Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 96 of 141
Found at i:27314170 original size:9 final size:9
Alignment explanation
Indices: 27314087--27314174 Score: 56
Period size: 9 Copynumber: 9.7 Consensus size: 9
27314077 TAAATTTACG
*
27314087 ATTTTTATA
1 ATTTTTATT
27314096 ATTTTT-TCT
1 ATTTTTAT-T
*
27314105 AATTTTTAAT
1 -ATTTTTATT
27314115 ATTTTTATT
1 ATTTTTATT
* *
27314124 AAAATTTAATT
1 --ATTTTTATT
*
27314135 ATTTTTATA
1 ATTTTTATT
*
27314144 ACTTTTATT
1 ATTTTTATT
*
27314153 A-ATTT-TT
1 ATTTTTATT
27314160 ATTTTTATT
1 ATTTTTATT
27314169 ATTTTT
1 ATTTTT
27314175 TGTCACGTGT
Statistics
Matches: 60, Mismatches: 12, Indels: 14
0.70 0.14 0.16
Matches are distributed among these distances:
7 3 0.05
8 7 0.12
9 36 0.60
10 7 0.12
11 7 0.12
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (9 bp):
ATTTTTATT
Found at i:27321212 original size:16 final size:16
Alignment explanation
Indices: 27321191--27321232 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
27321181 CCGGGTTTGA
*
27321191 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
27321207 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
27321223 TAGTTTTAAT
1 TAATTTTAAT
27321233 TTTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:27326503 original size:26 final size:26
Alignment explanation
Indices: 27326473--27326560 Score: 124
Period size: 26 Copynumber: 3.3 Consensus size: 26
27326463 ACGAAATTTC
27326473 TCAAAATTTTATCGGGGGTAAAATTG
1 TCAAAATTTTATCGGGGGTAAAATTG
** *
27326499 TCAAAATTTTA-CTAAGGGTAAATTTG
1 TCAAAATTTTATC-GGGGGTAAAATTG
27326525 TCAAAATTTTATCGGGGGTAAAATTG
1 TCAAAATTTTATCGGGGGTAAAATTG
27326551 TCAGAAATTT
1 TCA-AAATTT
27326561 ATTTGAGTAA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
25 1 0.02
26 45 0.85
27 7 0.13
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.36
Consensus pattern (26 bp):
TCAAAATTTTATCGGGGGTAAAATTG
Found at i:27331127 original size:9 final size:9
Alignment explanation
Indices: 27331115--27331143 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
27331105 ATTTCTTTGA
27331115 TTTTGTTCT
1 TTTTGTTCT
27331124 TTTTGTTCT
1 TTTTGTTCT
27331133 TTTT-TTCT
1 TTTTGTTCT
27331141 TTT
1 TTT
27331144 CTATCTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 7 0.35
9 13 0.65
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (9 bp):
TTTTGTTCT
Found at i:27333867 original size:3 final size:3
Alignment explanation
Indices: 27333859--27333895 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
27333849 GGTCATTTCT
27333859 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
27333896 GCTCTGCATC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:27337247 original size:285 final size:285
Alignment explanation
Indices: 27336717--27337283 Score: 938
Period size: 285 Copynumber: 2.0 Consensus size: 285
27336707 AAGCTAGGCC
* * * * * *
27336717 CAAGACAGGTTTTTGCCTACCAAATTAGCATTATCAATGGATAATAATGTCTTTTGGTTTGAAAA
1 CAAGACAGGTTTCTGCCTACCAAATCAACACTACCAATGGATAATAATGTCTTTTGGTCTGAAAA
27336782 CAACTCTATTACTATTCCAAAAGGCCATGATCATAATTTCTAGCCCATCATGAATAATGCATTGA
66 CAACTCTATTACTATTCCAAAAGGCCATGATCATAATTTCTAGCCCATCATGAATAATGCATTG-
* *
27336847 TATATATATATTGATGACATCTTTTTATATAGTTCAAATGAACAAGCCAATATTGCTCTTCTGAA
130 -A-ATATATATTGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATTGATCTTCTGAA
*
27336912 TTAGTTCAAGTAGTTGGTCATTCAATATGGAATTATGCTGTCAAAAAGAAAGATACAAACCAACA
193 TTAGTTCAAGTAATTGGTCATTCAATATGGAATTATGCTGTCAAAAAGAAAGATACAAACCAACA
27336977 AATTTGAGATAGAATTCTTGGGGATGAA
258 AATTTGAGATAGAATTCTTGGGGATGAA
27337005 CAAGACAGGTTTCTGCCTACCAAATCAACACTACCAATGGATAATAATGTCTTTTGGTCTGAAAA
1 CAAGACAGGTTTCTGCCTACCAAATCAACACTACCAATGGATAATAATGTCTTTTGGTCTGAAAA
* *
27337070 CAACTCTATTACTATTCCAAAAGGCCATGATCAATATTTTCTAGCCCATCATGGATAATGCATTG
66 CAACTCTATTACTATTCCAAAAGGCCATGATC-ATAATTTCTAGCCCATCATGAATAATGCATTG
* * * *
27337135 -ATATATATTGATGACGTCTTTCTATATAGTTCAAATGTACAAGCCAATATTGATTTTCTGAGTT
130 AATATATATTGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATTGATCTTCTGAATT
* *
27337199 AGTTCAAGTAATTGGTCATTCAATATGGAATTATGTTGTCAGAAAGAAAGATACAAACCAACAAA
195 AGTTCAAGTAATTGGTCATTCAATATGGAATTATGCTGTCAAAAAGAAAGATACAAACCAACAAA
27337264 TTTGAGATAGAATTCTTGGG
260 TTTGAGATAGAATTCTTGGG
27337284 AATAAACATT
Statistics
Matches: 261, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
285 140 0.54
288 91 0.35
289 30 0.11
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (285 bp):
CAAGACAGGTTTCTGCCTACCAAATCAACACTACCAATGGATAATAATGTCTTTTGGTCTGAAAA
CAACTCTATTACTATTCCAAAAGGCCATGATCATAATTTCTAGCCCATCATGAATAATGCATTGA
ATATATATTGATGACATCTTTCTATATAGTTCAAATGAACAAGCCAATATTGATCTTCTGAATTA
GTTCAAGTAATTGGTCATTCAATATGGAATTATGCTGTCAAAAAGAAAGATACAAACCAACAAAT
TTGAGATAGAATTCTTGGGGATGAA
Found at i:27341811 original size:24 final size:24
Alignment explanation
Indices: 27341755--27341831 Score: 73
Period size: 24 Copynumber: 3.2 Consensus size: 24
27341745 AGCAAGAGTG
* * *
27341755 TCCCATTATTAGCTCTCATGAGCA
1 TCCCAATATTGGCTCTCATGAGCT
*
27341779 TCCCAATATTGGCTCTCTTGAGCT
1 TCCCAATATTGGCTCTCATGAGCT
** * *
27341803 TCCTGATATTTGGTTCTCACGAGCT
1 TCCCAATA-TTGGCTCTCATGAGCT
27341828 TCCC
1 TCCC
27341832 GTTATTTAGC
Statistics
Matches: 42, Mismatches: 10, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
24 26 0.62
25 16 0.38
ACGTcount: A:0.18, C:0.30, G:0.16, T:0.36
Consensus pattern (24 bp):
TCCCAATATTGGCTCTCATGAGCT
Found at i:27341892 original size:25 final size:25
Alignment explanation
Indices: 27341864--27341960 Score: 74
Period size: 27 Copynumber: 3.8 Consensus size: 25
27341854 ACTAACATAT
* *
27341864 GGCTCT-TACGAGCTTTCTGATTAAA
1 GGCTCTCTA-GAGCTTCCCGATTAAA
*
27341889 GGCTCTCTCATGAGCTTCCCGATTAAT
1 GGCTCTCT-A-GAGCTTCCCGATTAAA
* * **
27341916 GGCTCTCTAGAGCTACCTGATT-GC
1 GGCTCTCTAGAGCTTCCCGATTAAA
27341940 GGCTCT-TATGAGCTTCCCGAT
1 GGCTCTCTA-GAGCTTCCCGAT
27341961 ATACGGCTTA
Statistics
Matches: 59, Mismatches: 10, Indels: 7
0.78 0.13 0.09
Matches are distributed among these distances:
23 2 0.03
24 16 0.27
25 17 0.29
26 2 0.03
27 22 0.37
ACGTcount: A:0.19, C:0.27, G:0.22, T:0.33
Consensus pattern (25 bp):
GGCTCTCTAGAGCTTCCCGATTAAA
Found at i:27341920 original size:52 final size:49
Alignment explanation
Indices: 27341862--27341960 Score: 119
Period size: 52 Copynumber: 2.0 Consensus size: 49
27341852 ACACTAACAT
**
27341862 ATGGCTCT-TACGAGCTTTCTGATTAAAGGCTCTCTCATGAGCTTCCCGATTA
1 ATGGCTCTCTA-GAGCTACCTGATT-AAGGCTCT-T-ATGAGCTTCCCGATTA
**
27341914 ATGGCTCTCTAGAGCTACCTGATTGCGGCTCTTATGAGCTTCCCGAT
1 ATGGCTCTCTAGAGCTACCTGATTAAGGCTCTTATGAGCTTCCCGAT
27341961 ATACGGCTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
49 14 0.33
50 1 0.02
51 6 0.14
52 19 0.45
53 2 0.05
ACGTcount: A:0.19, C:0.26, G:0.21, T:0.33
Consensus pattern (49 bp):
ATGGCTCTCTAGAGCTACCTGATTAAGGCTCTTATGAGCTTCCCGATTA
Found at i:27342074 original size:17 final size:18
Alignment explanation
Indices: 27342036--27342074 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
27342026 GCATTCCTAA
*
27342036 ATATGAATTGACGAATATT
1 ATATGAATTGACG-AGATT
27342055 ATATGAATTGACG-GATT
1 ATATGAATTGACGAGATT
27342072 ATA
1 ATA
27342075 GTTTTGTACA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.41, C:0.05, G:0.18, T:0.36
Consensus pattern (18 bp):
ATATGAATTGACGAGATT
Found at i:27342278 original size:48 final size:48
Alignment explanation
Indices: 27342219--27342320 Score: 186
Period size: 48 Copynumber: 2.1 Consensus size: 48
27342209 TGATGTTACT
*
27342219 TGATAAGTTGAAAAATGAGATGAAAGATACATGTGTGTGAAACTTGCC
1 TGATGAGTTGAAAAATGAGATGAAAGATACATGTGTGTGAAACTTGCC
*
27342267 TGATGAGTTGAAAAATGAGATGAAAGATACATGTGTGTGAAACTTGTC
1 TGATGAGTTGAAAAATGAGATGAAAGATACATGTGTGTGAAACTTGCC
27342315 TGATGA
1 TGATGA
27342321 CTATGTACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 52 1.00
ACGTcount: A:0.38, C:0.07, G:0.26, T:0.28
Consensus pattern (48 bp):
TGATGAGTTGAAAAATGAGATGAAAGATACATGTGTGTGAAACTTGCC
Found at i:27345985 original size:2 final size:2
Alignment explanation
Indices: 27345978--27346005 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
27345968 TAGAATTGAA
27345978 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC
27346006 ACACACACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:27365921 original size:39 final size:39
Alignment explanation
Indices: 27365878--27366042 Score: 195
Period size: 39 Copynumber: 4.2 Consensus size: 39
27365868 ATAGAAATCT
27365878 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
1 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
*** * *
27365917 GGTGATTATTCAATCTATGTGCTTAGCAGGCTTTGTGCT
1 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
* * *
27365956 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTATTCT
1 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
* * ** * *
27365995 GGTGATTATTTGGGCCATACGCCTAGCAAGCTGTGTGCC
1 GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
27366034 GGTGTATTA
1 GGTG-ATTA
27366043 AAAACTTGCA
Statistics
Matches: 105, Mismatches: 20, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
39 101 0.96
40 4 0.04
ACGTcount: A:0.16, C:0.18, G:0.30, T:0.36
Consensus pattern (39 bp):
GGTGATTATTCGGGCTATGTGCCTAGCAGGCTTTGTGCC
Found at i:27367317 original size:39 final size:39
Alignment explanation
Indices: 27367274--27367431 Score: 244
Period size: 39 Copynumber: 4.1 Consensus size: 39
27367264 AAATAGAAAT
*
27367274 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTATG
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTG
*
27367313 CCGGTGATTATTCAGGCTATGTGCCTAGTAGGCTTTGTG
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTG
* ** *
27367352 CTGGTGATTATTTGGGCTATGTGCCTACCAGGCTTTGTG
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTG
* *
27367391 CCGGTGATTATTCGGGCTATGTGCCTAGCAGGCTGTGTG
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTG
27367430 CC
1 CC
27367432 AGTGTATTGA
Statistics
Matches: 108, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 108 1.00
ACGTcount: A:0.15, C:0.20, G:0.31, T:0.34
Consensus pattern (39 bp):
CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTG
Found at i:27368685 original size:12 final size:11
Alignment explanation
Indices: 27368663--27368702 Score: 50
Period size: 12 Copynumber: 3.8 Consensus size: 11
27368653 TTTTGGTTTG
27368663 GATTT-AATAT
1 GATTTGAATAT
27368673 GATTATGAATAT
1 GATT-TGAATAT
27368685 GATTTGAA-AT
1 GATTTGAATAT
27368695 G-TTTGAAT
1 GATTTGAAT
27368703 TTATGTTTAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.22
10 7 0.26
11 5 0.19
12 9 0.33
ACGTcount: A:0.38, C:0.00, G:0.17, T:0.45
Consensus pattern (11 bp):
GATTTGAATAT
Found at i:27374744 original size:23 final size:23
Alignment explanation
Indices: 27374713--27374763 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
27374703 ACCTACTTTC
* *
27374713 TTACTGTAGTAATTTTCGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
27374736 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
27374759 TTACA
1 TTACA
27374764 ACTACAACCT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:27377031 original size:39 final size:39
Alignment explanation
Indices: 27376986--27377134 Score: 201
Period size: 39 Copynumber: 3.8 Consensus size: 39
27376976 AAATAGAAAT
* *
27376986 CCGGTGATTATTCAGGCTATGTGCCTAGCTGGCTTTGTG
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTA
* *
27377025 CTGGTGATTATTTAGGCTATGTGCCTAGCAGGCTTTGTA
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTA
* * * *
27377064 CCAGTGATTATT-TGAGTTATGTGCCTAGCAAGCTTTGTA
1 CCGGTGATTATTCAG-GCTATGTGCCTAGCAGGCTTTGTA
*
27377103 CCGGTGATTATTCGGGCTATGTGCCTAGCAGG
1 CCGGTGATTATTCAGGCTATGTGCCTAGCAGG
27377135 TTGTGTGCCA
Statistics
Matches: 95, Mismatches: 13, Indels: 4
0.85 0.12 0.04
Matches are distributed among these distances:
38 1 0.01
39 93 0.98
40 1 0.01
ACGTcount: A:0.17, C:0.18, G:0.29, T:0.36
Consensus pattern (39 bp):
CCGGTGATTATTCAGGCTATGTGCCTAGCAGGCTTTGTA
Found at i:27379165 original size:3 final size:3
Alignment explanation
Indices: 27379157--27379196 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
27379147 ACAGGTGTAG
* * *
27379157 GAA GAA GAA GAA GAA GAG GAA GAG GAA GAA GAT GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
27379197 GAAAATAAGG
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.57, C:0.00, G:0.40, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:27380258 original size:40 final size:39
Alignment explanation
Indices: 27380182--27380258 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
27380172 GAATCAGTTT
**
27380182 GGGCCTCAGCCCATTCAGATACAGTCTCAGAAATACATTA
1 GGGCCTCAGCCCATTCAGATACAGAATCAG-AATACATTA
*
27380222 GGGCCTTAGCCCATATCAGATACAGAATGCAG-ATACA
1 GGGCCTCAGCCCAT-TCAGATACAGAAT-CAGAATACA
27380259 GTAAATCAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 18 0.56
41 11 0.34
42 3 0.09
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (39 bp):
GGGCCTCAGCCCATTCAGATACAGAATCAGAATACATTA
Found at i:27380691 original size:13 final size:13
Alignment explanation
Indices: 27380673--27380698 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
27380663 TGGGCTCACA
27380673 TGCCCATGTGGCC
1 TGCCCATGTGGCC
27380686 TGCCCATGTGGCC
1 TGCCCATGTGGCC
27380699 CACTCGACCC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.31, T:0.23
Consensus pattern (13 bp):
TGCCCATGTGGCC
Found at i:27391720 original size:48 final size:43
Alignment explanation
Indices: 27391606--27391734 Score: 118
Period size: 46 Copynumber: 2.8 Consensus size: 43
27391596 AGACAAAAAA
27391606 AGATATATATGTATATTATAAAATAAAACAATGTAAGTATGTACAT
1 AGATATATATG-A-ATTATAAAATAAAA-AATGTAAGTATGTACAT
* * *
27391652 AGATATATATGCA-TAT-AAATAAAAATATGAATATGTATGTAGATTT
1 AGATATATATGAATTATAAAATAAAAA-ATG--TAAGTATGTACA--T
* *
27391698 ATATATATATGAATTATAAAATATAAAAATGTGAGTA
1 AGATATATATGAATTATAAAATA-AAAAATGTAAGTA
27391735 ATTATATAAT
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
41 1 0.01
42 11 0.16
43 3 0.04
44 11 0.16
46 27 0.40
47 3 0.04
48 8 0.12
49 4 0.06
ACGTcount: A:0.50, C:0.02, G:0.12, T:0.36
Consensus pattern (43 bp):
AGATATATATGAATTATAAAATAAAAAATGTAAGTATGTACAT
Found at i:27393501 original size:44 final size:43
Alignment explanation
Indices: 27393386--27393542 Score: 131
Period size: 44 Copynumber: 3.7 Consensus size: 43
27393376 CAGCTTCAGT
* **
27393386 CTACTCCACTGCAACTTCAG-GAAGATAAGACTTGCATATTCGAC
1 CTACTCTACTGCAACTTCAGAG-AGATAAGGTTTGC-TATTCGAC
* * * * *
27393430 CTGCCCTACTGCAACTTCAGGGGGATAAGGTTTGCTACTTCAAC
1 CTACTCTACTGCAACTTCAGAGAGATAAGGTTTGCTA-TTCGAC
* * * *
27393474 CTACTCTACTGCAACTTTAGAGAGATAATGTTTGATA-T-GAT
1 CTACTCTACTGCAACTTCAGAGAGATAAGGTTTGCTATTCGAC
* * *
27393515 CTGCTCTACTGCAACTTTAGATAGATAA
1 CTACTCTACTGCAACTTCAGAGAGATAA
27393543 AATTCATCAT
Statistics
Matches: 93, Mismatches: 18, Indels: 7
0.79 0.15 0.06
Matches are distributed among these distances:
41 27 0.29
42 1 0.01
43 2 0.02
44 62 0.67
45 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.30
Consensus pattern (43 bp):
CTACTCTACTGCAACTTCAGAGAGATAAGGTTTGCTATTCGAC
Found at i:27393799 original size:128 final size:127
Alignment explanation
Indices: 27393512--27393811 Score: 458
Period size: 128 Copynumber: 2.3 Consensus size: 127
27393502 TGTTTGATAT
* * * *
27393512 GATCTGCTCTACTGCAACTTTAGATAGATAAAATTCATCATTTTAATCCGCTCCACATCAACTTC
1 GATCTGCTCTACTGCAACTTTAGAGAGATAAGATT-GTGATTTTAATCCGCTCCACATCAACTTC
*
27393577 AGGGAGATAGGATTGGTTTCTTCTGTCTGCTCCACTACTGCTTAGGGAGATAAGACTGGATGC
65 AGGGAGATAGGATTGGTTTCTTCTGTCAGCTCCACTACTGCTTAGGGAGATAAGACTGGATGC
* * *
27393640 GATCTGCTCTACTGTAACTTTAGAGAGATAAGATCTGTGTTTTTAATCCGCTCCA-TTGCAACTT
1 GATCTGCTCTACTGCAACTTTAGAGAGATAAGAT-TGTGATTTTAATCCGCTCCACAT-CAACTT
27393704 CAGGGAGATAGGATTGGTTTCTTCTGTCAGCTCCACTACTGCTTAGGGAGATAAGACTGGATGC
64 CAGGGAGATAGGATTGGTTTCTTCTGTCAGCTCCACTACTGCTTAGGGAGATAAGACTGGATGC
* * *
27393768 GATTTGCTCTACTGCAACTTCAGAGAGATAAGATTTGTGGTTTT
1 GATCTGCTCTACTGCAACTTTAGAGAGATAAGA-TTGTGATTTT
27393812 CGGTCTGCTC
Statistics
Matches: 157, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
127 1 0.01
128 154 0.98
129 2 0.01
ACGTcount: A:0.25, C:0.20, G:0.22, T:0.33
Consensus pattern (127 bp):
GATCTGCTCTACTGCAACTTTAGAGAGATAAGATTGTGATTTTAATCCGCTCCACATCAACTTCA
GGGAGATAGGATTGGTTTCTTCTGTCAGCTCCACTACTGCTTAGGGAGATAAGACTGGATGC
Found at i:27393972 original size:44 final size:44
Alignment explanation
Indices: 27393924--27394238 Score: 143
Period size: 44 Copynumber: 7.2 Consensus size: 44
27393914 TATCTCGGGA
**
27393924 AGATAAGAT-TCACCGTCTTCGATCTGCTCCACTACTGCTTAAGG
1 AGATAAGATATCA-CGTCTTTAATCTGCTCCACTACTGCTTAAGG
* * * * * * *
27393968 AGATAAGATCTGCA-ATCTTTAACCTACTCTACTGCTGCTCAAGG
1 AGATAAGATAT-CACGTCTTTAATCTGCTCCACTACTGCTTAAGG
* ** * * *
27394012 AGATAGGATAGGAGGT-TTAAATTTGCTTCCTACTAC--CTT-AGG
1 AGATAAGATATCACGTCTTTAATCTGC-TCC-ACTACTGCTTAAGG
* *
27394054 AAGATAAGAT-TCGCCGTCTTTGATCTGCTCCACTACTGCTTAAGG
1 -AGATAAGATATC-ACGTCTTTAATCTGCTCCACTACTGCTTAAGG
* * * * * * *
27394099 AGATAAGATCTGCA-ATCTTTAACCTACTCTACTGCTGCTCAAGG
1 AGATAAGATAT-CACGTCTTTAATCTGCTCCACTACTGCTTAAGG
* ** * * *
27394143 AGATAGGATAGGAGGT-TTGAATTTGCTTCCTACTAC--CTT-AGG
1 AGATAAGATATCACGTCTTTAATCTGC-TCC-ACTACTGCTTAAGG
* * *
27394185 AAGATAAGAT-TCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGG
1 -AGATAAGATATC-ACGTCTTTAATCTGCTCCACTACTGCTTAAGG
27394230 AGATAAGAT
1 AGATAAGAT
27394239 CTACAATCTT
Statistics
Matches: 192, Mismatches: 57, Indels: 44
0.66 0.19 0.15
Matches are distributed among these distances:
42 16 0.08
43 44 0.23
44 114 0.59
45 15 0.08
46 3 0.02
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
AGATAAGATATCACGTCTTTAATCTGCTCCACTACTGCTTAAGG
Found at i:27394302 original size:131 final size:131
Alignment explanation
Indices: 27393815--27394281 Score: 702
Period size: 131 Copynumber: 3.6 Consensus size: 131
27393805 TGGTTTTCGG
* * *
27393815 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCTACCTACTCCGCTGCTGCTCAAG
1 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAG
* * * ** * *
27393880 GAGATAGGGCT-GGTGGCTTAAATCTGCTTCCTACTATCTCGGGAAGATAAGATTCACCGTCTTC
66 GAGATA-GGATAGGAGGCTTAAATCTGCTTCCTACTACCTTAGGAAGATAAGATTCGCCGTCTTT
27393944 GA
130 GA
* * *
27393946 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTTTAACCTACTCTACTGCTGCTCAAG
1 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAG
* *
27394011 GAGATAGGATAGGAGGTTTAAATTTGCTTCCTACTACCTTAGGAAGATAAGATTCGCCGTCTTTG
66 GAGATAGGATAGGAGGCTTAAATCTGCTTCCTACTACCTTAGGAAGATAAGATTCGCCGTCTTTG
27394076 A
131 A
* * *
27394077 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTTTAACCTACTCTACTGCTGCTCAAG
1 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAG
* * *
27394142 GAGATAGGATAGGAGGTTTGAATTTGCTTCCTACTACCTTAGGAAGATAAGATTCGCCGTCTTTG
66 GAGATAGGATAGGAGGCTTAAATCTGCTTCCTACTACCTTAGGAAGATAAGATTCGCCGTCTTTG
27394207 A
131 A
* * *
27394208 TCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGG
1 TCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAG
27394273 GAGATAGGA
66 GAGATAGGA
27394282 CTGGTGGCTT
Statistics
Matches: 313, Mismatches: 22, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
130 3 0.01
131 310 0.99
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (131 bp):
TCTGCTCCACTACTGCTTAAGGAGATAAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAAG
GAGATAGGATAGGAGGCTTAAATCTGCTTCCTACTACCTTAGGAAGATAAGATTCGCCGTCTTTG
A
Found at i:27394410 original size:132 final size:130
Alignment explanation
Indices: 27394274--27394653 Score: 352
Period size: 131 Copynumber: 2.9 Consensus size: 130
27394264 ATGCTCAGGG
* * * * *
27394274 AGATAGGACTGGT-GGCTTCGATCTGCTTCATTGTCAGTAC-AAGAAGACAAGATCTATAATCTT
1 AGATAAGACTGGTCGGCTTCGATCTGCTCCA--CT-ACTACTAAGAAGACAAGATCTACAATCTT
* * * *
27394337 CGACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCTCTACTACCTT
63 CAACCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTC-CTACTACCTT
27394402 GAG-A
127 -AGCA
* ** * * * * *
27394406 AGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTTCA
1 AGATAAGACTGGTCGGCTTCGATCTGCTCCACTACTAC-TAAGAAGACAAGATCTACAATCTTCA
*
27394471 ACCTACTCCACTGCTGCTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTCCTACTACCTTAGC
65 ACCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTTAGC
27394536 A
130 A
* * * * * * * * * *
27394537 AGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGGTCTACAATCTTCA
1 AGATAAGACTGGTCGGCTTCGATCTGCTCCACTACTAC-TAAGAAGACAAGATCTACAATCTTCA
* * * * * * **
27394602 ACTTACTCCATTGATGCTCAGGGAGATAGGATTGGTGGCTTCGATCTGCTTC
65 ACCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTC
27394654 ACTGCCAGTA
Statistics
Matches: 212, Mismatches: 32, Indels: 9
0.84 0.13 0.04
Matches are distributed among these distances:
130 6 0.03
131 115 0.54
132 76 0.36
133 15 0.07
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (130 bp):
AGATAAGACTGGTCGGCTTCGATCTGCTCCACTACTACTAAGAAGACAAGATCTACAATCTTCAA
CCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCCTACTACCTTAGCA
Found at i:27394427 original size:88 final size:87
Alignment explanation
Indices: 27394234--27394398 Score: 235
Period size: 88 Copynumber: 1.9 Consensus size: 87
27394224 TTAGGGAGAT
* * * **
27394234 AAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGATCTG
1 AAGATCTATAATCTTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTG
* *
27394299 CTTCATTGTCAGTACAAGAAGAC
66 CTTCA-TCTCACTACAAGAAGAC
*
27394322 AAGATCTATAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTG
1 AAGATCTATAATCTTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTG
27394387 CTTC-TCT-ACTAC
66 CTTCATCTCACTAC
27394399 CTTGAGAAGA
Statistics
Matches: 69, Mismatches: 8, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
85 4 0.06
86 2 0.03
88 63 0.91
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
AAGATCTATAATCTTCGACCTACTCCACTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTG
CTTCATCTCACTACAAGAAGAC
Found at i:27394432 original size:351 final size:349
Alignment explanation
Indices: 27393989--27394980 Score: 1490
Period size: 351 Copynumber: 2.8 Consensus size: 349
27393979 GCAATCTTTA
** * * * *
27393989 ACCTACTCTACTGCTGCTCAAGGAGATAGGA-TAGGAGGTTTAAATTTGCTTC-CTACTACCTT-
1 ACCTACTCCGCTGCTGCTCAGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCTCTACTACCTTG
*
27394051 AGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATC
65 A-GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATC
* * * * * *
27394116 TTTAACCTACTCTACTGCTGCTCAAGGAGATAGGATAGGAGGTTTGAATTTGCTTCCTACTACCT
129 TTCAACCTACTCCACTGCTGCTC-AGGAGATAGGAT-GGTGGCTTAAATCTGCTTCCTACTACCT
*
27394181 TAGGAAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
192 TAGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAAT
* * *
27394246 CTTCAACCTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGATCTGCTTCATTGTCAG
257 CTTCAACTTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGATCTGCTTCACTGCCAG
* *
27394311 TACAAGAAGACAAGATCTATAATCTTCG
322 TACAAGAAAACAAGATCTATAATCTTCC
27394339 ACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCTCTACTACCTTGA
1 ACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCTCTACTACCTTGA
*** * *
27394404 GAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATCTT
66 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTT
*
27394469 CAACCTACTCCACTGCTGCTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTCCTACTACCTTA
131 CAACCTACTCCACTGCTGCTCAGG-AGATAGGA-TGGTGGCTTAAATCTGCTTCCTACTACCTTA
* * *
27394534 GCAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGGTCTACAATCT
194 GGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCT
* *
27394599 TCAACTTACTCCATTGATGCTCAGGGAGATAGGATTGGTGGCTTCGATCTGCTTCACTGCCAGTA
259 TCAACTTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGATCTGCTTCACTGCCAGTA
*
27394664 CAGGAAAACAAGATCTATAATCTTCC
324 CAAGAAAACAAGATCTATAATCTTCC
* *
27394690 ACCTACTCCGCTGCTGCTCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCTCTACTACATTGA
1 ACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCTCTACTACCTTGA
*
27394755 GAAGATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTT-AGAGAGATAAGATCTGCAATCT
66 GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAG-GAGATAAGATCTGCAATCT
* *
27394819 TCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTTCCTAATACCTT
130 TCAACCTACTCCACTGCTGCTCAG-GAGAT-AGGATGGTGGCTTAAATCTGCTTCCTACTACCTT
** * *
27394884 AGGAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATT
193 AGGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATC
*
27394949 TTCAACTTACTCCACT-ACTGCTCAAGGAGATA
258 TTCAACTTACTCCACTGA-TGCTCAGGGAGATA
27394981 AGGCTTGATA
Statistics
Matches: 582, Mismatches: 51, Indels: 17
0.90 0.08 0.03
Matches are distributed among these distances:
350 49 0.08
351 528 0.91
352 5 0.01
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (349 bp):
ACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTGCTTCTCTACTACCTTGA
GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAAGGAGATAAGATCTGCAATCTT
CAACCTACTCCACTGCTGCTCAGGAGATAGGATGGTGGCTTAAATCTGCTTCCTACTACCTTAGG
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
AACTTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGATCTGCTTCACTGCCAGTACA
AGAAAACAAGATCTATAATCTTCC
Found at i:27394438 original size:220 final size:219
Alignment explanation
Indices: 27394120--27394522 Score: 594
Period size: 220 Copynumber: 1.8 Consensus size: 219
27394110 GCAATCTTTA
* * * *
27394120 ACCTACTCTACTGCTGCTCAAGGAGATAGGATAGGAGGTTTGAATTTGCTTCCTACTACCTTAGG
1 ACCTACTCCACTGCTGCTCAAGGAGATAGGATAGGAGGCTTAAATCTGCTTCCTACTACCTTAGG
* *
27394185 AAGATAAGATTCGCCGTCTTTGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATCTTC
66 AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTC
* * **
27394250 AACCTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGATCTGCTTCATTGTCAGTACA
131 AACCTACTCCACTGATGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCATTGTCAGTACA
27394315 AGAAGACAAGATCTATAATCTTCG
196 AGAAGACAAGATCTATAATCTTCG
* * *
27394339 ACCTACTCCGCTGCTGCTCAGGGAGATAGGACT-GGTGGCTTAAATCTGCTTCTCTACTACCTT-
1 ACCTACTCCACTGCTGCTCAAGGAGATAGGA-TAGGAGGCTTAAATCTGCTTC-CTACTACCTTA
*** *
27394402 GAGAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCAATC
64 G-GAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATC
* *
27394467 TTCAACCTACTCCACTGCTGCTCAGGAAGATAAGATTGGTGGCTTAAATCTGCTTC
128 TTCAACCTACTCCACTGATGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTC
27394523 CTACTACCTT
Statistics
Matches: 162, Mismatches: 19, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
219 44 0.27
220 118 0.73
ACGTcount: A:0.26, C:0.23, G:0.21, T:0.30
Consensus pattern (219 bp):
ACCTACTCCACTGCTGCTCAAGGAGATAGGATAGGAGGCTTAAATCTGCTTCCTACTACCTTAGG
AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTACAATCTTC
AACCTACTCCACTGATGCTCAGGAAGATAAGACTGGTGGCTTAAATCTGCTTCATTGTCAGTACA
AGAAGACAAGATCTATAATCTTCG
Found at i:27394469 original size:44 final size:44
Alignment explanation
Indices: 27394420--27394982 Score: 202
Period size: 44 Copynumber: 12.8 Consensus size: 44
27394410 AAGATTTTTC
* *
27394420 GTCTTCGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGCA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * * * **
27394464 ATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGAT-TGGT
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * ** *
27394507 GGCTTAAATCTGCTTCCTACTAC--CTTAGCAAGATAAGAT-TCGCC
1 GTCTTCAATCTGC-TCC-ACTACTGCTTAGGGAGATAAGATCT-GCA
* * * *
27394551 GTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGGTCTACA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * * **
27394595 ATCTTCAA-CTTACTCCATTGA-TGCTCAGGGAGATAGGAT-TGGT
1 GTCTTCAATC-TGCTCCACT-ACTGCTTAGGGAGATAAGATCTGCA
* * * * * * * * * **
27394638 GGCTTCGATCTGCTTCACTGCCAG-TACAGGAAAACAAGATCTATA
1 GTCTTCAATCTGCTCCACT-ACTGCT-TAGGGAGATAAGATCTGCA
* * * * * * * **
27394683 ATCTTCCACCTACTCCGCTGCTGCTCAGGGAGATAAGA-CTGGT
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * * * *
27394726 GGCTTAAATCTGCTTCTCTACTACATT-GAGAAGATAAGAT-TCGCC
1 GTCTTCAATCTGCTCCACTACTGC-TTAG-GGAGATAAGATCT-GCA
* * *
27394771 GTCTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATCTGCA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * * * * **
27394815 ATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAAG-GCTGGT
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * * * *
27394858 GGCTTAAATCTGCTTCCTAATAC--CTTAGGAAGATAAGATTTACC
1 GTCTTCAATCTGC-TCC-ACTACTGCTTAGGGAGATAAGATCTGCA
*
27394902 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
1 GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
* * * * *
27394946 ATTTTCAA-CTTACTCCACTACTGCTCAAGGAGATAAG
1 GTCTTCAATC-TGCTCCACTACTGCTTAGGGAGATAAG
27394983 GCTTGATATG
Statistics
Matches: 361, Mismatches: 133, Indels: 50
0.66 0.24 0.09
Matches are distributed among these distances:
42 9 0.02
43 86 0.24
44 223 0.62
45 43 0.12
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (44 bp):
GTCTTCAATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCA
Found at i:27394597 original size:131 final size:132
Alignment explanation
Indices: 27394322--27394653 Score: 479
Period size: 131 Copynumber: 2.5 Consensus size: 132
27394312 ACAAGAAGAC
* * * *
27394322 AAGATCTATAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAATCTG
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTG
***
27394387 CTTCTCTACTACCTTGAGAAGATAAGATTTTTCGTCTTCGATCTGCTCCACTACTACTTAGGGAG
66 CTTCTCTACTACCTTGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAG
27394452 AT
131 AT
* * *
27394454 AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGATTGGTGGCTTAAATCTG
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTG
* *
27394519 CTTC-CTACTACCTT-AGCAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGA
66 CTTCTCTACTACCTTGAG-AAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGA
27394582 GAT
130 GAT
* * * * **
27394585 AAGGTCTACAATCTTCAACTTACTCCATTGATGCTCAGGGAGATAGGATTGGTGGCTTCGATCTG
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTG
27394650 CTTC
66 CTTC
27394654 ACTGCCAGTA
Statistics
Matches: 178, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
130 2 0.01
131 114 0.64
132 62 0.35
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (132 bp):
AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGGAGATAGGATTGGTGGCTTAAATCTG
CTTCTCTACTACCTTGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTACTTAGGGAG
AT
Found at i:27394761 original size:132 final size:132
Alignment explanation
Indices: 27394638--27394982 Score: 360
Period size: 131 Copynumber: 2.6 Consensus size: 132
27394628 TAGGATTGGT
* * *
27394638 GGCTTCGATCTGCT-T-C-ACTGCCAGTACAGGAAAACAAGATCTATAATCTTCCACCTACTCCG
1 GGCTTCGATCTGCTCTACTACTG-C-GTACA-G-AAACAAGATCTACAATCTTCAACCTACTCCA
*
27394700 CTGCTGCTCAGGGAGATAAGACTGGTGGCTTAAATCTGCTTCTCTACTACATTGAGAAGATAAGA
62 CTGCTGCTCAGAGAGATAAGACTGGTGGCTTAAATCTGCTTCTCTACTACATTGAGAAGATAAGA
27394765 TTCGCC
127 TTCGCC
* * * * * *
27394771 GTCTTCGATCTGCTCTACTACTGCTTAGAGAGATAAGATCTGCAATCTTCAACCTACTCCACTGC
1 GGCTTCGATCTGCTCTACTACTGCGTACAGAAACAAGATCTACAATCTTCAACCTACTCCACTGC
* * * *
27394836 TGCTCAGAGAGATAAGGCTGGTGGCTTAAATCTGCTTC-CTAATACCTT-AGGAAGATAAGATTT
66 TGCTCAGAGAGATAAGACTGGTGGCTTAAATCTGCTTCTCTACTACATTGA-GAAGATAAGATTC
*
27394899 ACC
130 GCC
* * * ** * * * * * *
27394902 GTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCAATTTTCAACTTACTCCACTAC
1 GGCTTCGATCTGCTCTACTACTGCGTACAGAAACAAGATCTACAATCTTCAACCTACTCCACTGC
27394967 TGCTCA-AGGAGATAAG
66 TGCTCAGA-GAGATAAG
27394983 GCTTGATATG
Statistics
Matches: 187, Mismatches: 20, Indels: 12
0.85 0.09 0.05
Matches are distributed among these distances:
130 2 0.01
131 96 0.51
132 65 0.35
133 14 0.07
134 4 0.02
135 2 0.01
136 4 0.02
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (132 bp):
GGCTTCGATCTGCTCTACTACTGCGTACAGAAACAAGATCTACAATCTTCAACCTACTCCACTGC
TGCTCAGAGAGATAAGACTGGTGGCTTAAATCTGCTTCTCTACTACATTGAGAAGATAAGATTCG
CC
Found at i:27394765 original size:88 final size:87
Alignment explanation
Indices: 27394230--27394765 Score: 196
Period size: 88 Copynumber: 6.1 Consensus size: 87
27394220 CTGCTTAGGG
* **
27394230 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAGGACTGGTGGCTTCGA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAAGACTGGTGGCTTAAA
* * * *
27394295 TCTGCTTCATTGTCAGTACAAGA
66 TCTGCTT-ACTGCCACTACAGGA
* * * * * *
27394318 AGACAAGATCTATAATCTTCGACCTACTCCGCTGCTGCTCAGGGAGATAGGACTGGTGGCTTAAA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAAGACTGGTGGCTTAAA
* *
27394383 TCTGCTT-CT-CTACTACCTTGAGA
66 TCTGCTTACTGCCACTA-C-AG-GA
* * * * * * * * ****
27394406 AGATAAGATTTTTC-GTCTTCGATCTGCTCCACT-ACTACTTAGGGAGATAAGATCTGCAATCTT
1 AGATAAGA-TCTACAATCTTCAACCTACTCCACTGA-TGCTCAGGGAGATAAGA-CTGGTGGCTT
* * * * **
27394469 CAACCTACTCCACTGCTGCT-CAGGA
63 AAATCTGCT-TACTGCCACTACAGGA
***** * * * * * ** * ** *
27394494 AGATAAGAT-TGGTGGCTTAAATCTGCTTCCTACT-A-CCTTAGCAAGATAAGATTCGCCGTCTT
1 AGATAAGATCTACAATCTTCAACCTAC-TCC-ACTGATGCTCAGGGAGATAAGACT-GGTGGCTT
** * ** * *
27394556 CGATCTG-TTCCACTACTGCT-TAGGG
63 AAATCTGCTT--ACTGCCACTACAGGA
* * * * * **
27394581 AGATAAGGTCTACAATCTTCAACTTACTCCATTGATGCTCAGGGAGATAGGATTGGTGGCTTCGA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAAGACTGGTGGCTTAAA
*
27394646 TCTGCTTCACTGCCAGTACAGGA
66 TCTGCTT-ACTGCCACTACAGGA
* * * * * *
27394669 AAACAAGATCTATAATCTTCCACCTACTCCGCTGCTGCTCAGGGAGATAAGACTGGTGGCTTAAA
1 AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAAGACTGGTGGCTTAAA
*
27394734 TCTGCTT-CT-CTACTACATTGAGA
66 TCTGCTTACTGCCACTACA--G-GA
27394757 AGATAAGAT
1 AGATAAGAT
27394766 TCGCCGTCTT
Statistics
Matches: 330, Mismatches: 95, Indels: 46
0.70 0.20 0.10
Matches are distributed among these distances:
85 9 0.03
86 9 0.03
87 76 0.23
88 210 0.64
89 19 0.06
90 1 0.00
91 2 0.01
92 4 0.01
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (87 bp):
AGATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGGGAGATAAGACTGGTGGCTTAAA
TCTGCTTACTGCCACTACAGGA
Found at i:27394842 original size:220 final size:219
Alignment explanation
Indices: 27394454--27394873 Score: 628
Period size: 220 Copynumber: 1.9 Consensus size: 219
27394444 TTAGGGAGAT
* *
27394454 AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGATTGGTGGCTTAAATCTG
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTG
* * *
27394519 CTTCCTACTACCTTAGCAAGATAAGATTCGCCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGA
66 CTTCCTACTACATTAGCAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGA
* * * * * **
27394584 TAAGGTCTACAATCTTCAACTTACTCCATTGATGCTCAGGGAGAT-AGGATTGGTGGCTTCGATC
131 TAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGAGAGATAAGG-CTGGTGGCTTAAATC
27394648 TGCTTCACTGCCAGTACAGGAAAAC
195 TGCTTCACTGCCAGTACAGGAAAAC
* * * *
27394673 AAGATCTATAATCTTCCACCTACTCCGCTGCTGCTCAGGGAGATAAGACTGGTGGCTTAAATCTG
1 AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTG
*
27394738 CTTCTCTACTACATTGAG-AAGATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGAGA
66 CTTC-CTACTACATT-AGCAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGA
* *
27394802 GATAAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGGCTTAAAT
129 GATAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGAGAGATAAGGCTGGTGGCTTAAAT
27394867 CTGCTTC
194 CTGCTTC
27394874 CTAATACCTT
Statistics
Matches: 179, Mismatches: 19, Indels: 5
0.88 0.09 0.02
Matches are distributed among these distances:
219 63 0.35
220 111 0.62
221 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.20, T:0.29
Consensus pattern (219 bp):
AAGATCTACAATCTTCAACCTACTCCACTGCTGCTCAGGAAGATAAGACTGGTGGCTTAAATCTG
CTTCCTACTACATTAGCAAGATAAGATTCGCCGTCTTCGATCTGCTCCACTACTGCTTAGAGAGA
TAAGATCTACAATCTTCAACCTACTCCACTGATGCTCAGAGAGATAAGGCTGGTGGCTTAAATCT
GCTTCACTGCCAGTACAGGAAAAC
Found at i:27394945 original size:131 final size:132
Alignment explanation
Indices: 27394673--27394985 Score: 452
Period size: 131 Copynumber: 2.4 Consensus size: 132
27394663 ACAGGAAAAC
** * * * *
27394673 AAGATCTATAATCTTCCACCTACTCCGCTGCTGCTCAGGGAGATAAGACTGGTGGCTTAAATCTG
1 AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGGCTTAAATCTG
* * *
27394738 CTTCTCTACTACATTGAGAAGATAAGATTCGCCGTCTTCGATCTGCTCTACTACTGCTTAGAGAG
66 CTTCTCTAATACATTGAGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGAGAG
27394803 AT
131 AT
27394805 AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGGCTTAAATCTG
1 AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGGCTTAAATCTG
* * *
27394870 CTTC-CTAATACCTT-AGGAAGATAAGATTTACCGTCTTCGATCTGCTCCACTACTGCTTAGGGA
66 CTTCTCTAATACATTGA-GAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGAGA
27394933 GAT
130 GAT
* * *
27394936 AAGATCTGCAATTTTCAACTTACTCCACTACTGCTCA-AGGAGATAAGGCT
1 AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGA-GAGATAAGGCT
27394986 TGATATGATG
Statistics
Matches: 164, Mismatches: 15, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
130 2 0.01
131 99 0.60
132 63 0.38
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.29
Consensus pattern (132 bp):
AAGATCTGCAATCTTCAACCTACTCCACTGCTGCTCAGAGAGATAAGGCTGGTGGCTTAAATCTG
CTTCTCTAATACATTGAGAAGATAAGATTCACCGTCTTCGATCTGCTCCACTACTGCTTAGAGAG
AT
Found at i:27395617 original size:46 final size:45
Alignment explanation
Indices: 27395516--27395618 Score: 109
Period size: 45 Copynumber: 2.3 Consensus size: 45
27395506 AGCAAAGCTC
* * *
27395516 AAAATGAATGAATCAATCAAGATAGCAAATTTTGCTAGAATACAA
1 AAAATGAATAAATCAATCAAGATAGCAAATTTTGCAAAAATACAA
* * * **
27395561 AATGA-GAATAAATTAATCAAGATGGCGTATTTTGTCAAAAATACAA
1 AA-AATGAATAAATCAATCAAGATAGCAAATTTTG-CAAAAATACAA
27395607 AAAATGAATAAA
1 AAAATGAATAAA
27395619 ATGGAAATAG
Statistics
Matches: 46, Mismatches: 9, Indels: 5
0.77 0.15 0.08
Matches are distributed among these distances:
45 27 0.59
46 19 0.41
ACGTcount: A:0.52, C:0.09, G:0.14, T:0.25
Consensus pattern (45 bp):
AAAATGAATAAATCAATCAAGATAGCAAATTTTGCAAAAATACAA
Found at i:27395912 original size:7 final size:6
Alignment explanation
Indices: 27395890--27395930 Score: 57
Period size: 6 Copynumber: 6.8 Consensus size: 6
27395880 GCCTCTCCTT
*
27395890 TTTTTC CTTTTC TTTTTC ATTTTTC TTTTT- TTTTTC TTTTT
1 TTTTTC TTTTTC TTTTTC -TTTTTC TTTTTC TTTTTC TTTTT
27395931 TTCAAGTGAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 5 0.16
6 20 0.65
7 6 0.19
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (6 bp):
TTTTTC
Found at i:27395930 original size:11 final size:11
Alignment explanation
Indices: 27395897--27395932 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
27395887 CTTTTTTTCC
27395897 TTTTCTTTTTCAT
1 TTTTCTTTTT--T
27395910 TTTTCTTTTTT
1 TTTTCTTTTTT
27395921 TTTTCTTTTTT
1 TTTTCTTTTTT
27395932 T
1 T
27395933 CAAGTGAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 13 0.57
13 10 0.43
ACGTcount: A:0.03, C:0.11, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:27397657 original size:62 final size:62
Alignment explanation
Indices: 27397581--27397700 Score: 213
Period size: 62 Copynumber: 1.9 Consensus size: 62
27397571 TACGACGTAC
* *
27397581 TTTTGGATTTTAGGAAATTTATTGTATGTAATGAAATGTAATGTTGATGCATGAATGCGCAT
1 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTAATGCATGAATGCGCAT
*
27397643 TTTTGGATTTTAGGAAATTTATTGTATGCAATGATATGTAATGTTAATGCATGAATGC
1 TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTAATGCATGAATGC
27397701 AAAAAAGATA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.31, C:0.05, G:0.22, T:0.42
Consensus pattern (62 bp):
TTTTGGATTTTAGGAAATTTATTGTATGCAATGAAATGTAATGTTAATGCATGAATGCGCAT
Found at i:27398776 original size:43 final size:43
Alignment explanation
Indices: 27398664--27399040 Score: 296
Period size: 43 Copynumber: 8.8 Consensus size: 43
27398654 TTTTAGAAAT
* * * *
27398664 AAACGCCGCTAAAAACCAAGACCTTTAGTGACGC-TTT-CATCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCA--AC
* * ** ** * *
27398707 AAATGCTGCTAAAGGTCATGGTCTTTAGCCGCACTTTTTCC-AC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCAAC
* * *
27398750 AAACGCCGCTAAAGACCATGACCTTTAACGGTGCTTTTCTAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAAC
** * ** *
27398793 AAATACCGCAAAAGACCATGACCTTTAGCAAC-ATTTATCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTT-TCCAAC
* * * *
27398836 AAACGCCGTTAAAGACCATGACCTTTAGTGGCGCTTATCCGAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAAC
* ** * *
27398879 AAACGCCGCTAAAGACAACAACTTTTAACGGCGCTTTTCCAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAAC
* ** * *
27398922 AAACACCGCTAAAGAAAATAACATTTAGCGGCG-TTTTCCAAAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCC-AAC
* * * *
27398965 AAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAAC
* * *
27399008 AAACGCTGCAAAAGACCATGACCTTTAGTGGCG
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCG
27399041 TTTGATCCGG
Statistics
Matches: 257, Mismatches: 69, Indels: 16
0.75 0.20 0.05
Matches are distributed among these distances:
42 14 0.05
43 231 0.90
44 8 0.03
45 3 0.01
46 1 0.00
ACGTcount: A:0.33, C:0.28, G:0.16, T:0.23
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCCAAC
Found at i:27398882 original size:129 final size:129
Alignment explanation
Indices: 27398746--27399034 Score: 346
Period size: 129 Copynumber: 2.2 Consensus size: 129
27398736 CGCACTTTTT
* * * **
27398746 CCACAAACGCCGCTAAAGACCATGACCTTTAACGGTGCTTTTCTAACAAATACCGCAAAAGACCA
1 CCACAAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCAACAAACACCGCAAAAGAAAA
* * * * *
27398811 TGACCTTTAGCAACATTTATCC-AACAAACGCCGTTAAAGACCATGACCTTTAGTGGCGCTTATC
66 TAACATTTAGCAACATTT-TCCAAACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTATC
* * ** * *
27398875 CGACAAACGCCGCTAAAGACAACAACTTTTAACGGCGCTTTTCCAACAAACACCGCTAAAGAAAA
1 CCACAAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCAACAAACACCGCAAAAGAAAA
** * * * *
27398940 TAACATTTAGCGGCGTTTTCCAAACAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTTC
66 TAACATTTAGCAACATTTTCCAAACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTATC
* *
27399004 CCACAAACGCTGCAAAAGACCATGACCTTTA
1 CCACAAACGCCGCTAAAGACCATGACCTTTA
27399035 GTGGCGTTTG
Statistics
Matches: 130, Mismatches: 29, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
128 3 0.02
129 127 0.98
ACGTcount: A:0.34, C:0.29, G:0.15, T:0.22
Consensus pattern (129 bp):
CCACAAACGCCGCTAAAGACCATGACCTTTAACGGCGCTTTTCCAACAAACACCGCAAAAGAAAA
TAACATTTAGCAACATTTTCCAAACAAACGCCGCTAAAGACCATAACCTTTAGCGGCGCTTATC
Found at i:27399982 original size:21 final size:21
Alignment explanation
Indices: 27399953--27400010 Score: 80
Period size: 21 Copynumber: 2.8 Consensus size: 21
27399943 TTCTACGTTG
* *
27399953 CTCTGCTTCCCTTGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAAC
*
27399974 CTCTACTTCCCTCGCTGCAAC
1 CTCTGCTTCCCTCGCTGCAAC
*
27399995 CTCTGCTTCTCTCGCT
1 CTCTGCTTCCCTCGCT
27400011 ACCGCATCTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.07, C:0.45, G:0.14, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAAC
Found at i:27400160 original size:66 final size:66
Alignment explanation
Indices: 27399992--27400163 Score: 229
Period size: 66 Copynumber: 2.6 Consensus size: 66
27399982 CCCTCGCTGC
* * * * *
27399992 AACCTCTGCTTCTCTCGCTACCGCATCTGTTTTAAGCTGCAGCTGGAGTTCTTCATACTTTCGTT
1 AACCTCAGCTTCTCTCGCTACTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTT
27400057 G
66 G
* * *
27400058 AACCTCAGCTTCTCTCGCTGCTGCATCTGCTTTAAGTTGTAGTTGGAGTTCTTCATATCTTT-TT
1 AACCTCAGCTTCTCTCGCTACTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATA-CTTTCGT
27400122 TG
65 TG
* * *
27400124 AACCTCAGCTTCTCTCGATACTGCCTCCGCTTTAAGTTGT
1 AACCTCAGCTTCTCTCGCTACTGCATCTGCTTTAAGTTGT
27400164 GTAATTTGCT
Statistics
Matches: 93, Mismatches: 12, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
66 89 0.96
67 4 0.04
ACGTcount: A:0.16, C:0.27, G:0.17, T:0.40
Consensus pattern (66 bp):
AACCTCAGCTTCTCTCGCTACTGCATCTGCTTTAAGTTGTAGCTGGAGTTCTTCATACTTTCGTT
G
Found at i:27401903 original size:12 final size:12
Alignment explanation
Indices: 27401882--27401932 Score: 52
Period size: 12 Copynumber: 4.4 Consensus size: 12
27401872 AGACCCATTG
*
27401882 AAATTGTGAACA
1 AAATTATGAACA
27401894 AAATTATGAACA
1 AAATTATGAACA
** *
27401906 GGA-TATAAAC-
1 AAATTATGAACA
27401916 AAATTATGAACA
1 AAATTATGAACA
27401928 AAATT
1 AAATT
27401933 TTGCAACGAG
Statistics
Matches: 30, Mismatches: 7, Indels: 4
0.73 0.17 0.10
Matches are distributed among these distances:
10 1 0.03
11 12 0.40
12 17 0.57
ACGTcount: A:0.55, C:0.08, G:0.12, T:0.25
Consensus pattern (12 bp):
AAATTATGAACA
Found at i:27402322 original size:17 final size:17
Alignment explanation
Indices: 27402300--27402338 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
27402290 ACTTTCATAA
27402300 TATTATTCGT-ATAACAT
1 TATTATTC-TAATAACAT
27402317 TATTATTCTAATAACAT
1 TATTATTCTAATAACAT
27402334 T-TTAT
1 TATTAT
27402339 CGTTTTCTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.24
17 16 0.76
ACGTcount: A:0.36, C:0.10, G:0.03, T:0.51
Consensus pattern (17 bp):
TATTATTCTAATAACAT
Found at i:27402384 original size:12 final size:12
Alignment explanation
Indices: 27402367--27402391 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
27402357 CAGGATAGTG
27402367 AAAATTATGAAC
1 AAAATTATGAAC
27402379 AAAATTATGAAC
1 AAAATTATGAAC
27402391 A
1 A
27402392 GTTTCAAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.08, T:0.24
Consensus pattern (12 bp):
AAAATTATGAAC
Found at i:27404301 original size:7 final size:7
Alignment explanation
Indices: 27404289--27404410 Score: 79
Period size: 7 Copynumber: 16.7 Consensus size: 7
27404279 CCATTGACAT
27404289 CCTAAAC
1 CCTAAAC
27404296 CCTAAATC
1 CCTAAA-C
*
27404304 CCTAACC
1 CCTAAAC
27404311 CCT-AAC
1 CCTAAAC
27404317 CCTTAAATC
1 CC-TAAA-C
*
27404326 CACTTAAC
1 C-CTAAAC
27404334 CCTTAAATC
1 CC-TAAA-C
27404343 CCT-AAC
1 CCTAAAC
*
27404349 TCCTAACC
1 -CCTAAAC
*
27404357 CCTAACC
1 CCTAAAC
27404364 CCTAAATC
1 CCTAAA-C
*
27404372 CCTAACC
1 CCTAAAC
*
27404379 CCTAACC
1 CCTAAAC
27404386 CCTAAAC
1 CCTAAAC
* *
27404393 CTTAATC
1 CCTAAAC
27404400 CC-AAAC
1 CCTAAAC
27404406 CCTAA
1 CCTAA
27404411 TCCATACCCC
Statistics
Matches: 92, Mismatches: 12, Indels: 22
0.73 0.10 0.17
Matches are distributed among these distances:
6 10 0.11
7 51 0.55
8 22 0.24
9 8 0.09
10 1 0.01
ACGTcount: A:0.34, C:0.44, G:0.00, T:0.21
Consensus pattern (7 bp):
CCTAAAC
Found at i:27404315 original size:22 final size:22
Alignment explanation
Indices: 27404289--27404423 Score: 127
Period size: 22 Copynumber: 6.2 Consensus size: 22
27404279 CCATTGACAT
27404289 CCTAAACCCTAAATCCCTAACC
1 CCTAAACCCTAAATCCCTAACC
27404311 CCT-AACCCTTAAATCCACTTAACC
1 CCTAAACCC-TAAATCC-C-TAACC
* *
27404335 CTTAAATCCCTAACT-CCTAACC
1 CCTAAA-CCCTAAATCCCTAACC
*
27404357 CCTAACCCCTAAATCCCTAACC
1 CCTAAACCCTAAATCCCTAACC
* * *
27404379 CCTAACCCCTAAA-CCTTAATC
1 CCTAAACCCTAAATCCCTAACC
* *
27404400 CC-AAACCCT-AATCCATACCC
1 CCTAAACCCTAAATCCCTAACC
27404420 CCTA
1 CCTA
27404424 CTCCTTAAAA
Statistics
Matches: 94, Mismatches: 11, Indels: 17
0.77 0.09 0.14
Matches are distributed among these distances:
19 2 0.02
20 13 0.14
21 21 0.22
22 39 0.41
23 2 0.02
24 8 0.09
25 6 0.06
26 3 0.03
ACGTcount: A:0.33, C:0.45, G:0.00, T:0.21
Consensus pattern (22 bp):
CCTAAACCCTAAATCCCTAACC
Found at i:27404356 original size:46 final size:44
Alignment explanation
Indices: 27404291--27404391 Score: 132
Period size: 46 Copynumber: 2.2 Consensus size: 44
27404281 ATTGACATCC
*
27404291 TAAACCCTAAATCCCTAACCCCTAACCCTTAAATCCACTTAACCCT
1 TAAACCCTAAATCCCTAACCCCTAACCCCTAAATCC-C-TAACCCT
* *
27404337 TAAATCCCTAACT-CCTAACCCCTAACCCCTAAATCCCTAACCCC
1 TAAA-CCCTAAATCCCTAACCCCTAACCCCTAAATCCCTAACCCT
*
27404381 TAACCCCTAAA
1 TAAACCCTAAA
27404392 CCTTAATCCC
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
43 6 0.12
44 9 0.18
45 1 0.02
46 26 0.53
47 7 0.14
ACGTcount: A:0.35, C:0.44, G:0.00, T:0.22
Consensus pattern (44 bp):
TAAACCCTAAATCCCTAACCCCTAACCCCTAAATCCCTAACCCT
Found at i:27404369 original size:29 final size:29
Alignment explanation
Indices: 27404330--27404407 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 29
27404320 TAAATCCACT
* *
27404330 TAACCCTTAAATCCCTAACTCCTAACCCC
1 TAACCCCTAAATCCCTAACCCCTAACCCC
27404359 TAACCCCTAAATCCCTAACCCCTAACCCC
1 TAACCCCTAAATCCCTAACCCCTAACCCC
* * *
27404388 TAA-ACCTTAATCCCAAACCC
1 TAACCCCTAAATCCCTAACCC
27404408 TAATCCATAC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 14 0.32
29 30 0.68
ACGTcount: A:0.33, C:0.46, G:0.00, T:0.21
Consensus pattern (29 bp):
TAACCCCTAAATCCCTAACCCCTAACCCC
Found at i:27405241 original size:27 final size:23
Alignment explanation
Indices: 27405191--27405242 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
27405181 TAAATAATAG
27405191 TATTTTAATTTTTCCATGTGATT
1 TATTTTAATTTTTCCATGTGATT
*
27405214 TATTTTAAATTATTTCTATGTG--T
1 TATTTT-AATT-TTTCCATGTGATT
27405237 TATTTT
1 TATTTT
27405243 TCTGAATATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
23 13 0.50
24 4 0.15
25 9 0.35
ACGTcount: A:0.23, C:0.06, G:0.08, T:0.63
Consensus pattern (23 bp):
TATTTTAATTTTTCCATGTGATT
Found at i:27405511 original size:82 final size:83
Alignment explanation
Indices: 27405367--27405524 Score: 198
Period size: 82 Copynumber: 1.9 Consensus size: 83
27405357 AAACCCCTAA
* * *
27405367 CATTAGCGGCGCTTCTCAAAAAAACGCCGCTAAAAATCTTAACTTTAGCGGTGCTTATTTAAAAA
1 CATTAGCGGCGCTTCTCAAAAAAACGCCGCTAAAAACCTTAACGTTAGCGGCGCTTATTTAAAAA
27405432 CG-CAGCTAAAAGACCAAT
66 CGCCA-CTAAAAGACCAAT
* * * *
27405450 CATTAGCGGTGC-T-TCAAAGAAAATGCCGCTAAATACCTTAACGTTAGCGGCGGTTGA-TTAAA
1 CATTAGCGGCGCTTCTCAAA-AAAACGCCGCTAAAAACCTTAACGTTAGCGGCGCTT-ATTTAAA
27405512 AACGCCACTAAAA
64 AACGCCACTAAAA
27405525 CCCCCGACCA
Statistics
Matches: 65, Mismatches: 7, Indels: 7
0.82 0.09 0.09
Matches are distributed among these distances:
81 5 0.08
82 46 0.71
83 14 0.22
ACGTcount: A:0.37, C:0.22, G:0.18, T:0.23
Consensus pattern (83 bp):
CATTAGCGGCGCTTCTCAAAAAAACGCCGCTAAAAACCTTAACGTTAGCGGCGCTTATTTAAAAA
CGCCACTAAAAGACCAAT
Found at i:27405711 original size:16 final size:16
Alignment explanation
Indices: 27405690--27405721 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
27405680 GTTTTCTTAG
27405690 AAACGCCGCTAAAGCT
1 AAACGCCGCTAAAGCT
*
27405706 AAACGCTGCTAAAGCT
1 AAACGCCGCTAAAGCT
27405722 CATTTTTTAG
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:0.38, C:0.28, G:0.19, T:0.16
Consensus pattern (16 bp):
AAACGCCGCTAAAGCT
Found at i:27410339 original size:42 final size:41
Alignment explanation
Indices: 27410214--27410341 Score: 157
Period size: 42 Copynumber: 3.0 Consensus size: 41
27410204 TTCAACTTTT
* * *
27410214 TTTTTTGTCTAAACTTGGATGTTGCTTTCTCAAGTTGTTTTCT
1 TTTTTTGTCT-AACTTGGATGTTGCTTTCCCAAGTTG-CTTCC
* *
27410257 TTTTTTGTCTAACTTGGATATTGTTTTCCCAAGTTGCTTCC
1 TTTTTTGTCTAACTTGGATGTTGCTTTCCCAAGTTGCTTCC
* * *
27410298 TTTTTTGTCTAGACATGGATGTTGCTTTCCCATGTCGCTTCC
1 TTTTTTGTCTA-ACTTGGATGTTGCTTTCCCAAGTTGCTTCC
27410340 TT
1 TT
27410342 GATATTTTTA
Statistics
Matches: 74, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
41 14 0.19
42 50 0.68
43 10 0.14
ACGTcount: A:0.13, C:0.19, G:0.16, T:0.52
Consensus pattern (41 bp):
TTTTTTGTCTAACTTGGATGTTGCTTTCCCAAGTTGCTTCC
Found at i:27410958 original size:22 final size:22
Alignment explanation
Indices: 27410914--27410959 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
27410904 TAATATAGTC
*
27410914 TTAATAAATGCAGAAAAATCTT
1 TTAATAAATGCAGAAAAAACTT
*
27410936 TTAATAAATGGA-AAGAAAACTT
1 TTAATAAATGCAGAA-AAAACTT
27410958 TT
1 TT
27410960 GAACTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 2 0.10
22 19 0.90
ACGTcount: A:0.50, C:0.07, G:0.11, T:0.33
Consensus pattern (22 bp):
TTAATAAATGCAGAAAAAACTT
Found at i:27413051 original size:12 final size:12
Alignment explanation
Indices: 27413034--27413064 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
27413024 TAATGAAATG
27413034 TAAATAAAGAAA
1 TAAATAAAGAAA
27413046 TAAATAAAGAAA
1 TAAATAAAGAAA
*
27413058 TGAATAA
1 TAAATAA
27413065 GATTATAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (12 bp):
TAAATAAAGAAA
Found at i:27413103 original size:12 final size:12
Alignment explanation
Indices: 27413086--27413112 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
27413076 AAAGTAAAAG
27413086 ATATATATATGT
1 ATATATATATGT
27413098 ATATATATATGT
1 ATATATATATGT
27413110 ATA
1 ATA
27413113 AAAAATTGTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.48
Consensus pattern (12 bp):
ATATATATATGT
Found at i:27413768 original size:19 final size:19
Alignment explanation
Indices: 27413746--27413792 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
27413736 GTATAAGATC
27413746 TATTTTCCTTTTTTATTTT
1 TATTTTCCTTTTTTATTTT
* *
27413765 TATTTTTC-TCTTTATTTT
1 TATTTTCCTTTTTTATTTT
*
27413783 T-TCTTCCTTT
1 TATTTTCCTTT
27413793 CGAAACTATT
Statistics
Matches: 22, Mismatches: 5, Indels: 3
0.73 0.17 0.10
Matches are distributed among these distances:
17 4 0.18
18 11 0.50
19 7 0.32
ACGTcount: A:0.09, C:0.15, G:0.00, T:0.77
Consensus pattern (19 bp):
TATTTTCCTTTTTTATTTT
Found at i:27414533 original size:3 final size:3
Alignment explanation
Indices: 27414518--27414575 Score: 57
Period size: 3 Copynumber: 19.7 Consensus size: 3
27414508 TAATATGTGC
* * *
27414518 TAT TAT T-T T-T TAT TAT TAT ATAT TAT TAT TAT TAT TAG CAT CAT
1 TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
*
27414562 TAT TAA TAT TAT TA
1 TAT TAT TAT TAT TA
27414576 AATACCTTTT
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
2 4 0.09
3 40 0.85
4 3 0.06
ACGTcount: A:0.34, C:0.03, G:0.02, T:0.60
Consensus pattern (3 bp):
TAT
Found at i:27415795 original size:26 final size:28
Alignment explanation
Indices: 27415758--27415811 Score: 76
Period size: 26 Copynumber: 2.0 Consensus size: 28
27415748 AGCATAGAAG
27415758 TATATAAATAAAAAAATTT-AAATATAT
1 TATATAAATAAAAAAATTTAAAATATAT
**
27415785 TATA-AAATAAAATTATTTAAAATATAT
1 TATATAAATAAAAAAATTTAAAATATAT
27415812 AGACAATATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
26 12 0.50
27 12 0.50
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (28 bp):
TATATAAATAAAAAAATTTAAAATATAT
Found at i:27415807 original size:15 final size:17
Alignment explanation
Indices: 27415777--27415808 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27415767 AAAAAAATTT
27415777 AAATATATTATAAAATA
1 AAATATATTATAAAATA
27415794 AAAT-TATT-TAAAATA
1 AAATATATTATAAAATA
27415809 TATAGACAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 4 0.27
17 4 0.27
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (17 bp):
AAATATATTATAAAATA
Found at i:27421665 original size:17 final size:17
Alignment explanation
Indices: 27421643--27421675 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
27421633 ATCGGCCTTG
27421643 AATGCTTTTGATAAACT
1 AATGCTTTTGATAAACT
27421660 AATGCTTTTGATAAAC
1 AATGCTTTTGATAAAC
27421676 AAAAACAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.36, C:0.12, G:0.12, T:0.39
Consensus pattern (17 bp):
AATGCTTTTGATAAACT
Found at i:27426721 original size:46 final size:46
Alignment explanation
Indices: 27426654--27426745 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
27426644 CATTATAATG
27426654 ACAATTTATCCAATAGCAGTCAGAGTTCTGTTTGGCAGTTGGTTTA
1 ACAATTTATCCAATAGCAGTCAGAGTTCTGTTTGGCAGTTGGTTTA
27426700 ACAATTTATCCAATAGCAGTCAGAGTTCTGTTTGGCAGTTGGTTTA
1 ACAATTTATCCAATAGCAGTCAGAGTTCTGTTTGGCAGTTGGTTTA
27426746 CTTTTACTCG
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.26, C:0.15, G:0.22, T:0.37
Consensus pattern (46 bp):
ACAATTTATCCAATAGCAGTCAGAGTTCTGTTTGGCAGTTGGTTTA
Found at i:27428573 original size:31 final size:31
Alignment explanation
Indices: 27428538--27428602 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
27428528 TTACAAAAAT
*
27428538 AATTATCAAATTATTTAAAAG-TTTTCATTTA
1 AATTATCAAATTATTCAAAAGCTTTT-ATTTA
* *
27428569 AATTATTAAATTATTCGAAAGCTTTTATTTA
1 AATTATCAAATTATTCAAAAGCTTTTATTTA
27428600 AAT
1 AAT
27428603 CACTAGATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 26 0.87
32 4 0.13
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.48
Consensus pattern (31 bp):
AATTATCAAATTATTCAAAAGCTTTTATTTA
Found at i:27428659 original size:17 final size:17
Alignment explanation
Indices: 27428637--27428672 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
27428627 AAAGTTCAAT
27428637 TAGCGAGTTCTAAATGA
1 TAGCGAGTTCTAAATGA
27428654 TAGCGAGTTCTAAATGA
1 TAGCGAGTTCTAAATGA
27428671 TA
1 TA
27428673 ATTTGATGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (17 bp):
TAGCGAGTTCTAAATGA
Found at i:27429395 original size:17 final size:17
Alignment explanation
Indices: 27429375--27429407 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
27429365 ATTCTTCTTA
*
27429375 TTTTAATATTTTAATTT
1 TTTTAATAATTTAATTT
27429392 TTTTAATAATTTAATT
1 TTTTAATAATTTAATT
27429408 AAGATAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTAATAATTTAATTT
Found at i:27430254 original size:185 final size:185
Alignment explanation
Indices: 27429942--27430315 Score: 678
Period size: 185 Copynumber: 2.0 Consensus size: 185
27429932 AGTCTATTTC
* *
27429942 TCTTGATTTTATCTTTGGTAAAAAGAGGGATTTCTGTTAATCCTCCTCTTATATCCTTAGCGACT
1 TCTTGATTTTATCTTTGGTAAAAAAAGGGAGTTCTGTTAATCCTCCTCTTATATCCTTAGCGACT
*
27430007 GTGTTACCGCTAATTTTTTCTATATGTCTCTGAGTCCATATTTTAAACTTAGAGATCTTATATAT
66 ATGTTACCGCTAATTTTTTCTATATGTCTCTGAGTCCATATTTTAAACTTAGAGATCTTATATAT
27430072 TTCT-TCTTTAGAAATATGATTTTTATTAATCTTTTCTATCATTTCATCAGAAAAG
131 TTCTGT-TTTAGAAATATGATTTTTATTAATCTTTTCTATCATTTCATCAGAAAAG
* * *
27430127 TCTTGATTTTATCTTTGGTAAAAAAAGGGAGTTCTGTTAATCCTCCTTTTGTATTCTTAGCGACT
1 TCTTGATTTTATCTTTGGTAAAAAAAGGGAGTTCTGTTAATCCTCCTCTTATATCCTTAGCGACT
27430192 ATGTTACCGCTAATTTTTTCTATATGTCTCTGAGTCCATATTTTAAACTTAGAGATCTTATATAT
66 ATGTTACCGCTAATTTTTTCTATATGTCTCTGAGTCCATATTTTAAACTTAGAGATCTTATATAT
27430257 TTCTGTTTTAGAAATATGATTTTTATTAATCTTTTCTATCATTTCATCAGAAAAG
131 TTCTGTTTTAGAAATATGATTTTTATTAATCTTTTCTATCATTTCATCAGAAAAG
27430312 TCTT
1 TCTT
27430316 TTTCTTCTCC
Statistics
Matches: 182, Mismatches: 6, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
185 181 0.99
186 1 0.01
ACGTcount: A:0.26, C:0.15, G:0.12, T:0.47
Consensus pattern (185 bp):
TCTTGATTTTATCTTTGGTAAAAAAAGGGAGTTCTGTTAATCCTCCTCTTATATCCTTAGCGACT
ATGTTACCGCTAATTTTTTCTATATGTCTCTGAGTCCATATTTTAAACTTAGAGATCTTATATAT
TTCTGTTTTAGAAATATGATTTTTATTAATCTTTTCTATCATTTCATCAGAAAAG
Found at i:27432050 original size:19 final size:18
Alignment explanation
Indices: 27432015--27432051 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
27432005 AGGACTGGAA
*
27432015 ATCATATTTTTTTTGTTT
1 ATCATATTTTTTCTGTTT
27432033 ATCATATTTTTTACTGTTT
1 ATCATATTTTTT-CTGTTT
27432052 TTTATGTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.08, G:0.05, T:0.68
Consensus pattern (18 bp):
ATCATATTTTTTCTGTTT
Found at i:27434039 original size:179 final size:180
Alignment explanation
Indices: 27433739--27434098 Score: 526
Period size: 179 Copynumber: 2.0 Consensus size: 180
27433729 TGGCAAAGTG
*
27433739 TTGCAAGAATCAAGATCTTACGACCATAGAAACAAGACCTTTTGATTCTAGAGTTTAACAAGGAA
1 TTGCAAGAATCAAGATCTTACGACCATAGAAACAAGACCTTTTGATTCCAGAGTTTAACAAGGAA
* * * * * ** *
27433804 GGATGCCTGTAATTTAGGAAAATACTTTTAGATATGGGGAGGTTCGAATTGCGAGCTGGAAACAA
66 AGATGCCTATAATTTAAGAAAAGACATTTAGATATGAAGAGGTTCAAATTGCGAGCTGGAAACAA
* * *
27433869 TACATAATGCTACAATCATAT-GAAATCTTATTTGACAATCACATAAATT
131 TACATAATGCCACAATCACATGGAAATCTTATTTGACAATCACACAAATT
* ***
27433918 TTGCAAGAATCAAGATCTTACTACCATAGAAACAAGACCTTTTGATTCCAGAGTTTGGTAAGGAA
1 TTGCAAGAATCAAGATCTTACGACCATAGAAACAAGACCTTTTGATTCCAGAGTTTAACAAGGAA
*
27433983 AGATGTCTATAATTTAAGAAAAGACATTTAGATATGAAGAGGCTT-AAATTGCGAGCTGGAAACA
66 AGATGCCTATAATTTAAGAAAAGACATTTAGATATGAAGAGG-TTCAAATTGCGAGCTGGAAACA
**
27434047 ATACATAATGCCACAATCACATGGGCATCTTATTTGACAATCACACAAATT
130 ATACATAATGCCACAATCACATGGAAATCTTATTTGACAATCACACAAATT
27434098 T
1 T
27434099 CTCTTCAAAA
Statistics
Matches: 160, Mismatches: 19, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
179 132 0.82
180 28 0.17
ACGTcount: A:0.39, C:0.15, G:0.18, T:0.28
Consensus pattern (180 bp):
TTGCAAGAATCAAGATCTTACGACCATAGAAACAAGACCTTTTGATTCCAGAGTTTAACAAGGAA
AGATGCCTATAATTTAAGAAAAGACATTTAGATATGAAGAGGTTCAAATTGCGAGCTGGAAACAA
TACATAATGCCACAATCACATGGAAATCTTATTTGACAATCACACAAATT
Found at i:27434544 original size:20 final size:21
Alignment explanation
Indices: 27434493--27434545 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
27434483 TAAAATACTA
27434493 ATTTCAAATATTTAAAGATTAT
1 ATTT-AAATATTTAAAGATTAT
27434515 ATTTAAATATTTAAA-ATT-T
1 ATTTAAATATTTAAAGATTAT
*
27434534 AGTTTATATATT
1 A-TTTAAATATT
27434546 CTAATTAAAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 12 0.41
21 11 0.38
22 4 0.14
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.51
Consensus pattern (21 bp):
ATTTAAATATTTAAAGATTAT
Found at i:27434607 original size:24 final size:24
Alignment explanation
Indices: 27434554--27434607 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
27434544 TTCTAATTAA
*
27434554 ATTTTATAAATAATTAATATTTAT
1 ATTTTAAAAATAATTAATATTTAT
*
27434578 -TGTTTAAAAATATTTACA-ATTTAT
1 AT-TTTAAAAATAATTA-ATATTTAT
27434602 ATTTTA
1 ATTTTA
27434608 TATATTAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
23 1 0.04
24 22 0.88
25 2 0.08
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTAAAAATAATTAATATTTAT
Found at i:27439105 original size:19 final size:18
Alignment explanation
Indices: 27439081--27439116 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
27439071 CAAAAGTTTT
*
27439081 ATTTTAATATTTTTTATAC
1 ATTTTAAT-TTTATTATAC
27439100 ATTTTAATTTTATTATA
1 ATTTTAATTTTATTATA
27439117 TAGGCGGTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (18 bp):
ATTTTAATTTTATTATAC
Found at i:27439786 original size:20 final size:20
Alignment explanation
Indices: 27439761--27439800 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
27439751 CGTAAAATGA
*
27439761 TTTCTGGAAAATGTTTTACT
1 TTTCTGGAAAATGATTTACT
*
27439781 TTTCTGTAAAATGATTTACT
1 TTTCTGGAAAATGATTTACT
27439801 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.28, C:0.10, G:0.12, T:0.50
Consensus pattern (20 bp):
TTTCTGGAAAATGATTTACT
Found at i:27439790 original size:34 final size:35
Alignment explanation
Indices: 27439746--27439812 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
27439736 TGGTAAAATA
*
27439746 TTTTCCGTAAAATGATTT-CTGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
*
27439780 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGGAAAATATTTT
27439813 CTGGTGTTTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.31, C:0.09, G:0.13, T:0.46
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGGAAAATATTTTAC
Found at i:27439816 original size:14 final size:15
Alignment explanation
Indices: 27439740--27439816 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
27439730 GATTTATGGT
* *
27439740 AAAAT-ATTTTCCGT
1 AAAATGATTTTCTGG
27439754 AAAATGA-TTTCTGG
1 AAAATGATTTTCTGG
*
27439768 AAAATGTTTTACTTTTCTGT
1 AAAATG----A-TTTTCTGG
*
27439788 AAAATGATTTACTGG
1 AAAATGATTTTCTGG
27439803 AAAAT-ATTTTCTGG
1 AAAATGATTTTCTGG
27439817 TGTTTGGTTG
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 24 0.48
15 12 0.24
16 1 0.02
18 1 0.02
20 12 0.24
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (15 bp):
AAAATGATTTTCTGG
Found at i:27441179 original size:27 final size:27
Alignment explanation
Indices: 27441149--27441218 Score: 79
Period size: 27 Copynumber: 2.6 Consensus size: 27
27441139 AATAATCAAT
*
27441149 TCAATATCCAACAATGTTAAAACATA-A
1 TCAATATCCAACAAT-TCAAAACATATA
* *
27441176 TCAATATCTAACAAATTCAAGACATATA
1 TCAATATCCAAC-AATTCAAAACATATA
*
27441204 TCAAAATCCAACAAT
1 TCAATATCCAACAAT
27441219 CTAAAATTTC
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
27 22 0.61
28 14 0.39
ACGTcount: A:0.51, C:0.20, G:0.03, T:0.26
Consensus pattern (27 bp):
TCAATATCCAACAATTCAAAACATATA
Found at i:27441355 original size:29 final size:29
Alignment explanation
Indices: 27441320--27441378 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 29
27441310 AATCTACCTA
* *
27441320 ATATTTCTAGCCATATATTCAGTCTACAT
1 ATATTTCTAGCCATATAATCAGTCCACAT
27441349 ATATTTCTAGCCATATAATCAGTCCACAT
1 ATATTTCTAGCCATATAATCAGTCCACAT
27441378 A
1 A
27441379 GTTTCTGCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.37
Consensus pattern (29 bp):
ATATTTCTAGCCATATAATCAGTCCACAT
Found at i:27441365 original size:14 final size:14
Alignment explanation
Indices: 27441320--27441365 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
27441310 AATCTACCTA
27441320 ATATTTCTAGCCAT
1 ATATTTCTAGCCAT
27441334 ATA-TTC-AGTCTACAT
1 ATATTTCTAG-C--CAT
27441349 ATATTTCTAGCCAT
1 ATATTTCTAGCCAT
27441363 ATA
1 ATA
27441366 ATCAGTCCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 10
0.73 0.00 0.27
Matches are distributed among these distances:
12 2 0.07
13 4 0.15
14 9 0.33
15 6 0.22
16 4 0.15
17 2 0.07
ACGTcount: A:0.33, C:0.20, G:0.07, T:0.41
Consensus pattern (14 bp):
ATATTTCTAGCCAT
Found at i:27448710 original size:25 final size:26
Alignment explanation
Indices: 27448682--27448731 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
27448672 TCCCACCCTA
*
27448682 ATTTTACCCT-AATAAAATTTTGACG
1 ATTTTACACTCAATAAAATTTTGACG
27448707 ATTTTACACTCAATAAAATTTTGAC
1 ATTTTACACTCAATAAAATTTTGAC
27448732 AAAATTCGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 9 0.39
26 14 0.61
ACGTcount: A:0.38, C:0.16, G:0.06, T:0.40
Consensus pattern (26 bp):
ATTTTACACTCAATAAAATTTTGACG
Found at i:27450922 original size:114 final size:114
Alignment explanation
Indices: 27450721--27451018 Score: 335
Period size: 114 Copynumber: 2.6 Consensus size: 114
27450711 AATACACCGA
* * ** * * * *
27450721 CACAAAGCTTGCTAGGCACAGAGCCCAAATAACACTAGCATAAAGGCTGCTAGGCACAGAGCCCG
1 CACAAAGCATGCTAGGCACACAGCCCAAATAACACCGGCACACAGCCTGCTAGGCACATAGCCCG
* * * * * *
27450786 AATAACACCGGCACACAGCCTGCTAGGTACATAGCCCGAATATCATCGG
66 AATAAAACCGACACAAAGCCTGCAAGGAACATAGCCCGAATAACATCGG
* * *
27450835 CACAAAGCCTGCTAGGCACACAACCCAAATAACACCGGCACACAGCCTACTAGGCACATAGCCCG
1 CACAAAGCATGCTAGGCACACAGCCCAAATAACACCGGCACACAGCCTGCTAGGCACATAGCCCG
* * *
27450900 AATAAAATCGACACAAATCCTGCAAGGAACATATCCCGAATAACATCGG
66 AATAAAACCGACACAAAGCCTGCAAGGAACATAGCCCGAATAACATCGG
* * * * * * * * *
27450949 CACACAGCATGTTGGGCACATAGCCCGAATAACACCGGCACACAGTCTGCTAAGCATATAGCCTG
1 CACAAAGCATGCTAGGCACACAGCCCAAATAACACCGGCACACAGCCTGCTAGGCACATAGCCCG
27451014 AATAA
66 AATAA
27451019 CATTACATTT
Statistics
Matches: 153, Mismatches: 31, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
114 153 1.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (114 bp):
CACAAAGCATGCTAGGCACACAGCCCAAATAACACCGGCACACAGCCTGCTAGGCACATAGCCCG
AATAAAACCGACACAAAGCCTGCAAGGAACATAGCCCGAATAACATCGG
Found at i:27451010 original size:38 final size:38
Alignment explanation
Indices: 27450714--27451020 Score: 299
Period size: 38 Copynumber: 8.1 Consensus size: 38
27450704 AACTTTCAAT
* * * * *
27450714 ACACCGACACAAAGCTTGCTAGGCACAGAGCCCAAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
** * * * *
27450752 ACACTAGCATAAAGGCTGCTAGGCACAGAGCCCGAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
*
27450790 ACACCGGCACACAGCCTGCTAGGTACATAGCCCGAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
* * * * * *
27450828 TCATCGGCACAAAGCCTGCTAGGCACACAACCCAAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
*
27450866 ACACCGGCACACAGCCTACTAGGCACATAGCCCGAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
* * * * * * * *
27450904 AAATCGACACAAATCCTGCAAGGAACATATCCCGAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
* * * *
27450942 ACATCGGCACACAGCATGTTGGGCACATAGCCCGAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
* * * *
27450980 ACACCGGCACACAGTCTGCTAAGCATATAGCCTGAATA
1 ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
27451018 ACA
1 ACA
27451021 TTACATTTCT
Statistics
Matches: 214, Mismatches: 55, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 214 1.00
ACGTcount: A:0.36, C:0.31, G:0.19, T:0.14
Consensus pattern (38 bp):
ACACCGGCACACAGCCTGCTAGGCACATAGCCCGAATA
Found at i:27457703 original size:13 final size:12
Alignment explanation
Indices: 27457675--27457713 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
27457665 ATAACTCATG
27457675 TATATTTATATA
1 TATATTTATATA
*
27457687 TATATTTGTATTA
1 TATATTTATA-TA
*
27457700 TATATTTTTATA
1 TATATTTATATA
27457712 TA
1 TA
27457714 CATATATGTC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
12 13 0.54
13 11 0.46
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (12 bp):
TATATTTATATA
Found at i:27459266 original size:13 final size:13
Alignment explanation
Indices: 27459248--27459283 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
27459238 TTCTTTATTG
*
27459248 CTTTTGCGAAGTA
1 CTTTTGAGAAGTA
*
27459261 CTTTTGAGAAGTG
1 CTTTTGAGAAGTA
27459274 CTTTTGAGAA
1 CTTTTGAGAA
27459284 ATTTGAGTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.39
Consensus pattern (13 bp):
CTTTTGAGAAGTA
Found at i:27467732 original size:117 final size:117
Alignment explanation
Indices: 27467602--27467838 Score: 438
Period size: 117 Copynumber: 2.0 Consensus size: 117
27467592 TCATCCAATA
* *
27467602 GTCATGATCGATGTTAAGGTATGGTTCTCTAAAGATATAAAAGAAGTTACTAAAAATCCAAAATA
1 GTCATGATAGATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAGTTACTAAAAATCCAAAATA
*
27467667 TTTGTATCTGATCCGATATTCATTCCTAGTCTGAGTAACATAGGCAATAACT
66 TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAACATAGGCAATAACT
*
27467719 GTCATGATAGATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAGTTATTAAAAATCCAAAATA
1 GTCATGATAGATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAGTTACTAAAAATCCAAAATA
27467784 TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAACATAGGCAATAACT
66 TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAACATAGGCAATAACT
27467836 GTC
1 GTC
27467839 TTTAAAGAAT
Statistics
Matches: 116, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
117 116 1.00
ACGTcount: A:0.38, C:0.14, G:0.16, T:0.33
Consensus pattern (117 bp):
GTCATGATAGATGTTAAGGTATGATTCTCTAAAGATATAAAAGAAGTTACTAAAAATCCAAAATA
TTTGTATCTGATCCAATATTCATTCCTAGTCTGAGTAACATAGGCAATAACT
Found at i:27489538 original size:44 final size:44
Alignment explanation
Indices: 27489475--27489761 Score: 345
Period size: 44 Copynumber: 6.6 Consensus size: 44
27489465 AACCGTTACA
27489475 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
*
27489519 CGGTGGAATCAACACTTAGCAACCACCTCATGTTCAAAGGATCC
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
** * ** * *
27489563 CCATGGAATCAGCACTTAGCAACCACCTTATAATC-AATGAT-A
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
* * ** *
27489605 CGG-GGAATCAACACATAGCAACC-CCTTTCA-AAT-AAAGGAT-A
1 CGGTGGAATCAGCACTTAGCAACCACC--TCATGTTCAAAGGATCC
* *
27489646 CGGTGGAATCAGCACTTAGCAACCACCTCAAGTTCATAGGATCC
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
* * *
27489690 CTGTGGAATCAGCACTTAGCAACCGCCTCATGTTTAAAGGATCC
1 CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
27489734 CGGTGGAATCAGCACTTAGCAACCACCT
1 CGGTGGAATCAGCACTTAGCAACCACCT
27489762 TATAATCAAT
Statistics
Matches: 207, Mismatches: 28, Indels: 16
0.82 0.11 0.06
Matches are distributed among these distances:
40 2 0.01
41 33 0.16
42 22 0.11
43 13 0.06
44 137 0.66
ACGTcount: A:0.32, C:0.28, G:0.18, T:0.21
Consensus pattern (44 bp):
CGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCC
Found at i:27489624 original size:41 final size:40
Alignment explanation
Indices: 27489567--27489939 Score: 257
Period size: 41 Copynumber: 8.9 Consensus size: 40
27489557 GGATCCCCAT
27489567 GGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * *
27489608 GGAATCAACACATAGCAACCCCTT-TCAAATAAAGGATACGG
1 GGAATCAGCACTTAGCAACCCCTTAT--AATCAATGATACGG
* * * * *
27489649 TGGAATCAGCACTTAGCAACCACCTCA-AGTTCATAGGATCCCTGT
1 -GGAATCAGCACTTAGCAACC-CCTTATA-ATCA-ATGAT-AC-GG
* ** * * *
27489694 GGAATCAGCACTTAGCAACCGCCTCATGTTTAAAGGATCCCGG
1 GGAATCAGCACTTAGCAACC-CCTTAT-AATCAATGAT-ACGG
27489737 TGGAATCAGCACTTAGCAACCACCTTATAATCAATGATACGG
1 -GGAATCAGCACTTAGCAACC-CCTTATAATCAATGATACGG
* * * * * *
27489779 GAAATCAACACATAACAACCCCTTTCACAATCAAGGATACGG
1 GGAATCAGCACTTAGCAACCCC-TT-ATAATCAATGATACGG
* * *
27489821 TGGAATCAGCACTTAGCAACCACCTTTAGAACCAATAACT-CGG
1 -GGAATCAGCACTTAGCAACC-CC-TTATAATCAATGA-TACGG
* * * *
27489864 GGAATCAGCACTTAGCAACCCCTTTTTGATCAGTGATTCGG
1 GGAATCAGCACTTAGCAACCCC-TTATAATCAATGATACGG
* * *
27489905 GGAATCTGCACTTAGCAACCCCTTACATTCAATGA
1 GGAATCAGCACTTAGCAACCCCTTATAATCAATGA
27489940 ATCCCGGTTT
Statistics
Matches: 266, Mismatches: 48, Indels: 37
0.76 0.14 0.11
Matches are distributed among these distances:
39 1 0.00
40 15 0.06
41 83 0.31
42 57 0.21
43 41 0.15
44 65 0.24
45 4 0.02
ACGTcount: A:0.34, C:0.27, G:0.17, T:0.22
Consensus pattern (40 bp):
GGAATCAGCACTTAGCAACCCCTTATAATCAATGATACGG
Found at i:27489759 original size:171 final size:172
Alignment explanation
Indices: 27489474--27489845 Score: 638
Period size: 171 Copynumber: 2.2 Consensus size: 172
27489464 TAACCGTTAC
*
27489474 ACGGTGGAATCAGCACTTAGCAACCACCTCATGTTCAAAGGATCCCGGTGGAATCAACACTTAGC
1 ACGGTGGAATCAGCACTTAGCAACCACCTCAAGTTCAAAGGATCCCGGTGGAATCAACACTTAGC
27489539 AACCACCTCATGTTCAAAGGATCCCCATGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
66 AACCACCTCATGTTCAAAGGATCCCCATGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
* *
27489604 ACGGGGAATCAACACATAGCAACCCCTTTCA-AATAAAGGAT
131 ACGGGAAATCAACACATAACAACCCCTTTCACAATAAAGGAT
* * *
27489645 ACGGTGGAATCAGCACTTAGCAACCACCTCAAGTTCATAGGATCCCTGTGGAATCAGCACTTAGC
1 ACGGTGGAATCAGCACTTAGCAACCACCTCAAGTTCAAAGGATCCCGGTGGAATCAACACTTAGC
* * **
27489710 AACCGCCTCATGTTTAAAGGATCCCGGTGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
66 AACCACCTCATGTTCAAAGGATCCCCATGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
*
27489775 ACGGGAAATCAACACATAACAACCCCTTTCACAATCAAGGAT
131 ACGGGAAATCAACACATAACAACCCCTTTCACAATAAAGGAT
27489817 ACGGTGGAATCAGCACTTAGCAACCACCT
1 ACGGTGGAATCAGCACTTAGCAACCACCT
27489846 TTAGAACCAA
Statistics
Matches: 189, Mismatches: 11, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
171 151 0.80
172 38 0.20
ACGTcount: A:0.34, C:0.28, G:0.17, T:0.21
Consensus pattern (172 bp):
ACGGTGGAATCAGCACTTAGCAACCACCTCAAGTTCAAAGGATCCCGGTGGAATCAACACTTAGC
AACCACCTCATGTTCAAAGGATCCCCATGGAATCAGCACTTAGCAACCACCTTATAATCAATGAT
ACGGGAAATCAACACATAACAACCCCTTTCACAATAAAGGAT
Found at i:27490742 original size:8 final size:8
Alignment explanation
Indices: 27490729--27490754 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
27490719 AATACATTTT
27490729 AATTACCA
1 AATTACCA
27490737 AATTACCA
1 AATTACCA
27490745 AATTACCA
1 AATTACCA
27490753 AA
1 AA
27490755 ATGCCCCTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.54, C:0.23, G:0.00, T:0.23
Consensus pattern (8 bp):
AATTACCA
Found at i:27497635 original size:13 final size:13
Alignment explanation
Indices: 27497617--27497687 Score: 61
Period size: 13 Copynumber: 5.5 Consensus size: 13
27497607 ACATATATAT
27497617 TTTCATATAACCA
1 TTTCATATAACCA
* *
27497630 TTTCATGTAATCA
1 TTTCATATAACCA
* * *
27497643 TTTTACATAACTA
1 TTTCATATAACCA
* *
27497656 TTTCGTATATCCA
1 TTTCATATAACCA
* *
27497669 TTTCATCTAAACA
1 TTTCATATAACCA
27497682 TTTCAT
1 TTTCAT
27497688 TTTACTATTT
Statistics
Matches: 42, Mismatches: 16, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
13 42 1.00
ACGTcount: A:0.32, C:0.20, G:0.03, T:0.45
Consensus pattern (13 bp):
TTTCATATAACCA
Found at i:27498205 original size:22 final size:22
Alignment explanation
Indices: 27498187--27498241 Score: 92
Period size: 22 Copynumber: 2.5 Consensus size: 22
27498177 ACTGGTTAGT
*
27498187 ATGTCGCAACACAGAGGTTTCG
1 ATGTCGCAACACAGAGGGTTCG
*
27498209 ATGTCGCAACACGGAGGGTTCG
1 ATGTCGCAACACAGAGGGTTCG
27498231 ATGTCGCAACA
1 ATGTCGCAACA
27498242 TAGGAAGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.27, C:0.24, G:0.29, T:0.20
Consensus pattern (22 bp):
ATGTCGCAACACAGAGGGTTCG
Found at i:27504720 original size:21 final size:20
Alignment explanation
Indices: 27504695--27504761 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
27504685 AAAACAGAAG
* *
27504695 CAAAAATAACAGTACAAATAA
1 CAAAAA-AACAGCAAAAATAA
*
27504716 CAAAAACAATAGCAAAAATAA
1 CAAAAA-AACAGCAAAAATAA
27504737 CAACAAAAACAGCAGAAAAATAA
1 CAA-AAAAACAGC--AAAAATAA
27504760 CA
1 CA
27504762 GCACCAAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
21 25 0.66
22 3 0.08
23 10 0.26
ACGTcount: A:0.69, C:0.16, G:0.06, T:0.09
Consensus pattern (20 bp):
CAAAAAAACAGCAAAAATAA
Found at i:27504755 original size:23 final size:24
Alignment explanation
Indices: 27504714--27504761 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
27504704 CAGTACAAAT
*
27504714 AACAAAAACAATAGCAAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
*
27504738 AACAAAAACAGCAG-AAAAATAAC
1 AACAAAAACAACAGCAAAAATAAC
27504761 A
1 A
27504762 GCACCAAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 10 0.45
24 12 0.55
ACGTcount: A:0.71, C:0.17, G:0.06, T:0.06
Consensus pattern (24 bp):
AACAAAAACAACAGCAAAAATAAC
Found at i:27513753 original size:15 final size:17
Alignment explanation
Indices: 27513735--27513766 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
27513725 GAATTATATA
27513735 AAAATT-TTATA-ATTT
1 AAAATTGTTATATATTT
27513750 AAAATTGTTATATATTT
1 AAAATTGTTATATATTT
27513767 TTAAAAGTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (17 bp):
AAAATTGTTATATATTT
Found at i:27514869 original size:16 final size:15
Alignment explanation
Indices: 27514842--27514875 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
27514832 AAATACACAT
27514842 ATAAAAATAATTAAA
1 ATAAAAATAATTAAA
27514857 ATAAAATATAATTAAA
1 ATAAAA-ATAATTAAA
27514873 ATA
1 ATA
27514876 TTATAAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (15 bp):
ATAAAAATAATTAAA
Found at i:27514874 original size:11 final size:10
Alignment explanation
Indices: 27514856--27514925 Score: 67
Period size: 9 Copynumber: 7.2 Consensus size: 10
27514846 AAATAATTAA
27514856 AATAAAATAT
1 AATAAAATAT
27514866 AATTAAAATAT
1 AA-TAAAATAT
*
27514877 TATAAAATAT
1 AATAAAATAT
27514887 -ATAAAATAT
1 AATAAAATAT
*
27514896 -ATACAATA-
1 AATAAAATAT
27514904 AATCAAAAT-T
1 AAT-AAAATAT
*
27514914 AATATAATAT
1 AATAAAATAT
27514924 AA
1 AA
27514926 ATTATTATCA
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
9 22 0.43
10 20 0.39
11 9 0.18
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (10 bp):
AATAAAATAT
Found at i:27514883 original size:21 final size:21
Alignment explanation
Indices: 27514857--27514925 Score: 67
Period size: 19 Copynumber: 3.5 Consensus size: 21
27514847 AATAATTAAA
27514857 ATAAAATATAATTAAAATATT
1 ATAAAATATAATTAAAATATT
27514878 ATAAAATAT-A-TAAAATA-T
1 ATAAAATATAATTAAAATATT
* * *
27514896 ATACAATA-AATCAAAAT-TA
1 ATAAAATATAATTAAAATATT
*
27514915 ATATAATATAA
1 ATAAAATATAA
27514926 ATTATTATCA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
18 9 0.22
19 19 0.47
20 3 0.08
21 9 0.22
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
ATAAAATATAATTAAAATATT
Found at i:27514911 original size:19 final size:19
Alignment explanation
Indices: 27514857--27514927 Score: 63
Period size: 21 Copynumber: 3.6 Consensus size: 19
27514847 AATAATTAAA
27514857 ATAAAATATAATTAAAATATT
1 ATAAAATA-AA-TAAAATATT
*
27514878 ATAAAATATATAAAATA-T
1 ATAAAATAAATAAAATATT
* *
27514896 ATACAATAAATCAAAATTAAT
1 ATAAAATAAAT-AAAA-TATT
*
27514917 ATAATATAAAT
1 ATAAAATAAAT
27514928 TATTATCATA
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
18 10 0.24
19 11 0.26
20 3 0.07
21 18 0.43
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (19 bp):
ATAAAATAAATAAAATATT
Found at i:27521198 original size:69 final size:69
Alignment explanation
Indices: 27521095--27521261 Score: 219
Period size: 69 Copynumber: 2.4 Consensus size: 69
27521085 ACGATGTTTG
* * * * *
27521095 CGCCCAGCGCTAGTCGGTTTG-ACCAATGATTGTGTGCCTAGCACTAGTCAAACAAGCTGACAAA
1 CGCCCAGCGCTAGTCGG-ATGAACCGATAATTGTGTGCCCAGCACTAGTCAAACAAGCTAACAAA
27521159 AGTTA
65 AGTTA
* * *
27521164 CGCCCAGCGCTAATCGGATGAACCGATAATTGTGTGCCCAGCACTAGTCAGACAAGCTAACAAAG
1 CGCCCAGCGCTAGTCGGATGAACCGATAATTGTGTGCCCAGCACTAGTCAAACAAGCTAACAAAA
*
27521229 GTTG
66 GTTA
* *
27521233 TGCCCAGCGCTAGTCGGATAAACCGATAA
1 CGCCCAGCGCTAGTCGGATGAACCGATAA
27521262 AAAATAGTAA
Statistics
Matches: 85, Mismatches: 12, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
68 2 0.02
69 83 0.98
ACGTcount: A:0.30, C:0.26, G:0.24, T:0.20
Consensus pattern (69 bp):
CGCCCAGCGCTAGTCGGATGAACCGATAATTGTGTGCCCAGCACTAGTCAAACAAGCTAACAAAA
GTTA
Found at i:27524243 original size:16 final size:16
Alignment explanation
Indices: 27524222--27524265 Score: 63
Period size: 16 Copynumber: 2.8 Consensus size: 16
27524212 TGGTTGGGGG
27524222 AATGGAATAGA-CTTGT
1 AATGGAATAGAGC-TGT
27524238 AATGGAATAGAGCTGT
1 AATGGAATAGAGCTGT
*
27524254 AATAGAATAGAG
1 AATGGAATAGAG
27524266 TGGTAATCAG
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
16 25 0.96
17 1 0.04
ACGTcount: A:0.43, C:0.05, G:0.27, T:0.25
Consensus pattern (16 bp):
AATGGAATAGAGCTGT
Found at i:27524588 original size:57 final size:58
Alignment explanation
Indices: 27524448--27524595 Score: 182
Period size: 57 Copynumber: 2.6 Consensus size: 58
27524438 TAATAAGATC
* *
27524448 ATTATTAAATATAATTTAATAATAAATAATAAATAATTTAATTATATTTTAACATAATT
1 ATTATTAAATATAATTTAATAA-AAATAATAAATAATTTAATAACATTTTAACATAATT
* *
27524507 ATTATTAAATACAATTTAAT-AAAATAATATATAATTTAATAACATTCTT-A-AT-ATT
1 ATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATT-TTAACATAATT
27524562 ATTATTAAAATATGAA-TTAATAAAAATAA-AAATA
1 ATTATT-AAATAT-AATTTAATAAAAATAATAAATA
27524596 TATAATATTA
Statistics
Matches: 79, Mismatches: 6, Indels: 11
0.82 0.06 0.11
Matches are distributed among these distances:
55 9 0.11
56 16 0.20
57 32 0.41
58 3 0.04
59 19 0.24
ACGTcount: A:0.55, C:0.03, G:0.01, T:0.42
Consensus pattern (58 bp):
ATTATTAAATATAATTTAATAAAAATAATAAATAATTTAATAACATTTTAACATAATT
Found at i:27524595 original size:22 final size:24
Alignment explanation
Indices: 27524568--27524614 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
27524558 TATTATTATT
27524568 AAAATAT-GAAT-TAATAAAAATA
1 AAAATATAGAATATAATAAAAATA
* *
27524590 AAAATATATAATATTATAAAAATA
1 AAAATATAGAATATAATAAAAATA
27524614 A
1 A
27524615 TATATAACTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 7 0.33
23 3 0.14
24 11 0.52
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAATATAGAATATAATAAAAATA
Found at i:27534615 original size:25 final size:25
Alignment explanation
Indices: 27534587--27534636 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
27534577 AAAGATGTTC
27534587 AGATTTAAACAAATTAATTTACTAA
1 AGATTTAAACAAATTAATTTACTAA
27534612 AGATTTAAACAAATTAATTTACTAA
1 AGATTTAAACAAATTAATTTACTAA
27534637 CACTTATTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.08, G:0.04, T:0.36
Consensus pattern (25 bp):
AGATTTAAACAAATTAATTTACTAA
Found at i:27535122 original size:18 final size:19
Alignment explanation
Indices: 27535099--27535134 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
27535089 ACTTTTTTTT
27535099 AAAAAACC-AAGAAGAGAC
1 AAAAAACCTAAGAAGAGAC
*
27535117 AAAAAACCTAATAAGAGA
1 AAAAAACCTAAGAAGAGA
27535135 ACGAGAAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.67, C:0.14, G:0.14, T:0.06
Consensus pattern (19 bp):
AAAAAACCTAAGAAGAGAC
Found at i:27549894 original size:30 final size:31
Alignment explanation
Indices: 27549860--27549928 Score: 95
Period size: 30 Copynumber: 2.2 Consensus size: 31
27549850 TTAAAATATA
*
27549860 TTTAATAATTTTGAATTTT-TTAAATGAAGT
1 TTTAAAAATTTTGAATTTTCTTAAATGAAGT
*
27549890 TTTAAAAATTTTTAATTTTCACTTAAATGAAGT
1 TTTAAAAATTTTGAATTTT--CTTAAATGAAGT
27549923 TTTAAA
1 TTTAAA
27549929 TGAAATTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
30 17 0.50
33 17 0.50
ACGTcount: A:0.39, C:0.03, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAAAAATTTTGAATTTTCTTAAATGAAGT
Found at i:27552639 original size:21 final size:20
Alignment explanation
Indices: 27552615--27552674 Score: 50
Period size: 19 Copynumber: 3.0 Consensus size: 20
27552605 TTTTTATACC
27552615 ATTTTAAAGATTTTTATTTAG
1 ATTTTAAAGATTTTTATTT-G
** *
27552636 ATTTTTTAGAATTTTAATTTG
1 ATTTTAAAG-ATTTTTATTTG
* *
27552657 -TATTAAAAATTTTTATTT
1 ATTTTAAAGATTTTTATTT
27552675 CCTTAACCGT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
19 9 0.30
20 4 0.13
21 8 0.27
22 9 0.30
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
ATTTTAAAGATTTTTATTTG
Found at i:27553501 original size:22 final size:22
Alignment explanation
Indices: 27553460--27553501 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
27553450 CTATAGTGCG
*
27553460 GGGGACTTGTATCGACACAACC
1 GGGGACTTGTATCCACACAACC
27553482 GGGGACTTGT-TCCACGACAA
1 GGGGACTTGTATCCAC-ACAA
27553502 GTGTCTAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.26, C:0.26, G:0.29, T:0.19
Consensus pattern (22 bp):
GGGGACTTGTATCCACACAACC
Found at i:27554191 original size:46 final size:46
Alignment explanation
Indices: 27554126--27554217 Score: 184
Period size: 46 Copynumber: 2.0 Consensus size: 46
27554116 AAGATAATAT
27554126 ATAGAAGAAGATAACAATTGTAAAGGAAACAACCTAAATGAACTTA
1 ATAGAAGAAGATAACAATTGTAAAGGAAACAACCTAAATGAACTTA
27554172 ATAGAAGAAGATAACAATTGTAAAGGAAACAACCTAAATGAACTTA
1 ATAGAAGAAGATAACAATTGTAAAGGAAACAACCTAAATGAACTTA
27554218 CTCTACTTGT
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.54, C:0.11, G:0.15, T:0.20
Consensus pattern (46 bp):
ATAGAAGAAGATAACAATTGTAAAGGAAACAACCTAAATGAACTTA
Found at i:27562593 original size:21 final size:21
Alignment explanation
Indices: 27562566--27562617 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
27562556 TTGATGATGA
27562566 TATTTATAATT-T-TTTACTTT
1 TATTTATAATTATATTTA-TTT
*
27562586 TATGTTATATTTATATTTATTT
1 TAT-TTATAATTATATTTATTT
27562608 TATTTATAAT
1 TATTTATAAT
27562618 GCCTATTGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
20 3 0.11
21 13 0.48
22 7 0.26
23 4 0.15
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TATTTATAATTATATTTATTT
Found at i:27565203 original size:16 final size:16
Alignment explanation
Indices: 27565175--27565210 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
27565165 CAGACAAGGG
27565175 AAATGAAGAAATAAAT
1 AAATGAAGAAATAAAT
27565191 AAATGCAAG-AATAAAT
1 AAATG-AAGAAATAAAT
27565207 AAAT
1 AAAT
27565211 AACTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.67, C:0.03, G:0.11, T:0.19
Consensus pattern (16 bp):
AAATGAAGAAATAAAT
Found at i:27567328 original size:128 final size:129
Alignment explanation
Indices: 27567174--27567488 Score: 375
Period size: 128 Copynumber: 2.4 Consensus size: 129
27567164 ACTACTGCTT
* * * * * **
27567174 AGGGAGAGAATATCTGATACGATCTACTCTACTGTAACTTTAGAGAGATAAGATCTTTTATTTTA
1 AGGGAGATAAGATCTGATACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTA
* * * *
27567239 ATCCACCCCACTGGAA-TCTCAGGGGGATAGGA-TAGT-GTTTTCAATCTGCTCCGCTGTAATCT
66 ATCCACCCCACTGGAACT-TCAGAGAGATAGGATTACTAGCTTT-AATCTGCTCCGCTGTAATCT
27567301 C
129 C
*
27567302 AGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTA
1 AGGGAGATAAGATCTGATACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTA
* * *
27567367 ATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTC
66 ATCCACCCCACTGGAACTTCAGAGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTC
* * * *
27567431 AGGGAGATAAGATCTAAATTTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGA
1 AGGGAGATAAGATCT-GA----TACGATCTACTCTACTGTAACCTCAGAGAGATAAGA
27567489 CCTGATGCGA
Statistics
Matches: 160, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
128 82 0.51
129 40 0.25
130 5 0.03
134 33 0.21
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (129 bp):
AGGGAGATAAGATCTGATACGATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTA
ATCCACCCCACTGGAACTTCAGAGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTAATCTC
Found at i:27567344 original size:41 final size:42
Alignment explanation
Indices: 27567282--27567828 Score: 258
Period size: 44 Copynumber: 12.7 Consensus size: 42
27567272 AGTGTTTTCA
* * * * *
27567282 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-GATGCG
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCTAGATTCG
* * **
27567323 ATCTACTCTACTGTAACCTCAGAGAGATAAGATCCTAAATTTTA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGAT-CTAGA-TTCG
** * * * **
27567367 ATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTTA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-T-CTAGATTCG
* * * * *
27567411 ATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAATTTCTTCG
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCTAGA----TTCG
* * *
27567457 GTCTACTCCACTGTAACCTCAGAGAGATAAGACCT-GATGCG
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCTAGATTCG
* * * **
27567498 ATCTACTCTACTGTAAACTCAGAGAGATAAGATCCTAAATTTTA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGAT-CTAGA-TTCG
** * * * * *
27567542 ATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACAAGCTTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-T-CTAGATTCG
* * * * *
27567586 ATCTGCTCCGCTGTAATCTCA-AGAAGATAAGACCT-GATACG
1 ATCTACTCCACTGTAACCTCAGAG-AGATAAGATCTAGATTCG
* * * ** **
27567627 ATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGAT-CTAGA-TTCG
* * * * * * *
27567671 ATCCACTCCACTGTAATCTCAGGGAGATAGGATTATCAGCTTCA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGA-TCT-AGATTCG
*** * * * *
27567715 ATCTACTTTGCTGTAATCTCAGGGAGATAAGAAC-AGATACG
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCTAGATTCG
* * * * **
27567756 ATCTACTCTACTATAACTTCAGAGAGATAAGATCTGTGATTTTA
1 ATCTACTCCACTGTAACCTCAGAGAGATAAGATCT-AGA-TTCG
* *
27567800 ATCCACTCCACTGTAACTTCAGAGAGATA
1 ATCTACTCCACTGTAACCTCAGAGAGATA
27567829 GGATTATCGG
Statistics
Matches: 375, Mismatches: 109, Indels: 41
0.71 0.21 0.08
Matches are distributed among these distances:
41 117 0.31
42 12 0.03
43 8 0.02
44 198 0.53
45 9 0.02
46 31 0.08
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (42 bp):
ATCTACTCCACTGTAACCTCAGAGAGATAAGATCTAGATTCG
Found at i:27567394 original size:85 final size:86
Alignment explanation
Indices: 27567276--27567570 Score: 328
Period size: 85 Copynumber: 3.4 Consensus size: 86
27567266 TAGGATAGTG
* * * *
27567276 TTTTCAATCTGCTCCGCTGTAA-TCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAAC
1 TTTTCAATCCGCTCCACTGTAACT-TCAGAGAGATAAGATCTGATGCGATCTACTCTACTGTAAA
27567340 CTCAGAGAGATAAGATCCTAAA
65 CTCAGAGAGATAAGATCCTAAA
* * *** * **
27567362 TTTT-AATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTTAATCTGCTCCGCTGTA
1 TTTTCAATCCGCTCCACTGTAACTTCAGAGAGATAAGA-T-CT-GATGCGATCTACTCTACTGTA
* *
27567426 ATCTCAGGGAGATAAGAT-CTAAA
63 AACTCAGAGAGATAAGATCCTAAA
** ** * *
27567449 TTTCTTCGGTCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAA
1 -TT-TTCAATCCGCTCCACTGTAACTTCAGAGAGATAAGATCTGATGCGATCTACTCTACTGTAA
27567514 ACTCAGAGAGATAAGATCCTAAA
64 ACTCAGAGAGATAAGATCCTAAA
27567537 TTTT-AATCCGCTCCACTGTAACTTCAGAGAGATA
1 TTTTCAATCCGCTCCACTGTAACTTCAGAGAGATA
27567571 GGATTACAAG
Statistics
Matches: 167, Mismatches: 34, Indels: 17
0.77 0.16 0.08
Matches are distributed among these distances:
85 52 0.31
86 8 0.05
87 39 0.23
88 39 0.23
89 2 0.01
90 27 0.16
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (86 bp):
TTTTCAATCCGCTCCACTGTAACTTCAGAGAGATAAGATCTGATGCGATCTACTCTACTGTAAAC
TCAGAGAGATAAGATCCTAAA
Found at i:27567521 original size:175 final size:175
Alignment explanation
Indices: 27567287--27567617 Score: 581
Period size: 175 Copynumber: 1.9 Consensus size: 175
27567277 TTTCAATCTG
* * * * *
27567287 CTCCGCTGTAATCTCAGGGAGATAAGATCTGATGCGATCTACTCTACTGTAACCTCAGAGAGATA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAAACTCAGAGAGATA
* *
27567352 AGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACTAGCTTTAATCTGC
66 AGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACAAGCTTCAATCTGC
* *
27567417 TCCGCTGTAATCTCAGGGAGATAAGATCTAAATTTCTTCGGTCTA
131 TCCGCTGTAATCTCAAGAAGATAAGATCTAAATTTCTTCGGTCTA
27567462 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAAACTCAGAGAGATA
1 CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAAACTCAGAGAGATA
27567527 AGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACAAGCTTCAATCTGC
66 AGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACAAGCTTCAATCTGC
27567592 TCCGCTGTAATCTCAAGAAGATAAGA
131 TCCGCTGTAATCTCAAGAAGATAAGA
27567618 CCTGATACGA
Statistics
Matches: 147, Mismatches: 9, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
175 147 1.00
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.28
Consensus pattern (175 bp):
CTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAAACTCAGAGAGATA
AGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACAAGCTTCAATCTGC
TCCGCTGTAATCTCAAGAAGATAAGATCTAAATTTCTTCGGTCTA
Found at i:27567522 original size:129 final size:127
Alignment explanation
Indices: 27567281--27567788 Score: 411
Period size: 129 Copynumber: 3.9 Consensus size: 127
27567271 TAGTGTTTTC
* * *
27567281 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCT-GA-TGCGATCTACTCTACTGTAACCTCA
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAACTTCGATCTACTCCACTGTAACCTCA
* *** * * * *
27567344 GAGAGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTACT-AGCT
66 GAGAGATAAGA-CCT-GA-TACGATCCACTCTACTGTAACTTCA-AGAGATAAGA-TACTAAACT
27567408 TT
126 TT
*
27567410 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAATTTCTTCGGTCTACTCCACTGTAACC
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAA---CTTCGATCTACTCCACTGTAACC
* * * *
27567475 TCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAAAC-TCAGAGAGATAAGATCCTAAATT
63 TCAGAGAGATAAGACCTGATACGATCCACTCTACTGT-AACTTCA-AGAGATAAGATACTAAACT
27567539 TT
126 TT
* * * * * * * *
27567541 AATCCGCTCCACTGTAA-CTTCAGAGAGATAGGAT-TACAAGCTTCAATCTGCTCCGCTGTAATC
1 AATCTGCTCCGCTGTAATC-TCAGGGAGATAAGATCTA-AA-CTTCGATCTACTCCACTGTAACC
* ** *
27567604 TCA-AGAAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATT
63 TCAGAG-AGATAAGACCTGATACGATCCACTCTACTGTAACTTCA-AGAGATAAGATACTAAACT
27567668 TT
126 TT
** * * * * *** *
27567670 AATCCACTCCACTGTAATCTCAGGGAGATAGGAT-TATCAGCTTCAATCTACTTTGCTGTAATCT
1 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTA--AACTTCGATCTACTCCACTGTAACCT
* * * * *
27567734 CAGGGAGATAAGAACAGATACGATCTACTCTACTATAACTTCAGAGAGATAAGAT
64 CAGAGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCA-AGAGATAAGAT
27567789 CTGTGATTTT
Statistics
Matches: 325, Mismatches: 40, Indels: 28
0.83 0.10 0.07
Matches are distributed among these distances:
128 5 0.02
129 210 0.65
130 11 0.03
131 59 0.18
132 4 0.01
133 3 0.01
134 33 0.10
ACGTcount: A:0.32, C:0.22, G:0.18, T:0.29
Consensus pattern (127 bp):
AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATCTAAACTTCGATCTACTCCACTGTAACCTCA
GAGAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAAGAGATAAGATACTAAACTTT
Found at i:27567789 original size:129 final size:129
Alignment explanation
Indices: 27567458--27567847 Score: 536
Period size: 129 Copynumber: 3.0 Consensus size: 129
27567448 ATTTCTTCGG
* * * *
27567458 TCTACTCCACTGTAACCTCAGAGAGATAAGACCTGATGCGATCTACTCTACTGTAAAC-TCAGAG
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGT-AACTTCAGAG
* *
27567522 AGATAAGATCCTAAATTTTAATCCGCTCCACTGTAACTTCAGAGAGATAGGATTA-CAAGCTTCA
65 AGATAAGATCCTTAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTATC-AGCTTCA
27567586 A
129 A
* * * *
27567587 TCTGCTCCGCTGTAATCTCAAGAAGATAAGACCTGATACGATCCACTCTACTGTAACTTCAGAGA
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* *
27567652 GATAAGATCCTTTATTTTAATCCACTCCACTGTAA-TCTCAGGGAGATAGGATTATCAGCTTCAA
66 GATAAGATCCTTAATTTTAATCCACTCCACTGTAACT-TCAGAGAGATAGGATTATCAGCTTCAA
** * * *
27567716 TCTACTTTGCTGTAATCTCAGGGAGATAAGAACAGATACGATCTACTCTACTATAACTTCAGAGA
1 TCTACTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
* * *
27567781 GATAAGAT-CTGTGATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTATCGGTTTCAA
66 GATAAGATCCT-TAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTATCAGCTTCAA
27567845 TCT
1 TCT
27567848 GATGTGATCT
Statistics
Matches: 231, Mismatches: 25, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
128 6 0.03
129 223 0.97
130 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.17, T:0.29
Consensus pattern (129 bp):
TCTACTCCGCTGTAATCTCAGGGAGATAAGACCTGATACGATCTACTCTACTGTAACTTCAGAGA
GATAAGATCCTTAATTTTAATCCACTCCACTGTAACTTCAGAGAGATAGGATTATCAGCTTCAA
Found at i:27567925 original size:98 final size:98
Alignment explanation
Indices: 27567755--27567932 Score: 288
Period size: 98 Copynumber: 1.8 Consensus size: 98
27567745 GAACAGATAC
*
27567755 GATCTACTCTACTATAACTTCAGAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
1 GATCTACTCTACTATAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
27567820 AGAGAGATAGGATTATCGGTTTCAATCTGATGT
66 AGAGAGATAGGATTATCGGTTTCAATCTGATGT
* *
27567853 GATCTACTCTACTATAACTTCAAAGAGATAAGATCCT-TTATTTTAATCCGCTCCACTGTAA-TC
1 GATCTACTCTACTATAACTTCAAAGAGATAAGAT-CTGTGATTTTAATCCACTCCACTGTAACT-
*
27567916 TCAGGGAGATAGGATTA
64 TCAGAGAGATAGGATTA
27567933 CTATCTTTAA
Statistics
Matches: 74, Mismatches: 4, Indels: 4
0.90 0.05 0.05
Matches are distributed among these distances:
97 1 0.01
98 71 0.96
99 2 0.03
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.33
Consensus pattern (98 bp):
GATCTACTCTACTATAACTTCAAAGAGATAAGATCTGTGATTTTAATCCACTCCACTGTAACTTC
AGAGAGATAGGATTATCGGTTTCAATCTGATGT
Found at i:27580352 original size:16 final size:16
Alignment explanation
Indices: 27580324--27580359 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
27580314 CAGATAAGGG
27580324 AAATGAAGAAATAAAT
1 AAATGAAGAAATAAAT
27580340 AAATGCAAG-AATAAAT
1 AAATG-AAGAAATAAAT
27580356 AAAT
1 AAAT
27580360 AACTAAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.67, C:0.03, G:0.11, T:0.19
Consensus pattern (16 bp):
AAATGAAGAAATAAAT
Found at i:27580723 original size:17 final size:17
Alignment explanation
Indices: 27580701--27580737 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
27580691 TAAAAGAGAG
27580701 GCAAATTGTAACACGCT
1 GCAAATTGTAACACGCT
*
27580718 GCAAATTGTAACGCGCT
1 GCAAATTGTAACACGCT
27580735 GCA
1 GCA
27580738 GAAACGCGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.32, C:0.24, G:0.22, T:0.22
Consensus pattern (17 bp):
GCAAATTGTAACACGCT
Found at i:27582920 original size:3 final size:3
Alignment explanation
Indices: 27582906--27583013 Score: 56
Period size: 3 Copynumber: 36.0 Consensus size: 3
27582896 TAATATGTTC
* * * * * * *
27582906 TAT TAT TTT TAT TAT CAT ATAT TAT TAT TAA AAC TAA TA- TAT TAA
1 TAT TAT TAT TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * * * * *
27582951 TAT TAT TAT TAG TAT TAG TAT TAG TAT TAG TAT TAT TAT CAA TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* * *
27582999 TGT TGT TAT TGT TAT
1 TAT TAT TAT TAT TAT
27583014 ATTTCCATTT
Statistics
Matches: 76, Mismatches: 27, Indels: 4
0.71 0.25 0.04
Matches are distributed among these distances:
2 2 0.03
3 72 0.95
4 2 0.03
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (3 bp):
TAT
Found at i:27582966 original size:12 final size:12
Alignment explanation
Indices: 27582945--27582985 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
27582935 AAAACTAATA
* *
27582945 TATTAATATTAT
1 TATTAGTATTAG
27582957 TATTAGTATTAG
1 TATTAGTATTAG
27582969 TATTAGTATTAG
1 TATTAGTATTAG
27582981 TATTA
1 TATTA
27582986 TTATCAATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.10, T:0.54
Consensus pattern (12 bp):
TATTAGTATTAG
Done.