Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D10
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: 67973905
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 144 of 228
Found at i:43415139 original size:14 final size:14
Alignment explanation
Indices: 43415120--43415146 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
43415110 AGATTTATGC
43415120 TTACTTCTTTTATT
1 TTACTTCTTTTATT
43415134 TTACTTCTTTTAT
1 TTACTTCTTTTAT
43415147 AGTATTGCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.70
Consensus pattern (14 bp):
TTACTTCTTTTATT
Found at i:43423206 original size:16 final size:16
Alignment explanation
Indices: 43423187--43423221 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
43423177 GAGTAAAAAA
43423187 GAAAAATGTGTGGAAT
1 GAAAAATGTGTGGAAT
* *
43423203 GAAAAGTGTGTTGAAT
1 GAAAAATGTGTGGAAT
43423219 GAA
1 GAA
43423222 TAGGTGAAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.31, T:0.26
Consensus pattern (16 bp):
GAAAAATGTGTGGAAT
Found at i:43423797 original size:27 final size:28
Alignment explanation
Indices: 43423762--43423829 Score: 68
Period size: 27 Copynumber: 2.5 Consensus size: 28
43423752 AAATTTATGA
* *
43423762 AATTTTGTTATAAAATTAATTAAAATTT
1 AATTATGTTATAAAATTAAGTAAAATTT
* *
43423790 AA-TATGTTA-ATAATTTAAGTACAATTT
1 AATTATGTTATA-AAATTAAGTAAAATTT
*
43423817 AATTATTTTATAA
1 AATTATGTTATAA
43423830 TTATATTATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
26 1 0.03
27 21 0.66
28 9 0.28
29 1 0.03
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.49
Consensus pattern (28 bp):
AATTATGTTATAAAATTAAGTAAAATTT
Found at i:43436942 original size:14 final size:14
Alignment explanation
Indices: 43436923--43436952 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43436913 ATGATTTTAA
43436923 GTTTAAAAGGGCAT
1 GTTTAAAAGGGCAT
43436937 GTTTAAAAGGGCAT
1 GTTTAAAAGGGCAT
43436951 GT
1 GT
43436953 AAAAACACAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.07, G:0.30, T:0.30
Consensus pattern (14 bp):
GTTTAAAAGGGCAT
Found at i:43438174 original size:22 final size:22
Alignment explanation
Indices: 43438149--43438190 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
43438139 TACAAAGTTG
43438149 ATAATAATTAA-TATATATTATA
1 ATAATAA-TAATTATATATTATA
*
43438171 ATAATTATAATTATATATTA
1 ATAATAATAATTATATATTA
43438191 GTTATTATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAATAATAATTATATATTATA
Found at i:43441845 original size:27 final size:27
Alignment explanation
Indices: 43441815--43441874 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
43441805 CATCTTTTAC
*
43441815 GGGTATAACAGTTATTTTATCC-TATGG
1 GGGTATAACAGTCATTTTA-CCTTATGG
** *
43441842 GGGTATTTCGGTCATTTTACCTTATGG
1 GGGTATAACAGTCATTTTACCTTATGG
43441869 GGGTAT
1 GGGTAT
43441875 TTCGGTCATT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.07
27 26 0.93
ACGTcount: A:0.20, C:0.12, G:0.27, T:0.42
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCTTATGG
Found at i:43441875 original size:27 final size:27
Alignment explanation
Indices: 43441828--43441888 Score: 106
Period size: 27 Copynumber: 2.3 Consensus size: 27
43441818 TATAACAGTT
43441828 ATTTTATCCTATGGGGGTATTTCGGTC
1 ATTTTATCCTATGGGGGTATTTCGGTC
43441855 ATTTTA-CCTTATGGGGGTATTTCGGTC
1 ATTTTATCC-TATGGGGGTATTTCGGTC
43441882 ATTTTAT
1 ATTTTAT
43441889 AATACGAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
26 2 0.06
27 30 0.94
ACGTcount: A:0.16, C:0.13, G:0.23, T:0.48
Consensus pattern (27 bp):
ATTTTATCCTATGGGGGTATTTCGGTC
Found at i:43441899 original size:27 final size:27
Alignment explanation
Indices: 43441842--43441904 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
43441832 TATCCTATGG
** * *
43441842 GGGTATTTCGGTCATTTTACCTTATGG
1 GGGTATTTCGGTCATTTTACAATACGA
*
43441869 GGGTATTTCGGTCATTTTATAATACGA
1 GGGTATTTCGGTCATTTTACAATACGA
43441896 GGGTATTTC
1 GGGTATTTC
43441905 AATCATTTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.19, C:0.13, G:0.25, T:0.43
Consensus pattern (27 bp):
GGGTATTTCGGTCATTTTACAATACGA
Found at i:43449206 original size:24 final size:24
Alignment explanation
Indices: 43449179--43449233 Score: 101
Period size: 24 Copynumber: 2.3 Consensus size: 24
43449169 TAAGATTAAG
*
43449179 TGAAGTAAGAATATATTCTTACAT
1 TGAAATAAGAATATATTCTTACAT
43449203 TGAAATAAGAATATATTCTTACAT
1 TGAAATAAGAATATATTCTTACAT
43449227 TGAAATA
1 TGAAATA
43449234 GTTTAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.36
Consensus pattern (24 bp):
TGAAATAAGAATATATTCTTACAT
Found at i:43452034 original size:29 final size:29
Alignment explanation
Indices: 43451992--43452084 Score: 89
Period size: 29 Copynumber: 3.2 Consensus size: 29
43451982 ATGTGCTAAA
* * *
43451992 CGATGGTCGTAACCGTCCCTTTTCATATT
1 CGATGATCGAAACCATCCCTTTTCATATT
* * *
43452021 CGATGATTGGAACCATCCGTTTTCATATTT
1 CGATGATCGAAACCATCCCTTTTCATA-TT
* *
43452051 C-ATGGTCGAAACCATCCCTTTTCATTAAT
1 CGATGATCGAAACCATCCCTTTTCA-TATT
43452080 CGATG
1 CGATG
43452085 GTTGTCACCA
Statistics
Matches: 51, Mismatches: 10, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
29 43 0.84
30 8 0.16
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.37
Consensus pattern (29 bp):
CGATGATCGAAACCATCCCTTTTCATATT
Found at i:43452115 original size:59 final size:59
Alignment explanation
Indices: 43451994--43452141 Score: 149
Period size: 59 Copynumber: 2.5 Consensus size: 59
43451984 GTGCTAAACG
* * * * * * *
43451994 ATGGTCGTAACCGTCCCTTTTCA-TATTCGATGATTGGAACCATCCGTTTTCATATTTC
1 ATGGTCGAAACCATCCCTTTTCATTAATCGATGATTGGAACCACCCCTTTTCATAATTA
* **
43452052 ATGGTCGAAACCATCCCTTTTCATTAATCGATGGTTGTCACCACCCCTTTTCATAATTA
1 ATGGTCGAAACCATCCCTTTTCATTAATCGATGATTGGAACCACCCCTTTTCATAATTA
* * *
43452111 ATGGTC-ATCACCATTCCTTTACATT-ATCGAT
1 ATGGTCGA-AACCATCCCTTTTCATTAATCGAT
43452142 AGCCAAAGCT
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
58 28 0.37
59 47 0.63
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.38
Consensus pattern (59 bp):
ATGGTCGAAACCATCCCTTTTCATTAATCGATGATTGGAACCACCCCTTTTCATAATTA
Found at i:43452129 original size:29 final size:30
Alignment explanation
Indices: 43452061--43452193 Score: 85
Period size: 29 Copynumber: 4.5 Consensus size: 30
43452051 CATGGTCGAA
* **
43452061 ACCATCCCTTTTCATTAATCGATGGTTGTC
1 ACCATCCCTTTTCATTAATCAATGGTCATC
* *
43452091 ACCACCCCTTTTCA-TAATTAATGGTCATC
1 ACCATCCCTTTTCATTAATCAATGGTCATC
* * * * * *
43452120 ACCATTCCTTTACATT-ATCGATAGCCA-A
1 ACCATCCCTTTTCATTAATCAATGGTCATC
* * * **
43452148 AGCTATCCCTTTTCA-TATTCGATGGTTGTC
1 A-CCATCCCTTTTCATTAATCAATGGTCATC
43452178 ACCATCCCTTTTCATT
1 ACCATCCCTTTTCATT
43452194 GTTCAATGAT
Statistics
Matches: 75, Mismatches: 23, Indels: 10
0.69 0.21 0.09
Matches are distributed among these distances:
28 2 0.03
29 57 0.76
30 16 0.21
ACGTcount: A:0.23, C:0.29, G:0.10, T:0.38
Consensus pattern (30 bp):
ACCATCCCTTTTCATTAATCAATGGTCATC
Found at i:43458060 original size:29 final size:29
Alignment explanation
Indices: 43458019--43458180 Score: 123
Period size: 29 Copynumber: 5.6 Consensus size: 29
43458009 ACCTTTCCAT
*
43458019 AACCGTCCCTTTTCATATTCGATGGTCAA
1 AACCATCCCTTTTCATATTCGATGGTCAA
* * **
43458048 AACCATCCGTTTTCATATTCGATGCTTGA
1 AACCATCCCTTTTCATATTCGATGGTCAA
* ***
43458077 AACCATCCCTTTTCATTAATCGATGGTTGT
1 AACCATCCCTTTTCA-TATTCGATGGTCAA
* **
43458107 CACCATCCCTTTTCATAGTT-GATGGTCGTC
1 AACCATCCCTTTTCATA-TTCGATGGTC-AA
* *
43458137 AA-CATCCCTTTTCATTATT-GATAGCCAA
1 AACCATCCCTTTTCA-TATTCGATGGTCAA
* *
43458165 AGCTATCCCTTTTCAT
1 AACCATCCCTTTTCAT
43458181 TATCGATAGC
Statistics
Matches: 107, Mismatches: 21, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
28 2 0.02
29 76 0.71
30 29 0.27
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.38
Consensus pattern (29 bp):
AACCATCCCTTTTCATATTCGATGGTCAA
Found at i:43458088 original size:58 final size:58
Alignment explanation
Indices: 43458019--43458242 Score: 170
Period size: 58 Copynumber: 3.8 Consensus size: 58
43458009 ACCTTTCCAT
* * *
43458019 AACCGTCCCTTTTCA-TATTCGATGGTCAAAACCATCCGTTTTCATATTCGATGCTTGA
1 AACCATCCCTTTTCATTATT-GATAGTCAAAACCATCCCTTTTCATATTCGATGCTTGA
* * **** * * *
43458077 AACCATCCCTTTTCATTAATCGATGGTTGTCACCATCCCTTTTCATAGTT-GATGGTCGTC
1 AACCATCCCTTTTCATT-ATTGATAGTCAAAACCATCCCTTTTCATA-TTCGATGCTTG-A
* * *
43458137 AA-CATCCCTTTTCATTATTGATAGCCAAAGCTATCCCTTTTCAT-TATCGATAGC-TGA
1 AACCATCCCTTTTCATTATTGATAGTCAAAACCATCCCTTTTCATAT-TCGAT-GCTTGA
* * * * * *
43458194 ATCTATCCCTTTTCATTATTGATAGTCGAAGCTATCCTTTTTCATATTC
1 AACCATCCCTTTTCATTATTGATAGTCAAAACCATCCCTTTTCATATTC
43458243 TTTAGCCGAA
Statistics
Matches: 130, Mismatches: 27, Indels: 18
0.74 0.15 0.10
Matches are distributed among these distances:
56 1 0.01
57 2 0.02
58 77 0.59
59 44 0.34
60 6 0.05
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (58 bp):
AACCATCCCTTTTCATTATTGATAGTCAAAACCATCCCTTTTCATATTCGATGCTTGA
Found at i:43458181 original size:29 final size:29
Alignment explanation
Indices: 43458140--43458297 Score: 194
Period size: 29 Copynumber: 5.4 Consensus size: 29
43458130 GGTCGTCAAC
*
43458140 ATCCCTTTTCATTATTGATAGCCAAAGCT
1 ATCCCTTTTCATTATTGATAGCCGAAGCT
* * *
43458169 ATCCCTTTTCATTATCGATAGCTGAATCT
1 ATCCCTTTTCATTATTGATAGCCGAAGCT
*
43458198 ATCCCTTTTCATTATTGATAGTCGAAGCT
1 ATCCCTTTTCATTATTGATAGCCGAAGCT
* **
43458227 ATCCTTTTTCA-TATTCTTTAGCCGAAGCT
1 ATCCCTTTTCATTATT-GATAGCCGAAGCT
* *
43458256 ATCCCTTTTCA-TATTCAATAGCAGAAGCT
1 ATCCCTTTTCATTATT-GATAGCCGAAGCT
43458285 ATCCCTTTTCATT
1 ATCCCTTTTCATT
43458298 GGTCGATTAT
Statistics
Matches: 111, Mismatches: 16, Indels: 3
0.85 0.12 0.02
Matches are distributed among these distances:
28 4 0.04
29 106 0.95
30 1 0.01
ACGTcount: A:0.25, C:0.24, G:0.10, T:0.41
Consensus pattern (29 bp):
ATCCCTTTTCATTATTGATAGCCGAAGCT
Found at i:43458236 original size:87 final size:87
Alignment explanation
Indices: 43458111--43458297 Score: 222
Period size: 87 Copynumber: 2.1 Consensus size: 87
43458101 GGTTGTCACC
*
43458111 ATCCCTTTTCA-TAGTTGATGGTCGTCAACATCCCTTTTCATTATT-GATAGCCAAAGCTATCCC
1 ATCCCTTTTCATTAGTTGATAGTCG-CAACATCCCTTTTCA-TATTCGATAGCCAAAGCTATCCC
* * *
43458174 TTTTCAT-TATCGATAGCTGAATCT
64 TTTTCATAT-TCAATAGCAGAAGCT
* ** *
43458198 ATCCCTTTTCATTA-TTGATAGTCG-AAGCTATCCTTTTTCATATTCTTTAGCCGAAGCTATCCC
1 ATCCCTTTTCATTAGTTGATAGTCGCAA-C-ATCCCTTTTCATATTCGATAGCCAAAGCTATCCC
43458261 TTTTCATATTCAATAGCAGAAGCT
64 TTTTCATATTCAATAGCAGAAGCT
43458285 ATCCCTTTTCATT
1 ATCCCTTTTCATT
43458298 GGTCGATTAT
Statistics
Matches: 87, Mismatches: 8, Indels: 10
0.83 0.08 0.10
Matches are distributed among these distances:
85 2 0.02
86 5 0.06
87 77 0.89
88 3 0.03
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.41
Consensus pattern (87 bp):
ATCCCTTTTCATTAGTTGATAGTCGCAACATCCCTTTTCATATTCGATAGCCAAAGCTATCCCTT
TTCATATTCAATAGCAGAAGCT
Found at i:43465700 original size:46 final size:45
Alignment explanation
Indices: 43465597--43465712 Score: 175
Period size: 46 Copynumber: 2.6 Consensus size: 45
43465587 TACGTATGAT
*
43465597 CACTTATCAC-TTGTC-CCTGATCAGATAAGTGTAGCTAGCCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCCTAC
*
43465640 CACTTATCACTTTGTCACTTGATCATATAAGTGTAGCTAAAG-CTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT--AGCCTAC
43465686 CACTTATCACTTTGTCACTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
43465713 AGTACCCAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
43 10 0.15
44 5 0.08
45 19 0.29
46 30 0.45
47 2 0.03
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.34
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGCCTAC
Found at i:43471811 original size:14 final size:14
Alignment explanation
Indices: 43471794--43471822 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43471784 ATACGCAAGA
43471794 AACTATACATACAG
1 AACTATACATACAG
43471808 AACTATACATACAG
1 AACTATACATACAG
43471822 A
1 A
43471823 CTAAGTGATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.21, G:0.07, T:0.21
Consensus pattern (14 bp):
AACTATACATACAG
Found at i:43475113 original size:28 final size:28
Alignment explanation
Indices: 43475072--43475184 Score: 151
Period size: 28 Copynumber: 4.1 Consensus size: 28
43475062 GTATCATACG
*
43475072 GTGT-GGCCTTAGCCCATTACAGAAATA
1 GTGTGGGCCTTAGCCCATTACAGAAACA
*
43475099 ATGTGGGCCTTAGCCCATTACA-ATAACA
1 GTGTGGGCCTTAGCCCATTACAGA-AACA
*
43475127 GTGTGGGCCTTAGCCCAATACAGAAACA
1 GTGTGGGCCTTAGCCCATTACAGAAACA
*
43475155 GTATGGGCC-TAGCCCATTACAGTAAACA
1 GTGTGGGCCTTAGCCCATTACAG-AAACA
43475183 GT
1 GT
43475185 ACAATGCAGT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
27 16 0.21
28 59 0.78
29 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (28 bp):
GTGTGGGCCTTAGCCCATTACAGAAACA
Found at i:43475331 original size:26 final size:25
Alignment explanation
Indices: 43475296--43475419 Score: 99
Period size: 26 Copynumber: 4.8 Consensus size: 25
43475286 AATATTGCAA
* *
43475296 CAAAGTTGCCAGTAATAGTAACAAAG
1 CAAAGCTGCCAGTAACAGTAAC-AAG
* *
43475322 CAAAACTGCCAGTAACAATAATGCAA-
1 CAAAGCTGCCAGTAACAGTAA--CAAG
* * *
43475348 CAAAGCTTCCAGTAATAGTAACGCAG
1 CAAAGCTGCCAGTAACAGTAAC-AAG
43475374 CAAAGCTGCCAGTAACAGTAACGCAA-
1 CAAAGCTGCCAGTAACAGTAA--CAAG
* *
43475400 AAAAGATGCCAGTAACAGTA
1 CAAAGCTGCCAGTAACAGTA
43475420 TAAGTGGCAT
Statistics
Matches: 78, Mismatches: 14, Indels: 12
0.75 0.13 0.12
Matches are distributed among these distances:
24 1 0.01
25 1 0.01
26 71 0.91
27 3 0.04
28 2 0.03
ACGTcount: A:0.45, C:0.21, G:0.18, T:0.16
Consensus pattern (25 bp):
CAAAGCTGCCAGTAACAGTAACAAG
Found at i:43475369 original size:52 final size:51
Alignment explanation
Indices: 43475286--43475419 Score: 160
Period size: 52 Copynumber: 2.6 Consensus size: 51
43475276 CCAATAGACT
*
43475286 AATATTGCAACAAAGTTGCCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
1 AATAATGCAACAAAGTT-CCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
** *
43475338 AATAATGCAACAAAGCTTCCAGTAATAGTAACGCAGCAAAGCTGCCAGTAAC
1 AATAATGCAACAAAG-TTCCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
* * * * *
43475390 AGTAACGCAAAAAAGATGCCAGTAACAGTA
1 AATAATGCAACAAAG-TTCCAGTAATAGTA
43475420 TAAGTGGCAT
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
52 69 0.97
53 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.17, T:0.17
Consensus pattern (51 bp):
AATAATGCAACAAAGTTCCAGTAATAGTAACAAAGCAAAACTGCCAGTAAC
Found at i:43475630 original size:27 final size:27
Alignment explanation
Indices: 43475600--43475713 Score: 70
Period size: 27 Copynumber: 4.2 Consensus size: 27
43475590 CATCTCCTAT
*
43475600 GGGTATAACAGTCATTTTACCTTTCGG
1 GGGTATAACAGTCATTTTACCTTTCAG
**** *
43475627 GGGTATTTTGGTCTTTTTACCTTTCAG
1 GGGTATAACAGTCATTTTACCTTTCAG
**** * *
43475654 GGGTATTTTGGTAATTTTACCCTTTGA-
1 GGGTATAACAGTCATTTTA-CCTTTCAG
* *
43475681 GGGTATTTA-AGTAATTTTACCTTTCAG
1 GGGTA-TAACAGTCATTTTACCTTTCAG
43475708 GGGTAT
1 GGGTAT
43475714 TTCAGTAAAT
Statistics
Matches: 72, Mismatches: 12, Indels: 7
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.10
27 57 0.79
28 8 0.11
ACGTcount: A:0.19, C:0.13, G:0.23, T:0.45
Consensus pattern (27 bp):
GGGTATAACAGTCATTTTACCTTTCAG
Found at i:43475685 original size:54 final size:55
Alignment explanation
Indices: 43475641--43475943 Score: 336
Period size: 54 Copynumber: 5.6 Consensus size: 55
43475631 ATTTTGGTCT
** *
43475641 TTTTA-CCTTTCAGGGGTATTTTGGTAATTTTACCCTTTGAGGGTATTT-AAGTAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGA-TAA
* *
43475695 TTTTA-CCTTTCAGGGGTATTTCAGTAAATTTACTCTTTGAGGGTATTTCGATAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* * *
43475749 TTTTACCCTAT-AGGGGTATTTCAATAATTTTACCTTTTGAGGGTATTTCGATAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* * * * * *
43475803 TTTTACCC-TTCAAGGGTGCTTT-GGTAATTTTACCCATCGGGGGTATTTCGATAA
1 TTTTACCCTTTCAGGGGT-ATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* * * * *
43475857 TTTTACCCTTTGA-GGGTATTTCAATAATTTTACCCTTTGAGGTTATTTTGGTAA
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
* *
43475911 TTTTACCCTAT-A-GGGTATTTCGGTAATTTTACC
1 TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACC
43475944 TTACGGGTAT
Statistics
Matches: 211, Mismatches: 32, Indels: 13
0.82 0.12 0.05
Matches are distributed among these distances:
53 24 0.11
54 176 0.83
55 11 0.05
ACGTcount: A:0.23, C:0.14, G:0.18, T:0.45
Consensus pattern (55 bp):
TTTTACCCTTTCAGGGGTATTTCAGTAATTTTACCCTTTGAGGGTATTTCGATAA
Found at i:43475714 original size:27 final size:26
Alignment explanation
Indices: 43475613--43475970 Score: 196
Period size: 27 Copynumber: 13.4 Consensus size: 26
43475603 TATAACAGTC
* * *
43475613 ATTTTACCTTTCGGGGGTATTTTGGTC
1 ATTTTACCTTTCAGGGGTA-TTTAGTA
* *
43475640 TTTTTACCTTTCAGGGGTATTTTGGTA
1 ATTTTACCTTTCAGGGGTA-TTTAGTA
*
43475667 ATTTTACCCTTTGA-GGGTATTTAAGTA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
43475694 ATTTTACCTTTCAGGGGTATTTCAGTA
1 ATTTTACCTTTCAGGGGTATTT-AGTA
* * *
43475721 AATTTACTCTTTGA-GGGTATTTCGATA
1 ATTTTAC-CTTTCAGGGGTATTTAG-TA
* *
43475748 ATTTTACCCTAT-AGGGGTATTTCAATA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
* *
43475775 ATTTTACCTTT-TGAGGGTATTTCGATA
1 ATTTTACCTTTCAG-GGGTATTTAG-TA
* * * *
43475802 ATTTTACCCTTCAAGGGTGCTTTGGTA
1 ATTTTACCTTTCAGGGGT-ATTTAGTA
** * *
43475829 ATTTTACCCATCGGGGGTATTTCGATA
1 ATTTTACCTTTCAGGGGTATTTAG-TA
* *
43475856 ATTTTACCCTTTGA-GGGTATTTCAATA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
* * *
43475883 ATTTTACCCTTTGA-GGTTATTTTGGTA
1 ATTTTA-CCTTTCAGGGGTA-TTTAGTA
* *
43475910 ATTTTACCCTAT-A-GGGTATTTCGGTA
1 ATTTTA-CCTTTCAGGGGTATTT-AGTA
*
43475936 ATTTTACC-TT-ACGGGTATTTCAGTA
1 ATTTTACCTTTCAGGGGTATTT-AGTA
*
43475961 GTTTTACCTT
1 ATTTTACCTT
43475971 ACGGGAGTAT
Statistics
Matches: 269, Mismatches: 43, Indels: 39
0.77 0.12 0.11
Matches are distributed among these distances:
24 2 0.01
25 24 0.09
26 36 0.13
27 185 0.69
28 22 0.08
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (26 bp):
ATTTTACCTTTCAGGGGTATTTAGTA
Found at i:43475727 original size:81 final size:78
Alignment explanation
Indices: 43475613--43475970 Score: 323
Period size: 81 Copynumber: 4.5 Consensus size: 78
43475603 TATAACAGTC
* ** ** *
43475613 ATTTTACCTTTCGGGGGTATTTTGGTCTTTTTACCTTTCAGGGGTATTTTGGTAATTTTACCCTT
1 ATTTTACCTTT-AGGGGTATTTCAGTAATTTTACCTTTCA-GGGTATTTTGGTAATTTTACCCTA
43475678 TGAGGGTATTTAAGTA
64 T-AGGGTATTTAAGTA
* * * *
43475694 ATTTTACCTTTCAGGGGTATTTCAGTAAATTTACTCTTTGAGGGTATTTCGATAATTTTACCCTA
1 ATTTTACCTTT-AGGGGTATTTCAGTAATTTTAC-CTTTCAGGGTATTTTGGTAATTTTACCCTA
43475759 TAGGGGTATTTCAA-TA
64 TA-GGGTATTT-AAGTA
* * **
43475775 ATTTTACCTTTTGAGGGTATTTC-GATAATTTTACCCTTCAAGGGTGCTTTGGTAATTTTACCC-
1 ATTTTACCTTTAG-GGGTATTTCAG-TAATTTTACCTTTC-AGGGTATTTTGGTAATTTTACCCT
* *
43475838 ATCGGGGGTATTT-CGATA
63 AT--AGGGTATTTAAG-TA
* * *
43475856 ATTTTACCCTTT-GAGGGTATTTCAATAATTTTACCCTTTGAGGTTATTTTGGTAATTTTACCCT
1 ATTTTA-CCTTTAG-GGGTATTTCAGTAATTTTA-CCTTTCAGGGTATTTTGGTAATTTTACCCT
**
43475920 ATAGGGTATTTCGGTA
63 ATAGGGTATTTAAGTA
* *
43475936 ATTTTACC-TTACGGGTATTTCAGTAGTTTTACCTT
1 ATTTTACCTTTAGGGGTATTTCAGTAATTTTACCTT
43475971 ACGGGAGTAT
Statistics
Matches: 230, Mismatches: 31, Indels: 36
0.77 0.10 0.12
Matches are distributed among these distances:
77 4 0.02
78 19 0.08
79 2 0.01
80 24 0.10
81 163 0.71
82 18 0.08
ACGTcount: A:0.22, C:0.14, G:0.19, T:0.45
Consensus pattern (78 bp):
ATTTTACCTTTAGGGGTATTTCAGTAATTTTACCTTTCAGGGTATTTTGGTAATTTTACCCTATA
GGGTATTTAAGTA
Found at i:43482632 original size:28 final size:28
Alignment explanation
Indices: 43482595--43482701 Score: 144
Period size: 28 Copynumber: 3.9 Consensus size: 28
43482585 GTATCAGTAC
* * *
43482595 AGTGT-GGCCTTAGCCCATTACAGTAAC
1 AGTGTGGGCCTTAGCCCAATACAGAAAT
* *
43482622 AGTATAGGCCTTAGCCCAATACAGAAAT
1 AGTGTGGGCCTTAGCCCAATACAGAAAT
*
43482650 ATTGTGGGCCTTAGCCCAATACAGAAAT
1 AGTGTGGGCCTTAGCCCAATACAGAAAT
*
43482678 AGTGTGGGCCTTAGCCCATTACAG
1 AGTGTGGGCCTTAGCCCAATACAG
43482702 TAAACATTAC
Statistics
Matches: 70, Mismatches: 9, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 4 0.06
28 66 0.94
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAGAAAT
Found at i:43482846 original size:26 final size:26
Alignment explanation
Indices: 43482817--43482891 Score: 78
Period size: 26 Copynumber: 2.9 Consensus size: 26
43482807 ACCAATATTA
* * *
43482817 CAGCAAAGCTGCCAGTAATAGTAATG
1 CAGCAAAGCTACCAATAACAGTAATG
**
43482843 CAGCAAAGCTACCAATAACAGTAACA
1 CAGCAAAGCTACCAATAACAGTAATG
* * *
43482869 TAGCAAAACTACTAATAACAGTA
1 CAGCAAAGCTACCAATAACAGTA
43482892 TATATGGCAT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 41 1.00
ACGTcount: A:0.47, C:0.21, G:0.15, T:0.17
Consensus pattern (26 bp):
CAGCAAAGCTACCAATAACAGTAATG
Found at i:43483142 original size:27 final size:26
Alignment explanation
Indices: 43483087--43483355 Score: 222
Period size: 27 Copynumber: 10.0 Consensus size: 26
43483077 TAACTGTCAC
*
43483087 TTTACCCTTTG-GGAGTATTTT-AGTCAT
1 TTTA-CCTTTGAGG-GTATTTTGA-TAAT
* *
43483114 TTTACATTTCGAGAGTATTTTGATAAT
1 TTTACCTTT-GAGGGTATTTTGATAAT
* *
43483141 TTTACC-CTGAGGGTATTTTGGTAAT
1 TTTACCTTTGAGGGTATTTTGATAAT
*
43483166 TTTACCTTATGAGGGTATTTCGATAAT
1 TTTACCTT-TGAGGGTATTTTGATAAT
*
43483193 TTTAGCCTTTGAGGGTATTTCGATAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
* *
43483220 TTTACCCTTCGAGGGTATTTTGGTAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
* *
43483247 TTTAGCCTATGGGGGTATTTT-AGTAAT
1 TTTA-CCTTTGAGGGTATTTTGA-TAAT
** **
43483274 TTTACCCTTAAAGGGTATTTAAATAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
* *
43483301 TTTACCTTTCGAGGTTATTTCGATAAT
1 TTTACCTTT-GAGGGTATTTTGATAAT
* * *
43483328 TTTACCCTATGGGGGTATTTCGATAAT
1 TTTA-CCTTTGAGGGTATTTTGATAAT
43483355 T
1 T
43483356 GGTGGCCCAT
Statistics
Matches: 199, Mismatches: 33, Indels: 20
0.79 0.13 0.08
Matches are distributed among these distances:
25 21 0.11
26 9 0.05
27 158 0.79
28 11 0.06
ACGTcount: A:0.24, C:0.12, G:0.19, T:0.45
Consensus pattern (26 bp):
TTTACCTTTGAGGGTATTTTGATAAT
Found at i:43483264 original size:81 final size:80
Alignment explanation
Indices: 43483128--43483355 Score: 291
Period size: 81 Copynumber: 2.8 Consensus size: 80
43483118 CATTTCGAGA
* *
43483128 GTATTTTGATAATTTTACCC-T-GAGGGTATTTTGGTAATTTTACCTTATGAGGGTATTTCGATA
1 GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTACC-TATGGGGGTATTTCGATA
* **
43483191 ATTTTAGCCTTTGAGG
65 ATTTTACCCTTAAAGG
* *
43483207 GTATTTCGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTAGCCTATGGGGGTATTT-TAGT
1 GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTA-CCTATGGGGGTATTTCGA-T
43483271 AATTTTACCCTTAAAGG
64 AATTTTACCCTTAAAGG
* * * * *
43483288 GTATTTAAATAATTTTACCTTTCGAGGTTATTTCGATAATTTTACCCTATGGGGGTATTTCGATA
1 GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTA-CCTATGGGGGTATTTCGATA
43483353 ATT
65 ATT
43483356 GGTGGCCCAT
Statistics
Matches: 130, Mismatches: 14, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
79 19 0.15
80 2 0.02
81 106 0.82
82 3 0.02
ACGTcount: A:0.24, C:0.11, G:0.20, T:0.45
Consensus pattern (80 bp):
GTATTTAGATAATTTTACCCTTCGAGGGTATTTTGGTAATTTTACCTATGGGGGTATTTCGATAA
TTTTACCCTTAAAGG
Found at i:43485401 original size:14 final size:14
Alignment explanation
Indices: 43485382--43485411 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
43485372 TGTATGTGCA
43485382 TTAGCAAATTTTCT
1 TTAGCAAATTTTCT
43485396 TTAGCAAATTTTCT
1 TTAGCAAATTTTCT
43485410 TT
1 TT
43485412 TTAAAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.27, C:0.13, G:0.07, T:0.53
Consensus pattern (14 bp):
TTAGCAAATTTTCT
Found at i:43494486 original size:20 final size:20
Alignment explanation
Indices: 43494457--43494496 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
43494447 ATGAAAATCC
43494457 GTAAAGTATGTGAAATTAAA
1 GTAAAGTATGTGAAATTAAA
*
43494477 GTAAATTATGTGAAATTAAA
1 GTAAAGTATGTGAAATTAAA
43494497 CGATATTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (20 bp):
GTAAAGTATGTGAAATTAAA
Found at i:43505451 original size:11 final size:11
Alignment explanation
Indices: 43505435--43505459 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43505425 TATTATTTAC
43505435 ATTTGATGATA
1 ATTTGATGATA
43505446 ATTTGATGATA
1 ATTTGATGATA
43505457 ATT
1 ATT
43505460 GAGTTAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.48
Consensus pattern (11 bp):
ATTTGATGATA
Found at i:43518151 original size:33 final size:32
Alignment explanation
Indices: 43518086--43518149 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 32
43518076 TTAAAAAACA
*
43518086 ATTTATATTTATAATTAATGTTTTGAAATTTT
1 ATTTATATTTATAATTAATGTTTTAAAATTTT
*
43518118 ATTTTTATTTATAATTTAATG-TTTAAAATTTT
1 ATTTATATTTATAA-TTAATGTTTTAAAATTTT
43518150 TAATATAATT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 23 0.79
33 6 0.21
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (32 bp):
ATTTATATTTATAATTAATGTTTTAAAATTTT
Found at i:43521135 original size:9 final size:9
Alignment explanation
Indices: 43521121--43521153 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
43521111 CAACTTAGTA
43521121 TTCTGTTAT
1 TTCTGTTAT
*
43521130 TTCTGTTAC
1 TTCTGTTAT
43521139 TTCTGTTAT
1 TTCTGTTAT
43521148 TT-TGTT
1 TTCTGTT
43521154 GAGAATGTGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
8 4 0.18
9 18 0.82
ACGTcount: A:0.09, C:0.12, G:0.12, T:0.67
Consensus pattern (9 bp):
TTCTGTTAT
Found at i:43521187 original size:46 final size:46
Alignment explanation
Indices: 43521135--43521227 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
43521125 GTTATTTCTG
43521135 TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
1 TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
*
43521181 TTACTTCTGTTATTTTGTTGAGAATGTGTAATATTTAAAACTTATT
1 TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
43521227 T
1 T
43521228 GAAATAAGTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (46 bp):
TTACTTCTGTTATTTTGTTGAGAATGTGAAATATTTAAAACTTATT
Found at i:43522719 original size:14 final size:14
Alignment explanation
Indices: 43522700--43522727 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
43522690 GAAGACAATG
43522700 AAAAATAGAAAAAT
1 AAAAATAGAAAAAT
43522714 AAAAATAGAAAAAT
1 AAAAATAGAAAAAT
43522728 TTAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (14 bp):
AAAAATAGAAAAAT
Found at i:43527060 original size:21 final size:21
Alignment explanation
Indices: 43527031--43527070 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
43527021 CATTTAATAT
* *
43527031 ATCACTATTATTTATTATTTA
1 ATCAATATTATTAATTATTTA
43527052 ATCAATATTATTAATTATT
1 ATCAATATTATTAATTATT
43527071 ATGAAGAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
ATCAATATTATTAATTATTTA
Found at i:43529980 original size:50 final size:50
Alignment explanation
Indices: 43529900--43530082 Score: 204
Period size: 50 Copynumber: 3.7 Consensus size: 50
43529890 AAATGTCATA
* * * ** * * * *
43529900 TCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTACCCATGCCATG
1 TCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATG
* * ** *
43529950 TCCTAGACATAGTCTTACAAGGGACCTCTCATCTCGGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATG
* * *
43530000 TCCCAGACATGGTCTTACGTGAGACCTCTCATCTCAGTGCCAACGCCATG
1 TCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATG
*
43530050 TCCCAGACATGGTCTTATGTGGGACCTCTCATA
1 TCCCAGACATGGTCTTACGTGGGACCTCTCATA
43530083 ACCTCAATAA
Statistics
Matches: 112, Mismatches: 21, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 112 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGCCATG
Found at i:43530030 original size:100 final size:100
Alignment explanation
Indices: 43529900--43530081 Score: 229
Period size: 100 Copynumber: 1.8 Consensus size: 100
43529890 AAATGTCATA
* ** ** * * *
43529900 TCCCAGATATGGTCTTACATGAGAGTTCTCATATTGGTACCCATGCCATGTCCTAGACATAGTCT
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTACCAACGCCATGTCCCAGACATAGTCT
43529965 TACAAGGGACCTCTCATCTCGGTGCCAACGCCATG
66 TACAAGGGACCTCTCATCTCGGTGCCAACGCCATG
* * * *
43530000 TCCCAGACATGGTCTTACGTGAGACCTCTCATCTCAGTGCCAACGCCATGTCCCAGACATGGTCT
1 TCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTACCAACGCCATGTCCCAGACATAGTCT
***
43530065 TATGTGGGACCTCTCAT
66 TACAAGGGACCTCTCAT
43530082 AACCTCAATA
Statistics
Matches: 67, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
100 67 1.00
ACGTcount: A:0.23, C:0.30, G:0.20, T:0.27
Consensus pattern (100 bp):
TCCCAGACATGGTCTTACATGAGACCTCTCATATCAGTACCAACGCCATGTCCCAGACATAGTCT
TACAAGGGACCTCTCATCTCGGTGCCAACGCCATG
Found at i:43536001 original size:29 final size:27
Alignment explanation
Indices: 43535983--43536052 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
43535973 ATATTAAGTC
43535983 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
43536010 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
43536038 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
43536053 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:43536046 original size:28 final size:28
Alignment explanation
Indices: 43535983--43536077 Score: 129
Period size: 28 Copynumber: 3.4 Consensus size: 28
43535973 ATATTAAGTC
*
43535983 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
43536010 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
43536038 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
43536067 CGCACACTTAG
1 CGCACACTTAG
43536078 CGCCAATCTC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.36
28 23 0.38
29 16 0.26
ACGTcount: A:0.33, C:0.28, G:0.13, T:0.26
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:43540334 original size:24 final size:24
Alignment explanation
Indices: 43540307--43540357 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
43540297 ACAAAATGAC
43540307 TAAGTCCCTATACAAGCCAGAACT
1 TAAGTCCCTATACAAGCCAGAACT
* *
43540331 TAAGTCCCTATACATGCCAGAAGT
1 TAAGTCCCTATACAAGCCAGAACT
43540355 TAA
1 TAA
43540358 AACATTTCGA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.24
Consensus pattern (24 bp):
TAAGTCCCTATACAAGCCAGAACT
Found at i:43540604 original size:20 final size:20
Alignment explanation
Indices: 43540569--43540617 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
43540559 ATCATGGTCT
*
43540569 TTGCTT-CTTCTTTACTTAC
1 TTGCTTACTTGTTTACTTAC
43540588 TCT-CTTACTTGTTTACTTAC
1 T-TGCTTACTTGTTTACTTAC
43540608 TTGCTTACTT
1 TTGCTTACTT
43540618 AAATAACTCA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.19
20 21 0.81
ACGTcount: A:0.12, C:0.24, G:0.06, T:0.57
Consensus pattern (20 bp):
TTGCTTACTTGTTTACTTAC
Found at i:43540961 original size:50 final size:49
Alignment explanation
Indices: 43540907--43541056 Score: 156
Period size: 50 Copynumber: 3.0 Consensus size: 49
43540897 ACTTGAGAGT
* * *
43540907 TCTCATATCGGTGCCTATCCCATGTCCCAGACATGGTCTAATGGGGGACC
1 TCTCATCTCGGTGCC-ATCCCATGTCCCAGACATGGTCTAACGCGGGACC
* * ** * * *
43540957 TCTCATCTTGGTGCCAACGCCATGTCTTAGACACGGCCTTACGCGGGACC
1 TCTCATCTCGGTGCCATC-CCATGTCCCAGACATGGTCTAACGCGGGACC
* * *
43541007 TCTCATCTCGGTGCCAATGCCATGTCCCAGACATGGTCTTACGTGGGACC
1 TCTCATCTCGGTGCC-ATCCCATGTCCCAGACATGGTCTAACGCGGGACC
43541057 GTTCAGAATC
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
49 2 0.03
50 77 0.96
51 1 0.01
ACGTcount: A:0.19, C:0.32, G:0.24, T:0.25
Consensus pattern (49 bp):
TCTCATCTCGGTGCCATCCCATGTCCCAGACATGGTCTAACGCGGGACC
Found at i:43543494 original size:17 final size:17
Alignment explanation
Indices: 43543461--43543496 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
43543451 TAGAATCGGG
*
43543461 TTGAGAAAATCATTTAA
1 TTGAGAAAATCAATTAA
*
43543478 TTGAGAAAATTAATTAA
1 TTGAGAAAATCAATTAA
43543495 TT
1 TT
43543497 AAAATTAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.47, C:0.03, G:0.11, T:0.39
Consensus pattern (17 bp):
TTGAGAAAATCAATTAA
Found at i:43548934 original size:27 final size:27
Alignment explanation
Indices: 43548896--43549288 Score: 372
Period size: 27 Copynumber: 14.6 Consensus size: 27
43548886 AGTCGTGGGC
* *
43548896 AAATGATCGAAATACCCCCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
43548923 AAATGATCGAAATATCCTC-AAGAGGTA
1 AAATTATCGAAATACCCTCGAAG-GGTA
43548950 AAATTA-CGGAAATACCCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
* *
43548977 AAATT-TCCAAAATACCCCCGAAGGGTA
1 AAATTAT-CGAAATACCCTCGAAGGGTA
* * *
43549004 AATTTACCGAAATACCCTTGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
43549031 AAATTATCAAAATACCCGCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
** *
43549058 AAATTATCGGCATACCCTCGAAGAGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * * **
43549085 AAATTACCAAAATACCTTCGTTGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
43549112 AAATGA-CTGAAATACCCTC-ATTGTGT-
1 AAATTATC-GAAATACCCTCGA-AGGGTA
43549138 AAATTATCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
43549165 AATTTA-CTGAAATACTCTCGAAGGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
* *
43549192 AAATTA-CTAAAATACCCTC-AATTGGTA
1 AAATTATC-GAAATACCCTCGAA-GGGTA
* * *
43549219 AAATTATTGAAATACCCTTGAAGGATA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
43549246 AAACTATCGAAATACCCCCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
43549273 AAATTATCGAAATACC
1 AAATTATCGAAATACC
43549289 TCCAATAGGT
Statistics
Matches: 297, Mismatches: 54, Indels: 30
0.78 0.14 0.08
Matches are distributed among these distances:
26 27 0.09
27 264 0.89
28 6 0.02
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.23
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGAAGGGTA
Found at i:43549580 original size:26 final size:26
Alignment explanation
Indices: 43549557--43549607 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
43549547 GTGATACTAT
* * * *
43549557 TACTGGCAGCTTTGTTGCATTACTGA
1 TACTAGCAGATTTGCTGCAATACTGA
43549583 TACTAGCAGATTTGCTGCAATACTG
1 TACTAGCAGATTTGCTGCAATACTG
43549608 GTGTGTTGGC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.35
Consensus pattern (26 bp):
TACTAGCAGATTTGCTGCAATACTGA
Found at i:43551159 original size:27 final size:27
Alignment explanation
Indices: 43551117--43551264 Score: 181
Period size: 27 Copynumber: 5.5 Consensus size: 27
43551107 TGATCCAACC
* * *
43551117 TAGGGTAAAATAACCGAAATAGCCCTC-
1 TAGGGTAAAATGATCGAAATA-CCCCCA
* *
43551144 TAGGGTAGAATGACCGAAATACCCCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
43551171 TAGGGTAAAATGATCGAAATACCCCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
* * *
43551198 TAGGGTAGAATGATGGAAATATCCCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
* * *
43551225 TAGGATAAAATGATCGAAATATCTCCA
1 TAGGGTAAAATGATCGAAATACCCCCA
43551252 TAGGGTAAAATGA
1 TAGGGTAAAATGA
43551265 CTTTTATACC
Statistics
Matches: 107, Mismatches: 13, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
26 4 0.04
27 103 0.96
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.20
Consensus pattern (27 bp):
TAGGGTAAAATGATCGAAATACCCCCA
Found at i:43551699 original size:29 final size:32
Alignment explanation
Indices: 43551666--43551725 Score: 90
Period size: 29 Copynumber: 2.0 Consensus size: 32
43551656 TATGTGTACT
*
43551666 GATTAATGAT-TT-TATACTGTT-ACTGCATC
1 GATTAATGATATTACATACTGTTCACTGCATC
43551695 GATTAATGATATTACATACTGTTCACTGCAT
1 GATTAATGATATTACATACTGTTCACTGCAT
43551726 GACTAATATT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 10 0.37
30 2 0.07
31 8 0.30
32 7 0.26
ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42
Consensus pattern (32 bp):
GATTAATGATATTACATACTGTTCACTGCATC
Found at i:43556346 original size:18 final size:18
Alignment explanation
Indices: 43556323--43556357 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
43556313 ATAGAAACAA
43556323 AAAACTAAAAAAATAAAG
1 AAAACTAAAAAAATAAAG
*
43556341 AAAACTAAAGAAATAAA
1 AAAACTAAAAAAATAAA
43556358 ATTGTTTTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.06, G:0.06, T:0.11
Consensus pattern (18 bp):
AAAACTAAAAAAATAAAG
Found at i:43565233 original size:16 final size:16
Alignment explanation
Indices: 43565212--43565243 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
43565202 TGATTGAAAG
*
43565212 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
43565228 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
43565244 GCAGCAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:43565858 original size:90 final size:90
Alignment explanation
Indices: 43565705--43565879 Score: 314
Period size: 90 Copynumber: 1.9 Consensus size: 90
43565695 GGTAAGAAGA
* * * *
43565705 TATGTGAGTTTAGTTTCGTGGAAAATTTATGGAACTTATTTTGGAGCTCCGTAGCTCTGAATAAA
1 TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
43565770 AATAATTTAGTGACTGTAACACGAC
66 AATAATTTAGTGACTGTAACACGAC
43565795 TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
1 TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
43565860 AATAATTTAGTGACTGTAAC
66 AATAATTTAGTGACTGTAAC
43565880 TCAACTAGAC
Statistics
Matches: 81, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
90 81 1.00
ACGTcount: A:0.31, C:0.13, G:0.22, T:0.34
Consensus pattern (90 bp):
TATGTGAGTCTAGTTTCGTGGAAAATTGACGGAACTTAATTTGGAGCTCCGTAGCTCTGAATAAA
AATAATTTAGTGACTGTAACACGAC
Found at i:43570473 original size:51 final size:50
Alignment explanation
Indices: 43570350--43570483 Score: 162
Period size: 50 Copynumber: 2.7 Consensus size: 50
43570340 AAAGTGATGG
* * * * *
43570350 TCACGTGTGTAGTACTATGTGCAGTCTACTACGTGTACCAGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
* * * *
43570400 TCGCATGTGTAGCACTATGTGCAGGCTACTATGCGTACC-GAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAAT-G-ATAGA
43570451 TCACATGTGTAGTACTATGTGCAGGCTACTATG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATG
43570484 TGAACCGATA
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
49 4 0.06
50 34 0.48
51 33 0.46
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
Found at i:43570491 original size:51 final size:49
Alignment explanation
Indices: 43570350--43570491 Score: 167
Period size: 51 Copynumber: 2.8 Consensus size: 49
43570340 AAAGTGATGG
* * * *
43570350 TCACGTGTGTAGTACTATGTGCAGTCTACTACGTGTACCAGAATGATAGG
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACC-GAATGATAGA
* * * * *
43570400 TCGCATGTGTAGCACTATGTGCAGGCTACTATGCGTACCGAATAGCTTCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAAT-G-ATAGA
*
43570451 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGAACCGA
1 TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGA
43570492 TATCATTAAT
Statistics
Matches: 77, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 4 0.05
50 34 0.44
51 39 0.51
ACGTcount: A:0.25, C:0.20, G:0.25, T:0.29
Consensus pattern (49 bp):
TCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGAATGATAGA
Found at i:43570578 original size:46 final size:44
Alignment explanation
Indices: 43570490--43570578 Score: 124
Period size: 46 Copynumber: 2.0 Consensus size: 44
43570480 TATGTGAACC
*
43570490 GATATCATTAATTATAAGGTGGTTGCTATGTGCTGAGCCCACCG
1 GATATCATTAATTATAAGGTGGTTGCTATGTGCTGAACCCACCG
* * *
43570534 GATATCATTGATTATAAAGGGTGGTTGCTGTGTGCTGAATCCACC
1 GATATCATTAATTAT-AA-GGTGGTTGCTATGTGCTGAACCCACC
43570579 ATGTATCTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
44 14 0.36
45 2 0.05
46 23 0.59
ACGTcount: A:0.25, C:0.17, G:0.26, T:0.33
Consensus pattern (44 bp):
GATATCATTAATTATAAGGTGGTTGCTATGTGCTGAACCCACCG
Found at i:43574960 original size:39 final size:40
Alignment explanation
Indices: 43574756--43574978 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
43574746 TTGAATGCTG
* * * * * *
43574756 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
43574796 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
43574836 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
43574876 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43574916 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
43574955 ACCGGGCTATGCCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43574979 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:43574998 original size:79 final size:80
Alignment explanation
Indices: 43574831--43575013 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
43574821 GTGCGAGATA
* * * *
43574831 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGCCCCGAAGG
** **
43574896 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
43574911 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGCCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGCCCCGAAGG
*
43574975 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
43574990 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43575014 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGCCCCGAAGG
CATTCGAACGAGGAG
Found at i:43582797 original size:39 final size:40
Alignment explanation
Indices: 43582593--43582815 Score: 227
Period size: 40 Copynumber: 5.6 Consensus size: 40
43582583 TTGAATGCTG
* * * * * *
43582593 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTACTAAA
** * * *
43582633 TCCGGACTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTACTAAA
*
43582673 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
**
43582713 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* *
43582753 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
* * * *
43582792 ACCGGGCTATGCCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
43582816 TGAACGAGGA
Statistics
Matches: 160, Mismatches: 20, Indels: 7
0.86 0.11 0.04
Matches are distributed among these distances:
39 34 0.21
40 118 0.74
41 8 0.05
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAA
Found at i:43582835 original size:79 final size:80
Alignment explanation
Indices: 43582668--43582850 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
43582658 GTGCGAGATA
* * * *
43582668 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGCCCCGAAGG
** **
43582733 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
43582748 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGCCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGCCCCGAAGG
*
43582812 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
43582827 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
43582851 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGCCCCGAAGG
CATTCGAACGAGGAG
Found at i:43584461 original size:23 final size:24
Alignment explanation
Indices: 43584417--43584467 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
43584407 TGTGAGCGAG
* *
43584417 GAAAGAACATTGAAAAAGAAAG-T
1 GAAAGAACATGGAAAAAAAAAGAT
43584440 GAAAGAA-ATGGAAAAGAAAAAGAT
1 GAAAGAACATGGAAAA-AAAAAGAT
43584464 GAAA
1 GAAA
43584468 ATGAGATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 12 0.50
24 5 0.21
ACGTcount: A:0.65, C:0.02, G:0.24, T:0.10
Consensus pattern (24 bp):
GAAAGAACATGGAAAAAAAAAGAT
Found at i:43584591 original size:16 final size:16
Alignment explanation
Indices: 43584570--43584619 Score: 50
Period size: 16 Copynumber: 3.1 Consensus size: 16
43584560 AAAGAGCCTG
43584570 AAAAGAAATCGAGTGA
1 AAAAGAAATCGAGTGA
*
43584586 AAAAGAAAGT-GAGTCTGT
1 AAAAGAAA-TCGAG--TGA
43584604 AAAAGAAA-CGAGTGA
1 AAAAGAAATCGAGTGA
43584619 A
1 A
43584620 GAGAGTAATC
Statistics
Matches: 28, Mismatches: 2, Indels: 9
0.72 0.05 0.23
Matches are distributed among these distances:
15 3 0.11
16 11 0.39
17 4 0.14
18 10 0.36
ACGTcount: A:0.54, C:0.06, G:0.26, T:0.14
Consensus pattern (16 bp):
AAAAGAAATCGAGTGA
Found at i:43584616 original size:33 final size:33
Alignment explanation
Indices: 43584548--43584619 Score: 92
Period size: 33 Copynumber: 2.2 Consensus size: 33
43584538 AGAAAACGAA
*
43584548 AGTGGAAAAGAAAAAGAGCCTGAAAAGAAATCG
1 AGTGAAAAAGAAAAAGAGCCTGAAAAGAAATCG
** *
43584581 AGTGAAAAAGAAAGTGAGTCTGTAAAAGAAA-CG
1 AGTGAAAAAGAAAAAGAGCCTG-AAAAGAAATCG
43584614 AGTGAA
1 AGTGAA
43584620 GAGAGTAATC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
33 26 0.76
34 8 0.24
ACGTcount: A:0.53, C:0.07, G:0.28, T:0.12
Consensus pattern (33 bp):
AGTGAAAAAGAAAAAGAGCCTGAAAAGAAATCG
Found at i:43588649 original size:21 final size:22
Alignment explanation
Indices: 43588607--43588660 Score: 58
Period size: 21 Copynumber: 2.5 Consensus size: 22
43588597 ACTAAGTCAT
*
43588607 AAAAT-CTAAATTATTGGACTA
1 AAAATACTAAAATATTGGACTA
*
43588628 AAAATACTAAAATA-TGGTCTA
1 AAAATACTAAAATATTGGACTA
*
43588649 AAGATAACTAAA
1 AAAAT-ACTAAA
43588661 TGGGAACAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
21 15 0.54
22 13 0.46
ACGTcount: A:0.54, C:0.09, G:0.09, T:0.28
Consensus pattern (22 bp):
AAAATACTAAAATATTGGACTA
Found at i:43591866 original size:19 final size:18
Alignment explanation
Indices: 43591815--43591866 Score: 50
Period size: 19 Copynumber: 2.8 Consensus size: 18
43591805 GGAAATAAAA
*
43591815 AAATAAAAAAAACAAACTT
1 AAATAAAAAAAA-AAAATT
* *
43591834 GAATAGAAACAAAAAAATT
1 AAATA-AAAAAAAAAAATT
*
43591853 AAATAAAAATAAAA
1 AAATAAAAAAAAAA
43591867 TTACATAATA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
18 7 0.27
19 13 0.50
20 6 0.23
ACGTcount: A:0.75, C:0.06, G:0.04, T:0.15
Consensus pattern (18 bp):
AAATAAAAAAAAAAAATT
Found at i:43591868 original size:16 final size:17
Alignment explanation
Indices: 43591847--43591879 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
43591837 TAGAAACAAA
43591847 AAAATTAAATAA-AAAT
1 AAAATTAAATAATAAAT
*
43591863 AAAATTACATAATAAAT
1 AAAATTAAATAATAAAT
43591880 TTCATAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (17 bp):
AAAATTAAATAATAAAT
Found at i:43595750 original size:21 final size:21
Alignment explanation
Indices: 43595726--43595774 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
43595716 GTGTTCTAGT
43595726 TGCATCTAGGTC-TGGTGTGGA
1 TGCATCTA-GTCTTGGTGTGGA
* *
43595747 TGCAACTAGTCTTGTTGTGGA
1 TGCATCTAGTCTTGGTGTGGA
*
43595768 TACATCT
1 TGCATCT
43595775 GATTGTGCTG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.18, C:0.16, G:0.29, T:0.37
Consensus pattern (21 bp):
TGCATCTAGTCTTGGTGTGGA
Found at i:43597231 original size:50 final size:49
Alignment explanation
Indices: 43597176--43597319 Score: 164
Period size: 49 Copynumber: 2.9 Consensus size: 49
43597166 CATTAAGATT
*
43597176 ATGAGAAGTCCCATGTAAGACCATGTCTAGGACATGGCGTTGGCACCAAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCACCAAG
* * * * *
43597226 ATGAGAGGTCCC-CGTAAGACCATGTCTGGGACATGGCATGCGCACCTAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCTTG-GCACCAAG
* * * *
43597275 ATGAGAACTCCAATGTAAGACCATATCTGGGATATGGCATTGGCA
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGC-TTGGCA
43597320 GTACAAGAAA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
48 2 0.03
49 38 0.49
50 36 0.46
51 2 0.03
ACGTcount: A:0.29, C:0.22, G:0.27, T:0.22
Consensus pattern (49 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCTTGGCACCAAG
Found at i:43600445 original size:13 final size:13
Alignment explanation
Indices: 43600427--43600451 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43600417 GAAGAAGATA
43600427 AAAAAAACTCTCC
1 AAAAAAACTCTCC
43600440 AAAAAAACTCTC
1 AAAAAAACTCTC
43600452 ATTTTTCTTT
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:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (13 bp):
AAAAAAACTCTCC
Found at i:43606816 original size:11 final size:10
Alignment explanation
Indices: 43606802--43606837 Score: 54
Period size: 11 Copynumber: 3.4 Consensus size: 10
43606792 TTCAATTTAG
43606802 TTTTTATTTT
1 TTTTTATTTT
43606812 CTTTTTATTTT
1 -TTTTTATTTT
43606823 ATTTTTATTTT
1 -TTTTTATTTT
43606834 TTTT
1 TTTT
43606838 CTAACTTTAC
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.11, C:0.03, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:43616313 original size:31 final size:31
Alignment explanation
Indices: 43616278--43616341 Score: 119
Period size: 31 Copynumber: 2.1 Consensus size: 31
43616268 TAGTTTAACA
*
43616278 TTAACTTCTTTGTTATTAAAATAAAAATTGT
1 TTAACTTCTTTGTTATTAAAATAAAAAATGT
43616309 TTAACTTCTTTGTTATTAAAATAAAAAATGT
1 TTAACTTCTTTGTTATTAAAATAAAAAATGT
43616340 TT
1 TT
43616342 GTCTTGTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.39, C:0.06, G:0.06, T:0.48
Consensus pattern (31 bp):
TTAACTTCTTTGTTATTAAAATAAAAAATGT
Found at i:43616797 original size:28 final size:28
Alignment explanation
Indices: 43616725--43616805 Score: 90
Period size: 28 Copynumber: 2.9 Consensus size: 28
43616715 TACGACATGT
* * *
43616725 AGTAATAATCTGGGCCTGAGCCCTAAGC
1 AGTAACAATCTGGGCCTTAGCCCAAAGC
* * **
43616753 AATAACAGTCTAAGCCTTAGCCCAAAGC
1 AGTAACAATCTGGGCCTTAGCCCAAAGC
*
43616781 AGTAACAATGTGGGCCTTAGCCCAA
1 AGTAACAATCTGGGCCTTAGCCCAA
43616806 TATAGAAACA
Statistics
Matches: 41, Mismatches: 12, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.33, C:0.26, G:0.21, T:0.20
Consensus pattern (28 bp):
AGTAACAATCTGGGCCTTAGCCCAAAGC
Found at i:43617179 original size:27 final size:26
Alignment explanation
Indices: 43617149--43617389 Score: 136
Period size: 27 Copynumber: 8.9 Consensus size: 26
43617139 GGTATAATAG
* *
43617149 TCATTTTACCTTATAGGGGTATTTTGC
1 TCATTTTACCTT-CAGGGGTATTTCGC
* *
43617176 TCATTTTACCCTTCGGGGGTATTTCGG
1 TCATTTTA-CCTTCAGGGGTATTTCGC
* *
43617203 TCATTTTACCCTTCAAGGGTAGTTCAG-
1 TCATTTTA-CCTTCAGGGGTATTTC-GC
* **
43617230 TCATTTTACCCTTC-GAGGGTAGTTCTA
1 TCATTTTA-CCTTCAG-GGGTATTTCGC
* *
43617257 TCATTTTACCCTTC-GAGGGTATATCGA
1 TCATTTTA-CCTTCAG-GGGTATTTCGC
*
43617284 TCATTTTACCCTTC-GAGGGTATTTTAG-
1 TCATTTTA-CCTTCAG-GGGTA-TTTCGC
*
43617311 TCATTTTACCCTTC-GAGGGTATTTCGA
1 TCATTTTA-CCTTCAG-GGGTATTTCGC
* *
43617338 TCATTTTACTCTTC-GAGAGTATTTCGG
1 TCATTTTAC-CTTCAG-GGGTATTTCGC
* *
43617365 TCATTCTACCCTTCAAGGGTATTTC
1 TCATTTTA-CCTTCAGGGGTATTTC
43617390 AATTATTTTA
Statistics
Matches: 185, Mismatches: 20, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
26 5 0.03
27 171 0.92
28 9 0.05
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.41
Consensus pattern (26 bp):
TCATTTTACCTTCAGGGGTATTTCGC
Found at i:43617223 original size:54 final size:54
Alignment explanation
Indices: 43617148--43617399 Score: 303
Period size: 54 Copynumber: 4.7 Consensus size: 54
43617138 GGGTATAATA
* * *
43617148 GTCATTTTA-CCTT-ATAGGGGTATTTTGCTCATTTTACCCTTCGGGGGTATTTCG
1 GTCATTTTACCCTTCA-A-GGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
43617202 GTCATTTTACCCTTCAAGGGTAGTTC-AGTCATTTTACCCTTCGAGGGTAGTTCT
1 GTCATTTTACCCTTCAAGGGTATTTCGA-TCATTTTACCCTTCGAGGGTATTTCG
* * * **
43617256 ATCATTTTACCCTTCGAGGGTATATCGATCATTTTACCCTTCGAGGGTATTTTA
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
43617310 GTCATTTTACCCTTCGAGGGTATTTCGATCATTTTACTCTTCGAGAGTATTTCG
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
* * *
43617364 GTCATTCTACCCTTCAAGGGTATTTCAATTATTTTA
1 GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTA
43617400 GGCCCATTAC
Statistics
Matches: 171, Mismatches: 23, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
54 164 0.96
55 6 0.04
56 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.18, T:0.42
Consensus pattern (54 bp):
GTCATTTTACCCTTCAAGGGTATTTCGATCATTTTACCCTTCGAGGGTATTTCG
Found at i:43617277 original size:81 final size:81
Alignment explanation
Indices: 43617176--43617399 Score: 331
Period size: 81 Copynumber: 2.8 Consensus size: 81
43617166 GGTATTTTGC
* *
43617176 TCATTTTACCCTTCGGGGGTATTTCGGTCATTTTACCCTTCAAGGGTAGTTCAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
*
43617241 TTCGAGGGTAGTTCTA
66 TTCGAGGGTAGTTCGA
* * * *
43617257 TCATTTTACCCTTCGAGGGTATATCGATCATTTTACCCTTCGAGGGTATTTTAGTCATTTTACCC
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
*
43617322 TTCGAGGGTATTTCGA
66 TTCGAGGGTAGTTCGA
* * * * *
43617338 TCATTTTACTCTTCGAGAGTATTTCGGTCATTCTACCCTTCAAGGGTATTTCAATTATTTTA
1 TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTA
43617400 GGCCCATTAC
Statistics
Matches: 126, Mismatches: 17, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 126 1.00
ACGTcount: A:0.20, C:0.21, G:0.18, T:0.42
Consensus pattern (81 bp):
TCATTTTACCCTTCGAGGGTATTTCGGTCATTTTACCCTTCAAGGGTATTTCAGTCATTTTACCC
TTCGAGGGTAGTTCGA
Found at i:43621445 original size:21 final size:21
Alignment explanation
Indices: 43621419--43621465 Score: 85
Period size: 21 Copynumber: 2.2 Consensus size: 21
43621409 CTGAAAAGGC
*
43621419 CTATTATTTCTTTTTAGACGG
1 CTATTATTTCTTTTTAGACAG
43621440 CTATTATTTCTTTTTAGACAG
1 CTATTATTTCTTTTTAGACAG
43621461 CTATT
1 CTATT
43621466 CTATGTACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.21, C:0.15, G:0.11, T:0.53
Consensus pattern (21 bp):
CTATTATTTCTTTTTAGACAG
Found at i:43626089 original size:17 final size:17
Alignment explanation
Indices: 43626067--43626114 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
43626057 GATAAGTATA
43626067 TATTGTTATTGCATTTT
1 TATTGTTATTGCATTTT
* *
43626084 TATTGTCATTACATTTT
1 TATTGTTATTGCATTTT
* *
43626101 CA-TGTTAGTGCATT
1 TATTGTTATTGCATT
43626115 GCGGATAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.21, C:0.10, G:0.12, T:0.56
Consensus pattern (17 bp):
TATTGTTATTGCATTTT
Found at i:43646284 original size:17 final size:17
Alignment explanation
Indices: 43646262--43646306 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
43646252 TTATTGCATT
43646262 TGTATCTGATTATGAAA
1 TGTATCTGATTATGAAA
43646279 TGTATCTGATTATGAAA
1 TGTATCTGATTATGAAA
**
43646296 TACATCTGATT
1 TGTATCTGATT
43646307 CTGTATAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.33, C:0.09, G:0.16, T:0.42
Consensus pattern (17 bp):
TGTATCTGATTATGAAA
Found at i:43647089 original size:35 final size:35
Alignment explanation
Indices: 43647039--43647107 Score: 102
Period size: 35 Copynumber: 2.0 Consensus size: 35
43647029 CAAGAGTTTT
43647039 TAAACAAACTAATGTAAATATTCCAGATTCGGCCA
1 TAAACAAACTAATGTAAATATTCCAGATTCGGCCA
* * * *
43647074 TAAATAAACTAATGTAACTCTTCTAGATTCGGCC
1 TAAACAAACTAATGTAAATATTCCAGATTCGGCC
43647108 GTAATGTCTA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (35 bp):
TAAACAAACTAATGTAAATATTCCAGATTCGGCCA
Found at i:43650192 original size:3 final size:3
Alignment explanation
Indices: 43650186--43650217 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
43650176 AAGAATAAGA
*
43650186 AGG AGG AGG AGG AGG AGG AGG AGG AGA AGG AG
1 AGG AGG AGG AGG AGG AGG AGG AGG AGG AGG AG
43650218 AGGGCGATGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.38, C:0.00, G:0.62, T:0.00
Consensus pattern (3 bp):
AGG
Found at i:43650286 original size:20 final size:21
Alignment explanation
Indices: 43650232--43650287 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 21
43650222 CGATGCCGAA
*
43650232 AAAGGAAAAGAA-AAAGAGAG
1 AAAGAAAAAGAAGAAAGAGAG
*
43650252 AAAGACAATAG-AGAAAG-GAG
1 AAAGA-AAAAGAAGAAAGAGAG
43650272 AAAGAAAAAGAAGAAA
1 AAAGAAAAAGAAGAAA
43650288 AAATAGAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 4 0.13
20 18 0.60
21 8 0.27
ACGTcount: A:0.70, C:0.02, G:0.27, T:0.02
Consensus pattern (21 bp):
AAAGAAAAAGAAGAAAGAGAG
Found at i:43650609 original size:76 final size:76
Alignment explanation
Indices: 43650506--43650685 Score: 211
Period size: 76 Copynumber: 2.3 Consensus size: 76
43650496 CTAATATTAT
43650506 TATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTACTATT-TTAGTTAGTATGATTGTTA
1 TATTATGGTTAGTTATTAGGATTAGT-AAAACCCTAATTACTATTGTTAGTTAGTATGATTGTTA
43650570 GTTTTTACACTA
65 GTTTTTACACTA
* *** * * *
43650582 TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAG
1 TATTATGGTTAGTTATTAGGATTAGTAAAACCCTAATTACTATTGTTAGTTAGTATGATTGTTAG
*** *
43650647 -TAAAAAACTA
66 TTTTTACACTA
43650657 TTATTATTGTGTTAGTTATTAGGATTAGT
1 -TATTA-TG-GTTAGTTATTAGGATTAGT
43650686 GGTTAAATGT
Statistics
Matches: 85, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
75 23 0.27
76 45 0.53
77 1 0.01
78 16 0.19
ACGTcount: A:0.32, C:0.06, G:0.13, T:0.49
Consensus pattern (76 bp):
TATTATGGTTAGTTATTAGGATTAGTAAAACCCTAATTACTATTGTTAGTTAGTATGATTGTTAG
TTTTTACACTA
Found at i:43650670 original size:41 final size:41
Alignment explanation
Indices: 43650457--43650677 Score: 155
Period size: 40 Copynumber: 5.6 Consensus size: 41
43650447 GTTTAGTTAT
* * *
43650457 TAATAATTATTGTTACTTAG-TATTATTGTTAGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
* *** *
43650497 TAA-TATTATTATTATGGTTAGTTATTAGGATTAGTAAAAACCC
1 TAATTATTATTGTTA--GTTAGTTATTATTTTTAGTAAAAA-AC
* * * *** *
43650540 TAATTACTATT-TTAGTTAG-TATGATTGTTAGTTTTTACAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAG-TAAAAAAC
**
43650580 T-A-TATTA---TT-GTTAGTTATTATTTTTAGTAAAACCC
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
43650615 TAATTATTATTGTTAGTTAG-TATTATTTTTAGTAAAAAAC
1 TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
43650655 T-ATTATTATTG-T-GTTAGTTATTA
1 TAATTATTATTGTTAGTTAGTTATTA
43650678 GGATTAGTGG
Statistics
Matches: 141, Mismatches: 26, Indels: 30
0.72 0.13 0.15
Matches are distributed among these distances:
35 10 0.07
36 13 0.09
37 10 0.07
38 10 0.07
39 20 0.14
40 34 0.24
41 16 0.11
42 15 0.11
43 7 0.05
44 6 0.04
ACGTcount: A:0.34, C:0.05, G:0.11, T:0.49
Consensus pattern (41 bp):
TAATTATTATTGTTAGTTAGTTATTATTTTTAGTAAAAAAC
Found at i:43653566 original size:8 final size:8
Alignment explanation
Indices: 43653538--43653579 Score: 50
Period size: 8 Copynumber: 5.4 Consensus size: 8
43653528 GAGCTTATGC
*
43653538 TGTAAAGT
1 TGTAATGT
*
43653546 TGTTATG-
1 TGTAATGT
43653553 TGTAATGT
1 TGTAATGT
*
43653561 TGTAATAT
1 TGTAATGT
43653569 TGTAATGT
1 TGTAATGT
43653577 TGT
1 TGT
43653580 TGTAACACCC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
7 6 0.21
8 22 0.79
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (8 bp):
TGTAATGT
Found at i:43654375 original size:25 final size:26
Alignment explanation
Indices: 43654316--43654375 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
43654306 TAATTAAATT
**
43654316 TATACAAAAAAGTACAAACTTTGTAA
1 TATACAAAAAAGTACAAACTGAGTAA
*
43654342 TATA-AAAAAAATACAAACTAGAGTAA
1 TATACAAAAAAGTACAAACT-GAGTAA
43654368 TAT-CAAAA
1 TATACAAAA
43654376 CCGCAAGAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 14 0.48
26 15 0.52
ACGTcount: A:0.60, C:0.10, G:0.07, T:0.23
Consensus pattern (26 bp):
TATACAAAAAAGTACAAACTGAGTAA
Found at i:43656379 original size:157 final size:159
Alignment explanation
Indices: 43656034--43656879 Score: 1423
Period size: 157 Copynumber: 5.3 Consensus size: 159
43656024 TAATTTCAAT
*
43656034 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* * *
43656099 TATATTATTTTAGTACATAAAGTTCGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
*
43656164 AAAAAAACCCTTATTTTGGCCATTTGTTC
131 AAAAAAACCCTTATTTTGGCCCTTTGTTC
** *
43656193 GTATTTTTCTTATTTTCAAATTTTATTACTTTAAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
43656258 TATATTATTTT-GTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
* *
43656322 -AAAAAACCCTTATTTTGGTCATTTGTTC
131 AAAAAAACCCTTATTTTGGCCCTTTGTTC
43656350 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
43656415 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTTATATAAATTTA
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG--TTTTTTATATAAATTTA
*
43656480 GTAAAAAAAACCCTTATTTTGGCCCTTTGTTT
129 GT-AAAAAAACCCTTATTTTGGCCCTTTGTTC
*
43656512 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATAT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
* * *
43656577 TATATTATTTTAGTACATAATATTTGAAATATATTAATTTAGTGT-TTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
43656641 -AAAAAACCCTTATTTTGGCCCTTTGTTC
131 AAAAAAACCCTTATTTTGGCCCTTTGTTC
* *
43656669 AG-ATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATT
1 -GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATT
43656733 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAG
65 TTATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAG
*
43656798 TAAAAAAACCCTTATTTTTGCCCTTTGTTC
130 TAAAAAAACCCTTATTTTGGCCCTTTGTTC
* **
43656828 GTATTTTTCTTTTTTTTCGGATTTTATTACTTTCATTAAATATACTATTTTC
1 GTATTTTTC-TTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTC
43656880 ATTTTTTAGT
Statistics
Matches: 646, Mismatches: 31, Indels: 19
0.93 0.04 0.03
Matches are distributed among these distances:
157 229 0.35
158 105 0.16
159 125 0.19
160 56 0.09
162 131 0.20
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (159 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAACCCTTATTTTGGCCCTTTGTTC
Found at i:43656638 original size:319 final size:317
Alignment explanation
Indices: 43656034--43656879 Score: 1446
Period size: 319 Copynumber: 2.7 Consensus size: 317
43656024 TAATTTCAAT
43656034 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
* * *
43656099 TATATTATTTTAGTACATAAAGTTCGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
* ** *
43656164 AAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTCAAATTTTATTACTTTAAAA
131 AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAA
* * * *
43656229 AAATATACTATTTTCGTATTTTATTATTTTATATTATTTTGTACATAATGTTTGAAATGTATTAT
196 AAATATACTATTTTCGTATTTTATTATATTATATTATTTTGTACATAATATTTGAAATATATTAA
*
43656294 TTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGTCATTTGTTC-
261 TTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCA
*
43656350 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
43656415 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTTTATATAAATTTA
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTG--TTTTTTATATAAATTTA
*
43656480 GTAAAAAAAACCCTTATTTTGGCCCTTTGTTTGTATTTTTCTTATTTTCGGATTTTATTACTTTC
129 GT-AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTC
43656545 AAAAAATATACTATTTTCGTATTTTATTATATTATATTATTTTAGTACATAATATTTGAAATATA
193 AAAAAATATACTATTTTCGTATTTTATTATATTATATTATTTT-GTACATAATATTTGAAATATA
*
43656610 TTAATTTAGTGT-TTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCCTTTGTTCA
257 TTAATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCA
*
43656670 G-ATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
1 GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
43656734 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
66 TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
* * *
43656799 AAAAAAACCCTTATTTTTGCCCTTTGTTCGTATTTTTCTTTTTTTTCGGATTTTATTACTTTCAT
131 AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTC-TTATTTTCGGATTTTATTACTTTCAA
*
43656864 TAAATATACTATTTTC
195 AAAATATACTATTTTC
43656880 ATTTTTTAGT
Statistics
Matches: 502, Mismatches: 22, Indels: 11
0.94 0.04 0.02
Matches are distributed among these distances:
316 143 0.28
317 58 0.12
318 19 0.04
319 251 0.50
320 31 0.06
ACGTcount: A:0.29, C:0.08, G:0.08, T:0.54
Consensus pattern (317 bp):
GTATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTT
TATATTATTTTAGTACATAATGTTTGAAATGTATTATTTTAGTGTGTTTTTTATATAAATTTAGT
AAAAAAACCCTTATTTTGGCCCTTTGTTCGTATTTTTCTTATTTTCGGATTTTATTACTTTCAAA
AAATATACTATTTTCGTATTTTATTATATTATATTATTTTGTACATAATATTTGAAATATATTAA
TTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCCTTATTTTGGCCATTTGTTCA
Found at i:43657079 original size:30 final size:30
Alignment explanation
Indices: 43657043--43657189 Score: 144
Period size: 30 Copynumber: 5.4 Consensus size: 30
43657033 AAATTAATTA
43657043 AAATAATAAAACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
43657073 AAATAATAAAACATA-CA--TA-ATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
43657099 AAATAAT--AACATA-AA--TA-AT---A-
1 AAATAATAAAACATAGAATGTACATAACAT
* *
43657119 AAATAATAAGACATAGTATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
*
43657149 AAATAATAAGACATAGAATGTACATAACAT
1 AAATAATAAAACATAGAATGTACATAACAT
43657179 AAA-AATTAAAA
1 AAATAA-TAAAA
43657190 TTAAATTATG
Statistics
Matches: 100, Mismatches: 6, Indels: 22
0.78 0.05 0.17
Matches are distributed among these distances:
20 7 0.07
21 1 0.01
22 5 0.05
23 1 0.01
24 11 0.11
25 2 0.02
26 16 0.16
27 2 0.02
29 4 0.04
30 51 0.51
ACGTcount: A:0.62, C:0.09, G:0.05, T:0.24
Consensus pattern (30 bp):
AAATAATAAAACATAGAATGTACATAACAT
Found at i:43657097 original size:12 final size:12
Alignment explanation
Indices: 43657066--43657124 Score: 82
Period size: 12 Copynumber: 4.8 Consensus size: 12
43657056 TAGAATGTAC
43657066 ATAACATAAATA
1 ATAACATAAATA
*
43657078 ATAAAACATACATA
1 AT--AACATAAATA
43657092 ATAACATAAATA
1 ATAACATAAATA
43657104 ATAACATAAATA
1 ATAACATAAATA
*
43657116 ATAAAATAA
1 ATAACATAA
43657125 TAAGACATAG
Statistics
Matches: 42, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
12 31 0.74
14 11 0.26
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (12 bp):
ATAACATAAATA
Found at i:43657112 original size:20 final size:20
Alignment explanation
Indices: 43657066--43657127 Score: 67
Period size: 20 Copynumber: 3.2 Consensus size: 20
43657056 TAGAATGTAC
* *
43657066 ATAACATAAATAATAAAA-C
1 ATAACATAAATAACAAAATA
43657085 AT-ACAT-AATAACATAAATA
1 ATAACATAAATAACA-AAATA
*
43657104 ATAACATAAATAATAAAATA
1 ATAACATAAATAACAAAATA
43657124 ATAA
1 ATAA
43657128 GACATAGTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 6 0.17
18 7 0.19
19 4 0.11
20 13 0.36
21 6 0.17
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (20 bp):
ATAACATAAATAACAAAATA
Found at i:43657146 original size:38 final size:37
Alignment explanation
Indices: 43657027--43657157 Score: 144
Period size: 38 Copynumber: 3.4 Consensus size: 37
43657017 AACACACTTA
43657027 ATAA-ATAAATTAATTAAAATAATAAAACATAGAATGTAC
1 ATAACATAAA-TAA-TAAAATAATAAAACATAG-ATGTAC
*
43657066 ATAACATAAATAATAAAACATACATAATAACATA-A-ATA-
1 ATAACATAAATAAT-AAA-ATA-ATAA-AACATAGATGTAC
*
43657104 ATAACATAAATAATAAAATAATAAGACATAGTATGTAC
1 ATAACATAAATAATAAAATAATAAAACATAG-ATGTAC
43657142 ATAACATAAATAATAA
1 ATAACATAAATAATAA
43657158 GACATAGAAT
Statistics
Matches: 80, Mismatches: 3, Indels: 19
0.78 0.03 0.19
Matches are distributed among these distances:
34 5 0.06
35 4 0.05
36 4 0.05
37 5 0.06
38 31 0.39
39 12 0.15
40 9 0.11
41 4 0.05
42 6 0.08
ACGTcount: A:0.63, C:0.08, G:0.04, T:0.26
Consensus pattern (37 bp):
ATAACATAAATAATAAAATAATAAAACATAGATGTAC
Found at i:43657432 original size:3 final size:3
Alignment explanation
Indices: 43657424--43657532 Score: 73
Period size: 3 Copynumber: 36.3 Consensus size: 3
43657414 CTTCCCTCCC
* * * *
43657424 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TTT TCT TCTT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT TC-T TCT
* * * * *
43657470 GCG TCT CCT TCC CCT TCT TCT TCT TC- TCT TC- TCT TCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
43657515 TCT TCT CTCAT TCT TCT T
1 TCT TCT -TC-T TCT TCT T
43657533 TCCTAATGCT
Statistics
Matches: 80, Mismatches: 18, Indels: 16
0.70 0.16 0.14
Matches are distributed among these distances:
2 8 0.10
3 62 0.77
4 9 0.11
5 1 0.01
ACGTcount: A:0.01, C:0.35, G:0.02, T:0.62
Consensus pattern (3 bp):
TCT
Found at i:43660912 original size:113 final size:114
Alignment explanation
Indices: 43660714--43660937 Score: 396
Period size: 113 Copynumber: 2.0 Consensus size: 114
43660704 TTATTATTGG
* * * *
43660714 CAAAGTCAAATCCACTTTTTATGCAATTTACCTTTGTTATTTTTAGTCAGTTGAAGTCTTATGGA
1 CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
43660779 TACCATAGTTCACATTCATAAT-ACACACCTTAAAAACTTTATGAATAC
66 TACCATAGTTCACATTCATAATAACACACCTTAAAAACTTTATGAATAC
43660827 CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
1 CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
43660892 TACCATAGTTCACATTCATAATACACACACCTTAAAAACTTTATGA
66 TACCATAGTTCACATTCATAATA-ACACACCTTAAAAACTTTATGA
43660938 TTCTCGCTTA
Statistics
Matches: 105, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
113 83 0.79
115 22 0.21
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.37
Consensus pattern (114 bp):
CAAAGTCAAATCCACTTTTTATGCAATATACCTTTGCTATTTTTAGCCAGTTGAAGTCTTATGAA
TACCATAGTTCACATTCATAATAACACACCTTAAAAACTTTATGAATAC
Found at i:43661009 original size:6 final size:6
Alignment explanation
Indices: 43660986--43661032 Score: 76
Period size: 6 Copynumber: 7.7 Consensus size: 6
43660976 TCTTTTATAC
*
43660986 ATATCT ATAATAT ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
1 ATATCT AT-ATCT ATATCT ATATCT ATATCT ATATCT ATATCT ATAT
43661033 ATATTATTGA
Statistics
Matches: 38, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (6 bp):
ATATCT
Found at i:43661021 original size:18 final size:18
Alignment explanation
Indices: 43660986--43661036 Score: 84
Period size: 18 Copynumber: 2.8 Consensus size: 18
43660976 TCTTTTATAC
43660986 ATATCTATAATATATATCT
1 ATATCTAT-ATATATATCT
*
43661005 ATATCTATATCTATATCT
1 ATATCTATATATATATCT
43661023 ATATCTATATATAT
1 ATATCTATATATAT
43661037 TATTGATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
18 22 0.73
19 8 0.27
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (18 bp):
ATATCTATATATATATCT
Found at i:43663085 original size:21 final size:21
Alignment explanation
Indices: 43663068--43663109 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
43663058 TTCTTTCCTT
43663068 TATTCAATTGATTGTTTCTTG
1 TATTCAATTGATTGTTTCTTG
* * *
43663089 TTTTTAATTGATTGTTACTTG
1 TATTCAATTGATTGTTTCTTG
43663110 CTCTCAATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.19, C:0.07, G:0.14, T:0.60
Consensus pattern (21 bp):
TATTCAATTGATTGTTTCTTG
Found at i:43664510 original size:19 final size:18
Alignment explanation
Indices: 43664465--43664512 Score: 53
Period size: 19 Copynumber: 2.6 Consensus size: 18
43664455 ACATAAATAA
*
43664465 ATAAATAAATAATAACGAT
1 ATAAA-AAATAATAAAGAT
43664484 A-AAGAAAATGAATAAAGAT
1 ATAA-AAAAT-AATAAAGAT
43664503 ATAAAAAATA
1 ATAAAAAATA
43664513 CAAAAAGATG
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
18 7 0.28
19 16 0.64
20 2 0.08
ACGTcount: A:0.69, C:0.02, G:0.08, T:0.21
Consensus pattern (18 bp):
ATAAAAAATAATAAAGAT
Found at i:43664721 original size:8 final size:8
Alignment explanation
Indices: 43664698--43664764 Score: 50
Period size: 8 Copynumber: 8.4 Consensus size: 8
43664688 TACATACATG
43664698 TATATAAA
1 TATATAAA
43664706 TGAT-TAAA
1 T-ATATAAA
43664714 TATATAAA
1 TATATAAA
*
43664722 AATATAAA
1 TATATAAA
**
43664730 CGTATATATG
1 --TATATAAA
*
43664740 TATGTAAA
1 TATATAAA
43664748 TAT-TAAA
1 TATATAAA
43664755 TAT-TAAA
1 TATATAAA
43664762 TAT
1 TAT
43664765 GTATATATGT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
7 16 0.33
8 25 0.52
9 2 0.04
10 5 0.10
ACGTcount: A:0.54, C:0.01, G:0.06, T:0.39
Consensus pattern (8 bp):
TATATAAA
Found at i:43664982 original size:3 final size:3
Alignment explanation
Indices: 43664866--43664963 Score: 70
Period size: 3 Copynumber: 32.7 Consensus size: 3
43664856 AAATATGATG
* * * * * *
43664866 ATA ATA ACA ATA ATA TTA ATA ATA ATA TTA ATA ATA TTA ATA CTA CTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * * * *
43664914 CTA CTA CTA CTA CTA CTA CTA CTA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43664962 AT
1 AT
43664964 TTATTATTTT
Statistics
Matches: 85, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 85 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:43668845 original size:79 final size:81
Alignment explanation
Indices: 43668709--43668893 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
43668699 TTGAATGATG
* *
43668709 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
43668773 TGTGCGAGATACTA-A
66 TGTGCGAGATACTATA
* * * **
43668788 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
*
43668850 ATTGTGCGAGTTACTATA
64 ATTGTGCGAGATACTATA
* *
43668868 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
43668894 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 57 0.63
80 33 0.36
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCAAT
TGTGCGAGATACTATA
Found at i:43668907 original size:40 final size:40
Alignment explanation
Indices: 43668710--43668893 Score: 207
Period size: 40 Copynumber: 4.6 Consensus size: 40
43668700 TGAATGATGT
* * * *
43668710 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTATAA
* * *
43668750 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTATA-A
43668790 CCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
* *
43668828 TCCGGGTTAAGTCCCGAAGGCAATTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
*
43668869 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
43668894 AACGAGTAGC
Statistics
Matches: 124, Mismatches: 13, Indels: 14
0.82 0.09 0.09
Matches are distributed among these distances:
39 35 0.28
40 79 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
Found at i:43668915 original size:79 final size:79
Alignment explanation
Indices: 43668762--43668926 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
43668752 GGACTAAGAT
* * **
43668762 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
43668827 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* *
43668841 CCGAAGGCAATTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCAATTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
43668904 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
43668920 CCGAAGG
1 CCGAAGG
43668927 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCAATTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:43673041 original size:31 final size:31
Alignment explanation
Indices: 43673006--43673067 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
43672996 TTTATTTAGA
43673006 TTCTATCTTATTAAAAATGCTTAAACGTTGG
1 TTCTATCTTATTAAAAATGCTTAAACGTTGG
*
43673037 TTCTATTTTATTAAAAATGCTTAAACGTTGG
1 TTCTATCTTATTAAAAATGCTTAAACGTTGG
43673068 GTGCTATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.44
Consensus pattern (31 bp):
TTCTATCTTATTAAAAATGCTTAAACGTTGG
Found at i:43673078 original size:31 final size:30
Alignment explanation
Indices: 43673008--43673078 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 30
43672998 TATTTAGATT
*
43673008 CTATCTTATTAAAAATGCTTAAACGTTGGTT
1 CTAT-TTATTAAAAATGCTTAAACGTTGGTG
43673039 CTATTTTATTAAAAATGCTTAAACGTTGGGTG
1 CTA-TTTATTAAAAATGCTTAAACGTT-GGTG
43673071 CTATTTAT
1 CTATTTAT
43673079 AGAATTAAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
31 30 0.81
32 7 0.19
ACGTcount: A:0.31, C:0.11, G:0.14, T:0.44
Consensus pattern (30 bp):
CTATTTATTAAAAATGCTTAAACGTTGGTG
Found at i:43673611 original size:11 final size:11
Alignment explanation
Indices: 43673595--43673619 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
43673585 TACTTTTATG
43673595 TATATTATAGA
1 TATATTATAGA
43673606 TATATTATAGA
1 TATATTATAGA
43673617 TAT
1 TAT
43673620 GTATTGTGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (11 bp):
TATATTATAGA
Found at i:43678606 original size:32 final size:31
Alignment explanation
Indices: 43678556--43678617 Score: 81
Period size: 32 Copynumber: 2.0 Consensus size: 31
43678546 ATACTTTATA
43678556 AAAGTTGCATTTTCAAAATACTTTATAAAATT
1 AAAGTTGCATTTTCAAAATACTTTA-AAAATT
* *
43678588 AAAGTTGTATATTT-AAAATATTTTAAAAAT
1 AAAGTTGCAT-TTTCAAAATACTTTAAAAAT
43678618 AATTATTATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
31 5 0.19
32 19 0.70
33 3 0.11
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (31 bp):
AAAGTTGCATTTTCAAAATACTTTAAAAATT
Found at i:43680297 original size:15 final size:14
Alignment explanation
Indices: 43680277--43680307 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
43680267 TATTCTTACA
43680277 ATAATGTTAAAAGAT
1 ATAATGTTAAAA-AT
43680292 ATAATGTTAAAAAT
1 ATAATGTTAAAAAT
43680306 AT
1 AT
43680308 TCTTACAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (14 bp):
ATAATGTTAAAAAT
Found at i:43687448 original size:27 final size:27
Alignment explanation
Indices: 43687409--43687684 Score: 315
Period size: 27 Copynumber: 10.3 Consensus size: 27
43687399 ACAGGTCAAT
** * **
43687409 AAATGACTAAAATACCCCTATAAAGTA
1 AAATGACCGAAATACCCCCATAGGGTA
43687436 AAATGACCGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
*
43687463 AAATGACTGAAATACCCCCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
** * *
43687490 AAAT-AGCTTAAATACCCTCATATGGTA
1 AAATGA-CCGAAATACCCCCATAGGGTA
* * *
43687517 GAATGACCGAAATGCCCCCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* ** *
43687544 GAATGATTGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
43687571 AAATGACC-AAAGTACCCCCATAGGGTA
1 AAATGACCGAAA-TACCCCCATAGGGTA
* *
43687598 AAATGACCG-AATACCCTCATAAGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
* *
43687624 AAATGATCGAAATACCCCCATAGGATA
1 AAATGACCGAAATACCCCCATAGGGTA
*
43687651 AAATGACCGAAATACCCTCATAGGGTA
1 AAATGACCGAAATACCCCCATAGGGTA
43687678 AAATGAC
1 AAATGAC
43687685 TGTTATACCC
Statistics
Matches: 211, Mismatches: 33, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
26 25 0.12
27 185 0.88
28 1 0.00
ACGTcount: A:0.42, C:0.22, G:0.17, T:0.20
Consensus pattern (27 bp):
AAATGACCGAAATACCCCCATAGGGTA
Found at i:43688587 original size:3 final size:3
Alignment explanation
Indices: 43688579--43688604 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
43688569 CATGATCAAG
43688579 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
43688605 TAATAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.31, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:43689572 original size:22 final size:21
Alignment explanation
Indices: 43689537--43689634 Score: 67
Period size: 21 Copynumber: 4.7 Consensus size: 21
43689527 AAAGGGTATC
* *
43689537 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
43689558 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
43689581 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
* * *
43689600 TGCATATC-TCATATCTAAGAT
1 TACAAATCAT-ATCTCTAAGAT
* *
43689621 TGCATATCATATCT
1 TACAAATCATATCT
43689635 AAGATTGCAT
Statistics
Matches: 66, Mismatches: 5, Indels: 12
0.80 0.06 0.14
Matches are distributed among these distances:
18 1 0.02
19 17 0.26
21 22 0.33
22 16 0.24
23 10 0.15
ACGTcount: A:0.39, C:0.17, G:0.07, T:0.37
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:43689580 original size:23 final size:22
Alignment explanation
Indices: 43689537--43689594 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
43689527 AAAGGGTATC
* *
43689537 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
43689558 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
43689581 TGCATATCATATCT
1 TACAAATCATATCT
43689595 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:43689613 original size:21 final size:19
Alignment explanation
Indices: 43689573--43689647 Score: 132
Period size: 19 Copynumber: 3.8 Consensus size: 19
43689563 AATCATATCT
43689573 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43689592 TCTAAGATTGCATATCTCATA
1 TCTAAGATTGCATA--TCATA
43689613 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
43689632 TCTAAGATTGCATATC
1 TCTAAGATTGCATATC
43689648 CCTGAAAATT
Statistics
Matches: 54, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
19 35 0.65
21 19 0.35
ACGTcount: A:0.35, C:0.17, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:43690231 original size:44 final size:44
Alignment explanation
Indices: 43690161--43690268 Score: 128
Period size: 44 Copynumber: 2.5 Consensus size: 44
43690151 ACCTAATACG
* * * * * *
43690161 ATCTACTCTACTGCAAATTCAGAGAGATAAGATCTATT-ATTTTA
1 ATCTGCTCCACTGCAACTTCAAAGAGATAAGAT-TATTGACTTCA
* *
43690205 ATCTGCTCCACTGCAACTTCAAAGAGATAGGATTATTGGCTTCA
1 ATCTGCTCCACTGCAACTTCAAAGAGATAAGATTATTGACTTCA
43690249 ATCTGCTCCACTGCAACTTC
1 ATCTGCTCCACTGCAACTTC
43690269 GGGAGATAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
43 4 0.07
44 51 0.93
ACGTcount: A:0.31, C:0.23, G:0.14, T:0.32
Consensus pattern (44 bp):
ATCTGCTCCACTGCAACTTCAAAGAGATAAGATTATTGACTTCA
Found at i:43690390 original size:88 final size:87
Alignment explanation
Indices: 43690298--43690582 Score: 264
Period size: 88 Copynumber: 3.3 Consensus size: 87
43690288 TTTTAACCTA
* *
43690298 CTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTGCTCAGGGAGATAAGGC-AGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
*
43690363 TAAGATTCGCCGTCTTCGATCTG
65 TAAGATTCACCGTCTTCGATCTG
* * * *
43690386 CTCCACTACTGCTTAGGGAGATAA-G-A-T--CTGTAATTTCCTAC-TCCACTACT-GCTCAGGG
1 CTCCACTACTGCTCAGGGAGATAAGGCAGTGGCT-TAA-AT-CTACTTCC-CTACTACCT-TGGG
** *** * * *
43690444 -AGATAAG-GCCTATAATCTTCAACCTA
61 AAGATAAGATTC-ACCGTCTTCGATCTG
* *
43690470 CTCCACTGCTACTCAGGGAGATAAGGCCAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
1 CTCCACTACTGCTCAGGGAGATAAGG-CAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGA
43690535 TAAGATTCACCGTCTTCGATCTG
65 TAAGATTCACCGTCTTCGATCTG
* *
43690558 CTCCATTACTGCTTAGGGAGATAAG
1 CTCCACTACTGCTCAGGGAGATAAG
43690583 ATATGGAATT
Statistics
Matches: 148, Mismatches: 33, Indels: 32
0.69 0.15 0.15
Matches are distributed among these distances:
82 2 0.01
83 4 0.03
84 43 0.29
85 13 0.09
87 14 0.09
88 66 0.45
89 4 0.03
90 2 0.01
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (87 bp):
CTCCACTACTGCTCAGGGAGATAAGGCAGTGGCTTAAATCTACTTCCCTACTACCTTGGGAAGAT
AAGATTCACCGTCTTCGATCTG
Found at i:43690447 original size:172 final size:174
Alignment explanation
Indices: 43690269--43690668 Score: 574
Period size: 172 Copynumber: 2.3 Consensus size: 174
43690259 CTGCAACTTC
* * * *
43690269 GGGAGATAAAATCTGTAATTTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCTAGTGGCTT
1 GGGAGATAAGATCTATAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCAGTGGCTT
* *
43690334 AAATCTGCTTCCCTACTACCTTGGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCT
66 AAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCT
* * *
43690399 TAGGGAGATAAGATCTGTAA-TTT-CCTACTCCACTACTGCTCA
131 TAGGGAGATAAGATATGGAATTTTACCTACTCCACTACTACTCA
** * *
43690441 GGGAGATAAGGCCTATAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAAGGCCAGTGGCTT
1 GGGAGATAAGATCTATAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCAGTGGCTT
*
43690506 AAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCATTACTGCT
66 AAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCT
*
43690571 TAGGGAGATAAGATATGGAATTTTCAACCTACTCCACTGCTACTCA
131 TAGGGAGATAAGATATGGAATTTT--ACCTACTCCACTACTACTCA
* * *
43690617 GGGAGATAGGAT-TCACAATCTTTAACCTATTCCACTGCTGACT-AGGGAGATA
1 GGGAGATAAGATCT-ATAATCTTTAACCTACTCCACTGCTG-CTCAGGGAGATA
43690669 GGATTCACCT
Statistics
Matches: 200, Mismatches: 22, Indels: 8
0.87 0.10 0.03
Matches are distributed among these distances:
172 137 0.69
173 3 0.01
175 1 0.00
176 57 0.28
177 2 0.01
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (174 bp):
GGGAGATAAGATCTATAATCTTTAACCTACTCCACTGCTGCTCAGGGAGATAAGGCCAGTGGCTT
AAATCTACTTCCCTACTACCTTGGGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCT
TAGGGAGATAAGATATGGAATTTTACCTACTCCACTACTACTCA
Found at i:43690644 original size:44 final size:44
Alignment explanation
Indices: 43690593--43691129 Score: 812
Period size: 44 Copynumber: 12.4 Consensus size: 44
43690583 ATATGGAATT
*
43690593 TTCAACCTACTCCACTGCT-ACTCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGAC-CAGGGAGATAGGATTCACAATC
* *
43690637 TTTAACCTATTCCACTGCTGACTAGGGAGATAGG-------A--
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
43690672 TTC-ACCTATTCCACTACTGACCAGGGAGCTAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
*
43690715 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
43690759 TTCAACCTATTCCACTACTAACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
43690803 TTCAACCTATTCCACTGCTGACCAGGGAGATATGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* * *
43690847 TTCAACCTATTTCACTGTTGACCAAGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
*
43690891 TTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
* *
43690935 TTCAACCTATTCCACTGCTGACCAGGGAGATATGACTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
43690979 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
43691023 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
43691067 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGACTT-ACAATC
1 TTCAACCTATTCCACTGCTGACCAGGGAGATAGGA-TTCACAATC
43691111 TTCAACCTATTCCACTGCT
1 TTCAACCTATTCCACTGCT
43691130 TTCCAAGGAG
Statistics
Matches: 449, Mismatches: 31, Indels: 26
0.89 0.06 0.05
Matches are distributed among these distances:
34 27 0.06
35 2 0.00
37 1 0.00
41 1 0.00
43 4 0.01
44 410 0.91
45 4 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.26
Consensus pattern (44 bp):
TTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATC
Found at i:43690668 original size:132 final size:132
Alignment explanation
Indices: 43690422--43691129 Score: 757
Period size: 132 Copynumber: 5.4 Consensus size: 132
43690412 TCTGTAATTT
* *
43690422 CCTACTCCACTACTG-CTCAGGGAGATAAGGCCTAT-AATCTTCAACCTACTCCACTGCT-ACTC
1 CCTACTCCACTACTGAC-CAGGGAGATAA-GACTATCAATCTTCAACCTATTCCACTGCTGAC-C
* * * * *
43690484 AGGGAGATAAGG---C-CAGTGGCTTAAATCTACTTCC-CTACT-ACCTTGGGAAGATAAGATTC
63 AGGGAGAT-AGGATTCACAAT--CTTCAACCTA-TTCCACTACTGACC-AGGG-AGATAGGATTC
** *
43690543 ACCGTCTTCGA
122 ACAATCTTCAA
* * * * * * *
43690554 TCTGCTCCATTACTG-CTTAGGGAGATAAGA-TATGGAATTTTCAACCTACTCCACTGCT-ACTC
1 CCTACTCCACTACTGAC-CAGGGAGATAAGACTAT-CAATCTTCAACCTATTCCACTGCTGAC-C
* * *
43690616 AGGGAGATAGGATTCACAATCTTTAACCTATTCCACTGCTGACTAGGGAGATAGGATTCAC---C
63 AGGGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATC
43690678 -T--A
128 TTCAA
* *
43690680 --T--TCCACTACTGACCAGGGAGCTAGGACT-TACAATCTTCAACCTATTCCACTGCTGACCAG
1 CCTACTCCACTACTGACCAGGGAGATAAGACTAT-CAATCTTCAACCTATTCCACTGCTGACCAG
* *
43690740 GGAGATAGGACTCACAATCTTCAACCTATTCCACTACTAACCAGGGAGATAGGATTCACAATCTT
65 GGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTT
43690805 CAA
130 CAA
* * * * * *
43690808 CCTATTCCACTGCTGACCAGGGAGATATGACTCA-CAATCTTCAACCTATTTCACTGTTGACCAA
1 CCTACTCCACTACTGACCAGGGAGATAAGACT-ATCAATCTTCAACCTATTCCACTGCTGACCAG
43690872 GGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTT
65 GGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTT
43690937 CAA
130 CAA
* * *
43690940 CCTATTCCACTGCTGACCAGGGAGATATGACTCA-CAATCTTCAACCTATTCCACTGCTGACCAG
1 CCTACTCCACTACTGACCAGGGAGATAAGACT-ATCAATCTTCAACCTATTCCACTGCTGACCAG
*
43691004 GGAGATAGGATTCACAATCTTCAACCTATTCCACTGCTGACCAGGGAGATAGGATTCACAATCTT
65 GGAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTT
43691069 CAA
130 CAA
* * *
43691072 CCTATTCCACTGCTGACCAGGGAGATAGGACT-TACAATCTTCAACCTATTCCACTGCT
1 CCTACTCCACTACTGACCAGGGAGATAAGACTAT-CAATCTTCAACCTATTCCACTGCT
43691130 TTCCAAGGAG
Statistics
Matches: 512, Mismatches: 39, Indels: 50
0.85 0.06 0.08
Matches are distributed among these distances:
122 98 0.19
123 4 0.01
124 1 0.00
125 1 0.00
126 2 0.00
128 2 0.00
129 1 0.00
130 4 0.01
131 4 0.01
132 374 0.73
133 15 0.03
134 3 0.01
135 3 0.01
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.26
Consensus pattern (132 bp):
CCTACTCCACTACTGACCAGGGAGATAAGACTATCAATCTTCAACCTATTCCACTGCTGACCAGG
GAGATAGGATTCACAATCTTCAACCTATTCCACTACTGACCAGGGAGATAGGATTCACAATCTTC
AA
Found at i:43690684 original size:34 final size:34
Alignment explanation
Indices: 43690641--43690705 Score: 103
Period size: 34 Copynumber: 1.9 Consensus size: 34
43690631 ACAATCTTTA
* *
43690641 ACCTATTCCACTGCTGACTAGGGAGATAGGATTC
1 ACCTATTCCACTACTGACCAGGGAGATAGGATTC
*
43690675 ACCTATTCCACTACTGACCAGGGAGCTAGGA
1 ACCTATTCCACTACTGACCAGGGAGATAGGA
43690706 CTTACAATCT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.23, T:0.23
Consensus pattern (34 bp):
ACCTATTCCACTACTGACCAGGGAGATAGGATTC
Found at i:43697607 original size:3 final size:3
Alignment explanation
Indices: 43697599--43697658 Score: 102
Period size: 3 Copynumber: 20.0 Consensus size: 3
43697589 AAGAACAAAA
* *
43697599 AAT AAT AAT AAT AAT AAA AAT AAT AAT AAT GAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
43697647 AAT AAT AAT AAT
1 AAT AAT AAT AAT
43697659 GAAAAGATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:43697894 original size:25 final size:23
Alignment explanation
Indices: 43697837--43697879 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
43697827 AAATATAAAA
43697837 TATAA-AAAAATATATATGTACG
1 TATAAGAAAAATATATATGTACG
43697859 TATAAGAAAAATATATATGTA
1 TATAAGAAAAATATATATGTA
43697880 TGTGAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.56, C:0.02, G:0.09, T:0.33
Consensus pattern (23 bp):
TATAAGAAAAATATATATGTACG
Found at i:43698617 original size:23 final size:22
Alignment explanation
Indices: 43698574--43698631 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
43698564 AAAGGATATC
* *
43698574 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
43698595 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
43698618 TACATATCATATCT
1 TACAAATCATATCT
43698632 AAGATTGCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
21 3 0.09
22 18 0.56
23 11 0.34
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Done.