Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168159.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_4, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33012953
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 65000 characters in sequence are not A, C, G, or T
File 66 of 160
Found at i:13650120 original size:8 final size:8
Alignment explanation
Indices: 13650107--13650155 Score: 62
Period size: 8 Copynumber: 5.6 Consensus size: 8
13650097 TCACAAAACT
13650107 TTTTTTTC
1 TTTTTTTC
13650115 TTTTTTTC
1 TTTTTTTC
13650123 TTTTTTTTCC
1 -TTTTTTT-C
13650133 TTTCTTTTTC
1 -TT-TTTTTC
13650143 TTTTTTTC
1 TTTTTTTC
13650151 TTTTT
1 TTTTT
13650156 CACTTTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 19 0.50
9 9 0.24
10 5 0.13
11 5 0.13
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (8 bp):
TTTTTTTC
Found at i:13650121 original size:10 final size:10
Alignment explanation
Indices: 13650106--13650149 Score: 56
Period size: 10 Copynumber: 4.6 Consensus size: 10
13650096 ATCACAAAAC
13650106 TTTTTTTTC-
1 TTTTTTTTCT
13650115 -TTTTTTTCT
1 TTTTTTTTCT
*
13650124 TTTTTTTCCT
1 TTTTTTTTCT
*
13650134 TTCTTTTTCT
1 TTTTTTTTCT
13650144 TTTTTT
1 TTTTTT
13650150 CTTTTTCACT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 8 0.28
10 21 0.72
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTTTTCT
Found at i:13650126 original size:14 final size:14
Alignment explanation
Indices: 13650109--13650156 Score: 71
Period size: 14 Copynumber: 3.4 Consensus size: 14
13650099 ACAAAACTTT
13650109 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
*
13650123 TTTTT-TTTCCTTTC
1 TTTTTCTTT-TTTTC
13650137 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
13650151 TTTTTC
1 TTTTTC
13650157 ACTTTTTTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 3 0.10
14 24 0.80
15 3 0.10
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:13654408 original size:12 final size:12
Alignment explanation
Indices: 13654393--13654429 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
13654383 CTACTCTCTT
13654393 TTCTTTTCTTAG
1 TTCTTTTCTTAG
13654405 TTCTTTTCTTAG
1 TTCTTTTCTTAG
*
13654417 TT-TTTTTTTAG
1 TTCTTTTCTTAG
13654428 TT
1 TT
13654430 TAGTTGTTGG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 10 0.42
12 14 0.58
ACGTcount: A:0.08, C:0.11, G:0.08, T:0.73
Consensus pattern (12 bp):
TTCTTTTCTTAG
Found at i:13654427 original size:11 final size:11
Alignment explanation
Indices: 13654396--13654430 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
13654386 CTCTCTTTTC
13654396 TTTTCTTAGTT
1 TTTTCTTAGTT
13654407 CTTTTCTTAGTT
1 -TTTTCTTAGTT
*
13654419 TTTTTTTAGTT
1 TTTTCTTAGTT
13654430 T
1 T
13654431 AGTTGTTGGC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 11 0.50
12 11 0.50
ACGTcount: A:0.09, C:0.09, G:0.09, T:0.74
Consensus pattern (11 bp):
TTTTCTTAGTT
Found at i:13658658 original size:17 final size:18
Alignment explanation
Indices: 13658621--13658659 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
13658611 TTGAAACATT
* *
13658621 TTTTTTAAAACAAATCAA
1 TTTTTGAAAACAAAACAA
13658639 TTTTTGAAAACAAAAC-A
1 TTTTTGAAAACAAAACAA
13658656 TTTT
1 TTTT
13658660 ATTTTTTTGG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 5 0.26
18 14 0.74
ACGTcount: A:0.46, C:0.10, G:0.03, T:0.41
Consensus pattern (18 bp):
TTTTTGAAAACAAAACAA
Found at i:13660006 original size:11 final size:11
Alignment explanation
Indices: 13659992--13660031 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
13659982 GGAAAACCAA
13659992 TATGAAAATGT
1 TATGAAAATGT
*
13660003 TATGAAAATAT
1 TATGAAAATGT
*
13660014 GATGAAAATGT
1 TATGAAAATGT
*
13660025 AATGAAA
1 TATGAAA
13660032 TGCAAGAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.30
Consensus pattern (11 bp):
TATGAAAATGT
Found at i:13661920 original size:320 final size:315
Alignment explanation
Indices: 13661479--13662116 Score: 917
Period size: 320 Copynumber: 2.0 Consensus size: 315
13661469 TATATATATT
* **
13661479 TATATATATAATGTTATCTCAAAAACTAAATCATATTGGATGATTCCTACTTTATAATTGATTTT
1 TATATATATAATGTTATCTCAAAAACTAAATCATATTAGATGATTCCTACTTTATAATCAATTTT
* ** * *
13661544 GGCTGATATCTAAATAAATTCAAAAATGAAAGCGAAAGTGAACCTAGCTATTTTGTTTACTAAAC
66 GGCTGAAAAATAAATAAATTAAAAAATGAAAGCGAAAGTGAACCGAGCTATTTTGTTTACTAAAC
*
13661609 TTCTCATTGAAAAATAG-CTTGTCTATTCTAGAAGAAAGATTCTTAAAAATTTATAAGCAAATTG
131 TTCTCATTGAAAAAT-GCCTTGTCTATTCTAGAAGAAAGATTCTTAAAAATCTATAAGCAAA-TG
13661673 -ATTGCAAGTTGACT-AAAAATAGGTAAAAATATATGGCATATATATATATGTATTGCATTTTAT
194 AATTGCAAGTTGA-TAAAAAATAGGTAAAAATATATGGC--ATATATATA---A-TGCATTTTAT
*
13661736 GGTTCATATAGGTAAATAAATCCAAATGAGTTTTATATAGTTTTTTATTATGTTTTCAATGTTA
252 GGTTCATATAGGTAAATAAATCCAAATGAGTTTTATATAGTTTTTTATTATGTTTTCAAAGTTA
* * * * *
13661800 TATATATATAATTTTATCGT-AAAAACTAAATCTTGTTAGATGATTCCTATTTTAT-GTCAATTT
1 TATATATATAATGTTATC-TCAAAAACTAAATCATATTAGATGATTCCTACTTTATAATCAATTT
* * *
13661863 TGGCTGAAAAATGAATAAATTAAAAAATGAAAGCGAAAGTGAACCGAGTTGTTTTGTTTACTAAA
65 TGGCTGAAAAATAAATAAATTAAAAAATGAAAGCGAAAGTGAACCGAGCTATTTTGTTTACTAAA
* * * * * *
13661928 CTTCTCATTGAAAAATGCCTTGTCTATTTTGGGAGGAAGATTCTTAAAAATCTGTAGGCAAATGA
130 CTTCTCATTGAAAAATGCCTTGTCTATTCTAGAAGAAAGATTCTTAAAAATCTATAAGCAAATGA
*
13661993 ATTGCAAGTTGATAAAAAATAGGTAAAAATATATGGCATATATATAATGCATTTTATGGTTTATA
195 ATTGCAAGTTGATAAAAAATAGGTAAAAATATATGGCATATATATAATGCATTTTATGGTTCATA
*
13662058 TAGGTAAATAAATCCAAATGAGTTTTATATAGTTTTTTATTATGTTTTTAAAGTTA
260 TAGGTAAATAAATCCAAATGAGTTTTATATAGTTTTTTATTATGTTTTCAAAGTTA
13662114 TAT
1 TAT
13662117 TATTCTAAAT
Statistics
Matches: 287, Mismatches: 26, Indels: 15
0.88 0.08 0.05
Matches are distributed among these distances:
314 74 0.26
315 1 0.00
318 9 0.03
319 4 0.01
320 150 0.52
321 48 0.17
322 1 0.00
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (315 bp):
TATATATATAATGTTATCTCAAAAACTAAATCATATTAGATGATTCCTACTTTATAATCAATTTT
GGCTGAAAAATAAATAAATTAAAAAATGAAAGCGAAAGTGAACCGAGCTATTTTGTTTACTAAAC
TTCTCATTGAAAAATGCCTTGTCTATTCTAGAAGAAAGATTCTTAAAAATCTATAAGCAAATGAA
TTGCAAGTTGATAAAAAATAGGTAAAAATATATGGCATATATATAATGCATTTTATGGTTCATAT
AGGTAAATAAATCCAAATGAGTTTTATATAGTTTTTTATTATGTTTTCAAAGTTA
Found at i:13674891 original size:56 final size:56
Alignment explanation
Indices: 13674827--13674940 Score: 201
Period size: 56 Copynumber: 2.0 Consensus size: 56
13674817 TCAAATAAAG
*
13674827 ATGTTTTTAGTTTATCTATTATGTTTAAATAAAAAGTATATATAGAAGTTCAATAT
1 ATGTTTTTAGTTTATCTATTACGTTTAAATAAAAAGTATATATAGAAGTTCAATAT
* *
13674883 ATGTTTTTAGTTTATCTTTTACGTTTAAATAAAAAGTATATATAGCAGTTCAATAT
1 ATGTTTTTAGTTTATCTATTACGTTTAAATAAAAAGTATATATAGAAGTTCAATAT
13674939 AT
1 AT
13674941 CAACCTATAG
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.38, C:0.05, G:0.11, T:0.46
Consensus pattern (56 bp):
ATGTTTTTAGTTTATCTATTACGTTTAAATAAAAAGTATATATAGAAGTTCAATAT
Found at i:13676007 original size:29 final size:27
Alignment explanation
Indices: 13675957--13676023 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 27
13675947 GTATAAGCTA
* **
13675957 AAAAAATATTAATTCCTAATTTTTTTTT
1 AAAAAA-ATTAATTCATAATTTTCCTTT
13675985 AAAAAAATTAATTCATAATATTTTCCTTT
1 AAAAAAATTAATTCAT-A-ATTTTCCTTT
13676014 AATAAAAATT
1 AA-AAAAATT
13676024 TTCAAAAACT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
27 9 0.27
28 7 0.21
29 10 0.30
30 7 0.21
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (27 bp):
AAAAAAATTAATTCATAATTTTCCTTT
Found at i:13676926 original size:62 final size:62
Alignment explanation
Indices: 13676837--13676999 Score: 188
Period size: 62 Copynumber: 2.6 Consensus size: 62
13676827 AATGGGAGGA
* * * *
13676837 GATTATTGAAGGTATTTTTGGCTAAAAATGCCTTCAATAATCCCA-TC-TAAAAAATTGGAAA-G
1 GATTATTCAAGGCATTTTTGGCAAAAAATACCTTCAATAAT-CCATTCAT-AAAAATT-GAAAGG
* * * *
13676899 GATTATTCAAGGCGTTTTTGGCAAAAAATACCTTCAATAATTCATTCATAAACATTTAAAGG
1 GATTATTCAAGGCATTTTTGGCAAAAAATACCTTCAATAATCCATTCATAAAAATTGAAAGG
*
13676961 GATTATTCAAGGCATTTATGGCAAAAAAATACCTTCAAT
1 GATTATTCAAGGCATTTTTGGC-AAAAAATACCTTCAAT
13677000 TTAAGCCATT
Statistics
Matches: 87, Mismatches: 10, Indels: 7
0.84 0.10 0.07
Matches are distributed among these distances:
61 5 0.06
62 65 0.75
63 17 0.20
ACGTcount: A:0.39, C:0.14, G:0.14, T:0.33
Consensus pattern (62 bp):
GATTATTCAAGGCATTTTTGGCAAAAAATACCTTCAATAATCCATTCATAAAAATTGAAAGG
Found at i:13680153 original size:31 final size:31
Alignment explanation
Indices: 13680098--13680162 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
13680088 AGTTTTTAGC
* *
13680098 CAAAAATACCTTCACTAATTTAGGATTTATT
1 CAAAAATACCTTCAATAATCTAGGATTTATT
* *
13680129 CAAAAATGCCTTTAATAATCTAGGATTTATT
1 CAAAAATACCTTCAATAATCTAGGATTTATT
13680160 CAA
1 CAA
13680163 GGTATTGTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.37
Consensus pattern (31 bp):
CAAAAATACCTTCAATAATCTAGGATTTATT
Found at i:13688611 original size:55 final size:55
Alignment explanation
Indices: 13688527--13688664 Score: 168
Period size: 55 Copynumber: 2.5 Consensus size: 55
13688517 AATATAATAA
* * * *
13688527 AAAATTAAAACATATAAGTCTATATTGACAATCTCAAATCGTTGGTAAAGGTAAG
1 AAAATTAAAACATACAAGTCTATACTGACAATCTCAAATCATCGGTAAAGGTAAG
* * * * * *
13688582 AAAATTAAAGCATACAATTTTATACTGACAGTCTCTAATCATCGGTATAGGTAAG
1 AAAATTAAAACATACAAGTCTATACTGACAATCTCAAATCATCGGTAAAGGTAAG
* *
13688637 AAAATTAAAAAATAAAAGTCTATACTGA
1 AAAATTAAAACATACAAGTCTATACTGA
13688665 TAGATGCTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
55 68 1.00
ACGTcount: A:0.46, C:0.12, G:0.13, T:0.29
Consensus pattern (55 bp):
AAAATTAAAACATACAAGTCTATACTGACAATCTCAAATCATCGGTAAAGGTAAG
Found at i:13699797 original size:17 final size:17
Alignment explanation
Indices: 13699775--13699813 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13699765 AGAATTTTTT
*
13699775 ATTTTTAGAAACTTTCC
1 ATTTTTAGAAACTTTCA
* *
13699792 ATTTTTAGCAGCTTTCA
1 ATTTTTAGAAACTTTCA
13699809 ATTTT
1 ATTTT
13699814 AGTCATTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.15, G:0.08, T:0.51
Consensus pattern (17 bp):
ATTTTTAGAAACTTTCA
Found at i:13703102 original size:20 final size:20
Alignment explanation
Indices: 13703077--13703115 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
13703067 ATTCAAACTA
13703077 AAAAGAAAGAACTAAAGAAC
1 AAAAGAAAGAACTAAAGAAC
*
13703097 AAAAGAAAGAATTAAAGAA
1 AAAAGAAAGAACTAAAGAA
13703116 TGAGATTAGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.72, C:0.05, G:0.15, T:0.08
Consensus pattern (20 bp):
AAAAGAAAGAACTAAAGAAC
Found at i:13708954 original size:24 final size:23
Alignment explanation
Indices: 13708916--13708961 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
13708906 CAATAACTCA
*
13708916 AACTAAAAAAAAAAGAGCTAAAG
1 AACTAAAAAAAAAAGAGATAAAG
*
13708939 AACTAAAAAACTAAAGAGATAAA
1 AACTAAAAAA-AAAAGAGATAAA
13708962 AAAGAATGAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 10 0.50
24 10 0.50
ACGTcount: A:0.70, C:0.09, G:0.11, T:0.11
Consensus pattern (23 bp):
AACTAAAAAAAAAAGAGATAAAG
Found at i:13719290 original size:15 final size:17
Alignment explanation
Indices: 13719270--13719312 Score: 56
Period size: 15 Copynumber: 2.7 Consensus size: 17
13719260 ATTATAAAGG
13719270 AAAGAATGCTT-AAA-A
1 AAAGAATGCTTGAAATA
*
13719285 AAAGAAT-TTTGAAATA
1 AAAGAATGCTTGAAATA
13719301 AAAGAATGCTTG
1 AAAGAATGCTTG
13719313 TACTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
14 2 0.09
15 10 0.43
16 8 0.35
17 3 0.13
ACGTcount: A:0.53, C:0.05, G:0.16, T:0.26
Consensus pattern (17 bp):
AAAGAATGCTTGAAATA
Found at i:13724815 original size:7 final size:7
Alignment explanation
Indices: 13724805--13724857 Score: 67
Period size: 7 Copynumber: 7.9 Consensus size: 7
13724795 TCAAAACTGG
13724805 AAACCCT
1 AAACCCT
13724812 AAACTCC-
1 AAAC-CCT
13724819 AAACCCT
1 AAACCCT
13724826 AAACCCT
1 AAACCCT
13724833 -AACCCT
1 AAACCCT
*
13724839 AAACCCC
1 AAACCCT
13724846 AAACCC-
1 AAACCCT
13724852 AAACCC
1 AAACCC
13724858 CAAAACTAGC
Statistics
Matches: 42, Mismatches: 1, Indels: 7
0.84 0.02 0.14
Matches are distributed among these distances:
6 14 0.33
7 26 0.62
8 2 0.05
ACGTcount: A:0.43, C:0.47, G:0.00, T:0.09
Consensus pattern (7 bp):
AAACCCT
Found at i:13724858 original size:13 final size:14
Alignment explanation
Indices: 13724805--13724861 Score: 82
Period size: 13 Copynumber: 4.2 Consensus size: 14
13724795 TCAAAACTGG
*
13724805 AAACCCTAAACTCC
1 AAACCCTAAACCCC
13724819 AAACCCTAAA-CCC
1 AAACCCTAAACCCC
*
13724832 TAACCCTAAACCCC
1 AAACCCTAAACCCC
13724846 AAACCC-AAACCCC
1 AAACCCTAAACCCC
13724859 AAA
1 AAA
13724862 ACTAGCCCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
13 21 0.54
14 18 0.46
ACGTcount: A:0.46, C:0.46, G:0.00, T:0.09
Consensus pattern (14 bp):
AAACCCTAAACCCC
Found at i:13725848 original size:15 final size:17
Alignment explanation
Indices: 13725828--13725866 Score: 64
Period size: 15 Copynumber: 2.4 Consensus size: 17
13725818 AGAAATTTTG
13725828 AAAAAATAAA-AAAT-A
1 AAAAAATAAAGAAATGA
13725843 AAAAAATAAAGAAATGA
1 AAAAAATAAAGAAATGA
13725860 AAAAAAT
1 AAAAAAT
13725867 GTTTTGATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 10 0.45
16 4 0.18
17 8 0.36
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (17 bp):
AAAAAATAAAGAAATGA
Found at i:13725867 original size:9 final size:8
Alignment explanation
Indices: 13725828--13725866 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
13725818 AGAAATTTTG
13725828 AAAAAAT-
1 AAAAAATA
13725835 AAAAAATA
1 AAAAAATA
13725843 AAAAAATA
1 AAAAAATA
*
13725851 AAGAAATGA
1 AAAAAAT-A
13725860 AAAAAAT
1 AAAAAAT
13725867 GTTTTGATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.82, C:0.00, G:0.05, T:0.13
Consensus pattern (8 bp):
AAAAAATA
Found at i:13725910 original size:10 final size:9
Alignment explanation
Indices: 13725895--13725928 Score: 52
Period size: 8 Copynumber: 3.8 Consensus size: 9
13725885 TTGTTTTCCT
13725895 AAAAAAATG
1 AAAAAAATG
13725904 AAAAAAAT-
1 AAAAAAATG
13725912 AAAAAAATG
1 AAAAAAATG
13725921 TAAAAAAA
1 -AAAAAAA
13725929 GAGAAGTGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
8 8 0.35
9 8 0.35
10 7 0.30
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (9 bp):
AAAAAAATG
Found at i:13725916 original size:17 final size:18
Alignment explanation
Indices: 13725894--13725928 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
13725884 CTTGTTTTCC
13725894 TAAAAAAATG-AAAAAAA
1 TAAAAAAATGTAAAAAAA
13725911 TAAAAAAATGTAAAAAAA
1 TAAAAAAATGTAAAAAAA
13725929 GAGAAGTGTG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.80, C:0.00, G:0.06, T:0.14
Consensus pattern (18 bp):
TAAAAAAATGTAAAAAAA
Found at i:13725977 original size:25 final size:25
Alignment explanation
Indices: 13725949--13726002 Score: 90
Period size: 25 Copynumber: 2.2 Consensus size: 25
13725939 TATGTTTTAC
13725949 ATTTCATGCATATTTTATTTATGTA
1 ATTTCATGCATATTTTATTTATGTA
* *
13725974 ATTTCATGCATGTTTTATTTATGTC
1 ATTTCATGCATATTTTATTTATGTA
13725999 ATTT
1 ATTT
13726003 ATTATATATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.57
Consensus pattern (25 bp):
ATTTCATGCATATTTTATTTATGTA
Found at i:13726216 original size:112 final size:112
Alignment explanation
Indices: 13726019--13726239 Score: 327
Period size: 112 Copynumber: 2.0 Consensus size: 112
13726009 TATTGTTGTT
* *
13726019 CTTTATTTTGTTCTTAATATTTGTGGGGCATTTAGGATAGGGGTAGTTTCTAAGAAATTGTGAAA
1 CTTTATTTTGTTCTTAATATTTGTGGGGCATATAGGATAGGGGTAGTTTCTAAGAAATAGTGAAA
* **
13726084 GATTTGTGTGTTCTTTCACACACT-CTCGCATCTACATTACATGCTCA
66 GATTTGTGTGTTCCTTCACACA-TACTAACATCTACATTACATGCTCA
* * * *
13726131 CTTTATTTTGTTCTTAATATTTGTGGGGCATATAGGATAGGGTTAGTTTTTATGAAATAGTTAAA
1 CTTTATTTTGTTCTTAATATTTGTGGGGCATATAGGATAGGGGTAGTTTCTAAGAAATAGTGAAA
* *
13726196 GGTTTGTGTGTTCCTTCACACATACTAACATCTATATTACATGC
66 GATTTGTGTGTTCCTTCACACATACTAACATCTACATTACATGC
13726240 ATAAGCTTTA
Statistics
Matches: 97, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
111 1 0.01
112 96 0.99
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (112 bp):
CTTTATTTTGTTCTTAATATTTGTGGGGCATATAGGATAGGGGTAGTTTCTAAGAAATAGTGAAA
GATTTGTGTGTTCCTTCACACATACTAACATCTACATTACATGCTCA
Found at i:13728056 original size:6 final size:6
Alignment explanation
Indices: 13728045--13728110 Score: 51
Period size: 7 Copynumber: 9.8 Consensus size: 6
13728035 TATAAAATTA
*
13728045 TAAAAT TAAAAT TAAAATT TAAAACT TAAATTT TAAAAATT TAAAATT
1 TAAAAT TAAAAT TAAAA-T TAAAA-T TAAA-AT T-AAAA-T TAAAA-T
*
13728093 TAAAAT TGAAAT TGAAAA
1 TAAAAT TAAAAT T-AAAA
13728111 ATTGGAAAAT
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
6 18 0.36
7 27 0.54
8 5 0.10
ACGTcount: A:0.59, C:0.02, G:0.03, T:0.36
Consensus pattern (6 bp):
TAAAAT
Found at i:13728056 original size:14 final size:13
Alignment explanation
Indices: 13728045--13728132 Score: 61
Period size: 14 Copynumber: 6.4 Consensus size: 13
13728035 TATAAAATTA
13728045 TAAAATT-AAAAT
1 TAAAATTAAAAAT
*
13728057 TAAAATTTAAAACT
1 TAAAA-TTAAAAAT
*
13728071 TAAATTTTAAAAATT
1 TAAA-ATTAAAAA-T
*
13728086 TAAAATTTAAAAT
1 TAAAATTAAAAAT
*
13728099 TGAAATTGAAAAAT
1 TAAAATT-AAAAAT
* *
13728113 TGGAAAATAAAAAAA
1 T--AAAATTAAAAAT
13728128 TAAAA
1 TAAAA
13728133 AGAAACCAAA
Statistics
Matches: 59, Mismatches: 10, Indels: 13
0.72 0.12 0.16
Matches are distributed among these distances:
12 5 0.08
13 13 0.22
14 26 0.44
15 11 0.19
16 4 0.07
ACGTcount: A:0.62, C:0.01, G:0.05, T:0.32
Consensus pattern (13 bp):
TAAAATTAAAAAT
Found at i:13728068 original size:7 final size:7
Alignment explanation
Indices: 13728037--13728099 Score: 76
Period size: 7 Copynumber: 9.0 Consensus size: 7
13728027 TATAAGTGTA
13728037 TAAAATT
1 TAAAATT
13728044 ATAAAA-T
1 -TAAAATT
13728051 TAAAA-T
1 TAAAATT
13728057 TAAAATT
1 TAAAATT
*
13728064 TAAAACT
1 TAAAATT
*
13728071 TAAATTT
1 TAAAATT
13728078 TAAAAATT
1 T-AAAATT
13728086 TAAAATT
1 TAAAATT
13728093 TAAAATT
1 TAAAATT
13728100 GAAATTGAAA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
6 11 0.22
7 27 0.55
8 11 0.22
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (7 bp):
TAAAATT
Found at i:13728095 original size:29 final size:28
Alignment explanation
Indices: 13728052--13728113 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 28
13728042 TTATAAAATT
*
13728052 AAAA-TTAAAATTTAAAACTT-AAATTTTA
1 AAAATTTAAAATTTAAAA-TTGAAA-TTGA
13728080 AAAATTTAAAATTTAAAATTGAAATTGA
1 AAAATTTAAAATTTAAAATTGAAATTGA
13728108 AAAATT
1 AAAATT
13728114 GGAAAATAAA
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
28 15 0.48
29 16 0.52
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (28 bp):
AAAATTTAAAATTTAAAATTGAAATTGA
Found at i:13728127 original size:8 final size:8
Alignment explanation
Indices: 13728116--13728213 Score: 65
Period size: 8 Copynumber: 12.1 Consensus size: 8
13728106 GAAAAATTGG
13728116 AAAATAAA
1 AAAATAAA
13728124 AAAATAAA
1 AAAATAAA
* *
13728132 AAGA-AAC
1 AAAATAAA
*
13728139 CAAATAAA
1 AAAATAAA
*
13728147 CAAATAAA
1 AAAATAAA
**
13728155 AACTTAAA
1 AAAATAAA
*
13728163 AATATATAA
1 AAAATA-AA
*
13728172 AATATAATA
1 AAAATAA-A
13728181 AAAATAAA
1 AAAATAAA
* *
13728189 ATAATTAA
1 AAAATAAA
13728197 AAAATAAA
1 AAAATAAA
13728205 TAAAA-AAA
1 -AAAATAAA
13728213 A
1 A
13728214 TTTAGCCCAA
Statistics
Matches: 71, Mismatches: 15, Indels: 9
0.75 0.16 0.09
Matches are distributed among these distances:
7 5 0.07
8 47 0.66
9 19 0.27
ACGTcount: A:0.77, C:0.04, G:0.01, T:0.18
Consensus pattern (8 bp):
AAAATAAA
Found at i:13728189 original size:25 final size:26
Alignment explanation
Indices: 13728148--13728210 Score: 74
Period size: 27 Copynumber: 2.3 Consensus size: 26
13728138 CCAAATAAAC
* *
13728148 AAATAAAAACTTAAA-AATATATAAAAT
1 AAATAAAAA-TAAAATAAT-TAAAAAAT
13728175 ATAATAAAAATAAAATAATTAAAAAAT
1 A-AATAAAAATAAAATAATTAAAAAAT
13728202 AAATAAAAA
1 AAATAAAAA
13728211 AAATTTAGCC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
26 8 0.25
27 13 0.41
28 11 0.34
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.24
Consensus pattern (26 bp):
AAATAAAAATAAAATAATTAAAAAAT
Found at i:13729727 original size:25 final size:24
Alignment explanation
Indices: 13729693--13729739 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 24
13729683 AATCATTTTA
13729693 AAAAATAATAATAACAGTAATAGTGT
1 AAAAATAATAATAA-A-TAATAGTGT
13729719 AAAAA-AATAATAAATAATAGT
1 AAAAATAATAATAAATAATAGT
13729740 TTTGCCTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 7 0.33
24 1 0.05
25 8 0.38
26 5 0.24
ACGTcount: A:0.64, C:0.02, G:0.09, T:0.26
Consensus pattern (24 bp):
AAAAATAATAATAAATAATAGTGT
Found at i:13730017 original size:14 final size:14
Alignment explanation
Indices: 13729953--13730017 Score: 55
Period size: 13 Copynumber: 4.8 Consensus size: 14
13729943 TCTTACATTA
*
13729953 AAAACCCCTAAATT
1 AAAATCCCTAAATT
*
13729967 GAAAT-CCTAAATT
1 AAAATCCCTAAATT
* * *
13729980 -GAAGCCTTAAGATT
1 AAAATCCCTAA-ATT
13729994 AAAA-CCCTAAATT
1 AAAATCCCTAAATT
13730007 AAAATCCCTAA
1 AAAATCCCTAA
13730018 GGCCGAAACC
Statistics
Matches: 40, Mismatches: 7, Indels: 8
0.73 0.13 0.15
Matches are distributed among these distances:
12 2 0.05
13 19 0.47
14 17 0.43
15 2 0.05
ACGTcount: A:0.48, C:0.22, G:0.06, T:0.25
Consensus pattern (14 bp):
AAAATCCCTAAATT
Found at i:13730026 original size:28 final size:28
Alignment explanation
Indices: 13730009--13730084 Score: 118
Period size: 28 Copynumber: 2.7 Consensus size: 28
13729999 CCTAAATTAA
*
13730009 AATCCCTAAGGCCGAAACCCCAAAATGG
1 AATCCCTAAGTCCGAAACCCCAAAATGG
13730037 AAT-CCTGAAGTCCGAAACCCCAAAATGG
1 AATCCCT-AAGTCCGAAACCCCAAAATGG
*
13730065 AATCCTTAAGTCCGAAACCC
1 AATCCCTAAGTCCGAAACCC
13730085 TAGGTGAACC
Statistics
Matches: 44, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
27 3 0.07
28 39 0.89
29 2 0.05
ACGTcount: A:0.38, C:0.32, G:0.16, T:0.14
Consensus pattern (28 bp):
AATCCCTAAGTCCGAAACCCCAAAATGG
Found at i:13730141 original size:20 final size:19
Alignment explanation
Indices: 13730114--13730158 Score: 72
Period size: 20 Copynumber: 2.3 Consensus size: 19
13730104 AGGTAAAATT
13730114 TTAAACCCTAAATGAAACC
1 TTAAACCCTAAATGAAACC
*
13730133 TTGAAACCCTAAGTGAAACC
1 TT-AAACCCTAAATGAAACC
13730153 TTAAAC
1 TTAAAC
13730159 TTTAGGCCAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 6 0.25
20 18 0.75
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (19 bp):
TTAAACCCTAAATGAAACC
Found at i:13736503 original size:15 final size:14
Alignment explanation
Indices: 13736468--13736521 Score: 63
Period size: 16 Copynumber: 3.6 Consensus size: 14
13736458 GGGCATGTAA
*
13736468 AAAAAAATAAAAAAC
1 AAAAAAA-AAAAAAG
13736483 ACAAAAAAAAGAAAAG
1 A-AAAAAAAA-AAAAG
13736499 TAAAAAAAAAAAAAG
1 -AAAAAAAAAAAAAG
13736514 AAAAAAAA
1 AAAAAAAA
13736522 TGGTTAGGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 8 0.23
15 8 0.23
16 18 0.51
17 1 0.03
ACGTcount: A:0.87, C:0.04, G:0.06, T:0.04
Consensus pattern (14 bp):
AAAAAAAAAAAAAG
Found at i:13737038 original size:14 final size:14
Alignment explanation
Indices: 13737021--13737104 Score: 57
Period size: 14 Copynumber: 5.9 Consensus size: 14
13737011 AAGGTGAAGA
13737021 GAAAAAGGAAAAA-
1 GAAAAAGGAAAAAT
* * *
13737034 GGAAAAGTAAAAAA
1 GAAAAAGGAAAAAT
*
13737048 AAAAAAGGAAAAAT
1 GAAAAAGGAAAAAT
*
13737062 GAGAAA-GAAATAAT
1 GAAAAAGGAAA-AAT
*
13737076 GAAAGAAAGAAAGAA-
1 GAAA-AAGGAAA-AAT
13737091 GAACAAAGGAAAAA
1 GAA-AAAGGAAAAA
13737105 AAGGAAATGA
Statistics
Matches: 55, Mismatches: 11, Indels: 9
0.73 0.15 0.12
Matches are distributed among these distances:
13 15 0.27
14 22 0.40
15 11 0.20
16 7 0.13
ACGTcount: A:0.73, C:0.01, G:0.21, T:0.05
Consensus pattern (14 bp):
GAAAAAGGAAAAAT
Found at i:13737471 original size:17 final size:18
Alignment explanation
Indices: 13737446--13737479 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
13737436 CAATTAATAA
13737446 AAAAAAAAAAGA-AAAAG
1 AAAAAAAAAAGATAAAAG
*
13737463 AAAAGAAAAAGATAAAA
1 AAAAAAAAAAGATAAAA
13737480 ATGAAGGTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (18 bp):
AAAAAAAAAAGATAAAAG
Found at i:13738335 original size:32 final size:33
Alignment explanation
Indices: 13738198--13738434 Score: 148
Period size: 32 Copynumber: 7.2 Consensus size: 33
13738188 AAAAAAAAAC
* *
13738198 TTAAGCCCAGTTTAGCTGGCACCTAATGAA-AA
1 TTAAGCCCAGTTTAGTTGGCACCTAATGAAGAT
* * * *
13738230 TTAAGTCTAATTTA-TCTGGCACCTCATGAAAAGAT
1 TTAAGCCCAGTTTAGT-TGGCACCTAATG--AAGAT
* *
13738265 TTAAGCCCAGTTTAGCTAGCATCC-AATGAAAGAT
1 TTAAGCCCAGTTTAGTTGGCA-CCTAATG-AAGAT
*
13738299 TTAAG-CCAGTTTAGTTGGCACTTAATGAAGAT
1 TTAAGCCCAGTTTAGTTGGCACCTAATGAAGAT
** ** * *
13738331 TTAAGCCCAAATTACCTAGC-CCTAATAAAGAT
1 TTAAGCCCAGTTTAGTTGGCACCTAATGAAGAT
* * *
13738363 TTAAGCCCAGGTTAGTCGGCA-TTCAATGAAGAAT
1 TTAAGCCCAGTTTAGTTGGCACCT-AATGAAG-AT
* * ** *
13738397 TTAAACCC-GATTAGTTGGCA-CTAACAAAAAT
1 TTAAGCCCAGTTTAGTTGGCACCTAATGAAGAT
13738428 TTAAGCC
1 TTAAGCC
13738435 AAGTCTAAGT
Statistics
Matches: 156, Mismatches: 38, Indels: 23
0.72 0.18 0.11
Matches are distributed among these distances:
31 8 0.05
32 62 0.40
33 43 0.28
34 22 0.14
35 19 0.12
36 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.28
Consensus pattern (33 bp):
TTAAGCCCAGTTTAGTTGGCACCTAATGAAGAT
Found at i:13738715 original size:11 final size:11
Alignment explanation
Indices: 13738701--13738779 Score: 54
Period size: 12 Copynumber: 6.5 Consensus size: 11
13738691 AAAAACACAT
13738701 AAAAACAAAAC
1 AAAAACAAAAC
13738712 AAAAACAAGAGA-
1 AAAAACAA-A-AC
13738724 AAAAACAAATAAC
1 AAAAAC-AA-AAC
13738737 AAAATAACAAAAC
1 -AAA-AACAAAAC
13738750 AAGAAA-AAAAC
1 AA-AAACAAAAC
13738761 AAGAAAACAAAAAC
1 -A-AAAAC-AAAAC
13738775 AAAAA
1 AAAAA
13738780 AATTGCCTTA
Statistics
Matches: 56, Mismatches: 1, Indels: 21
0.72 0.01 0.27
Matches are distributed among these distances:
11 13 0.23
12 20 0.36
13 10 0.18
14 10 0.18
15 3 0.05
ACGTcount: A:0.80, C:0.13, G:0.05, T:0.03
Consensus pattern (11 bp):
AAAAACAAAAC
Found at i:13738740 original size:30 final size:30
Alignment explanation
Indices: 13738702--13738779 Score: 95
Period size: 31 Copynumber: 2.5 Consensus size: 30
13738692 AAAACACATA
13738702 AAAACAAAACAAAAACAAGAGAAAAAACAA-
1 AAAACAAAACAAAAACAAGA-AAAAAACAAG
* *
13738732 ATAACAAAATAACAAAACAAGAAAAAAACAAG
1 AAAACAAAA-CA-AAAACAAGAAAAAAACAAG
13738764 AAAACAAAAACAAAAA
1 AAAAC-AAAACAAAAA
13738780 AATTGCCTTA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
30 8 0.20
31 14 0.35
32 14 0.35
33 4 0.10
ACGTcount: A:0.79, C:0.13, G:0.05, T:0.03
Consensus pattern (30 bp):
AAAACAAAACAAAAACAAGAAAAAAACAAG
Found at i:13738747 original size:38 final size:38
Alignment explanation
Indices: 13738688--13738778 Score: 100
Period size: 38 Copynumber: 2.4 Consensus size: 38
13738678 GGTTGTTTTT
* *
13738688 AAAA-AAAACACATAAA-AACAAAACAA-AAACAAGAGAA-
1 AAAACAAAA-ACA-AAATAACAAAACAAGAAA-AAAACAAG
13738725 AAAACAAATAACAAAATAACAAAACAAGAAAAAAACAAG
1 AAAACAAA-AACAAAATAACAAAACAAGAAAAAAACAAG
13738764 AAAACAAAAACAAAA
1 AAAACAAAAACAAAA
13738779 AAATTGCCTT
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
37 7 0.15
38 28 0.60
39 12 0.26
ACGTcount: A:0.79, C:0.13, G:0.04, T:0.03
Consensus pattern (38 bp):
AAAACAAAAACAAAATAACAAAACAAGAAAAAAACAAG
Found at i:13738749 original size:32 final size:32
Alignment explanation
Indices: 13738689--13738781 Score: 102
Period size: 33 Copynumber: 2.9 Consensus size: 32
13738679 GTTGTTTTTA
*
13738689 AAAAAAACACATAA-AAACAAAACAAAAACAAG
1 AAAAAAACAAATAACAAA-AAAACAAAAACAAG
*
13738721 AGAAAAAACAAATAACAAAATAAC-AAAACAAG
1 A-AAAAAACAAATAACAAAAAAACAAAAACAAG
*
13738753 AAAAAAACAAGAAAACAAAAACAA-AAAAA
1 AAAAAAACAA-ATAACAAAAA-AACAAAAA
13738782 TTGCCTTAGA
Statistics
Matches: 52, Mismatches: 4, Indels: 9
0.80 0.06 0.14
Matches are distributed among these distances:
31 9 0.17
32 18 0.35
33 22 0.42
34 3 0.06
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.03
Consensus pattern (32 bp):
AAAAAAACAAATAACAAAAAAACAAAAACAAG
Found at i:13738778 original size:19 final size:18
Alignment explanation
Indices: 13738707--13738778 Score: 74
Period size: 19 Copynumber: 3.8 Consensus size: 18
13738697 ACATAAAAAC
* *
13738707 AAAACAAAAACAAGAGAA
1 AAAACAAAAACAAAACAA
*
13738725 AAAACAAATAACAAAATAA
1 AAAACAAA-AACAAAACAA
13738744 CAAAACAAGAAA-AAAACAA
1 -AAAACAA-AAACAAAACAA
13738763 GAAAACAAAAACAAAA
1 -AAAACAAAAACAAAA
13738779 AAATTGCCTT
Statistics
Matches: 46, Mismatches: 4, Indels: 7
0.81 0.07 0.12
Matches are distributed among these distances:
18 11 0.24
19 25 0.54
20 9 0.20
21 1 0.02
ACGTcount: A:0.79, C:0.12, G:0.06, T:0.03
Consensus pattern (18 bp):
AAAACAAAAACAAAACAA
Found at i:13738780 original size:8 final size:8
Alignment explanation
Indices: 13738689--13738781 Score: 59
Period size: 8 Copynumber: 11.9 Consensus size: 8
13738679 GTTGTTTTTA
13738689 AAAAAAAC
1 AAAAAAAC
* *
13738697 ACATAAA-
1 AAAAAAAC
*
13738704 AACAAAAC
1 AAAAAAAC
*
13738712 AAAAACAAG
1 AAAAA-AAC
13738721 AGAAAAAAC
1 A-AAAAAAC
*
13738730 -AAATAAC
1 AAAAAAAC
*
13738737 AAAATAAC
1 AAAAAAAC
* *
13738745 AAAACAAG
1 AAAAAAAC
13738753 AAAAAAAC
1 AAAAAAAC
*
13738761 AAGAAAAC
1 AAAAAAAC
13738769 --AAAAAC
1 AAAAAAAC
13738775 AAAAAAA
1 AAAAAAA
13738782 TTGCCTTAGA
Statistics
Matches: 64, Mismatches: 15, Indels: 12
0.70 0.16 0.13
Matches are distributed among these distances:
6 5 0.08
7 10 0.16
8 40 0.62
9 5 0.08
10 4 0.06
ACGTcount: A:0.80, C:0.13, G:0.04, T:0.03
Consensus pattern (8 bp):
AAAAAAAC
Found at i:13739042 original size:3 final size:3
Alignment explanation
Indices: 13739034--13739058 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13739024 ATTAATGGCC
13739034 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
13739059 GTATATAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:13739115 original size:7 final size:6
Alignment explanation
Indices: 13739080--13739149 Score: 86
Period size: 7 Copynumber: 10.8 Consensus size: 6
13739070 TATAAAATTA
13739080 TAAAAT TAAAAT TAAAAT TAAAAT TAAAACT TAAAATT TAAAATT TAAAATT
1 TAAAAT TAAAAT TAAAAT TAAAAT TAAAA-T TAAAA-T TAAAA-T TAAAA-T
*
13739132 TAAAAT TGAAAAT GAAAA
1 TAAAAT T-AAAAT TAAAA
13739150 ATTGGAAAAT
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
6 29 0.48
7 31 0.52
ACGTcount: A:0.63, C:0.01, G:0.03, T:0.33
Consensus pattern (6 bp):
TAAAAT
Found at i:13739153 original size:14 final size:13
Alignment explanation
Indices: 13739072--13739144 Score: 96
Period size: 14 Copynumber: 5.5 Consensus size: 13
13739062 TATAAGCATA
13739072 TAAAATTATAAAAT
1 TAAAATT-TAAAAT
13739086 TAAAA-TTAAAAT
1 TAAAATTTAAAAT
13739098 TAAAA-TTAAAACT
1 TAAAATTTAAAA-T
13739111 TAAAATTTAAAATT
1 TAAAATTTAAAA-T
13739125 TAAAATTTAAAAT
1 TAAAATTTAAAAT
13739138 TGAAAAT
1 T-AAAAT
13739145 GAAAAATTGG
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
12 17 0.31
13 9 0.16
14 29 0.53
ACGTcount: A:0.62, C:0.01, G:0.01, T:0.36
Consensus pattern (13 bp):
TAAAATTTAAAAT
Found at i:13740870 original size:14 final size:14
Alignment explanation
Indices: 13740821--13740872 Score: 56
Period size: 14 Copynumber: 3.9 Consensus size: 14
13740811 GAGAGGTTCA
13740821 TGAAAT-CCTAAAT
1 TGAAATCCCTAAAT
*
13740834 TGAAA-CCCTATGAT
1 TGAAATCCCTA-AAT
*
13740848 T-AAAACCCTAAAT
1 TGAAATCCCTAAAT
13740861 TGAAATCCCTAA
1 TGAAATCCCTAA
13740873 GGTCGAAACG
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
13 15 0.47
14 17 0.53
ACGTcount: A:0.44, C:0.21, G:0.08, T:0.27
Consensus pattern (14 bp):
TGAAATCCCTAAAT
Found at i:13740881 original size:28 final size:27
Alignment explanation
Indices: 13740822--13740897 Score: 80
Period size: 28 Copynumber: 2.8 Consensus size: 27
13740812 AGAGGTTCAT
* * *
13740822 GAAATCCTAAATTGAAACCCTATGATT
1 GAAACCCTAAATTGAAACCCTAAGATC
* *
13740849 AAAACCCTAAATTGAAATCCCTAAGGTC
1 GAAACCCTAAATTGAAA-CCCTAAGATC
* *
13740877 GAAACGCTAAATTGGAACCCT
1 GAAACCCTAAATTGAAACCCT
13740898 TAAGTCCAAA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.41, C:0.22, G:0.13, T:0.24
Consensus pattern (27 bp):
GAAACCCTAAATTGAAACCCTAAGATC
Found at i:13749750 original size:16 final size:16
Alignment explanation
Indices: 13749731--13749765 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13749721 TGTGATAACA
*
13749731 TATCTTTAACAATTGG
1 TATCCTTAACAATTGG
*
13749747 TATCCTTAACAATTTG
1 TATCCTTAACAATTGG
13749763 TAT
1 TAT
13749766 GAGCTTGTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.31, C:0.14, G:0.09, T:0.46
Consensus pattern (16 bp):
TATCCTTAACAATTGG
Found at i:13756447 original size:25 final size:25
Alignment explanation
Indices: 13756395--13756449 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
13756385 GCTGAATACG
**
13756395 TGAAATAACTTAAAGAAAAGATGCA
1 TGAAATAACTTAAAGAAAAGATAAA
*
13756420 TGAAATAATTTAAAGAATAAGA-AAA
1 TGAAATAACTTAAAGAA-AAGATAAA
13756445 TGAAA
1 TGAAA
13756450 GTTGGTCGAA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 22 0.85
26 4 0.15
ACGTcount: A:0.60, C:0.04, G:0.15, T:0.22
Consensus pattern (25 bp):
TGAAATAACTTAAAGAAAAGATAAA
Found at i:13757646 original size:18 final size:18
Alignment explanation
Indices: 13757623--13757660 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
13757613 AAAAAATAAT
*
13757623 ACAAAACTCCTATCATGC
1 ACAAAACTCCTATCACGC
13757641 ACAAAACTCCTATCACGC
1 ACAAAACTCCTATCACGC
13757659 AC
1 AC
13757661 TAATGCATAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.39, C:0.37, G:0.05, T:0.18
Consensus pattern (18 bp):
ACAAAACTCCTATCACGC
Found at i:13764878 original size:9 final size:9
Alignment explanation
Indices: 13764864--13764908 Score: 63
Period size: 9 Copynumber: 4.7 Consensus size: 9
13764854 CTATGCTTAG
13764864 AAAAAAGAAA
1 AAAAAAG-AA
13764874 AAAAAAGAA
1 AAAAAAGAA
13764883 GGAAAAAAGAA
1 --AAAAAAGAA
13764894 AAAAAAGAA
1 AAAAAAGAA
13764903 AAAAAA
1 AAAAAA
13764909 AAGGAGAATC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
9 17 0.52
10 7 0.21
11 9 0.27
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (9 bp):
AAAAAAGAA
Found at i:13764909 original size:21 final size:21
Alignment explanation
Indices: 13764864--13764911 Score: 71
Period size: 20 Copynumber: 2.3 Consensus size: 21
13764854 CTATGCTTAG
**
13764864 AAAAAAGAAAAAAAAAGAAGG
1 AAAAAAGAAAAAAAAAGAAAA
13764885 AAAAAAG-AAAAAAAAGAAAA
1 AAAAAAGAAAAAAAAAGAAAA
13764905 AAAAAAG
1 AAAAAAG
13764912 GAGAATCTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
20 18 0.72
21 7 0.28
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (21 bp):
AAAAAAGAAAAAAAAAGAAAA
Found at i:13766205 original size:47 final size:47
Alignment explanation
Indices: 13766142--13766799 Score: 632
Period size: 47 Copynumber: 14.1 Consensus size: 47
13766132 AGACCATATT
* * *
13766142 AGCCCTTTACATAAATGATTTTTAAAGTCACTTGCCTATATTTATAGG
1 AGCCCTTTTCA-AAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * *
13766190 AGCCCATTTCAAAATGAATTTTAAAGTTA-CTCGCCTATGTTTATAGG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCT-GCCTATGTTTATAGG
* * * * * *
13766237 AACCCTTTTAAAAAAGATTTTTTAAGTCACATGTCTATGTTTATAGG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * *
13766284 AGCCCTTTTGAAAAAGATTTTTTAAAGTCA-CTACCAATG-TTATTAGG
1 AGCCCTTTTCAAAATGA-TTTTTAAAGTCACCTGCCTATGTTTA-TAGG
* * * *
13766331 AGCCCTTTCCAAAAATGATTTTTAAAGCCACCCGCCTATGTTTATAAG
1 AGCCCTTTTC-AAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* *
13766379 AGCCCTTTTCATAAA-GATTTTTAAAGTCACCTACCTATGTTTATAAG
1 AGCCCTTTTCA-AAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * *
13766426 AG-CCTTTTCAAATTGA-TTTTAAAGTCCCCTGCCTATGTTTGTAGA
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * * * *
13766471 AG-CCTTTTCAAATTGATTTTTAAAGTCGCCTACCTAAGTTTAAATG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * * * *
13766517 AGTCCTTTTCAAATTGATTTTTAAAGTTACCTACTTATGTTTATAAG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * *
13766564 AGCCCTTTTCAAAAT-AATATTAAAGTCACTTGCCTATGTTTGTAGG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * *
13766610 AG-CCTTTTCAAATTGATTTTTAAAGTCATCTGCCTATGTTTAAAGG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * * * *
13766656 AGTCTTTTTCAAATTGATTTTTAAAGTCACCTACTTATGTTTATAAG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * * * *
13766703 AGCCCGTTTCAAAACGATTTTTAAAGTCACCTACTTATGTTTAAAGA
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * ** * *
13766750 AGCCCTTTTCAAATTGACTTTTAAAGTCGTCTGCCTATATCTATAGG
1 AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
13766797 AGC
1 AGC
13766800 TCTTCTTGAA
Statistics
Matches: 501, Mismatches: 96, Indels: 27
0.80 0.15 0.04
Matches are distributed among these distances:
45 53 0.11
46 90 0.18
47 307 0.61
48 48 0.10
49 3 0.01
ACGTcount: A:0.31, C:0.17, G:0.13, T:0.39
Consensus pattern (47 bp):
AGCCCTTTTCAAAATGATTTTTAAAGTCACCTGCCTATGTTTATAGG
Found at i:13766633 original size:139 final size:139
Alignment explanation
Indices: 13766142--13766787 Score: 608
Period size: 139 Copynumber: 4.6 Consensus size: 139
13766132 AGACCATATT
* * * * * * * * *
13766142 AGCCCTTTACATAAATGATTTTTAAAGTCACTTGCCTATATTTATAGGAGCCCATTTCAAAATGA
1 AGCCCTTTTCA-AAAT-AATTTTAAAGTCACCTACCTATGTTTGTAGAAGCCCTTTTCAAATTGA
* * * ** * ** * * *
13766207 ATTTTAAAGTTA-CTCGCCTATGTTTATAGGAACCCTTTTAAAAAAGATTTTTTAAGTCACAT-G
64 TTTTTAAAGTCACCT-GCCTATGTTTA-AAGAGTCCTTTTCAAATTGATTTTTAAAGTCACCTAC
*
13766270 TCTATGTTTATAGG
127 T-TATGTTTATAAG
* * * * *
13766284 AGCCCTTTTGAAAA-AGATTTTTTAAAGTCA-CTACCAATGTTAT-TAGGAGCCCTTTCCAAAAA
1 AGCCCTTTTCAAAATA-A--TTTTAAAGTCACCTACCTATGTT-TGTAGAAGCCCTTTTC-AAAT
* * * *
13766346 TGATTTTTAAAGCCACCCGCCTATGTTTATAAGAGCCCTTTTCATAA-AGATTTTTAAAGTCACC
61 TGATTTTTAAAGTCACCTGCCTATGTTTA-AAGAGTCCTTTTCA-AATTGATTTTTAAAGTCACC
*
13766410 TACCTATGTTTATAAG
124 TACTTATGTTTATAAG
* * * *
13766426 AG-CCTTTTCAAATTGATTTTAAAGTCCCCTGCCTATGTTTGTAGAAG-CCTTTTCAAATTGATT
1 AGCCCTTTTCAAAATAATTTTAAAGTCACCTACCTATGTTTGTAGAAGCCCTTTTCAAATTGATT
* * * *
13766489 TTTAAAGTCGCCTACCTAAGTTTAAATGAGTCCTTTTCAAATTGATTTTTAAAGTTACCTACTTA
66 TTTAAAGTCACCTGCCTATGTTTAAA-GAGTCCTTTTCAAATTGATTTTTAAAGTCACCTACTTA
13766554 TGTTTATAAG
130 TGTTTATAAG
* * * *
13766564 AGCCCTTTTCAAAATAATATTAAAGTCACTTGCCTATGTTTGTAGGAG-CCTTTTCAAATTGATT
1 AGCCCTTTTCAAAATAATTTTAAAGTCACCTACCTATGTTTGTAGAAGCCCTTTTCAAATTGATT
* *
13766628 TTTAAAGTCATCTGCCTATGTTTAAAGGAGTCTTTTTCAAATTGATTTTTAAAGTCACCTACTTA
66 TTTAAAGTCACCTGCCTATGTTTAAA-GAGTCCTTTTCAAATTGATTTTTAAAGTCACCTACTTA
13766693 TGTTTATAAG
130 TGTTTATAAG
* * * * ** *
13766703 AGCCCGTTTCAAAACGATTTTTAAAGTCACCTACTTATGTTTAAAGAAGCCCTTTTCAAATTGAC
1 AGCCCTTTTCAAAA-TAATTTTAAAGTCACCTACCTATGTTTGTAGAAGCCCTTTTCAAATTGAT
**
13766768 TTTTAAAGTCGTCTGCCTAT
65 TTTTAAAGTCACCTGCCTAT
13766788 ATCTATAGGA
Statistics
Matches: 424, Mismatches: 64, Indels: 33
0.81 0.12 0.06
Matches are distributed among these distances:
137 4 0.01
138 70 0.17
139 154 0.36
140 39 0.09
141 65 0.15
142 89 0.21
143 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.13, T:0.39
Consensus pattern (139 bp):
AGCCCTTTTCAAAATAATTTTAAAGTCACCTACCTATGTTTGTAGAAGCCCTTTTCAAATTGATT
TTTAAAGTCACCTGCCTATGTTTAAAGAGTCCTTTTCAAATTGATTTTTAAAGTCACCTACTTAT
GTTTATAAG
Found at i:13771653 original size:22 final size:22
Alignment explanation
Indices: 13771628--13771694 Score: 107
Period size: 22 Copynumber: 3.0 Consensus size: 22
13771618 TATCTATATT
*
13771628 TAAACTCCATATCATATTTTTG
1 TAAACTCCATATCATACTTTTG
13771650 TAAACTCCATATCATACTTTTG
1 TAAACTCCATATCATACTTTTG
* *
13771672 TAAACTCCATGTCATACATTTG
1 TAAACTCCATATCATACTTTTG
13771694 T
1 T
13771695 TATTTTAAGA
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 42 1.00
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (22 bp):
TAAACTCCATATCATACTTTTG
Found at i:13772941 original size:21 final size:22
Alignment explanation
Indices: 13772912--13772952 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13772902 CTTGGTTGAA
13772912 CTTTCTCTTA-AATCTTTTTTT
1 CTTTCTCTTAGAATCTTTTTTT
* *
13772933 CTTTTTCTTAGGATCTTTTT
1 CTTTCTCTTAGAATCTTTTT
13772953 ATTAGGGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.12, C:0.17, G:0.05, T:0.66
Consensus pattern (22 bp):
CTTTCTCTTAGAATCTTTTTTT
Found at i:13775358 original size:49 final size:49
Alignment explanation
Indices: 13775305--13775405 Score: 193
Period size: 49 Copynumber: 2.1 Consensus size: 49
13775295 TTTGGAAAAG
*
13775305 AATGCTTGCCGAATTTAAGGAAAAGAAAAACAAGATTTGTAAACTTGAA
1 AATGCTTGCCAAATTTAAGGAAAAGAAAAACAAGATTTGTAAACTTGAA
13775354 AATGCTTGCCAAATTTAAGGAAAAGAAAAACAAGATTTGTAAACTTGAA
1 AATGCTTGCCAAATTTAAGGAAAAGAAAAACAAGATTTGTAAACTTGAA
13775403 AAT
1 AAT
13775406 AAGAAAAGAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.25
Consensus pattern (49 bp):
AATGCTTGCCAAATTTAAGGAAAAGAAAAACAAGATTTGTAAACTTGAA
Found at i:13776989 original size:97 final size:97
Alignment explanation
Indices: 13776823--13777012 Score: 362
Period size: 97 Copynumber: 2.0 Consensus size: 97
13776813 GAACAAATTT
13776823 TACAAAACAATTTATCTAAGCAAATGAACATAATAAATGAGAGTAAACAAGAGATAAAGATAGAG
1 TACAAAACAATTTATCTAAGCAAATGAACATAATAAATGAGAGTAAACAAGAGATAAAGATAGAG
13776888 AATTAAACACCAAGATTTATAGAGGATCAATC
66 AATTAAACACCAAGATTTATAGAGGATCAATC
* *
13776920 TACAAAATAATTTATCTAAGTAAATGAACATAATAAATGAGAGTAAACAAGAGATAAAGATAGAG
1 TACAAAACAATTTATCTAAGCAAATGAACATAATAAATGAGAGTAAACAAGAGATAAAGATAGAG
13776985 AATTAAACACCAAGATTTATAGAGGATC
66 AATTAAACACCAAGATTTATAGAGGATC
13777013 GATCCTTTCT
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
97 91 1.00
ACGTcount: A:0.53, C:0.10, G:0.15, T:0.23
Consensus pattern (97 bp):
TACAAAACAATTTATCTAAGCAAATGAACATAATAAATGAGAGTAAACAAGAGATAAAGATAGAG
AATTAAACACCAAGATTTATAGAGGATCAATC
Found at i:13777039 original size:21 final size:21
Alignment explanation
Indices: 13777015--13777078 Score: 57
Period size: 21 Copynumber: 3.2 Consensus size: 21
13777005 AGAGGATCGA
13777015 TCCTTTCTTTAGGCACCTATG
1 TCCTTTCTTTAGGCACCTATG
* *
13777036 TCCTCTCCCTTA-G--CCTCA--
1 TCCT-TTCTTTAGGCACCT-ATG
13777054 TCCTTTCTTTAGGCACCTATG
1 TCCTTTCTTTAGGCACCTATG
13777075 TCCT
1 TCCT
13777079 CTCCCTTACC
Statistics
Matches: 32, Mismatches: 4, Indels: 14
0.64 0.08 0.28
Matches are distributed among these distances:
17 5 0.16
18 5 0.16
19 4 0.12
20 4 0.12
21 9 0.28
22 5 0.16
ACGTcount: A:0.12, C:0.36, G:0.11, T:0.41
Consensus pattern (21 bp):
TCCTTTCTTTAGGCACCTATG
Found at i:13777068 original size:39 final size:39
Alignment explanation
Indices: 13777014--13777092 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
13777004 TAGAGGATCG
*
13777014 ATCCTTTCTTTAGGCACCTATGTCCTCTCCCTTAGCCTC
1 ATCCTTTCTTTAGGCACCTATGTCCTCTCCCTTACCCTC
13777053 ATCCTTTCTTTAGGCACCTATGTCCTCTCCCTTACCCTC
1 ATCCTTTCTTTAGGCACCTATGTCCTCTCCCTTACCCTC
13777092 A
1 A
13777093 CTTGCCAAGG
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.14, C:0.39, G:0.09, T:0.38
Consensus pattern (39 bp):
ATCCTTTCTTTAGGCACCTATGTCCTCTCCCTTACCCTC
Found at i:13785773 original size:116 final size:114
Alignment explanation
Indices: 13785582--13785801 Score: 280
Period size: 116 Copynumber: 1.9 Consensus size: 114
13785572 TTATTCGTTG
* * * *
13785582 GGTGATTTATCCCTTATGAGGGGGGATCAATCCCTTTTCTAGATTTTTAAATGAGGATTACATTT
1 GGTGATTAATCCCTTATGAGGGGGGATCAATCCCTTTTATAGATTTTCAAATAAGGATTACATTT
* * * * *
13785647 TATATGAAAAACATATTGATCCCTTTAAGGGAGGGATCGATCCCATGCCTA
66 GATAT-AAAAA-AAATCGATCACTTTAAGAGAGGGATCGATCCCATGCCTA
* * * *
13785698 GGTGATTAATCCCTTATGTGGGGGGATCGATCCCTTTTATAGATTTTCAACTAAGTA-TAGCATT
1 GGTGATTAATCCCTTATGAGGGGGGATCAATCCCTTTTATAGATTTTCAAATAAGGATTA-CATT
*
13785762 TGGTATAAAAAAAATCGATCACTTTAAGAGAGGGATCGAT
65 TGATATAAAAAAAATCGATCACTTTAAGAGAGGGATCGAT
13785802 TGGGTCAACT
Statistics
Matches: 89, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
114 25 0.28
115 7 0.08
116 57 0.64
ACGTcount: A:0.30, C:0.15, G:0.21, T:0.34
Consensus pattern (114 bp):
GGTGATTAATCCCTTATGAGGGGGGATCAATCCCTTTTATAGATTTTCAAATAAGGATTACATTT
GATATAAAAAAAATCGATCACTTTAAGAGAGGGATCGATCCCATGCCTA
Found at i:13787345 original size:16 final size:16
Alignment explanation
Indices: 13787324--13787364 Score: 64
Period size: 16 Copynumber: 2.6 Consensus size: 16
13787314 AATGAAAATG
*
13787324 TAAAGAAAACTTTTAT
1 TAAAGAAAACTTTGAT
13787340 TAAAGAAAACTTTGAT
1 TAAAGAAAACTTTGAT
*
13787356 TAAACAAAA
1 TAAAGAAAA
13787365 TTGTTATGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.56, C:0.07, G:0.07, T:0.29
Consensus pattern (16 bp):
TAAAGAAAACTTTGAT
Found at i:13787960 original size:23 final size:22
Alignment explanation
Indices: 13787916--13787971 Score: 58
Period size: 23 Copynumber: 2.5 Consensus size: 22
13787906 AAATAATAGT
* *
13787916 AAAAATATAAATAATTGAAAATA
1 AAAAATAT-AATAAATAAAAATA
*
13787939 TAAAATATAATAAATAATAAATA
1 AAAAATATAATAAATAA-AAATA
*
13787962 AAAAAAATAA
1 AAAAATATAA
13787972 AAAAAACTTA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.25
Consensus pattern (22 bp):
AAAAATATAATAAATAAAAATA
Found at i:13788320 original size:19 final size:19
Alignment explanation
Indices: 13788285--13788341 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
13788275 CACAAGGGAG
*
13788285 AAAAAGAAAA-AAG-AAAA
1 AAAAAAAAAACAAGCAAAA
*
13788302 AAAAAAAAAACTAGCAAAA
1 AAAAAAAAAACAAGCAAAA
*
13788321 AAAATAAAAACAAGCAAAA
1 AAAAAAAAAACAAGCAAAA
13788340 AA
1 AA
13788342 GAGAATAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
17 9 0.26
18 2 0.06
19 23 0.68
ACGTcount: A:0.82, C:0.07, G:0.07, T:0.04
Consensus pattern (19 bp):
AAAAAAAAAACAAGCAAAA
Found at i:13789883 original size:26 final size:26
Alignment explanation
Indices: 13789839--13789902 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 26
13789829 AAAAGTAAAT
*
13789839 AAATAATAATAATAAATTTTTAATGA-A
1 AAAT-ATAAAAATAAATTTTTAA-GAGA
* *
13789866 AAATATAAAAATATATTTTTTAGAGA
1 AAATATAAAAATAAATTTTTAAGAGA
*
13789892 AATTATAAAAA
1 AAATATAAAAA
13789903 ATGAGCTTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
25 2 0.06
26 26 0.81
27 4 0.12
ACGTcount: A:0.59, C:0.00, G:0.05, T:0.36
Consensus pattern (26 bp):
AAATATAAAAATAAATTTTTAAGAGA
Found at i:13797847 original size:24 final size:24
Alignment explanation
Indices: 13797820--13797865 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13797810 AGAGATTATC
* * *
13797820 TTGTTATTTTGGTTTATTACATGT
1 TTGTTATTATCGTTCATTACATGT
13797844 TTGTTATTATCGTTCATTACAT
1 TTGTTATTATCGTTCATTACAT
13797866 ATTATTTTAG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.20, C:0.09, G:0.13, T:0.59
Consensus pattern (24 bp):
TTGTTATTATCGTTCATTACATGT
Found at i:13798399 original size:18 final size:18
Alignment explanation
Indices: 13798362--13798402 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
13798352 TCACATGCAT
* *
13798362 AATTCCCATGAAACCCCA
1 AATTTCCATGAAACACCA
*
13798380 AATTTCCATGAAACATCA
1 AATTTCCATGAAACACCA
13798398 AATTT
1 AATTT
13798403 GAAACCCAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.27, G:0.05, T:0.27
Consensus pattern (18 bp):
AATTTCCATGAAACACCA
Found at i:13798427 original size:7 final size:7
Alignment explanation
Indices: 13798415--13798462 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
13798405 AACCCAAAAT
13798415 CTAAACC
1 CTAAACC
13798422 CTAAACC
1 CTAAACC
*
13798429 CTAAAAC
1 CTAAACC
*
13798436 CTAAATC
1 CTAAACC
*
13798443 CTAAATC
1 CTAAACC
*
13798450 ATGAAACC
1 CT-AAACC
13798458 CTAAA
1 CTAAA
13798463 TCCCATCAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
7 30 0.86
8 5 0.14
ACGTcount: A:0.48, C:0.31, G:0.02, T:0.19
Consensus pattern (7 bp):
CTAAACC
Found at i:13798439 original size:21 final size:20
Alignment explanation
Indices: 13798404--13798447 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
13798394 ATCAAATTTG
*
13798404 AAACCCAAAATCTAAACCCT
1 AAACCCAAAACCTAAACCCT
*
13798424 AAACCCTAAAACCTAAATCCT
1 AAACCC-AAAACCTAAACCCT
13798445 AAA
1 AAA
13798448 TCATGAAACC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.52, C:0.32, G:0.00, T:0.16
Consensus pattern (20 bp):
AAACCCAAAACCTAAACCCT
Found at i:13798692 original size:27 final size:27
Alignment explanation
Indices: 13798653--13798713 Score: 76
Period size: 25 Copynumber: 2.4 Consensus size: 27
13798643 TCATACTTTG
*
13798653 TCATTCATGTTA-TAT-TGTCATGCA-T
1 TCATGCATGTTATTATGT-TCATGCATT
13798678 TCAT-CATGTTATTATGTTCATGCATT
1 TCATGCATGTTATTATGTTCATGCATT
13798704 TCATGCATGT
1 TCATGCATGT
13798714 GTTTCCCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
24 7 0.22
25 14 0.44
26 6 0.19
27 5 0.16
ACGTcount: A:0.23, C:0.16, G:0.13, T:0.48
Consensus pattern (27 bp):
TCATGCATGTTATTATGTTCATGCATT
Found at i:13798698 original size:25 final size:25
Alignment explanation
Indices: 13798657--13798713 Score: 73
Period size: 24 Copynumber: 2.2 Consensus size: 25
13798647 ACTTTGTCAT
13798657 TCATGTTATATTGTCATGCA-TTCA
1 TCATGTTATATTGTCATGCATTTCA
13798681 TCATGTTAT-TATGTTCATGCATTTCA
1 TCATGTTATAT-TG-TCATGCATTTCA
13798707 TGCATGT
1 T-CATGT
13798714 GTTTCCCAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
23 1 0.03
24 11 0.38
25 7 0.24
26 5 0.17
27 5 0.17
ACGTcount: A:0.23, C:0.16, G:0.14, T:0.47
Consensus pattern (25 bp):
TCATGTTATATTGTCATGCATTTCA
Found at i:13800712 original size:13 final size:13
Alignment explanation
Indices: 13800696--13800720 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13800686 TTACCTAAAA
13800696 TATAATAATAATG
1 TATAATAATAATG
13800709 TATAATAATAAT
1 TATAATAATAAT
13800721 AAGTAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (13 bp):
TATAATAATAATG
Found at i:13801039 original size:12 final size:12
Alignment explanation
Indices: 13801024--13801093 Score: 59
Period size: 12 Copynumber: 5.7 Consensus size: 12
13801014 ACTCTAAGCG
*
13801024 AAACCCTTGGTA
1 AAACCCTAGGTA
* *
13801036 AAACCCTAAGTG
1 AAACCCTAGGTA
13801048 AAACCCTAAGGTA
1 AAACCCT-AGGTA
** *
13801061 AAACCCTAAATG
1 AAACCCTAGGTA
*
13801073 AAACCCTAAAGTA
1 AAACCCT-AGGTA
13801086 AAACCCTA
1 AAACCCTA
13801094 AAACGAAACC
Statistics
Matches: 46, Mismatches: 10, Indels: 4
0.77 0.17 0.07
Matches are distributed among these distances:
12 26 0.57
13 20 0.43
ACGTcount: A:0.46, C:0.26, G:0.11, T:0.17
Consensus pattern (12 bp):
AAACCCTAGGTA
Found at i:13801066 original size:13 final size:12
Alignment explanation
Indices: 13801033--13801094 Score: 79
Period size: 12 Copynumber: 5.0 Consensus size: 12
13801023 GAAACCCTTG
13801033 GTAAAACCCTAA
1 GTAAAACCCTAA
*
13801045 GTGAAACCCTAA
1 GTAAAACCCTAA
13801057 GGTAAAACCCTAA
1 -GTAAAACCCTAA
* *
13801070 ATGAAACCCTAAA
1 GTAAAACCCT-AA
13801083 GTAAAACCCTAA
1 GTAAAACCCTAA
13801095 AACGAAACCC
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
12 21 0.50
13 21 0.50
ACGTcount: A:0.48, C:0.24, G:0.11, T:0.16
Consensus pattern (12 bp):
GTAAAACCCTAA
Found at i:13801066 original size:25 final size:25
Alignment explanation
Indices: 13801012--13801094 Score: 114
Period size: 25 Copynumber: 3.4 Consensus size: 25
13801002 TAAATCTTTG
* * *
13801012 AAACTCTAAGCGAAACCCT-TGGTA
1 AAACCCTAAGTGAAACCCTAAGGTA
13801036 AAACCCTAAGTGAAACCCTAAGGTA
1 AAACCCTAAGTGAAACCCTAAGGTA
* *
13801061 AAACCCTAAATGAAACCCTAAAGTA
1 AAACCCTAAGTGAAACCCTAAGGTA
13801086 AAACCCTAA
1 AAACCCTAA
13801095 AACGAAACCC
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
24 17 0.32
25 36 0.68
ACGTcount: A:0.46, C:0.25, G:0.12, T:0.17
Consensus pattern (25 bp):
AAACCCTAAGTGAAACCCTAAGGTA
Found at i:13801095 original size:13 final size:13
Alignment explanation
Indices: 13801033--13801095 Score: 85
Period size: 13 Copynumber: 5.0 Consensus size: 13
13801023 GAAACCCTTG
13801033 GTAAAACCCT-AA
1 GTAAAACCCTAAA
* *
13801045 GTGAAACCCTAAG
1 GTAAAACCCTAAA
13801058 GTAAAACCCTAAA
1 GTAAAACCCTAAA
*
13801071 -TGAAACCCTAAA
1 GTAAAACCCTAAA
13801083 GTAAAACCCTAAA
1 GTAAAACCCTAAA
13801096 ACGAAACCCT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
12 20 0.47
13 23 0.53
ACGTcount: A:0.49, C:0.24, G:0.11, T:0.16
Consensus pattern (13 bp):
GTAAAACCCTAAA
Found at i:13801095 original size:25 final size:25
Alignment explanation
Indices: 13801033--13801106 Score: 112
Period size: 25 Copynumber: 2.9 Consensus size: 25
13801023 GAAACCCTTG
* *
13801033 GTAAAACCCTAAGTGAAACCCTAAG
1 GTAAAACCCTAAATGAAACCCTAAA
13801058 GTAAAACCCTAAATGAAACCCTAAA
1 GTAAAACCCTAAATGAAACCCTAAA
*
13801083 GTAAAACCCTAAAACGAAACCCTA
1 GTAAAACCCT-AAATGAAACCCTA
13801107 TAACCCTTTG
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
25 33 0.73
26 12 0.27
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.15
Consensus pattern (25 bp):
GTAAAACCCTAAATGAAACCCTAAA
Found at i:13801102 original size:13 final size:13
Alignment explanation
Indices: 13801036--13801106 Score: 65
Period size: 13 Copynumber: 5.6 Consensus size: 13
13801026 ACCCTTGGTA
*
13801036 AAACCCT-AAGTG
1 AAACCCTAAAATG
** *
13801048 AAACCCTAAGGTA
1 AAACCCTAAAATG
13801061 AAACCCT-AAATG
1 AAACCCTAAAATG
* *
13801073 AAACCCTAAAGTA
1 AAACCCTAAAATG
*
13801086 AAACCCTAAAACG
1 AAACCCTAAAATG
13801099 AAACCCTA
1 AAACCCTA
13801107 TAACCCTTTG
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
12 16 0.34
13 31 0.66
ACGTcount: A:0.49, C:0.27, G:0.10, T:0.14
Consensus pattern (13 bp):
AAACCCTAAAATG
Found at i:13803645 original size:11 final size:13
Alignment explanation
Indices: 13803615--13803646 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
13803605 CTACAAAAGA
13803615 CACTGTAGCAAGT
1 CACTGTAGCAAGT
13803628 CACTGTAGC-AGT
1 CACTGTAGCAAGT
13803640 -ACTGTAG
1 CACTGTAG
13803647 ATAAAAATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.37
12 3 0.16
13 9 0.47
ACGTcount: A:0.28, C:0.22, G:0.25, T:0.25
Consensus pattern (13 bp):
CACTGTAGCAAGT
Found at i:13804883 original size:15 final size:15
Alignment explanation
Indices: 13804863--13804894 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
13804853 TCAGGCAATT
13804863 TCCAGATTTAATAGA
1 TCCAGATTTAATAGA
*
13804878 TCCAGATTTAATGGA
1 TCCAGATTTAATAGA
13804893 TC
1 TC
13804895 AACATCTTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (15 bp):
TCCAGATTTAATAGA
Found at i:13811022 original size:22 final size:21
Alignment explanation
Indices: 13810965--13811034 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 21
13810955 GTAGGCCACT
13810965 AAACAAAATAA-AATAAAATAAA
1 AAACAAAA-AATAA-AAAATAAA
* *
13810987 CCAAACAAAAAATATAAAATATA
1 --AAACAAAAAATAAAAAATAAA
13811010 AAACATAAAAATAAAAAATAAA
1 AAACA-AAAAATAAAAAATAAA
13811032 AAA
1 AAA
13811035 AAGTCATGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
21 5 0.12
22 17 0.43
23 9 0.22
24 9 0.22
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (21 bp):
AAACAAAAAATAAAAAATAAA
Found at i:13811025 original size:13 final size:13
Alignment explanation
Indices: 13810993--13811033 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 13
13810983 TAAACCAAAC
13810993 AAAAAATATAAAAT
1 AAAAAATA-AAAAT
13811007 ATAAAACATAAAAAT
1 A-AAAA-ATAAAAAT
13811022 AAAAAATAAAAA
1 AAAAAATAAAAA
13811034 AAAGTCATGC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 7 0.28
14 5 0.20
15 10 0.40
16 3 0.12
ACGTcount: A:0.80, C:0.02, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAAAATAAAAAT
Found at i:13811033 original size:14 final size:14
Alignment explanation
Indices: 13810979--13811034 Score: 51
Period size: 16 Copynumber: 3.8 Consensus size: 14
13810969 AAAATAAAAT
*
13810979 AAAATAAACCAAACAA
1 AAAATAAA--AAATAA
13810995 AAAATATAAAATATAA
1 AAAATA-AAAA-ATAA
*
13811011 AACAT-AAAAATAA
1 AAAATAAAAAATAA
13811024 AAAATAAAAAA
1 AAAATAAAAAA
13811035 AAGTCATGCA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
13 8 0.24
14 9 0.26
15 2 0.06
16 13 0.38
17 2 0.06
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (14 bp):
AAAATAAAAAATAA
Found at i:13811035 original size:8 final size:7
Alignment explanation
Indices: 13810979--13811034 Score: 51
Period size: 7 Copynumber: 7.6 Consensus size: 7
13810969 AAAATAAAAT
13810979 AAAATAA
1 AAAATAA
*
13810986 ACCAAACAA
1 A--AAATAA
13810995 AAAATATA
1 AAAATA-A
13811003 AAATATAA
1 AAA-ATAA
*
13811011 AACAT-A
1 AAAATAA
13811017 AAAATAA
1 AAAATAA
13811024 AAAATAA
1 AAAATAA
13811031 AAAA
1 AAAA
13811035 AAGTCATGCA
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
6 5 0.12
7 19 0.47
8 7 0.17
9 9 0.22
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:13812397 original size:32 final size:32
Alignment explanation
Indices: 13812338--13812410 Score: 101
Period size: 32 Copynumber: 2.2 Consensus size: 32
13812328 TTCCTTAGCA
* *
13812338 TTTGCTTAATATATTAAACTTGAATGGTTTGTG
1 TTTG-TTAACATATCAAACTTGAATGGTTTGTG
*
13812371 TTTGTTAACATATCAAACTTGCATGGTTTGTG
1 TTTGTTAACATATCAAACTTGAATGGTTTGTG
*
13812403 TCTGTTAA
1 TTTGTTAA
13812411 TGGTTTCTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
32 32 0.89
33 4 0.11
ACGTcount: A:0.26, C:0.10, G:0.18, T:0.47
Consensus pattern (32 bp):
TTTGTTAACATATCAAACTTGAATGGTTTGTG
Found at i:13813101 original size:24 final size:22
Alignment explanation
Indices: 13813059--13813103 Score: 72
Period size: 24 Copynumber: 2.0 Consensus size: 22
13813049 TTATTAAATC
13813059 ATTAAAAATAAAATAATAAAAG
1 ATTAAAAATAAAATAATAAAAG
13813081 ATTAATAAATAATAATAATAAAA
1 ATTAA-AAATAA-AATAATAAAA
13813104 TTTCAATGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 5 0.24
23 6 0.29
24 10 0.48
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (22 bp):
ATTAAAAATAAAATAATAAAAG
Found at i:13813260 original size:12 final size:12
Alignment explanation
Indices: 13813243--13813299 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
13813233 CTTTACATGG
*
13813243 AACCCTAAGTCA
1 AACCCTAAGTGA
13813255 AACCCTAAGTGA
1 AACCCTAAGTGA
** *
13813267 AACTATAAGATAA
1 AACCCTAAG-TGA
*
13813280 AACCCTAAATGA
1 AACCCTAAGTGA
13813292 AACCCTAA
1 AACCCTAA
13813300 AGTAAAACAG
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
12 28 0.78
13 8 0.22
ACGTcount: A:0.49, C:0.25, G:0.09, T:0.18
Consensus pattern (12 bp):
AACCCTAAGTGA
Found at i:13813305 original size:25 final size:25
Alignment explanation
Indices: 13813243--13813307 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 25
13813233 CTTTACATGG
* *
13813243 AACCCT-AAGTCAAACCCTAAGTGA
1 AACCCTAAAGTAAAACCCTAAATGA
13813267 AA--CTATAAGATAAAACCCTAAATGA
1 AACCCTA-AAG-TAAAACCCTAAATGA
13813292 AACCCTAAAGTAAAAC
1 AACCCTAAAGTAAAAC
13813308 AGTTAGCCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 2 0.06
24 5 0.15
25 21 0.62
26 3 0.09
27 3 0.09
ACGTcount: A:0.51, C:0.23, G:0.09, T:0.17
Consensus pattern (25 bp):
AACCCTAAAGTAAAACCCTAAATGA
Found at i:13829849 original size:47 final size:48
Alignment explanation
Indices: 13829776--13830155 Score: 461
Period size: 48 Copynumber: 8.0 Consensus size: 48
13829766 AGACTAGAAA
*
13829776 AGCCTTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
1 AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * *
13829824 AGCCCTTTTCAAAA-TGATTTTTAAAGTTACCTACCTATGTTTTTGGG
1 AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * * *
13829871 AGTCATTTTCAAAATTGATTTTTAAAGTCGCCTGTCTATGTTTATAGC
1 AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* *
13829919 AGCCCTTTTC-AAATTGATTTTTAAAGTCACTTGCCTATGTTTATAGA
1 AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * *
13829966 AGCCCTTTTGAAAATTGATTTTTAAAGTCATCTGCCTATGCTTATAGG
1 AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * *
13830014 AGTCCTTTTCAAAATTGATTTTTAAAGTCTCTTGCCTAT-TTCATAGG
1 AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
*
13830061 AG-CCTTTTCCAAAA-TGA-TTTTAAAGTCACTTGCCTATGTTTATAGG
1 AGCCCTTTT-CAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
* * * *
13830107 AGCCCTTCTT-AAAAATG-TCCTTTAAAGTCACTTGCTTATGTTTATAGG
1 AGCCCTT-TTCAAAATTGAT-TTTTAAAGTCACCTGCCTATGTTTATAGG
13830155 A
1 A
13830156 ACACTTATTA
Statistics
Matches: 287, Mismatches: 36, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
45 19 0.07
46 22 0.08
47 102 0.36
48 144 0.50
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (48 bp):
AGCCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGG
Found at i:13829888 original size:95 final size:94
Alignment explanation
Indices: 13829776--13830155 Score: 464
Period size: 95 Copynumber: 4.0 Consensus size: 94
13829766 AGACTAGAAA
13829776 AGCCTTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCCTTTTCAAAATGA
1 AGCC-TTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCCTTTTCAAAATGA
* * * *
13829841 TTTTTAAAGTTACCTACCTATGTTTTTGGG
65 TTTTTAAAGTTACTTGCCTATGTTTATAGG
* * * * *
13829871 AGTCATTTTCAAAATTGATTTTTAAAGTCGCCTGTCTATGTTTATAGCAGCCCTTTTCAAATTGA
1 AG-CCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCCTTTTCAAAATGA
* *
13829936 TTTTTAAAGTCACTTGCCTATGTTTATAGA
65 TTTTTAAAGTTACTTGCCTATGTTTATAGG
* * * *
13829966 AGCCCTTTTGAAAATTGATTTTTAAAGTCATCTGCCTATGCTTATAGGAGTCCTTTTCAAAATTG
1 AG-CCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCCTTTTCAAAA-TG
*
13830031 ATTTTTAAAGTCT-CTTGCCTAT-TTCATAGG
64 ATTTTTAAAGT-TACTTGCCTATGTTTATAGG
* *
13830061 AGCCTTTTCCAAAA-TGA-TTTTAAAGTCACTTGCCTATGTTTATAGGAGCCCTTCTTAAAAATG
1 AGCCTTTT-CAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCCTT-TTCAAAATG
* * *
13830124 -TCCTTTAAAGTCACTTGCTTATGTTTATAGG
64 AT-TTTTAAAGTTACTTGCCTATGTTTATAGG
13830155 A
1 A
13830156 ACACTTATTA
Statistics
Matches: 243, Mismatches: 34, Indels: 17
0.83 0.12 0.06
Matches are distributed among these distances:
92 1 0.00
93 50 0.21
94 23 0.09
95 146 0.60
96 23 0.09
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.42
Consensus pattern (94 bp):
AGCCTTTTCAAAATTGATTTTTAAAGTCACCTGCCTATGTTTATAGGAGCCCTTTTCAAAATGAT
TTTTAAAGTTACTTGCCTATGTTTATAGG
Found at i:13830224 original size:20 final size:18
Alignment explanation
Indices: 13830175--13830215 Score: 73
Period size: 18 Copynumber: 2.3 Consensus size: 18
13830165 AAAAAAAAAA
*
13830175 AAAACCTCCCCCAACATG
1 AAAACCTCCCTCAACATG
13830193 AAAACCTCCCTCAACATG
1 AAAACCTCCCTCAACATG
13830211 AAAAC
1 AAAAC
13830216 AAGTCCCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.39, G:0.05, T:0.12
Consensus pattern (18 bp):
AAAACCTCCCTCAACATG
Found at i:13832567 original size:7 final size:7
Alignment explanation
Indices: 13832551--13832665 Score: 86
Period size: 7 Copynumber: 15.4 Consensus size: 7
13832541 ATTGAAACTT
*
13832551 TAAAACC
1 TAAACCC
*
13832558 TAAACAC
1 TAAACCC
13832565 TAAACCC
1 TAAACCC
13832572 TAAACCCC
1 TAAA-CCC
13832580 TAAACCC
1 TAAACCC
13832587 TAAACCC
1 TAAACCC
*
13832594 TAAACCT
1 TAAACCC
*
13832601 TAAACCT
1 TAAACCC
13832608 TGAAACCC
1 T-AAACCC
13832616 TAAATCCC
1 TAAA-CCC
13832624 ATAAAATCCC
1 -T-AAA-CCC
*
13832634 TAAAACCT
1 T-AAACCC
* **
13832642 TAAGCTA
1 TAAACCC
*
13832649 TAAACCT
1 TAAACCC
13832656 TAAACCC
1 TAAACCC
13832663 TAA
1 TAA
13832666 CCTAGACCCC
Statistics
Matches: 90, Mismatches: 13, Indels: 10
0.80 0.12 0.09
Matches are distributed among these distances:
7 58 0.64
8 19 0.21
9 6 0.07
10 7 0.08
ACGTcount: A:0.45, C:0.33, G:0.02, T:0.20
Consensus pattern (7 bp):
TAAACCC
Found at i:13832590 original size:29 final size:28
Alignment explanation
Indices: 13832551--13832619 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
13832541 ATTGAAACTT
*
13832551 TAAAACCTAAACACTAAACCCTAAACCCC
1 TAAACCCTAAACACTAAACCCTAAA-CCC
* * *
13832580 TAAACCCTAAACCCTAAACCTTAAACCT
1 TAAACCCTAAACACTAAACCCTAAACCC
13832608 TGAAACCCTAAA
1 T-AAACCCTAAA
13832620 TCCCATAAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 32 0.91
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.17
Consensus pattern (28 bp):
TAAACCCTAAACACTAAACCCTAAACCC
Found at i:13832613 original size:22 final size:22
Alignment explanation
Indices: 13832556--13832665 Score: 87
Period size: 22 Copynumber: 4.9 Consensus size: 22
13832546 AACTTTAAAA
*
13832556 CCTAAACACTAAACCCTAAACC
1 CCTAAACCCTAAACCCTAAACC
13832578 CCTAAACCCTAAACCCTAAA-C
1 CCTAAACCCTAAACCCTAAACC
* *
13832599 CTTAAACCTTGAAACCCTAAATCC
1 CCTAAACCCT-AAACCCTAAA-CC
* * * *
13832623 CATAAAATCCCTAAAACCTTAAGC
1 CCT-AAA-CCCTAAACCCTAAACC
** *
13832647 TATAAACCTTAAACCCTAA
1 CCTAAACCCTAAACCCTAA
13832666 CCTAGACCCC
Statistics
Matches: 71, Mismatches: 12, Indels: 10
0.76 0.13 0.11
Matches are distributed among these distances:
21 9 0.13
22 39 0.55
23 3 0.04
24 6 0.08
25 11 0.15
26 3 0.04
ACGTcount: A:0.44, C:0.35, G:0.02, T:0.20
Consensus pattern (22 bp):
CCTAAACCCTAAACCCTAAACC
Found at i:13832805 original size:18 final size:17
Alignment explanation
Indices: 13832782--13832842 Score: 61
Period size: 18 Copynumber: 3.5 Consensus size: 17
13832772 CTTGTCATCA
13832782 CATGCACTTTTATATTGT
1 CATGCA-TTTTATATTGT
*
13832800 CATGCA-TTAATACTTTGT
1 CATGCATTTTATA--TTGT
*
13832818 CATTCATTTTATATTGT
1 CATGCATTTTATATTGT
*
13832835 CATACATT
1 CATGCATT
13832843 CGTCATATTA
Statistics
Matches: 36, Mismatches: 4, Indels: 7
0.77 0.09 0.15
Matches are distributed among these distances:
16 5 0.14
17 11 0.31
18 15 0.42
19 5 0.14
ACGTcount: A:0.26, C:0.16, G:0.08, T:0.49
Consensus pattern (17 bp):
CATGCATTTTATATTGT
Found at i:13832836 original size:17 final size:17
Alignment explanation
Indices: 13832789--13832842 Score: 56
Period size: 17 Copynumber: 3.1 Consensus size: 17
13832779 TCACATGCAC
*
13832789 TTTTATATTGTCATGCA
1 TTTTATATTGTCATACA
* *
13832806 -TTAATACTTTGTCATTCA
1 TTTTATA--TTGTCATACA
13832824 TTTTATATTGTCATACA
1 TTTTATATTGTCATACA
13832841 TT
1 TT
13832843 CGTCATATTA
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
16 5 0.17
17 11 0.37
18 9 0.30
19 5 0.17
ACGTcount: A:0.26, C:0.13, G:0.07, T:0.54
Consensus pattern (17 bp):
TTTTATATTGTCATACA
Found at i:13840247 original size:20 final size:19
Alignment explanation
Indices: 13840218--13840259 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
13840208 TAAACTTTTA
13840218 AAACCCTATGAGTAAAA-CCT
1 AAACCCTAT--GTAAAACCCT
*
13840238 AAACCTTATGTAAAACCCT
1 AAACCCTATGTAAAACCCT
13840257 AAA
1 AAA
13840260 ATCTTATATG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 6 0.30
19 6 0.30
20 8 0.40
ACGTcount: A:0.48, C:0.24, G:0.07, T:0.21
Consensus pattern (19 bp):
AAACCCTATGTAAAACCCT
Found at i:13840324 original size:21 final size:22
Alignment explanation
Indices: 13840284--13840347 Score: 82
Period size: 21 Copynumber: 3.1 Consensus size: 22
13840274 CCTAAACCCC
13840284 AAATG-AAACCTT-AAATCCTA
1 AAATGTAAACCTTGAAATCCTA
*
13840304 AAATGTAAA-CTTGAAACCCT-
1 AAATGTAAACCTTGAAATCCTA
*
13840324 ATATGTAAACCTTGAAATCCTA
1 AAATGTAAACCTTGAAATCCTA
13840346 AA
1 AA
13840348 TCCACCCAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
20 16 0.44
21 19 0.53
22 1 0.03
ACGTcount: A:0.47, C:0.19, G:0.08, T:0.27
Consensus pattern (22 bp):
AAATGTAAACCTTGAAATCCTA
Found at i:13845313 original size:16 final size:16
Alignment explanation
Indices: 13845282--13845311 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13845272 TTTTTTTATT
13845282 GCCATTTTTGGCTTTA
1 GCCATTTTTGGCTTTA
13845298 GCCA-TTTTGGCTTT
1 GCCATTTTTGGCTTT
13845312 TATTTTTACT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 10 0.71
16 4 0.29
ACGTcount: A:0.10, C:0.20, G:0.20, T:0.50
Consensus pattern (16 bp):
GCCATTTTTGGCTTTA
Found at i:13875916 original size:16 final size:16
Alignment explanation
Indices: 13875874--13875916 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
13875864 AGTTAGCTTC
*
13875874 TTTAAGTTTTCTTGTT
1 TTTAAGTTTTCATGTT
* *
13875890 TTTTATTTTTCATGTT
1 TTTAAGTTTTCATGTT
*
13875906 TTTAAGCTTTC
1 TTTAAGTTTTC
13875917 TTTAAGTTAT
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.67
Consensus pattern (16 bp):
TTTAAGTTTTCATGTT
Found at i:13879857 original size:20 final size:21
Alignment explanation
Indices: 13879832--13879878 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
13879822 TTGTAGGACA
*
13879832 TCTTGAAGAATCTTGGAAG-T
1 TCTTGAACAATCTTGGAAGAT
* *
13879852 TCTTGATCAATCTTGGATGAT
1 TCTTGAACAATCTTGGAAGAT
13879873 TCTTGA
1 TCTTGA
13879879 TATATTGGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 16 0.70
21 7 0.30
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (21 bp):
TCTTGAACAATCTTGGAAGAT
Found at i:13879877 original size:21 final size:20
Alignment explanation
Indices: 13879840--13879879 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
13879830 CATCTTGAAG
13879840 AATCTTGGAAGTTCTTGATC
1 AATCTTGGAAGTTCTTGATC
*
13879860 AATCTTGGATGATTCTTGAT
1 AATCTTGGAAG-TTCTTGAT
13879880 ATATTGGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.25, C:0.12, G:0.20, T:0.42
Consensus pattern (20 bp):
AATCTTGGAAGTTCTTGATC
Found at i:13881249 original size:187 final size:187
Alignment explanation
Indices: 13880929--13881491 Score: 914
Period size: 187 Copynumber: 3.0 Consensus size: 187
13880919 AAAAACAAAA
* * *
13880929 TTAAAACTTCATCTCTTTTGCAAGAACAAAATAAAATAGAAACATAAATCAAACACAGCTTGAAA
1 TTAAAACTTTATCTCTTTTGCAAGAACACAATAAAATAGAAACATAAATCAAATACAGCTT-AAA
* *
13880994 CTTTATCAACAAATAGCAAACGCAAAACATACAAGGAACACATGAAAAACACTTTGTAGAGCAGA
65 CTTTATCAACAAATAGCAAACACAAAACATACAAGGAACACATGAAAAACACTTTGTAGAGTAGA
*
13881059 TTATGGGGAGTGCAAGATGGCATGAAAATAAAGAATAGAAGTAGCAAATAGGAGCCCT
130 TTATGAGGAGTGCAAGATGGCATGAAAATAAAGAATAGAAGTAGCAAATAGGAGCCCT
13881117 TTAAAACTTTATCTCTTTTGCAAGAACACAATAAAATAGAAACATAAATCAAATACAGCTTAAAC
1 TTAAAACTTTATCTCTTTTGCAAGAACACAATAAAATAGAAACATAAATCAAATACAGCTTAAAC
* *
13881182 TTTATCAACAAATAGCAAACACAAAACATACAAGGAACACATGAAAAACACTTTGTAAAATAGAT
66 TTTATCAACAAATAGCAAACACAAAACATACAAGGAACACATGAAAAACACTTTGTAGAGTAGAT
13881247 TATGAGGAGTGCAAGATGGCATGAAAATAAAGAATAGAAGTAGCAAATAGGCA-CCCT
131 TATGAGGAGTGCAAGATGGCATGAAAATAAAGAATAGAAGTAGCAAATAGG-AGCCCT
* * *
13881304 TTAGAACTTTATCTCTTTTGCAAGAACACAATAAAATAGAAACTTTAATCAAATACAGCTTAAAC
1 TTAAAACTTTATCTCTTTTGCAAGAACACAATAAAATAGAAACATAAATCAAATACAGCTTAAAC
13881369 TTTATCAACAAATAGCAAACACAAAACATACAAGGAACACATGAAAAACACTTTGTAGAGTAGAT
66 TTTATCAACAAATAGCAAACACAAAACATACAAGGAACACATGAAAAACACTTTGTAGAGTAGAT
* * * * * * * *
13881434 TAT-ATGGAATACAAGATTGCCTAAAAACAAAGAATAGAAGTAGTAAATAGGCGCCCT
131 TATGA-GGAGTGCAAGATGGCATGAAAATAAAGAATAGAAGTAGCAAATAGGAGCCCT
13881491 T
1 T
13881492 CAATGCTTGC
Statistics
Matches: 351, Mismatches: 21, Indels: 7
0.93 0.06 0.02
Matches are distributed among these distances:
186 1 0.00
187 291 0.83
188 59 0.17
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (187 bp):
TTAAAACTTTATCTCTTTTGCAAGAACACAATAAAATAGAAACATAAATCAAATACAGCTTAAAC
TTTATCAACAAATAGCAAACACAAAACATACAAGGAACACATGAAAAACACTTTGTAGAGTAGAT
TATGAGGAGTGCAAGATGGCATGAAAATAAAGAATAGAAGTAGCAAATAGGAGCCCT
Found at i:13882218 original size:145 final size:145
Alignment explanation
Indices: 13881921--13882219 Score: 379
Period size: 145 Copynumber: 2.1 Consensus size: 145
13881911 GATTTTAAAA
* * * * *
13881921 CACCAAAAATCATGAAATATTATAAGATTATGATCTGAAAAAATTTGTGAAATTTTGAGCTCGAA
1 CACCAAAAAACATGAAATATTATAAAACTAGGATCTGAAAAAATTTGTCAAATTTTGAGCTCGAA
* * * * *
13881986 AAGGCTAAATTATGAAAATATCCCTATGAGGGTTTTTTGGTAATTTCACACTTCTCGGGGTACTG
66 AAGGCCAAATTACGAAAATATCCCTATGAGGGTATTTTGGTAATTTCACACTTCTCGGGATACTA
* *
13882051 TTATAATTTCAAATG
131 CTATAATTCCAAATG
* * * ** *
13882066 CATCAAAAAACATGAAATATTATAAAACTAGGATTTGGAAAGTTTTGTCAAATTTTGAGCTTGAA
1 CACCAAAAAACATGAAATATTATAAAACTAGGATCTGAAAAAATTTGTCAAATTTTGAGCTCGAA
13882131 AAGGCCAAATTACGAAAATATCCCTCAT-AGGGTATTTTGGTAATTTCACACTT-TCTGGGATAC
66 AAGGCCAAATTACGAAAATATCCCT-ATGAGGGTATTTTGGTAATTTCACACTTCTC-GGGATAC
*
13882194 TACTATGATTCCAAACT-
129 TACTATAATTCCAAA-TG
13882211 CACCAAAAA
1 CACCAAAAA
13882220 TTACAAAAGT
Statistics
Matches: 131, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
144 2 0.02
145 126 0.96
146 3 0.02
ACGTcount: A:0.38, C:0.14, G:0.15, T:0.32
Consensus pattern (145 bp):
CACCAAAAAACATGAAATATTATAAAACTAGGATCTGAAAAAATTTGTCAAATTTTGAGCTCGAA
AAGGCCAAATTACGAAAATATCCCTATGAGGGTATTTTGGTAATTTCACACTTCTCGGGATACTA
CTATAATTCCAAATG
Found at i:13888716 original size:10 final size:10
Alignment explanation
Indices: 13888701--13888726 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
13888691 GAGGTATGTA
13888701 AAAATTGCTC
1 AAAATTGCTC
13888711 AAAATTGCTC
1 AAAATTGCTC
13888721 AAAATT
1 AAAATT
13888727 TTTAGAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (10 bp):
AAAATTGCTC
Found at i:13889382 original size:21 final size:19
Alignment explanation
Indices: 13889345--13889386 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 19
13889335 TGAAAAATTG
*
13889345 AAGAAAAAAAGAGAAGAAA
1 AAGAAAAAAAGAAAAGAAA
13889364 AAGAAAAAAACTGAAAAGAAA
1 AAGAAAAAAA--GAAAAGAAA
13889385 AA
1 AA
13889387 AAACCAAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (19 bp):
AAGAAAAAAAGAAAAGAAA
Found at i:13889868 original size:24 final size:24
Alignment explanation
Indices: 13889841--13889890 Score: 100
Period size: 24 Copynumber: 2.1 Consensus size: 24
13889831 TGTGAAACCA
13889841 TAGCCTAGGTAGATTCTTGTATAT
1 TAGCCTAGGTAGATTCTTGTATAT
13889865 TAGCCTAGGTAGATTCTTGTATAT
1 TAGCCTAGGTAGATTCTTGTATAT
13889889 TA
1 TA
13889891 ACACTTGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (24 bp):
TAGCCTAGGTAGATTCTTGTATAT
Found at i:13893917 original size:39 final size:39
Alignment explanation
Indices: 13893874--13893949 Score: 107
Period size: 39 Copynumber: 1.9 Consensus size: 39
13893864 AACCATAAGC
* *
13893874 TATGTGCATTACAATGATTTCATCATTTAGACTAAGTAG
1 TATGTACATTACAATGATTTCATCATTTAAACTAAGTAG
* **
13893913 TATGTACCTTGTAATGATTTCATCATTTAAACTAAGT
1 TATGTACATTACAATGATTTCATCATTTAAACTAAGT
13893950 TACACATGCA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (39 bp):
TATGTACATTACAATGATTTCATCATTTAAACTAAGTAG
Found at i:13896329 original size:20 final size:18
Alignment explanation
Indices: 13896290--13896326 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
13896280 ATTTGCATGG
13896290 ATATATAAAGACTTCTAA
1 ATATATAAAGACTTCTAA
13896308 ATATATAAAGACTTCTAA
1 ATATATAAAGACTTCTAA
13896326 A
1 A
13896327 AATGGGGCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATATATAAAGACTTCTAA
Found at i:13896443 original size:79 final size:79
Alignment explanation
Indices: 13896308--13896453 Score: 229
Period size: 79 Copynumber: 1.8 Consensus size: 79
13896298 AGACTTCTAA
* * *
13896308 ATATATAAAGACTTCTAAAAATGGGGCAACATACACATGATATTTTAATTCAAAATTAATTTTCT
1 ATATATAAAGACTTATAAAAATAGGGCAACATACACATGATATTTAAATTCAAAATTAATTTTCT
13896373 TCAAATTTGCATGG
66 TCAAATTTGCATGG
* * * *
13896387 ATATATAAAGACTTATAAACATAGGGCAACATGCATATGATATTTAAATTCGAAATTAATTTTCT
1 ATATATAAAGACTTATAAAAATAGGGCAACATACACATGATATTTAAATTCAAAATTAATTTTCT
13896452 TC
66 TC
13896454 CTTTCAAAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
79 60 1.00
ACGTcount: A:0.41, C:0.12, G:0.11, T:0.36
Consensus pattern (79 bp):
ATATATAAAGACTTATAAAAATAGGGCAACATACACATGATATTTAAATTCAAAATTAATTTTCT
TCAAATTTGCATGG
Found at i:13900842 original size:13 final size:13
Alignment explanation
Indices: 13900802--13900862 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
13900792 AAATTTGATT
13900802 TTTTA-GGTTTCA
1 TTTTAGGGTTTCA
* * *
13900814 TTTAAGGTTTTAA
1 TTTTAGGGTTTCA
13900827 TTTTAGGGTTTCA
1 TTTTAGGGTTTCA
*
13900840 TTTT-GAGTTTCA
1 TTTTAGGGTTTCA
*
13900852 CTTTAGGGTTT
1 TTTTAGGGTTT
13900863 TGCTCTAGGA
Statistics
Matches: 38, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
12 14 0.37
13 24 0.63
ACGTcount: A:0.18, C:0.07, G:0.20, T:0.56
Consensus pattern (13 bp):
TTTTAGGGTTTCA
Found at i:13901119 original size:7 final size:7
Alignment explanation
Indices: 13901107--13901135 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
13901097 ATTCCCTCTT
13901107 TTTATTA
1 TTTATTA
13901114 TTTATTA
1 TTTATTA
13901121 TTTATTA
1 TTTATTA
13901128 -TTATTA
1 TTTATTA
13901134 TT
1 TT
13901136 ATTTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:13901269 original size:4 final size:4
Alignment explanation
Indices: 13901256--13901296 Score: 50
Period size: 4 Copynumber: 10.8 Consensus size: 4
13901246 TATCTAAAAC
* *
13901256 TAAA -AAA TAAA TAAA T-AA TAAA CAAA TAAA TATA TAAA TAA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAA
13901297 TACTTTACTC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
3 6 0.19
4 25 0.81
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.24
Consensus pattern (4 bp):
TAAA
Found at i:13901284 original size:15 final size:16
Alignment explanation
Indices: 13901264--13901293 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13901254 ACTAAAAAAT
13901264 AAATAAATA-ATAAAC
1 AAATAAATATATAAAC
13901279 AAATAAATATATAAA
1 AAATAAATATATAAA
13901294 TAATACTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.23
Consensus pattern (16 bp):
AAATAAATATATAAAC
Found at i:13901284 original size:19 final size:18
Alignment explanation
Indices: 13901256--13901292 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
13901246 TATCTAAAAC
13901256 TAAAAAATAAATAAATAA
1 TAAAAAATAAATAAATAA
*
13901274 TAAACAAATAAATATATAA
1 TAAA-AAATAAATAAATAA
13901293 ATAATACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 4 0.24
19 13 0.76
ACGTcount: A:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (18 bp):
TAAAAAATAAATAAATAA
Found at i:13901286 original size:23 final size:23
Alignment explanation
Indices: 13901252--13901298 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13901242 ATTTTATCTA
13901252 AAACTAAAAAATAAATAAATAAT
1 AAACTAAAAAATAAATAAATAAT
*
13901275 AAAC-AAATAAATATATAAATAAT
1 AAACTAAA-AAATAAATAAATAAT
13901298 A
1 A
13901299 CTTTACTCAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 19 0.86
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.23
Consensus pattern (23 bp):
AAACTAAAAAATAAATAAATAAT
Found at i:13902589 original size:13 final size:13
Alignment explanation
Indices: 13902568--13902614 Score: 51
Period size: 13 Copynumber: 3.7 Consensus size: 13
13902558 GATTTTAATC
* *
13902568 TTAGTGTTTCGAT
1 TTAGGGTTTCTAT
13902581 TTAGGGTTT-TAT
1 TTAGGGTTTCTAT
* *
13902593 CTAGGGTTTCTTT
1 TTAGGGTTTCTAT
13902606 TTAGGGTTT
1 TTAGGGTTT
13902615 TGGGTGTCAC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
12 10 0.36
13 18 0.64
ACGTcount: A:0.13, C:0.06, G:0.26, T:0.55
Consensus pattern (13 bp):
TTAGGGTTTCTAT
Done.