCATATCTGGGATATGGCATCGG-CATCGATATG
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCCA-CGATATG
29588485 TAAGATTTCC
Statistics
Matches: 112, Mismatches: 13, Indels: 17
0.79 0.09 0.12
Matches are distributed among these distances:
43 3 0.03
44 33 0.29
46 2 0.02
47 34 0.30
48 14 0.12
49 12 0.11
50 12 0.11
51 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCCACGATATGAATGCT
Found at i:29588436 original size:44 final size:44
Alignment explanation
Indices: 29588304--29588485 Score: 163
Period size: 44 Copynumber: 3.9 Consensus size: 44
29588294 TATGTGAGCC
*
29588304 AGTGTAAGACATGTCTGGGACATGCATCGGCCAC-ATTATGAAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CACGAATATG---TGCT
* * *
29588351 AGTGTAAGACATGTTTGGGACATGCATCGACTACG-AGATGTGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGC-ACGAATATGTGCT
*
29588395 AGTGTAAGACATGTCTGCGACATGCATCGGCACGAATATGTGAATGCT
1 AGTGTAAGACATGTCTGGGACATGCATCGGCACGAATA--TG--TGCT
* * *
29588443 AGTGTAAGGCCATATCTGGGATATGGCATCGGCATCG-ATATGT
1 AGTGTAA-GACATGTCTGGGACAT-GCATCGGCA-CGAATATGT
29588486 AAGATTTCCT
Statistics
Matches: 113, Mismatches: 12, Indels: 21
0.77 0.08 0.14
Matches are distributed among these distances:
43 3 0.03
44 34 0.30
46 4 0.04
47 33 0.29
48 13 0.12
49 12 0.11
50 12 0.11
51 2 0.02
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.26
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCACGAATATGTGCT
Found at i:29595910 original size:3 final size:3
Alignment explanation
Indices: 29595904--29595932 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
29595894 TTTTTCTCTT
29595904 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
29595933 TACTAAAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:29596544 original size:13 final size:15
Alignment explanation
Indices: 29596505--29596554 Score: 52
Period size: 15 Copynumber: 3.3 Consensus size: 15
29596495 TATGTCCCTT
29596505 TAACCCTAAAAC-CCA
1 TAACCCT-AAACTCCA
29596520 TACACACCTAAA-TCC-
1 TA-AC-CCTAAACTCCA
29596535 TAACCCTAAACTCCA
1 TAACCCTAAACTCCA
29596550 TAACC
1 TAACC
29596555 TGTAAACCCC
Statistics
Matches: 30, Mismatches: 0, Indels: 10
0.75 0.00 0.25
Matches are distributed among these distances:
13 6 0.20
14 5 0.17
15 9 0.30
16 7 0.23
17 3 0.10
ACGTcount: A:0.42, C:0.40, G:0.00, T:0.18
Consensus pattern (15 bp):
TAACCCTAAACTCCA
Found at i:29596631 original size:22 final size:23
Alignment explanation
Indices: 29596602--29596656 Score: 55
Period size: 21 Copynumber: 2.6 Consensus size: 23
29596592 ATAAAATATA
*
29596602 AACC-CTAAACTTC-TACCCCTT
1 AACCTCTAAACTTCTTACCCCCT
29596623 AACCTCT-AAC-TCTTACCCCCT
1 AACCTCTAAACTTCTTACCCCCT
* *
29596644 ATCATCTAAACTT
1 AACCTCTAAACTT
29596657 TAAACGATTA
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
20 2 0.07
21 19 0.70
22 5 0.19
23 1 0.04
ACGTcount: A:0.29, C:0.40, G:0.00, T:0.31
Consensus pattern (23 bp):
AACCTCTAAACTTCTTACCCCCT
Found at i:29596940 original size:15 final size:15
Alignment explanation
Indices: 29596920--29596979 Score: 70
Period size: 15 Copynumber: 4.1 Consensus size: 15
29596910 ATACCCATGG
*
29596920 CCATTAAACCTTAAA
1 CCATTAAACCCTAAA
29596935 CCATTAAACCCTAAA
1 CCATTAAACCCTAAA
* *
29596950 CCATT-GACCTTAAA
1 CCATTAAACCCTAAA
*
29596964 -TATTAAACCCTAAA
1 CCATTAAACCCTAAA
29596978 CC
1 CC
29596980 CCAAAATAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
13 3 0.08
14 14 0.39
15 19 0.53
ACGTcount: A:0.43, C:0.30, G:0.02, T:0.25
Consensus pattern (15 bp):
CCATTAAACCCTAAA
Found at i:29597292 original size:41 final size:42
Alignment explanation
Indices: 29597205--29597399 Score: 222
Period size: 41 Copynumber: 4.7 Consensus size: 42
29597195 GTTATATGAC
* * *
29597205 TTTTAGCGGCGTTTTGACCATAAATGCCGCTATTGCT-TTGGT
1 TTTTAGCGGCGTTTT-ACCAAAAACGCCGCTATTGCTCTAGGT
*
29597247 TTTTAGCGGCGTTTTACCAAAAACGTCGCTATTGCTCTAGG-
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTAGGT
*
29597288 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCCCT-GGT
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTAGGT
**** * *
29597329 TTTTAGCGGCGTTTTTGGTAAAACGCTGCTATTTCTCTA--T
1 TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTAGGT
*
29597369 TTTTAGCGGCGTTTTTA-CTAAAACGCCGCTA
1 TTTTAGCGGCG-TTTTACCAAAAACGCCGCTA
29597400 ATGTATAATT
Statistics
Matches: 133, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
40 26 0.20
41 89 0.67
42 18 0.14
ACGTcount: A:0.19, C:0.22, G:0.22, T:0.37
Consensus pattern (42 bp):
TTTTAGCGGCGTTTTACCAAAAACGCCGCTATTGCTCTAGGT
Found at i:29597411 original size:40 final size:41
Alignment explanation
Indices: 29597205--29597440 Score: 178
Period size: 41 Copynumber: 5.8 Consensus size: 41
29597195 GTTATATGAC
* * * * * *
29597205 TTTTAGCGGCGTTTTGACCATAAATGCCGCTATTGCTTTGGT
1 TTTTAGCGGCGTTTTTACTA-AAACGCCGCTAATGCTCTAGT
* * * *
29597247 TTTTAGCGGCG-TTTTACCAAAAACGTCGCTATTGCTCTAGG
1 TTTTAGCGGCGTTTTTA-CTAAAACGCCGCTAATGCTCTAGT
* * * *
29597288 TTTTAGCGGCG-TTTTACCAAAAACGCCGCTATTGCCCTGGT
1 TTTTAGCGGCGTTTTTA-CTAAAACGCCGCTAATGCTCTAGT
** * * *
29597329 TTTTAGCGGCGTTTTTGGTAAAACGCTGCTATTTCTCTA-T
1 TTTTAGCGGCGTTTTTACTAAAACGCCGCTAATGCTCTAGT
* *
29597369 TTTTAGCGGCGTTTTTACTAAAACGCCGCTAATG-TATAAT
1 TTTTAGCGGCGTTTTTACTAAAACGCCGCTAATGCTCTAGT
* *
29597409 TTTT-GAGGCATTTTTTGA-TAAAACGCCGCTAA
1 TTTTAGCGGC-GTTTTT-ACTAAAACGCCGCTAA
29597441 AAACGCCACT
Statistics
Matches: 163, Mismatches: 26, Indels: 12
0.81 0.13 0.06
Matches are distributed among these distances:
39 7 0.04
40 54 0.33
41 85 0.52
42 17 0.10
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.38
Consensus pattern (41 bp):
TTTTAGCGGCGTTTTTACTAAAACGCCGCTAATGCTCTAGT
Found at i:29597742 original size:15 final size:15
Alignment explanation
Indices: 29597722--29597751 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
29597712 TAGACAAAGG
*
29597722 CAATATCAGTTTGAT
1 CAATATCAGTCTGAT
29597737 CAATATCAGTCTGAT
1 CAATATCAGTCTGAT
29597752 TGGTACATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37
Consensus pattern (15 bp):
CAATATCAGTCTGAT
Found at i:29598067 original size:15 final size:15
Alignment explanation
Indices: 29598028--29598067 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
29598018 GTATTGTGAT
* *
29598028 TTGGATTTTCTTGTC
1 TTGGATTTTTTTATC
*
29598043 TTGGATTTTTTTATG
1 TTGGATTTTTTTATC
29598058 TTGGATTTTT
1 TTGGATTTTT
29598068 ATATTCTAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.10, C:0.05, G:0.20, T:0.65
Consensus pattern (15 bp):
TTGGATTTTTTTATC
Found at i:29600701 original size:46 final size:44
Alignment explanation
Indices: 29600633--29600763 Score: 169
Period size: 44 Copynumber: 3.0 Consensus size: 44
29600623 TGCTATTATG
*
29600633 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATTGA-GACGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATC-G-ACT-ACGA-GA
*
29600680 -GAGCCAGTGTAAGGCATGTCTGGGACATGCATCGACTACGAGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGA
* *
29600723 TGTGCTAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGA
1 TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGA
29600764 ATATGTGAAT
Statistics
Matches: 77, Mismatches: 5, Indels: 8
0.86 0.06 0.09
Matches are distributed among these distances:
43 7 0.09
44 37 0.48
45 1 0.01
46 32 0.42
ACGTcount: A:0.28, C:0.20, G:0.31, T:0.21
Consensus pattern (44 bp):
TGAGCCAGTGTAAGACATGTCTGGGACATGCATCGACTACGAGA
Found at i:29600770 original size:44 final size:44
Alignment explanation
Indices: 29600636--29600797 Score: 159
Period size: 44 Copynumber: 3.5 Consensus size: 44
29600626 TATTATGTGA
* *
29600636 GCCAGTGTAAGACATGTCTGGGACATGCATC-AGCATTGAGACGA-GA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGA-CA-CGA-A-GATGT
*
29600682 GCCAGTGTAAGGCATGTCTGGGACATGCATCGACTACG-AGATGT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGAC-ACGAAGATGT
* *
29600726 GCTAGTGTAAGACATGTCTGGGACATGCATCGACACGAATATGTGAAT
1 GCCAGTGTAAGACATGTCTGGGACATGCATCGACACGAAGA--TG--T
*
29600774 GCCAGTGTAAGACCATATCTGGGA
1 GCCAGTGTAAGA-CATGTCTGGGA
29600798 TTTGGCTTCG
Statistics
Matches: 99, Mismatches: 8, Indels: 15
0.81 0.07 0.12
Matches are distributed among these distances:
43 5 0.05
44 36 0.36
46 34 0.34
47 2 0.02
48 12 0.12
49 10 0.10
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (44 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCGACACGAAGATGT
Done.