Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 102 of 198
Found at i:32712583 original size:13 final size:13
Alignment explanation
Indices: 32712563--32712598 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
32712553 CAAAGTCAAG
32712563 AAAAATTTTATTA
1 AAAAATTTTATTA
* *
32712576 AGAAATTTTGTTA
1 AAAAATTTTATTA
32712589 AAAAATTTTA
1 AAAAATTTTA
32712599 CCGTTTACGT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (13 bp):
AAAAATTTTATTA
Found at i:32713252 original size:25 final size:25
Alignment explanation
Indices: 32713224--32713309 Score: 84
Period size: 25 Copynumber: 3.4 Consensus size: 25
32713214 TGTTCCGCCC
*
32713224 CACATCTCGTAGGAGCTTACCGATT
1 CACAGCTCGTAGGAGCTTACCGATT
* *
32713249 CACAGCTCGTATGAGCTTACTGATT
1 CACAGCTCGTAGGAGCTTACCGATT
* * * *
32713274 TACAGCTTG-AGAGAGCATACCAATT
1 CACAGCTCGTAG-GAGCTTACCGATT
*
32713299 CATAGCTCGTA
1 CACAGCTCGTA
32713310 TAAGCATAGA
Statistics
Matches: 47, Mismatches: 12, Indels: 3
0.76 0.19 0.05
Matches are distributed among these distances:
24 1 0.02
25 45 0.96
26 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (25 bp):
CACAGCTCGTAGGAGCTTACCGATT
Found at i:32716064 original size:54 final size:54
Alignment explanation
Indices: 32716006--32716124 Score: 139
Period size: 54 Copynumber: 2.2 Consensus size: 54
32715996 GACACAAACG
** * * * *
32716006 CTTTTCTTTTAGATATGCCAAAAATGCTTTCTGTACAGAGGTTTGCCATAAAGA
1 CTTTTCTTTTAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
* * * *
32716060 CTTTTCTTTCAGATACACCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGG
1 CTTTTCTTTTAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
*
32716114 CTTTTCCTTTA
1 CTTTTCTTTTA
32716125 TAGAGGTTTT
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.38
Consensus pattern (54 bp):
CTTTTCTTTTAGATACACCAAAAAGGATTTCTATAAAGAGGTTTGCCATAAAGA
Found at i:32716072 original size:28 final size:28
Alignment explanation
Indices: 32715968--32716375 Score: 156
Period size: 28 Copynumber: 14.7 Consensus size: 28
32715958 ACAAAGATTC
* * * *
32715968 GCCACAAAGGCTTTCCTTTTAGAGGCTC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * * *
32715996 GACACAAACGCTTTTCTTTTAGA--TAT
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * *
32716022 GCCAAAAATGC-TTTCTGTACAGAGGTTT
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
* * **
32716050 GCCATAAAGACTTTTCTTTCAGA--TAC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * **
32716076 ACCACAAAGGATTTT-TATAAAGAGGTTT
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
* *
32716104 GCCATAAAGGCTTTTCCTTTATAGAGGTTT
1 GCCACAAAGGCTTTT-CTTT-CAGAGGTTT
* * ** * *
32716134 TCCACAAAGGC-TGTCTAGACAGTGGTTC
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
** *
32716162 GCCACAAAATCTTTTCTTTAAGAGGTTT
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* ** *
32716190 GCCATAAAGGCTTTT-TGTAAAGAGGTTC
1 GCCACAAAGGCTTTTCT-TTCAGAGGTTT
* * * *
32716218 ACCAAAAAGGCTTTCCTTTCAGAGGCTT
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
**
32716246 GCCACAAAGGCTTTTCTTTCAGA--TAC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* * * * * * *
32716272 ACCAAAAAGGCTTAT-GTACAAAGGTTC
1 GCCACAAAGGCTTTTCTTTCAGAGGTTT
* *
32716299 GCTACAAAGGC-TTTCTTTTCAAAGGTTT
1 GCCACAAAGGCTTTTC-TTTCAGAGGTTT
* * * *
32716327 TCCACAAAGGTTTATTTTTTATAGAGGTTT
1 GCCACAAAGGCTT-TTCTTT-CAGAGGTTT
* *
32716357 GCAACAAAGGCTATTCTTT
1 GCCACAAAGGCTTTTCTTT
32716376 TAGAAATGCC
Statistics
Matches: 268, Mismatches: 91, Indels: 41
0.67 0.23 0.10
Matches are distributed among these distances:
25 10 0.04
26 42 0.16
27 11 0.04
28 147 0.55
29 22 0.08
30 36 0.13
ACGTcount: A:0.29, C:0.19, G:0.18, T:0.34
Consensus pattern (28 bp):
GCCACAAAGGCTTTTCTTTCAGAGGTTT
Found at i:32716217 original size:56 final size:55
Alignment explanation
Indices: 32716077--32716260 Score: 172
Period size: 56 Copynumber: 3.3 Consensus size: 55
32716067 TTCAGATACA
* * * * *
32716077 CCACAAAGGATTTTTATAAAGAGGTTTGCCATAAAGGCTTTTCCTTTATAGAGGTTTT
1 CCACAAAGGCTTTTTGTAAAGAGGTTCGCCA-AAAAGCTTTT-CTTTA-AGAGGTTTG
* * * * *
32716135 CCACAAAGGCTGTCTAG-ACAGTGGTTCGCCACAAAATCTTTTCTTTAAGAGGTTTG
1 CCACAAAGGCT-TTTTGTAAAGAGGTTCGCCA-AAAAGCTTTTCTTTAAGAGGTTTG
* * * * *
32716191 CCATAAAGGCTTTTTGTAAAGAGGTTCACCAAAAAGGCTTTCCTTTCAGAGGCTTG
1 CCACAAAGGCTTTTTGTAAAGAGGTTCGCCAAAAA-GCTTTTCTTTAAGAGGTTTG
32716247 CCACAAAGGCTTTT
1 CCACAAAGGCTTTT
32716261 CTTTCAGATA
Statistics
Matches: 101, Mismatches: 22, Indels: 8
0.77 0.17 0.06
Matches are distributed among these distances:
55 7 0.07
56 58 0.57
57 5 0.05
58 29 0.29
59 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.20, T:0.33
Consensus pattern (55 bp):
CCACAAAGGCTTTTTGTAAAGAGGTTCGCCAAAAAGCTTTTCTTTAAGAGGTTTG
Found at i:32716260 original size:84 final size:84
Alignment explanation
Indices: 32715965--32716368 Score: 247
Period size: 84 Copynumber: 4.8 Consensus size: 84
32715955 TGTACAAAGA
* * * * * *
32715965 TTCGCCACAAAGGCTTTCCTTTTAGAGGCTCGACACAAACGCTTTTCTTTTAGA--TATGCCAAA
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTAAGAGGTTTGCCAAA
* * *
32716028 AATGCTTTCTGTACAGAGG
66 AAGGCTTTTTGTAAAGAGG
* * * * ** * * * *
32716047 TTTGCCATAAAGACTTTTCTTTCAGATAC--ACCACAAAGGATTTT-TATAAAGAGGTTTGCCAT
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCT-TTAAGAGGTTTGCCAA
* *
32716109 AAAGGCTTTTCCTTTATAGAGG
65 AAAGGCTTTT--TGTAAAGAGG
** * ** * **
32716131 TTTTCCACAAAGGCTGT-CTAGACAGTGG-TTCGCCACAAAATCTTTTCTTTAAGAGGTTTGCCA
1 TTCGCCACAAAGGCTTTCCT-TTCAGAGGCTT-GCCACAAAGGCTTTTCTTTAAGAGGTTTGCCA
*
32716194 TAAAGGCTTTTTGTAAAGAGG
64 AAAAGGCTTTTTGTAAAGAGG
* * * ***
32716215 TTCACCAAAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTCAGA--TACACCAAA
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTAAGAGGTTTGCCAAA
*
32716278 AAGGC-TTATGTACAA-AGG
66 AAGGCTTTTTGTA-AAGAGG
* * * * * * *
32716296 TTCGCTACAAAGGCTTTCTTTTCAAAGGTTTTCCACAAAGGTTTATTTTTTATAGAGGTTTG-CA
1 TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTT-TTCTTTA-AGAGGTTTGCCA
32716360 ACAAAGGCT
64 A-AAAGGCT
32716369 ATTCTTTTAG
Statistics
Matches: 240, Mismatches: 63, Indels: 34
0.71 0.19 0.10
Matches are distributed among these distances:
79 1 0.00
80 15 0.06
81 45 0.19
82 53 0.22
83 5 0.02
84 73 0.30
85 11 0.05
86 36 0.15
87 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.33
Consensus pattern (84 bp):
TTCGCCACAAAGGCTTTCCTTTCAGAGGCTTGCCACAAAGGCTTTTCTTTAAGAGGTTTGCCAAA
AAGGCTTTTTGTAAAGAGG
Found at i:32716377 original size:30 final size:28
Alignment explanation
Indices: 32716291--32716377 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 28
32716281 GCTTATGTAC
* *
32716291 AAAGGTTCGCTACAAAGGCT-TTCTTTT
1 AAAGGTTTGCAACAAAGGCTATTCTTTT
* * *
32716318 CAAAGGTTTTCCACAAAGGTTTATT-TTTT
1 -AAAGGTTTGCAACAAAGG-CTATTCTTTT
32716347 ATAGAGGTTTGCAACAAAGGCTATTCTTTT
1 A-A-AGGTTTGCAACAAAGGCTATTCTTTT
32716377 A
1 A
32716378 GAAATGCCAT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
28 16 0.34
29 10 0.21
30 21 0.45
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.39
Consensus pattern (28 bp):
AAAGGTTTGCAACAAAGGCTATTCTTTT
Found at i:32725241 original size:42 final size:42
Alignment explanation
Indices: 32725186--32725269 Score: 107
Period size: 42 Copynumber: 2.0 Consensus size: 42
32725176 ATTTTACGTC
* *
32725186 TAATAAACCTAAATTAAATAATAATTAG-ATTTAAATGTCAAT
1 TAATAAACATAAATTAAATAATAA-TAGTATTTAAATGCCAAT
* * *
32725228 TAATAAATATAAATTAAATTATAATAGTATTTAGATGCCAAT
1 TAATAAACATAAATTAAATAATAATAGTATTTAAATGCCAAT
32725270 ACAATTTATA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
41 3 0.08
42 33 0.92
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.37
Consensus pattern (42 bp):
TAATAAACATAAATTAAATAATAATAGTATTTAAATGCCAAT
Found at i:32725396 original size:6 final size:6
Alignment explanation
Indices: 32725385--32725460 Score: 152
Period size: 6 Copynumber: 12.7 Consensus size: 6
32725375 TTAAACTAAA
32725385 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
32725433 TTATTT TTATTT TTATTT TTATTT TTAT
1 TTATTT TTATTT TTATTT TTATTT TTAT
32725461 ATATCAATAA
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 70 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (6 bp):
TTATTT
Found at i:32729700 original size:13 final size:13
Alignment explanation
Indices: 32729684--32729708 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32729674 ACCAAAAAGG
32729684 TTTTACTAAAATA
1 TTTTACTAAAATA
32729697 TTTTACTAAAAT
1 TTTTACTAAAAT
32729709 TATGACTCAG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTACTAAAATA
Found at i:32732143 original size:26 final size:26
Alignment explanation
Indices: 32732087--32732293 Score: 110
Period size: 26 Copynumber: 7.5 Consensus size: 26
32732077 CATATAAGTG
* * *
32732087 AGCCTTTGTGGCTATCTTTGAATGGA
1 AGCCTTTGTGGCTATCTCTAAAAGGA
* *
32732113 CGCCTTTGTGGCTATCTCTAAAAAGA
1 AGCCTTTGTGGCTATCTCTAAAAGGA
* *
32732139 AGCCTTTGTGGCAATCTCTACTATAAAGA
1 AGCCTTTGTGGCTATCTCTA--A-AAGGA
* * * * *
32732168 TGCCTTTGTAGCGACCTCTGTTAAATGGA
1 AGCCTTTGTGGCTA--TCT-CTAAAAGGA
* * * * *
32732197 AGCCTTTTTGGATGTTTCTGTTAAAGGA
1 AGCCTTTGTGG--CTATCTCTAAAAGGA
*
32732225 AGCCTTTGTGGCTATATCTAAATA-GA
1 AGCCTTTGTGGCTATCTCTAAA-AGGA
* * *
32732251 CGTCTTTATGGCTATCTCTATTAAATGGA
1 AGCCTTTGTGGCTATCTCTA--AAA-GGA
32732280 AGCCTTTGTGGCTA
1 AGCCTTTGTGGCTA
32732294 ACTCAGCTAA
Statistics
Matches: 133, Mismatches: 35, Indels: 23
0.70 0.18 0.12
Matches are distributed among these distances:
26 63 0.47
27 2 0.02
28 19 0.14
29 43 0.32
30 1 0.01
31 3 0.02
32 2 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (26 bp):
AGCCTTTGTGGCTATCTCTAAAAGGA
Found at i:32732286 original size:29 final size:29
Alignment explanation
Indices: 32732087--32732293 Score: 141
Period size: 29 Copynumber: 7.5 Consensus size: 29
32732077 CATATAAGTG
*
32732087 AGCCTTTGTGGCTA--TCT-TTGAATGGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* *
32732113 CGCCTTTGTGGCTATCTCTA--AAA-AGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
*
32732139 AGCCTTTGTGGCAATCTCTACTATAAA--GA
1 AGCCTTTGTGGCTATCTCTA-T-TAAATGGA
* * * * *
32732168 TGCCTTTGTAGCGACCTCTGTTAAATGGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* * * * *
32732197 AGCCTTTTTGGATGTTTCTGTTAAA-GGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* *
32732225 AGCCTTTGTGGCTATATC---TAAATAGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
* * *
32732251 CGTCTTTATGGCTATCTCTATTAAATGGA
1 AGCCTTTGTGGCTATCTCTATTAAATGGA
32732280 AGCCTTTGTGGCTA
1 AGCCTTTGTGGCTA
32732294 ACTCAGCTAA
Statistics
Matches: 137, Mismatches: 31, Indels: 23
0.72 0.16 0.12
Matches are distributed among these distances:
25 4 0.03
26 49 0.36
27 6 0.04
28 21 0.15
29 54 0.39
30 3 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCCTTTGTGGCTATCTCTATTAAATGGA
Found at i:32732304 original size:29 final size:28
Alignment explanation
Indices: 32732218--32732306 Score: 69
Period size: 29 Copynumber: 3.2 Consensus size: 28
32732208 ATGTTTCTGT
32732218 TAAA-GGAAGCCTTTGTGGCT-A-T-ATC
1 TAAATGGAAGCCTTTGTGGCTAACTCA-C
* * * * * *
32732243 TAAATAGACGTCTTTATGGCTATCTCTAT
1 TAAATGGAAGCCTTTGTGGCTAACTC-AC
32732272 TAAATGGAAGCCTTTGTGGCTAACTCAGC
1 TAAATGGAAGCCTTTGTGGCTAACTCA-C
32732301 TAAATG
1 TAAATG
32732307 AATGTTTTGT
Statistics
Matches: 46, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
25 4 0.09
26 12 0.26
28 2 0.04
29 27 0.59
30 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (28 bp):
TAAATGGAAGCCTTTGTGGCTAACTCAC
Found at i:32736193 original size:25 final size:26
Alignment explanation
Indices: 32736148--32736210 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
32736138 TTGGCTCTCT
* *
32736148 TGAGCTTCTCA-TTTATGGCTC-GTA
1 TGAGCTTCCCATTTTATGGCTCGGAA
32736172 TGAGCTTCCCATTTTATGGCTCGGAA
1 TGAGCTTCCCATTTTATGGCTCGGAA
32736198 T-AGCTTCCCATTT
1 TGAGCTTCCCATTT
32736211 ACATGTTTGT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
24 10 0.29
25 22 0.63
26 3 0.09
ACGTcount: A:0.17, C:0.24, G:0.19, T:0.40
Consensus pattern (26 bp):
TGAGCTTCCCATTTTATGGCTCGGAA
Found at i:32739661 original size:15 final size:15
Alignment explanation
Indices: 32739636--32739678 Score: 52
Period size: 14 Copynumber: 2.7 Consensus size: 15
32739626 AAATATTTGA
32739636 ATTTTTTAAATA-AT
1 ATTTTTTAAATATAT
32739650 ATTTTTTCAAATATAT
1 ATTTTTT-AAATATAT
32739666 ATTATTTATAAAT
1 ATT-TTT-TAAAT
32739679 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
14 7 0.28
15 5 0.20
16 5 0.20
17 7 0.28
18 1 0.04
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTTTAAATATAT
Found at i:32745113 original size:25 final size:25
Alignment explanation
Indices: 32745085--32745137 Score: 106
Period size: 25 Copynumber: 2.1 Consensus size: 25
32745075 AAGGTTAAGC
32745085 TTTAATGTATAGTTTATATATGTTA
1 TTTAATGTATAGTTTATATATGTTA
32745110 TTTAATGTATAGTTTATATATGTTA
1 TTTAATGTATAGTTTATATATGTTA
32745135 TTT
1 TTT
32745138 TATAAGTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.58
Consensus pattern (25 bp):
TTTAATGTATAGTTTATATATGTTA
Found at i:32746526 original size:52 final size:50
Alignment explanation
Indices: 32746411--32746528 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
32746401 TAATAAAGTT
*
32746411 ATGCATTATGTAACTTCCATGCTAGTTAAGTATGCATCATAAATAATGAC
1 ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
* * *
32746461 ATGCATTATGTAACTCCCATGTTAGTTTAAGTTTGCATCATTAAATTAA-GTC
1 ATGCATTATGTAACTCCCATGCTAG-TTAAGTATGCATCA-TAAA-TAATGAC
* *
32746513 TTGCATTAAGTAACTC
1 ATGCATTATGTAACTC
32746529 ATTTGTCATT
Statistics
Matches: 59, Mismatches: 6, Indels: 4
0.86 0.09 0.06
Matches are distributed among these distances:
50 23 0.39
51 13 0.22
52 20 0.34
53 3 0.05
ACGTcount: A:0.33, C:0.16, G:0.14, T:0.37
Consensus pattern (50 bp):
ATGCATTATGTAACTCCCATGCTAGTTAAGTATGCATCATAAATAATGAC
Found at i:32748707 original size:12 final size:12
Alignment explanation
Indices: 32748690--32748716 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32748680 TGATATAAAC
32748690 TTTACAAAGGTG
1 TTTACAAAGGTG
32748702 TTTACAAAGGTG
1 TTTACAAAGGTG
32748714 TTT
1 TTT
32748717 GAATTATGGT
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:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (12 bp):
TTTACAAAGGTG
Found at i:32749116 original size:19 final size:18
Alignment explanation
Indices: 32749084--32749122 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 18
32749074 GTGACCCTTG
*
32749084 TTTTCAAAATTTTCAAAT
1 TTTTCAAAACTTTCAAAT
*
32749102 TTTTCTAAAACTTTCTAAT
1 TTTTC-AAAACTTTCAAAT
32749121 TT
1 TT
32749123 GTTTCAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 5 0.28
19 13 0.72
ACGTcount: A:0.33, C:0.13, G:0.00, T:0.54
Consensus pattern (18 bp):
TTTTCAAAACTTTCAAAT
Found at i:32750626 original size:21 final size:21
Alignment explanation
Indices: 32750602--32750644 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
32750592 GCAAAATAAA
**
32750602 TAAATAAATTTAGTTTAATTC
1 TAAATAAATTTAAATTAATTC
32750623 TAAATAAATTTAAATTAATTC
1 TAAATAAATTTAAATTAATTC
32750644 T
1 T
32750645 TAATTTTGAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.47, C:0.05, G:0.02, T:0.47
Consensus pattern (21 bp):
TAAATAAATTTAAATTAATTC
Found at i:32755235 original size:18 final size:18
Alignment explanation
Indices: 32755214--32755249 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
32755204 AACATTTCAA
*
32755214 TTAAAATGTATGTAAAAT
1 TTAAAAAGTATGTAAAAT
*
32755232 TTAAAAAGTATTTAAAAT
1 TTAAAAAGTATGTAAAAT
32755250 ATAATAAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (18 bp):
TTAAAAAGTATGTAAAAT
Found at i:32755759 original size:2 final size:2
Alignment explanation
Indices: 32755752--32755789 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
32755742 CACTGAAATC
32755752 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32755790 TACAAGGTTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32756199 original size:45 final size:47
Alignment explanation
Indices: 32756146--32756247 Score: 118
Period size: 49 Copynumber: 2.2 Consensus size: 47
32756136 TTCATATAGA
* * **
32756146 ACTACACTTCTTTTATTT-TATT-TTAGAATAAGATTTTTCAACCTT
1 ACTACACTTCATCTATTTATATTATTAGAATAAGATGCTTCAACCTT
* *
32756191 ATTACACTTCATCTATTTGATATTGATTAGAATAAGGTGCTTCAACCTT
1 ACTACACTTCATCTATTT-ATATT-ATTAGAATAAGATGCTTCAACCTT
32756240 ACTACACT
1 ACTACACT
32756248 CCTATTAGAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
45 15 0.33
47 4 0.09
49 27 0.59
ACGTcount: A:0.30, C:0.18, G:0.08, T:0.44
Consensus pattern (47 bp):
ACTACACTTCATCTATTTATATTATTAGAATAAGATGCTTCAACCTT
Found at i:32757821 original size:42 final size:42
Alignment explanation
Indices: 32757775--32757949 Score: 174
Period size: 42 Copynumber: 4.2 Consensus size: 42
32757765 GAAGCCCGAA
* * * *
32757775 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATTAT
1 GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
* * *
32757817 GGTTGAACGGAAGCTCGTAAGAGCTGAACAAAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
* * *
32757859 GGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCATAAG
1 GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
* * * * * *
32757901 GGTTAAACTA-AAGCTGAAAAAAGCTGAA-TGAAAACCCATTAG
1 GGTTGAAC-AGAAGCTCATAAGAGCTGAACAG-AAACCCATAAG
32757943 GGTTGAA
1 GGTTGAA
32757950 TGGAAAATCA
Statistics
Matches: 113, Mismatches: 18, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
41 1 0.01
42 112 0.99
ACGTcount: A:0.43, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
GGTTGAACAGAAGCTCATAAGAGCTGAACAGAAACCCATAAG
Found at i:32757858 original size:21 final size:21
Alignment explanation
Indices: 32757778--32757900 Score: 68
Period size: 21 Copynumber: 5.9 Consensus size: 21
32757768 GCCCGAAGGT
* * *
32757778 TGAACAGAAGCTCATGAGAGC
1 TGAACAGAAACCCATAAGAGC
* * *
32757799 TAAACAGAAACCCATTATG-GT
1 TGAACAGAAACCCA-TAAGAGC
* * * *
32757820 TGAACGGAAGCTCGTAAGAGC
1 TGAACAGAAACCCATAAGAGC
* * *
32757841 TGAACAAAAACCCATAAGGGT
1 TGAACAGAAACCCATAAGAGC
* * * * *
32757862 TAAACTGAAGCTCAAAAGAGC
1 TGAACAGAAACCCATAAGAGC
32757883 TGAACAGAAACCCATAAG
1 TGAACAGAAACCCATAAG
32757901 GGTTAAACTA
Statistics
Matches: 67, Mismatches: 33, Indels: 4
0.64 0.32 0.04
Matches are distributed among these distances:
20 3 0.04
21 62 0.93
22 2 0.03
ACGTcount: A:0.43, C:0.20, G:0.22, T:0.15
Consensus pattern (21 bp):
TGAACAGAAACCCATAAGAGC
Found at i:32757926 original size:84 final size:84
Alignment explanation
Indices: 32757775--32757946 Score: 193
Period size: 84 Copynumber: 2.0 Consensus size: 84
32757765 GAAGCCCGAA
* ** * * * * * *
32757775 GGTTGAACAGAAGCTCATGAGAGCTAAACAGAAACCCATTATGGTTGAACGGAAGCTCGTAAGAG
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTAAACGAAAGCTCGAAAAAG
32757840 CTGAACAAAAACCCATAAG
66 CTGAACAAAAACCCATAAG
* * *
32757859 GGTTAAACTGAAGCTCAAAAGAGCTGAACAGAAACCCATAAGGGTTAAACTAAAGCT-GAAAAAA
1 GGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTAAACGAAAGCTCG-AAAAA
** *
32757923 GCTGAATGAAAACCCATTAG
65 GCTGAACAAAAACCCATAAG
32757943 GGTT
1 GGTT
32757947 GAATGGAAAA
Statistics
Matches: 72, Mismatches: 15, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
83 1 0.01
84 71 0.99
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (84 bp):
GGTTAAACAGAAGCTCAAAAGAGCTAAACAGAAACCCATAAGGGTTAAACGAAAGCTCGAAAAAG
CTGAACAAAAACCCATAAG
Found at i:32763111 original size:15 final size:15
Alignment explanation
Indices: 32763093--32763121 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
32763083 TTAAATAAGT
32763093 AAATATAATAAATAG
1 AAATATAATAAATAG
32763108 AAATATAATAAATA
1 AAATATAATAAATA
32763122 ATAATACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (15 bp):
AAATATAATAAATAG
Found at i:32763158 original size:21 final size:23
Alignment explanation
Indices: 32763134--32763180 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
32763124 AATACAAAGC
32763134 TAATAGT-AT-AATATAATAA-TA
1 TAATAGTAATGAATA-AATAAGTA
32763155 TAATAGTAATGAATAAATAAGTA
1 TAATAGTAATGAATAAATAAGTA
32763178 TAA
1 TAA
32763181 AAAGAAAATG
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 7 0.30
22 7 0.30
23 9 0.39
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (23 bp):
TAATAGTAATGAATAAATAAGTA
Found at i:32763177 original size:15 final size:14
Alignment explanation
Indices: 32763109--32763173 Score: 55
Period size: 14 Copynumber: 4.6 Consensus size: 14
32763099 AATAAATAGA
*
32763109 AATATAATAAATAAT
1 AATATAAT-AGTAAT
*
32763124 AATACAA-AGCTAAT
1 AATATAATAG-TAAT
*
32763138 AGTATAATA-TAAT
1 AATATAATAGTAAT
32763151 AATATAATAGTAAT
1 AATATAATAGTAAT
32763165 GAATA-AATA
1 -AATATAATA
32763174 AGTATAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
13 13 0.32
14 17 0.41
15 11 0.27
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (14 bp):
AATATAATAGTAAT
Found at i:32770579 original size:93 final size:93
Alignment explanation
Indices: 32770405--32770580 Score: 205
Period size: 93 Copynumber: 1.9 Consensus size: 93
32770395 CATTATGGCG
* * * * *
32770405 AATCTTATCTCCTTGACGTTACAGTGGAGTAGATTGAAACCACTAATCTTATCCTCTTGAAGTTG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAACCACTAAACTTATCCTCTTGAAGTTG
* * *
32770470 TAGTGGGGCAGATTGAAGACGGGCTACA
66 CAGTAGAGCAGATTGAAGACGGGCTACA
*
32770498 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAAGCCAC-AAACATTAT-CTCTCTGAAG
1 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAA-CCACTAAAC-TTATCCTCT-TGAAG
* *
32770560 TTGCAGTAGAGTAGGTTGAAG
63 TTGCAGTAGAGCAGATTGAAG
32770581 TAACAAACCT
Statistics
Matches: 69, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
92 10 0.14
93 59 0.86
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (93 bp):
AATCTTATCTCCCTGAAGTTACAGTGGAGCAGACTGAAACCACTAAACTTATCCTCTTGAAGTTG
CAGTAGAGCAGATTGAAGACGGGCTACA
Found at i:32770587 original size:44 final size:44
Alignment explanation
Indices: 32770502--32770605 Score: 118
Period size: 44 Copynumber: 2.4 Consensus size: 44
32770492 GCTACAAATC
* *
32770502 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCCACAAACA
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGCAACAAACA
* * ** * * *
32770546 TTATCTCTCTGAAGTTGCAGTAGAGTAGGTTGAAGTAACAAACC
1 TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGCAACAAACA
*
32770590 TTATCCCCCTGAAGTT
1 TTATCTCCCTGAAGTT
32770606 ATAGTAGGGC
Statistics
Matches: 49, Mismatches: 11, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 49 1.00
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAAGCAACAAACA
Found at i:32770647 original size:44 final size:44
Alignment explanation
Indices: 32770495--32770647 Score: 112
Period size: 44 Copynumber: 3.5 Consensus size: 44
32770485 AAGACGGGCT
* * * * ** * **
32770495 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCC
1 ACAAACCTTATCTCCTTGAAGTTACAGTAGAGCAGGTTGAAGTA
* * *
32770539 ACAAACATTATCT-CTCTGAAGTTGCAGTAGAGTAGGTTGAAGTA
1 ACAAACCTTATCTCCT-TGAAGTTACAGTAGAGCAGGTTGAAGTA
* * * *
32770583 ACAAACCTTATCCCCCTGAAGTTATAGTAGGGCAGGTTG-AGTA
1 ACAAACCTTATCTCCTTGAAGTTACAGTAGAGCAGGTTGAAGTA
**
32770626 TACAAGTCTTATCTCCTTGAAG
1 -ACAAACCTTATCTCCTTGAAG
32770648 GCAGTGGAGC
Statistics
Matches: 85, Mismatches: 21, Indels: 6
0.76 0.19 0.05
Matches are distributed among these distances:
43 5 0.06
44 79 0.93
45 1 0.01
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
ACAAACCTTATCTCCTTGAAGTTACAGTAGAGCAGGTTGAAGTA
Found at i:32771081 original size:21 final size:19
Alignment explanation
Indices: 32771047--32771085 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
32771037 CCAATTATCA
*
32771047 AAGCCCATTTACAACATTAC
1 AAGCCCAATTACAA-ATTAC
32771067 AAGCCCAAATTACAAATTA
1 AAGCCC-AATTACAAATTA
32771086 AAACCTAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.46, C:0.26, G:0.05, T:0.23
Consensus pattern (19 bp):
AAGCCCAATTACAAATTAC
Found at i:32773975 original size:13 final size:13
Alignment explanation
Indices: 32773957--32773981 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32773947 AGTATAGTAA
32773957 AATATTTAAAAAG
1 AATATTTAAAAAG
32773970 AATATTTAAAAA
1 AATATTTAAAAA
32773982 ATTACTAATA
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:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (13 bp):
AATATTTAAAAAG
Found at i:32784186 original size:25 final size:25
Alignment explanation
Indices: 32784158--32784205 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
32784148 AATTCAAATA
*
32784158 AAATAAATTAAA-TTTGTAATAAAAG
1 AAATAAATGAAAGTTT-TAATAAAAG
*
32784183 AAATAGATGAAAGTTTTAATAAA
1 AAATAAATGAAAGTTTTAATAAA
32784206 CAACAAATGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 17 0.85
26 3 0.15
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.31
Consensus pattern (25 bp):
AAATAAATGAAAGTTTTAATAAAAG
Found at i:32788033 original size:26 final size:26
Alignment explanation
Indices: 32787997--32788047 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
32787987 TTGACAAAAG
32787997 ATGTTTTATTTCCGTGATAATCTTGA
1 ATGTTTTATTTCCGTGATAATCTTGA
32788023 ATGTTTTATTTCCGTGATAATCTTG
1 ATGTTTTATTTCCGTGATAATCTTG
32788048 GTGACTTTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.12, G:0.16, T:0.51
Consensus pattern (26 bp):
ATGTTTTATTTCCGTGATAATCTTGA
Found at i:32789305 original size:28 final size:29
Alignment explanation
Indices: 32789269--32789339 Score: 108
Period size: 28 Copynumber: 2.5 Consensus size: 29
32789259 AAAAATAAAA
32789269 ATTTACCAAAATATTACAACTTTTTT-TT
1 ATTTACCAAAATATTACAACTTTTTTATT
***
32789297 ATTTACCAAAATATTACTTTTTTTTTATT
1 ATTTACCAAAATATTACAACTTTTTTATT
32789326 ATTTACCAAAATAT
1 ATTTACCAAAATAT
32789340 ATCAAAAAAA
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 23 0.59
29 16 0.41
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.51
Consensus pattern (29 bp):
ATTTACCAAAATATTACAACTTTTTTATT
Found at i:32789440 original size:27 final size:27
Alignment explanation
Indices: 32789402--32789485 Score: 161
Period size: 27 Copynumber: 3.1 Consensus size: 27
32789392 CCTGATCACC
32789402 CCAATGCCATTGGCGGCACCAATGGTG
1 CCAATGCCATTGGCGGCACCAATGGTG
32789429 CCAATGCCATTGGCGGCACCAATGGTG
1 CCAATGCCATTGGCGGCACCAATGGTG
32789456 CCAATGCCATTGGCGGCACCAAT-GTG
1 CCAATGCCATTGGCGGCACCAATGGTG
32789482 CCAA
1 CCAA
32789486 AGGACTAAAA
Statistics
Matches: 57, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 7 0.12
27 50 0.88
ACGTcount: A:0.24, C:0.31, G:0.27, T:0.18
Consensus pattern (27 bp):
CCAATGCCATTGGCGGCACCAATGGTG
Found at i:32789661 original size:37 final size:37
Alignment explanation
Indices: 32789618--32789794 Score: 345
Period size: 37 Copynumber: 4.8 Consensus size: 37
32789608 TCACTTTTTT
32789618 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
32789655 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
32789692 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
32789729 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
1 ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
*
32789766 ATTTAATAACTTTATTTTAATTTAATAAA
1 ATTTAATAACTCTATTTTAATTTAATAAA
32789795 TTAAGTAAAC
Statistics
Matches: 139, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 139 1.00
ACGTcount: A:0.39, C:0.12, G:0.00, T:0.49
Consensus pattern (37 bp):
ATTTAATAACTCTATTTTAATTTAATAAACTATTCTC
Found at i:32789876 original size:18 final size:18
Alignment explanation
Indices: 32789849--32789895 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
32789839 AATTTAAAAT
*
32789849 ATAG-TTATTAAATGAGA
1 ATAGTTTATTAAATGAAA
*
32789866 ATAGTTTATTAAATTAAA
1 ATAGTTTATTAAATGAAA
32789884 ATAGATTTATTA
1 ATAG-TTTATTA
32789896 CTTAATTAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
17 4 0.15
18 15 0.58
19 7 0.27
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.43
Consensus pattern (18 bp):
ATAGTTTATTAAATGAAA
Found at i:32789894 original size:19 final size:19
Alignment explanation
Indices: 32789835--32789895 Score: 70
Period size: 19 Copynumber: 3.3 Consensus size: 19
32789825 CTGATATTTC
* * *
32789835 TATTAATTTAAAATATAGT
1 TATTAAATTAAAATAGATT
* *
32789854 TATTAAATGAGAATAG-TT
1 TATTAAATTAAAATAGATT
32789872 TATTAAATTAAAATAGATT
1 TATTAAATTAAAATAGATT
32789891 TATTA
1 TATTA
32789896 CTTAATTAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
18 15 0.44
19 19 0.56
ACGTcount: A:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (19 bp):
TATTAAATTAAAATAGATT
Found at i:32790476 original size:27 final size:27
Alignment explanation
Indices: 32790395--32790478 Score: 125
Period size: 27 Copynumber: 3.1 Consensus size: 27
32790385 TTTTAGTCCT
*
32790395 TTGGCA-CATTCGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
* *
32790421 TCGGCACCATTGGTGCCGCCAATTGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
*
32790448 TTGGCACCTTTGGTGCCGCCAATGGCA
1 TTGGCACCATTGGTGCCGCCAATGGCA
32790475 TTGG
1 TTGG
32790479 GGTGATCAGG
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
26 5 0.10
27 46 0.90
ACGTcount: A:0.17, C:0.30, G:0.29, T:0.25
Consensus pattern (27 bp):
TTGGCACCATTGGTGCCGCCAATGGCA
Found at i:32790572 original size:27 final size:26
Alignment explanation
Indices: 32790537--32790634 Score: 115
Period size: 29 Copynumber: 3.5 Consensus size: 26
32790527 TTTTTTTGAT
32790537 ATATTTTGGTAAATAATAAAAAAAGTA
1 ATATTTTGGTAAATAA-AAAAAAAGTA
32790564 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAA---GTA
* *
32790593 ATATTTTAGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAA--AGTA
*
32790621 ATATTTTGATAAAT
1 ATATTTTGGTAAAT
32790635 TTTTATTTTT
Statistics
Matches: 62, Mismatches: 4, Indels: 9
0.83 0.05 0.12
Matches are distributed among these distances:
26 7 0.11
27 16 0.26
28 15 0.24
29 24 0.39
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (26 bp):
ATATTTTGGTAAATAAAAAAAAAGTA
Found at i:32790610 original size:28 final size:28
Alignment explanation
Indices: 32790537--32790634 Score: 137
Period size: 28 Copynumber: 3.5 Consensus size: 28
32790527 TTTTTTTGAT
*
32790537 ATATTTTGGTAAATAATAAAAAA--AGTA
1 ATATTTTGGTAAATAA-AAAAAAGTTGTA
32790564 ATATTTTGGTAAATAAAAAAAAAGTTGTA
1 ATATTTTGGTAAAT-AAAAAAAAGTTGTA
*
32790593 ATATTTTAGTAAATAAAAAAAAGTTGTA
1 ATATTTTGGTAAATAAAAAAAAGTTGTA
*
32790621 ATATTTTGATAAAT
1 ATATTTTGGTAAAT
32790635 TTTTATTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 5
0.88 0.05 0.07
Matches are distributed among these distances:
27 20 0.31
28 28 0.44
29 16 0.25
ACGTcount: A:0.52, C:0.00, G:0.11, T:0.37
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTGTA
Found at i:32793985 original size:9 final size:10
Alignment explanation
Indices: 32793964--32793990 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
32793954 ACCTAAAAAG
32793964 AAAATAAGAA
1 AAAATAAGAA
32793974 AAAATAAGAA
1 AAAATAAGAA
32793984 AAAATAA
1 AAAATAA
32793991 TACAAATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.81, C:0.00, G:0.07, T:0.11
Consensus pattern (10 bp):
AAAATAAGAA
Found at i:32794092 original size:32 final size:32
Alignment explanation
Indices: 32794051--32794115 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
32794041 CGACAATGGT
*
32794051 GCCAAAAACTTGGTTCACAACGATATGTGAAA
1 GCCAAAAACTTGGTTCACAACGAAATGTGAAA
*
32794083 GCCAAAAACTTGGTTCACGACGAAATGTGAAA
1 GCCAAAAACTTGGTTCACAACGAAATGTGAAA
32794115 G
1 G
32794116 TGTATACAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.40, C:0.18, G:0.22, T:0.20
Consensus pattern (32 bp):
GCCAAAAACTTGGTTCACAACGAAATGTGAAA
Found at i:32794280 original size:19 final size:20
Alignment explanation
Indices: 32794258--32794302 Score: 67
Period size: 19 Copynumber: 2.4 Consensus size: 20
32794248 GGATAAAATT
*
32794258 AAATTAATTAA-CTAAATGC
1 AAATGAATTAACCTAAATGC
32794277 AAATGAATTAACCTAAATGC
1 AAATGAATTAACCTAAATGC
32794297 -AATGAA
1 AAATGAA
32794303 ATGGTTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.53, C:0.11, G:0.09, T:0.27
Consensus pattern (20 bp):
AAATGAATTAACCTAAATGC
Found at i:32804168 original size:36 final size:37
Alignment explanation
Indices: 32804121--32804193 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
32804111 GTCTCTAAAT
* * *
32804121 TCACATTTCAATTC-AATTTCACTTTTTTACTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTTCACTTTCAA
*
32804157 TCACAATTCAATTCAAAATTCACTTTTTCATTTTCAA
1 TCACAATTCAATTCAAAATTCACTTTTTCACTTTCAA
32804194 GTCAATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
36 13 0.41
37 19 0.59
ACGTcount: A:0.32, C:0.22, G:0.00, T:0.47
Consensus pattern (37 bp):
TCACAATTCAATTCAAAATTCACTTTTTCACTTTCAA
Found at i:32804570 original size:22 final size:24
Alignment explanation
Indices: 32804527--32804570 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
32804517 TAACTAAGTT
32804527 TACTTACTTTTCTACCTTAATTCA
1 TACTTACTTTTCTACCTTAATTCA
32804551 TACTT-CTTTTCTA-CTTAATT
1 TACTTACTTTTCTACCTTAATT
32804571 TCTTGCCATA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 8 0.40
24 5 0.25
ACGTcount: A:0.23, C:0.23, G:0.00, T:0.55
Consensus pattern (24 bp):
TACTTACTTTTCTACCTTAATTCA
Found at i:32805487 original size:13 final size:13
Alignment explanation
Indices: 32805469--32805494 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32805459 TAAGTTATAT
32805469 GTGTGAAAATTTG
1 GTGTGAAAATTTG
32805482 GTGTGAAAATTTG
1 GTGTGAAAATTTG
32805495 ATAGTTTGAA
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:0.31, C:0.00, G:0.31, T:0.38
Consensus pattern (13 bp):
GTGTGAAAATTTG
Found at i:32807287 original size:41 final size:41
Alignment explanation
Indices: 32807242--32807320 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
32807232 CAGCGAAGTT
* *
32807242 ATTCGGACTTTATGTCTAGCAGGCT-TTGTGCCGGTGAAATA
1 ATTCGGACTTTAAGTCTAGCAGGCTAAT-TGCCGGTGAAATA
32807283 ATTCGGACTTTAAGTCTAGCAGGCTAATTGCCGGTGAA
1 ATTCGGACTTTAAGTCTAGCAGGCTAATTGCCGGTGAA
32807321 TTGAATCAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 34 0.97
42 1 0.03
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.32
Consensus pattern (41 bp):
ATTCGGACTTTAAGTCTAGCAGGCTAATTGCCGGTGAAATA
Found at i:32808359 original size:2 final size:2
Alignment explanation
Indices: 32808348--32808379 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
32808338 AGTAAGTGAT
32808348 TA TA -A TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32808380 GAAAATGGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32809876 original size:51 final size:51
Alignment explanation
Indices: 32809805--32809989 Score: 208
Period size: 51 Copynumber: 3.6 Consensus size: 51
32809795 CCTCACAGTA
* * ** * *
32809805 TCTTTCATCTATGCTCTTACGCTACGTACTTTATACCAGACTGTTATAGCC
1 TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
* * * *
32809856 TCTTTCATTTATGGTTTTACGCCATATACCTTATACCAAACTGTCATAGCT
1 TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
* * * *
32809907 TCTTTCATCTATTGTCTTACACCATATACCTTATACTAGACTATCATAGCC
1 TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
* * * *
32809958 TCTTTCATCTATGATTTTATGTCATATACCTT
1 TCTTTCATCTATGGTCTTACGCCATATACCTT
32809990 CATCACGGTT
Statistics
Matches: 110, Mismatches: 24, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 110 1.00
ACGTcount: A:0.24, C:0.25, G:0.09, T:0.42
Consensus pattern (51 bp):
TCTTTCATCTATGGTCTTACGCCATATACCTTATACCAGACTGTCATAGCC
Found at i:32812040 original size:158 final size:158
Alignment explanation
Indices: 32811752--32812061 Score: 467
Period size: 158 Copynumber: 2.0 Consensus size: 158
32811742 GTTGACCTTA
* * * * *
32811752 ACAACAATATGAGGTTCCTTACGATCTAAAGGGATGAGAAGTAAGGAATGGTGCATGCCTTCTAA
1 ACAACAACATGAGGTTCCTTACAATCCAAAGGGATGAGAAGTAAGAAATGGTGCATGCCCTCTAA
*
32811817 TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCTAAGGCTCCTTCATTA
66 TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCCAAGGCTCCTTCATTA
32811882 GCTCATGAAATATCAAAGCCACACCCTC
131 GCTCATGAAATATCAAAGCCACACCCTC
* ** * * *
32811910 ACAACAACATGAGGTTCCTTATAATCCATGGGGATGAGAGGTAAGAAATGGTGTATGCCCTCTGA
1 ACAACAACATGAGGTTCCTTACAATCCAAAGGGATGAGAAGTAAGAAATGGTGCATGCCCTCTAA
* * *
32811975 TTCCCTCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATGATTCCAAGGCTCCTTTATTA
66 TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCCAAGGCTCCTTCATTA
* *
32812040 GCTCATGCATTATCAAAGCCAC
131 GCTCATGAAATATCAAAGCCAC
32812062 TATGTCCTTT
Statistics
Matches: 135, Mismatches: 17, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
158 135 1.00
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (158 bp):
ACAACAACATGAGGTTCCTTACAATCCAAAGGGATGAGAAGTAAGAAATGGTGCATGCCCTCTAA
TTCCCCCCATTTTTGTTCTAAACATTTCCCATATGCTACAATATAATTCCAAGGCTCCTTCATTA
GCTCATGAAATATCAAAGCCACACCCTC
Found at i:32821139 original size:31 final size:30
Alignment explanation
Indices: 32821097--32821172 Score: 93
Period size: 29 Copynumber: 2.5 Consensus size: 30
32821087 CTCAAACATT
*
32821097 CATG-AATTTTGATTTAATGTGTAATTATATA
1 CATGAAATTTTGATTT--TGTGCAATTATATA
* *
32821128 CAT-AAATTTTGATTTTGTGCAATTTTATT
1 CATGAAATTTTGATTTTGTGCAATTATATA
32821157 CATGAAATTTTGATTT
1 CATGAAATTTTGATTT
32821173 GATCTAATTC
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
29 14 0.35
30 12 0.30
31 14 0.35
ACGTcount: A:0.32, C:0.05, G:0.12, T:0.51
Consensus pattern (30 bp):
CATGAAATTTTGATTTTGTGCAATTATATA
Found at i:32821167 original size:30 final size:31
Alignment explanation
Indices: 32821094--32821172 Score: 101
Period size: 31 Copynumber: 2.6 Consensus size: 31
32821084 AATCTCAAAC
*
32821094 ATTCATG-AATTTTGATTTAATGTGTAATTAT
1 ATTCATGAAATTTTGATTT-ATGTGCAATTAT
* *
32821125 ATACAT-AAATTTTGATTT-TGTGCAATTTT
1 ATTCATGAAATTTTGATTTATGTGCAATTAT
32821154 ATTCATGAAATTTTGATTT
1 ATTCATGAAATTTTGATTT
32821173 GATCTAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
29 14 0.33
30 12 0.29
31 16 0.38
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.52
Consensus pattern (31 bp):
ATTCATGAAATTTTGATTTATGTGCAATTAT
Found at i:32828365 original size:16 final size:16
Alignment explanation
Indices: 32828344--32828376 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
32828334 CGATTGGAGT
*
32828344 AGTTAGTTTGTTTAGA
1 AGTTAGTCTGTTTAGA
32828360 AGTTAGTCTGTTTAGA
1 AGTTAGTCTGTTTAGA
32828376 A
1 A
32828377 TTTGTTAGCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.03, G:0.24, T:0.45
Consensus pattern (16 bp):
AGTTAGTCTGTTTAGA
Found at i:32833819 original size:17 final size:17
Alignment explanation
Indices: 32833797--32833829 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
32833787 AAAAACATAA
32833797 TAAAATATATAAAAAAC
1 TAAAATATATAAAAAAC
32833814 TAAAATATATAAAAAA
1 TAAAATATATAAAAAA
32833830 TACACCAAAC
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:0.73, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
TAAAATATATAAAAAAC
Found at i:32833823 original size:19 final size:20
Alignment explanation
Indices: 32833787--32833829 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
32833777 TTTTAGATTT
32833787 AAAAACATAATAAAATATATA
1 AAAAACATAATAAAATATA-A
*
32833808 AAAAAC-TAA-AATATATAA
1 AAAAACATAATAAAATATAA
32833826 AAAA
1 AAAA
32833830 TACACCAAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 5 0.24
19 7 0.33
20 3 0.14
21 6 0.29
ACGTcount: A:0.74, C:0.05, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAACATAATAAAATATAA
Found at i:32836532 original size:3 final size:3
Alignment explanation
Indices: 32836526--32836551 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32836516 TCAACAAATT
32836526 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
32836552 TTCTTATGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:32836782 original size:19 final size:18
Alignment explanation
Indices: 32836758--32836802 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
32836748 AAATATGTTT
32836758 TTAATTTAAAATAAAATTA
1 TTAATTTAAAAT-AAATTA
*
32836777 TTAATTAAAAATAAATTA
1 TTAATTTAAAATAAATTA
32836795 --AATTTAAA
1 TTAATTTAAA
32836803 TCAAATACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 7 0.29
18 6 0.25
19 11 0.46
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTTAAAATAAATTA
Found at i:32837049 original size:49 final size:49
Alignment explanation
Indices: 32836973--32837104 Score: 131
Period size: 49 Copynumber: 2.6 Consensus size: 49
32836963 TAAATTAAAG
* * * *
32836973 ACAAATAAAAACAAATTAGCTTCCTAAAACAATTAAAATTATATTATAT-TTAA
1 ACAAAT-AAAA-AAATGA-CTT-CTAAAAAAATCAAAATTAAATTATATATT-A
* *
32837026 ACAAGTAAAAATATGACTTCTAAAAAAATCAAAATTAAATTATATATTA
1 ACAAATAAAAAAATGACTTCTAAAAAAATCAAAATTAAATTATATATTA
*
32837075 ACAAATAAAAAAATGAAATTCCTAAAAAAA
1 ACAAATAAAAAAATG-ACTT-CTAAAAAAA
32837105 ATTAAATTGA
Statistics
Matches: 67, Mismatches: 9, Indels: 8
0.80 0.11 0.10
Matches are distributed among these distances:
49 37 0.55
50 8 0.12
51 13 0.19
52 4 0.06
53 5 0.07
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (49 bp):
ACAAATAAAAAAATGACTTCTAAAAAAATCAAAATTAAATTATATATTA
Found at i:32837100 original size:51 final size:50
Alignment explanation
Indices: 32836993--32837104 Score: 138
Period size: 49 Copynumber: 2.2 Consensus size: 50
32836983 ACAAATTAGC
* * * * * *
32836993 TTCCTAAAACAATTAAAATTATATTATATTTAAACAAGTAAAAATATGAC
1 TTCCTAAAAAAATCAAAATTAAATTATATTTAAACAAATAAAAAAATGAA
32837043 TT-CTAAAAAAATCAAAATTAAATTATATATT-AACAAATAAAAAAATGAAA
1 TTCCTAAAAAAATCAAAATTAAATTATAT-TTAAACAAATAAAAAAATG-AA
32837093 TTCCTAAAAAAA
1 TTCCTAAAAAAA
32837105 ATTAAATTGA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
49 37 0.70
50 7 0.13
51 9 0.17
ACGTcount: A:0.58, C:0.09, G:0.03, T:0.30
Consensus pattern (50 bp):
TTCCTAAAAAAATCAAAATTAAATTATATTTAAACAAATAAAAAAATGAA
Found at i:32837112 original size:51 final size:49
Alignment explanation
Indices: 32836993--32837135 Score: 130
Period size: 49 Copynumber: 2.8 Consensus size: 49
32836983 ACAAATTAGC
* * * * *
32836993 TTCCTAAAACAATTAAAATTATATTATATTTAAACAAGTAAAAATATGAC
1 TTCCTAAAAAAATT-AAATTAAATTATATTTAAACAAATAAAAAAATGAA
*
32837043 TT-CTAAAAAAATCAAAATTAAATTATATATT-AACAAATAAAAAAATGAAA
1 TTCCTAAAAAAAT-TAAATTAAATTATAT-TTAAACAAATAAAAAAATG-AA
* *
32837093 TTCCTAAAAAAAATTAAATTGAAATCTA-ATTAAAATAAATAAA
1 TTCCT-AAAAAAATTAAATT-AAAT-TATATTTAAACAAATAAA
32837136 TACTAATTGT
Statistics
Matches: 76, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
49 36 0.47
50 7 0.09
51 8 0.11
52 23 0.30
53 2 0.03
ACGTcount: A:0.59, C:0.08, G:0.03, T:0.31
Consensus pattern (49 bp):
TTCCTAAAAAAATTAAATTAAATTATATTTAAACAAATAAAAAAATGAA
Found at i:32837982 original size:23 final size:23
Alignment explanation
Indices: 32837948--32837993 Score: 56
Period size: 25 Copynumber: 1.9 Consensus size: 23
32837938 AAATACTTTA
*
32837948 ATTTAAATTATACATGTATATCT
1 ATTTAAATTATACATATATATCT
*
32837971 ATTTACAATATATATATATATAT
1 ATTTA-AAT-TATACATATATAT
32837994 ATAAGTATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 5 0.26
24 3 0.16
25 11 0.58
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (23 bp):
ATTTAAATTATACATATATATCT
Found at i:32846408 original size:47 final size:47
Alignment explanation
Indices: 32846343--32846435 Score: 150
Period size: 47 Copynumber: 2.0 Consensus size: 47
32846333 TCTCTATTTA
*
32846343 TTTTTCTTTATTTCCTTTAAATACTACTTAAAAATGTTAAAAACTAT
1 TTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAACTAT
* * *
32846390 TTTTTCTTTATTTCCTTTAAATATTAATTAAAAGTTTTAAAAACTA
1 TTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAACTA
32846436 ATCCATCTAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 42 1.00
ACGTcount: A:0.37, C:0.11, G:0.02, T:0.51
Consensus pattern (47 bp):
TTTTTCTTTATTTCCTTTAAATACTAATTAAAAATGTTAAAAACTAT
Found at i:32847006 original size:30 final size:29
Alignment explanation
Indices: 32846970--32847029 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 29
32846960 TAAATTAATG
32846970 ATCACATCTAATAATAACGATTAAAAAAAT
1 ATCACATCTAATAATAACGA-TAAAAAAAT
*
32847000 ATCACATTTAATAATAACGATAAAAAAAT
1 ATCACATCTAATAATAACGATAAAAAAAT
32847029 A
1 A
32847030 ATTGTTGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 10 0.34
30 19 0.66
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (29 bp):
ATCACATCTAATAATAACGATAAAAAAAT
Found at i:32855732 original size:2 final size:2
Alignment explanation
Indices: 32855727--32855765 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
32855717 TATACGCACC
32855727 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32855766 TCTTTTATAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32862355 original size:44 final size:44
Alignment explanation
Indices: 32862316--32862453 Score: 190
Period size: 44 Copynumber: 3.1 Consensus size: 44
32862306 ATTGAAGCCA
* *
32862316 GTGAATCCTATATCCCTGGTCAGTAGTGGAATAGGTTGAA-ATT
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
32862359 -TGTAAGTTCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
1 GTG-AA-TCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
* *
32862404 GTGAATCCTATCTCTCTGGTTAGCAGTGGAATAGGTTGAAGATT
1 GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
*
32862448 GCGAAT
1 GTGAAT
32862454 TTTACTTTCC
Statistics
Matches: 84, Mismatches: 7, Indels: 7
0.86 0.07 0.07
Matches are distributed among these distances:
42 2 0.02
43 2 0.02
44 73 0.87
45 5 0.06
46 2 0.02
ACGTcount: A:0.26, C:0.14, G:0.27, T:0.33
Consensus pattern (44 bp):
GTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATT
Found at i:32862684 original size:51 final size:51
Alignment explanation
Indices: 32862543--32862684 Score: 122
Period size: 51 Copynumber: 2.8 Consensus size: 51
32862533 TAGCTGAAGT
* * * ** * * **
32862543 GGAGCGGATTAATGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCTAGCATTACAAC
* * * * * * * * *
32862594 GCAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAAC
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCTAGCATTACAAC
32862645 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCT
32862685 GGTTAGCAGT
Statistics
Matches: 65, Mismatches: 26, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
51 65 1.00
ACGTcount: A:0.27, C:0.21, G:0.25, T:0.26
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTGAGGGCAGCGAATCCTATCTCCCTAGCATTACAAC
Found at i:32862876 original size:264 final size:264
Alignment explanation
Indices: 32862406--32862951 Score: 984
Period size: 264 Copynumber: 2.1 Consensus size: 264
32862396 TGAAGATTGT
*
32862406 GAATCCTATCTCTCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
1 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
* * *
32862471 ATAGCGGAGTAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCGGGCGTTAAGACTTAAAATAG
66 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTAAAATAG
*
32862536 CTGAAGTGGAGCGGATTAATGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
131 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
32862601 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
196 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
32862666 CAGC
261 CAGC
* **
32862670 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTGATGTT
1 GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
*
32862735 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAG
66 ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTAAAATAG
32862800 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
131 CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
*
32862865 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGCGGAGCAGATTAAAGCTGAGGG
196 ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
32862930 CAGC
261 CAGC
* *
32862934 AAATCTTATCTCCCTGGT
1 GAATCCTATCTCCCTGGT
32862952 GTTAAGACTT
Statistics
Matches: 270, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
264 270 1.00
ACGTcount: A:0.28, C:0.18, G:0.26, T:0.28
Consensus pattern (264 bp):
GAATCCTATCTCCCTGGTTAGCAGTGGAATAGGTTGAAGATTGCGAATTTTACTTTCCTAACATT
ATAGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTAAAATAG
CTGAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAG
ATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAACGGAGCAGATTAAAGCTGAGGG
CAGC
Found at i:32862935 original size:169 final size:168
Alignment explanation
Indices: 32862737--32863074 Score: 561
Period size: 169 Copynumber: 2.0 Consensus size: 168
32862727 CTGATGTTAT
32862737 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
*
32862802 GAAGTGGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
* * *
32862867 TAAAGCTA-AAGGTAGCGAATCTTGTTTCCCTAGCATTGC
131 TAAAGCTACAACG-A-CGAATCTTGTTTCCCCAACATTGC
* *
32862906 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCTGGTGTTAAGACTTGAAATAGCT
1 AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
* *
32862971 GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATTTCTTTGGCATTATAGTGGAACAGAT
66 GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
* *
32863036 TGAAGCTACGACGACGAATCTTGTTTCCCCAACATTGC
131 TAAAGCTACAACGACGAATCTTGTTTCCCCAACATTGC
32863074 A
1 A
32863075 ATTTAAAAGA
Statistics
Matches: 158, Mismatches: 10, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
168 23 0.15
169 133 0.84
170 2 0.01
ACGTcount: A:0.29, C:0.19, G:0.26, T:0.26
Consensus pattern (168 bp):
AGCGGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCAGGCGTTAAGACTTGAAATAGCT
GAAGTGGAGCGGATTAAAGCTGTGGCCAGCGAATCCTATCTCTTTGGCATTATAGTGCAACAGAT
TAAAGCTACAACGACGAATCTTGTTTCCCCAACATTGC
Found at i:32862948 original size:51 final size:51
Alignment explanation
Indices: 32862807--32862948 Score: 131
Period size: 51 Copynumber: 2.8 Consensus size: 51
32862797 TAGCTGAAGT
* * * ** * * *
32862807 GGAGCGGATTAAAGCTGTGGGCAGCGAATCCTATCTCTTTGGCATTATAGT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTACAGC
* * * * * * * *
32862858 GCAACAGATTAAAGCTAAAGGTAGCGAATCTTGTTTCCCTAGCATTGCAGC
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTACAGC
*
32862909 GGAGCAGATTAAAGCTGAGGGCAGCAAATCTTATCTCCCT
1 GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCT
32862949 GGTGTTAAGA
Statistics
Matches: 67, Mismatches: 24, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
51 67 1.00
ACGTcount: A:0.28, C:0.20, G:0.25, T:0.26
Consensus pattern (51 bp):
GGAGCAGATTAAAGCTGAGGGCAGCGAATCTTATCTCCCTAGCATTACAGC
Found at i:32865114 original size:26 final size:26
Alignment explanation
Indices: 32865069--32865120 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
32865059 CATTGTCATT
*
32865069 GTTTATTTATTTATTTATATTAATTTC
1 GTTTATTTATCTATTTATATT-ATTTC
32865096 GTTTATTTA-CTATTTATATTATTTC
1 GTTTATTTATCTATTTATATTATTTC
32865121 TATACAATTG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 5 0.21
26 10 0.42
27 9 0.38
ACGTcount: A:0.25, C:0.06, G:0.04, T:0.65
Consensus pattern (26 bp):
GTTTATTTATCTATTTATATTATTTC
Found at i:32871513 original size:50 final size:50
Alignment explanation
Indices: 32871403--32871700 Score: 335
Period size: 50 Copynumber: 5.8 Consensus size: 50
32871393 ATTTGGGTAA
* * * *
32871403 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-C--CGAG---ATG
* *
32871459 AGAGGTCCCATGTAAGACCATGTCTAGGATATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
32871509 AGAGGCCCCATGTAAGACCATGTCTGGGACATGTCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
* *
32871559 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCAAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * *
32871609 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCTATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
** * * * * *
32871659 AGAACTCTCATGTAAGATCATATCTGGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA
32871701 GTACAAGAAA
Statistics
Matches: 212, Mismatches: 30, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
50 171 0.81
53 3 0.01
55 1 0.00
56 37 0.17
ACGTcount: A:0.27, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
Found at i:32871660 original size:150 final size:151
Alignment explanation
Indices: 32871403--32871736 Score: 370
Period size: 150 Copynumber: 2.2 Consensus size: 151
32871393 ATTTGGGTAA
* *
32871403 AGAGATCCCATGTAAGACCATGTATGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCA-T-AG--TATGAGAGGTCCC
* * * * * *
32871468 ATGTAAGACCATGTCTAGGATATGGCGTTGGCACCGAGATGAGAGGC-CCCATGTAAGACCATGT
62 ACGTAAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGA-ACTCCCATGTAAGACCATAT
* * * *
32871532 CTGGGACATGTCGTTGGCACCG-AGATG
126 CTGGGACATGGCATTGGCA--GTACAAG
* *
32871559 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCA-AG-ATGAGAGGTCCCCCGT
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCCCACGT
* * * * *
32871622 AAGACCATGTCTGGGACATGGCATGGGCACCTATATGAGAACTCTCATGTAAGATCATATCTGGG
66 AAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTGGG
*
32871687 ATATGGCATTGGCAGTACAAG
131 ACATGGCATTGGCAGTACAAG
* * *
32871708 AAACATCCCATGTAAGACTATGTCTGGGA
1 AGAGATCCCATGTAAGACCATGTCTGGGA
32871737 TATAGCTTTG
Statistics
Matches: 153, Mismatches: 23, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
148 1 0.01
149 30 0.20
150 78 0.51
153 2 0.01
156 42 0.27
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (151 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCATAGTATGAGAGGTCCCACGT
AAGACCATGTCTAGGACATGGCATGGGCACCGAGATGAGAACTCCCATGTAAGACCATATCTGGG
ACATGGCATTGGCAGTACAAG
Found at i:32875174 original size:26 final size:25
Alignment explanation
Indices: 32875143--32875193 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
32875133 ACAAAATTTC
*
32875143 TCAAAAATTTACCAAGGGTAAAATTG
1 TCAAAAATTTA-CAAGAGTAAAATTG
* *
32875169 TCAAAATTTTACTAGAGTAAAATTG
1 TCAAAAATTTACAAGAGTAAAATTG
32875194 GGATGAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.45, C:0.10, G:0.14, T:0.31
Consensus pattern (25 bp):
TCAAAAATTTACAAGAGTAAAATTG
Found at i:32882920 original size:12 final size:13
Alignment explanation
Indices: 32882903--32882931 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
32882893 CTCATACATG
32882903 AATAAATAAA-GC
1 AATAAATAAATGC
32882915 AATAAATAAATGC
1 AATAAATAAATGC
32882928 AATA
1 AATA
32882932 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:32890028 original size:39 final size:39
Alignment explanation
Indices: 32889995--32890125 Score: 183
Period size: 39 Copynumber: 3.4 Consensus size: 39
32889985 TTTAAGCAAG
* * *
32889995 TATCACATTACACATATAATCACATAACATTTAAGCATA
1 TATCACAATACTCATATAATCACATAACATTCAAGCATA
32890034 TATCACAATACTCATATAATCACATAA-AGTTCAAGCATA
1 TATCACAATACTCATATAATCACATAACA-TTCAAGCATA
* * *
32890073 TATCACAGTACTTATATAATCACATATCATTCAAGCATA
1 TATCACAATACTCATATAATCACATAACATTCAAGCATA
*
32890112 TATCATAATACTCA
1 TATCACAATACTCA
32890126 AAAACATGTT
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 79 0.98
40 1 0.01
ACGTcount: A:0.44, C:0.21, G:0.04, T:0.31
Consensus pattern (39 bp):
TATCACAATACTCATATAATCACATAACATTCAAGCATA
Found at i:32913592 original size:13 final size:13
Alignment explanation
Indices: 32913576--32913617 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
32913566 ATCTACTTTA
*
32913576 TATAATCATTTCG
1 TATAACCATTTCG
* *
32913589 TATAACCATCTCA
1 TATAACCATTTCG
32913602 TATAACCATTTCG
1 TATAACCATTTCG
32913615 TAT
1 TAT
32913618 TATACATTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.33, C:0.21, G:0.05, T:0.40
Consensus pattern (13 bp):
TATAACCATTTCG
Found at i:32913612 original size:51 final size:54
Alignment explanation
Indices: 32913517--32913617 Score: 129
Period size: 51 Copynumber: 1.9 Consensus size: 54
32913507 CTATATAAAC
* * *
32913517 ACTTTATATAATTATTTTCCATATAACCAGTTCATATGATCATTT-GTATATCT
1 ACTTTATATAATCATTTTCCATATAACCAGTTCATATAACCATTTCGTATATCT
*
32913570 ACTTTATATAATCA-TTT-CGTATAACCA-TCTCATATAACCATTTCGTAT
1 ACTTTATATAATCATTTTCCATATAACCAGT-TCATATAACCATTTCGTAT
32913618 TATACATTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
50 1 0.02
51 21 0.50
52 7 0.17
53 13 0.31
ACGTcount: A:0.33, C:0.18, G:0.05, T:0.45
Consensus pattern (54 bp):
ACTTTATATAATCATTTTCCATATAACCAGTTCATATAACCATTTCGTATATCT
Found at i:32914841 original size:43 final size:43
Alignment explanation
Indices: 32914682--32914841 Score: 259
Period size: 43 Copynumber: 3.7 Consensus size: 43
32914672 GAATCATATA
* * *
32914682 CGATGCCAATCTCCCAAACATAGTCTTACACG-TTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
* *
32914724 TGATGCCAATGTCCCAGACATGGTCTTACACATTTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
*
32914767 TGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
1 CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
32914810 CGATGCCAATGTCCCAGACATGGTCTTACACG
1 CGATGCCAATGTCCCAGACATGGTCTTACACG
32914842 AAATCACACC
Statistics
Matches: 110, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
42 27 0.25
43 83 0.75
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (43 bp):
CGATGCCAATGTCCCAGACATGGTCTTACACGTTTTCTCACTT
Found at i:32915000 original size:30 final size:30
Alignment explanation
Indices: 32914964--32915056 Score: 114
Period size: 30 Copynumber: 3.1 Consensus size: 30
32914954 ATCCAATGCT
*
32914964 CAAATCAATTCAGCAATATATAAAAATATA
1 CAAATCAATTCGGCAATATATAAAAATATA
* * ***
32914994 CAAATCAATTTGGCAATGTATATCCATATA
1 CAAATCAATTCGGCAATATATAAAAATATA
*
32915024 AAAATCAATTCGGCAATATATAAAACATATA
1 CAAATCAATTCGGCAATATATAAAA-ATATA
32915055 CA
1 CA
32915057 TTTGAATTCA
Statistics
Matches: 49, Mismatches: 13, Indels: 1
0.78 0.21 0.02
Matches are distributed among these distances:
30 43 0.88
31 6 0.12
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.28
Consensus pattern (30 bp):
CAAATCAATTCGGCAATATATAAAAATATA
Found at i:32916223 original size:45 final size:45
Alignment explanation
Indices: 32916174--32916416 Score: 215
Period size: 45 Copynumber: 5.4 Consensus size: 45
32916164 TCTTTCAGTC
* * * *
32916174 ATGGTCTTATTTATTTTCGACATGATGTCATAGTGTCATTCAAAT
1 ATGGTCTTATTCATTTTCGTCATGATGCCATAGTGTCATTCAACT
* * * * * *
32916219 ATGGTATT-TTTATTTTTTGTCATGTTGCCATAGTTTCTTTCAACT
1 ATGGTCTTATTCA-TTTTCGTCATGATGCCATAGTGTCATTCAACT
* * *
32916264 ATGGTTTTATTCA-TTTCTGTCATGTTGCCATAATGTCATTCAACT
1 ATGGTCTTATTCATTTTC-GTCATGATGCCATAGTGTCATTCAACT
* * * *
32916309 ATGGTCTTATTCATTTCCGTTAT-AGTGTCATAGTGTCTTTCAACT
1 ATGGTCTTATTCATTTTCGTCATGA-TGCCATAGTGTCATTCAACT
* * * *
32916354 ATGGTCTTATTCATTTTCAGT-ATAATGCCATATTATCTTTCAACT
1 ATGGTCTTATTCATTTTC-GTCATGATGCCATAGTGTCATTCAACT
* *
32916399 ATAGTCTTATTCGTTTTC
1 ATGGTCTTATTCATTTTC
32916417 CAAGCCAATG
Statistics
Matches: 164, Mismatches: 27, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
44 7 0.04
45 148 0.90
46 9 0.05
ACGTcount: A:0.22, C:0.16, G:0.13, T:0.49
Consensus pattern (45 bp):
ATGGTCTTATTCATTTTCGTCATGATGCCATAGTGTCATTCAACT
Found at i:32933617 original size:15 final size:15
Alignment explanation
Indices: 32933599--32933630 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
32933589 CAACTCGAGC
32933599 TATTGTTTGCTAACG
1 TATTGTTTGCTAACG
32933614 TATTGTTTGCTAACG
1 TATTGTTTGCTAACG
32933629 TA
1 TA
32933631 GTCAGTTCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (15 bp):
TATTGTTTGCTAACG
Found at i:32936402 original size:21 final size:22
Alignment explanation
Indices: 32936363--32936404 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
32936353 TTTGGTGGTG
*
32936363 CTTTTTTCTTAAATTTTCCCTGC
1 CTTTTTTCTT-AATCTTCCCTGC
32936386 CTTTTTTCTT-ATCTTCCCT
1 CTTTTTTCTTAATCTTCCCT
32936405 TGTTAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
23 10 0.56
ACGTcount: A:0.10, C:0.29, G:0.02, T:0.60
Consensus pattern (22 bp):
CTTTTTTCTTAATCTTCCCTGC
Found at i:32950882 original size:17 final size:17
Alignment explanation
Indices: 32950856--32950890 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32950846 TTATTTTTAA
*
32950856 TAAAAATTTTGTAATTT
1 TAAAAATTTTATAATTT
*
32950873 TAAAACTTTTATAATTT
1 TAAAAATTTTATAATTT
32950890 T
1 T
32950891 TATGATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (17 bp):
TAAAAATTTTATAATTT
Found at i:32953865 original size:23 final size:23
Alignment explanation
Indices: 32953821--32953868 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
32953811 TATCTATTTA
* *
32953821 TAGTATTAAATATTAGTTTTAAT
1 TAGTATTAAATATTAATATTAAT
32953844 TAGTATATAAATA-TAATATTAAT
1 TAGTAT-TAAATATTAATATTAAT
32953867 TA
1 TA
32953869 AGTGATAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
23 16 0.73
24 6 0.27
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (23 bp):
TAGTATTAAATATTAATATTAAT
Found at i:32957703 original size:42 final size:42
Alignment explanation
Indices: 32957647--32957812 Score: 248
Period size: 42 Copynumber: 4.0 Consensus size: 42
32957637 ACTGAGATGT
* *
32957647 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCGTTATGT
1 GATT-CGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
32957690 GATTCGTGTAAGACCATGTCTGGGATATTGGCATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
*
32957732 GATTCGTGTAAGACCATGTCTGGGACATTGACATCGATATGA
1 GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
32957774 GATTCGTGTAAGACCATAG-CT-GG-CTATTGGCATCGATAT
1 GATTCGTGTAAGACCAT-GTCTGGGAC-ATTGGCATCGATAT
32957813 ATGATAGCAT
Statistics
Matches: 115, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
40 1 0.01
41 15 0.13
42 94 0.82
43 5 0.04
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.31
Consensus pattern (42 bp):
GATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGA
Found at i:32974950 original size:33 final size:32
Alignment explanation
Indices: 32974903--32974985 Score: 103
Period size: 33 Copynumber: 2.5 Consensus size: 32
32974893 GGACTGTGTA
* * * *
32974903 TTGTGTGTATTGTCCCAGTGGACTTACTCCGT
1 TTGTGTTTACTGTCCCAGCGAACTTACTCCGT
*
32974935 TCTGTGTTTACTGTCCCAGCGAACTTACTCTGT
1 T-TGTGTTTACTGTCCCAGCGAACTTACTCCGT
32974968 TTCGTGTTTACTGTCCCA
1 TT-GTGTTTACTGTCCCA
32974986 AAAAACTTAC
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
32 2 0.05
33 42 0.95
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.41
Consensus pattern (32 bp):
TTGTGTTTACTGTCCCAGCGAACTTACTCCGT
Found at i:32974993 original size:33 final size:33
Alignment explanation
Indices: 32974924--32974998 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
32974914 GTCCCAGTGG
* ***
32974924 ACTTACTCCGTTCTGTGTTTACTGTCCCAGCGA
1 ACTTACTCTGTTCTGTGTTTACTGTCCCAAAAA
32974957 ACTTACTCTGTT-TCGTGTTTACTGTCCCAAAAA
1 ACTTACTCTGTTCT-GTGTTTACTGTCCCAAAAA
32974990 ACTTACTCT
1 ACTTACTCT
32974999 ATAGATGCCA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.20, C:0.28, G:0.13, T:0.39
Consensus pattern (33 bp):
ACTTACTCTGTTCTGTGTTTACTGTCCCAAAAA
Found at i:32975085 original size:7 final size:7
Alignment explanation
Indices: 32975074--32975103 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
32975064 GTCTATGGTT
32975074 TTATACC
1 TTATACC
*
32975081 GTATACC
1 TTATACC
32975088 TTATACC
1 TTATACC
32975095 TTATACC
1 TTATACC
32975102 TT
1 TT
32975104 GCCGCCATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.03, T:0.43
Consensus pattern (7 bp):
TTATACC
Found at i:32983312 original size:22 final size:22
Alignment explanation
Indices: 32983282--32983333 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 22
32983272 AATGACTAAG
* * *
32983282 AGCCGTAAACAGGATAACTATA
1 AGCCATAAACAGAATAACTACA
* *
32983304 AGCTATAAACAGAATGACTACA
1 AGCCATAAACAGAATAACTACA
32983326 AGCCATAA
1 AGCCATAA
32983334 GTACAGTAAT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.48, C:0.19, G:0.15, T:0.17
Consensus pattern (22 bp):
AGCCATAAACAGAATAACTACA
Found at i:32983376 original size:32 final size:32
Alignment explanation
Indices: 32983325--32983460 Score: 177
Period size: 32 Copynumber: 4.3 Consensus size: 32
32983315 GAATGACTAC
* * *
32983325 AAGCCATAAGT-ACAGTAATATGATTGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
32983356 AAGCCATCAGTAGTAGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
32983388 CAA-CCATCAGTAATGGTAATATGATCGGCACA
1 -AAGCCATCAGTAATAGTAATATGATCGGCACA
* *
32983420 CAGCCATCAGTAATGGTAATATGATCGGCACA
1 AAGCCATCAGTAATAGTAATATGATCGGCACA
*
32983452 AAGCTATCA
1 AAGCCATCA
32983461 ATAGCATCGC
Statistics
Matches: 93, Mismatches: 9, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
31 11 0.12
32 80 0.86
33 2 0.02
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.22
Consensus pattern (32 bp):
AAGCCATCAGTAATAGTAATATGATCGGCACA
Found at i:32983495 original size:26 final size:26
Alignment explanation
Indices: 32983459--32983519 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
32983449 ACAAAGCTAT
* *
32983459 CAATAGCATCGCAGCAAAGCTACCGG
1 CAATAGTATCGCAGCAAAGCTACCAG
*
32983485 CAATAGTATCGCAGCAAAGCTGCCAG
1 CAATAGTATCGCAGCAAAGCTACCAG
*
32983511 TAATAGTAT
1 CAATAGTAT
32983520 ATGTGGCCAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.36, C:0.25, G:0.21, T:0.18
Consensus pattern (26 bp):
CAATAGTATCGCAGCAAAGCTACCAG
Found at i:32983674 original size:24 final size:24
Alignment explanation
Indices: 32983635--32983768 Score: 135
Period size: 24 Copynumber: 5.6 Consensus size: 24
32983625 CCATGCACAG
**
32983635 AATCAGTCATACAAATCATAGACA
1 AATCAGTCATTTAAATCATAGACA
* *
32983659 AATTAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCATAGACA
* *
32983683 TATCAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCATAGACA
* *
32983707 AATCAGTCATTTACATC-TCAAACA
1 AATCAGTCATTTAAATCAT-AGACA
* * * *
32983731 AATTAATCATTTACATCATAGGCA
1 AATCAGTCATTTAAATCATAGACA
*
32983755 AATCAATCATTTAA
1 AATCAGTCATTTAA
32983769 CCCCGAAAGG
Statistics
Matches: 92, Mismatches: 16, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
24 91 0.99
25 1 0.01
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (24 bp):
AATCAGTCATTTAAATCATAGACA
Found at i:32983699 original size:48 final size:48
Alignment explanation
Indices: 32983635--32983768 Score: 151
Period size: 48 Copynumber: 2.8 Consensus size: 48
32983625 CCATGCACAG
** * *
32983635 AATCAGTCATACAAATCATAGACAAATTAGTCATTTAAATCACAGACA
1 AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAAATCACAAACA
* * * *
32983683 TATCAGTCATTTAAATCACAGACAAATCAGTCATTTACATCTCAAACA
1 AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAAATCACAAACA
* * * * *
32983731 AATTAATCATTTACATCATAGGCAAATCAATCATTTAA
1 AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAA
32983769 CCCCGAAAGG
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
48 70 1.00
ACGTcount: A:0.45, C:0.19, G:0.07, T:0.29
Consensus pattern (48 bp):
AATCAGTCATTTAAATCATAGACAAATCAGTCATTTAAATCACAAACA
Found at i:32983889 original size:81 final size:80
Alignment explanation
Indices: 32983789--32984264 Score: 537
Period size: 81 Copynumber: 5.9 Consensus size: 80
32983779 CAAAATAGTT
*
32983789 ATTTTACCCTACAAGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA
*
32983854 CAAGGGCATTACGATC
66 -AAGGGCATTACGGTC
* * * *
32983870 ATTTTAACCTATAGGGGCATTACGATCATTTTACCCTACAGGGGCATTACGGTTATTTTACCTTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA
*
32983935 TAGGAGCATTACGGTC
66 AAGG-GCATTACGGTC
** * * *
32983951 ATTTTACCCTACAGGGGCATTATTGTCATTTTACTCTACAGGGGAATTACGGTCATTTTACCCTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA
* **
32984016 TAGGAGCATTATAGTC
66 AAGG-GCATTACGGTC
** * * *
32984032 ATTTTACCCTACAGGGGCATTATAGTCATTTTACCCTACAGAGGCATTATGGTCATTTTACCCTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA
*
32984097 CAAGAGCATTACGGTC
66 -AAGGGCATTACGGTC
* * *
32984113 ATTTTACCCTACAGGGGCGTTACGATCATTTTACCCTACAGGAGCATTACGGTCATTTTATCCTA
1 ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTA-CCT-
**
32984178 TAAA-AACATTACGGTC
64 TAAAGGGCATTACGGTC
* * * * * *
32984194 ATTTTACCC-ATC-GAGGGTATTTCGGTCATTTTA-CCTACCGAGGGTATTTCGATCATTTTACC
1 ATTTTACCCTA-CAG-GGGCATTACGGTCATTTTACCCTACAG-GGGCATTACGGTCATTTTA-C
*
32984256 CTTCAAGGG
62 CTTAAAGGG
32984265 TATTTTGGTA
Statistics
Matches: 338, Mismatches: 49, Indels: 16
0.84 0.12 0.04
Matches are distributed among these distances:
80 14 0.04
81 316 0.93
82 6 0.02
83 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (80 bp):
ATTTTACCCTACAGGGGCATTACGGTCATTTTACCCTACAGGGGCATTACGGTCATTTTACCTTA
AAGGGCATTACGGTC
Found at i:32984269 original size:27 final size:27
Alignment explanation
Indices: 32983789--32984264 Score: 487
Period size: 27 Copynumber: 17.6 Consensus size: 27
32983779 CAAAATAGTT
32983789 ATTTTACCCTACAAGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
32983816 ATTTTACCCTACAGGGGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
32983843 ATTTTACCTTACAAGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * * *
32983870 ATTTTAACCTATAGGGGCATTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
32983897 ATTTTACCCTACAGGGGCATTACGGTT
1 ATTTTACCCTACAAGGGCATTACGGTC
* *
32983924 ATTTTACCTTA-TAGGAGCATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* **
32983951 ATTTTACCCTACAGGGGCATTATTGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
32983978 ATTTTACTCTACAGGGGAATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* **
32984005 ATTTTACCCTA-TAGGAGCATTATAGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* **
32984032 ATTTTACCCTACAGGGGCATTATAGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
*
32984059 ATTTTACCCTAC-AGAGGCATTATGGTC
1 ATTTTACCCTACAAG-GGCATTACGGTC
*
32984086 ATTTTACCCTACAAGAGCATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
32984113 ATTTTACCCTACAGGGGCGTTACGATC
1 ATTTTACCCTACAAGGGCATTACGGTC
32984140 ATTTTACCCTAC-AGGAGCATTACGGTC
1 ATTTTACCCTACAAGG-GCATTACGGTC
* * ***
32984167 ATTTTATCCTATAAAAACATTACGGTC
1 ATTTTACCCTACAAGGGCATTACGGTC
* * *
32984194 ATTTTACCC-ATCGAGGGTATTTCGGTC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
* * * *
32984221 ATTTTA-CCTACCGAGGGTATTTCGATC
1 ATTTTACCCTA-CAAGGGCATTACGGTC
*
32984248 ATTTTACCCTTCAAGGG
1 ATTTTACCCTACAAGGG
32984265 TATTTTGGTA
Statistics
Matches: 377, Mismatches: 61, Indels: 22
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.03
27 357 0.95
28 10 0.03
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGCATTACGGTC
Found at i:32984278 original size:27 final size:27
Alignment explanation
Indices: 32984189--32984280 Score: 114
Period size: 27 Copynumber: 3.4 Consensus size: 27
32984179 AAAAACATTA
*
32984189 CGGTCATTTTACCCATCGAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
*
32984216 CGGTCATTTTA-CCTACCGAGGGTATTT
1 CGGTCATTTTACCCT-TCGAGGGTATTT
* *
32984243 CGATCATTTTACCCTTCAAGGGTATTT
1 CGGTCATTTTACCCTTCGAGGGTATTT
* *
32984270 TGGTAATTTTA
1 CGGTCATTTTA
32984281 AAACCTTTTC
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
26 2 0.04
27 50 0.91
28 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.40
Consensus pattern (27 bp):
CGGTCATTTTACCCTTCGAGGGTATTT
Found at i:32985505 original size:20 final size:20
Alignment explanation
Indices: 32985480--32985521 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
32985470 TGCATGCATA
32985480 TTACACATACCTTAAATTGG
1 TTACACATACCTTAAATTGG
32985500 TTACACATACCTTAAATTGG
1 TTACACATACCTTAAATTGG
32985520 TT
1 TT
32985522 TTTTAGGCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.10, T:0.38
Consensus pattern (20 bp):
TTACACATACCTTAAATTGG
Found at i:32989094 original size:43 final size:43
Alignment explanation
Indices: 32989031--32989311 Score: 269
Period size: 43 Copynumber: 6.6 Consensus size: 43
32989021 AGATTCCCCG
*
32989031 AGGGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * *
32989074 AGGGGTTGCTATGTGCTGATTCCA-CGTATCA-CTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
* *
32989115 AGATGGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAA
1 AG-GGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * * *
32989159 AGGGGTTGCTATGTGCTGATTCC-CCGTATCA-CTGAATAT-AA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTGATTGTGAA
* *
32989200 AGGTGGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
* * *
32989244 AGCGGTTGCTATGTGCTGATTCC-CCGTATCA-CTGAATT-T--A
1 AGGGGTTGCTAAGTGCTGATTCCACCGTAT-ATTTG-ATTGTGAA
*
32989284 AGGTGGTTGCTAAGTGCTGAATCCACCG
1 AGG-GGTTGCTAAGTGCTGATTCCACCG
32989312 AGTAACGGAT
Statistics
Matches: 193, Mismatches: 31, Indels: 29
0.76 0.12 0.11
Matches are distributed among these distances:
40 3 0.02
41 27 0.14
42 71 0.37
43 84 0.44
44 8 0.04
ACGTcount: A:0.23, C:0.16, G:0.26, T:0.35
Consensus pattern (43 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAA
Found at i:32989177 original size:85 final size:85
Alignment explanation
Indices: 32989034--32989311 Score: 468
Period size: 85 Copynumber: 3.3 Consensus size: 85
32989024 TTCCCCGAGG
* *
32989034 GGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCAC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
*
32989099 GTATCACTGAATATAAAGAT
66 GTATCACTGAATATAAAGGT
*
32989119 GGTTGCTAAGTGTTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
32989184 GTATCACTGAATATAAAGGT
66 GTATCACTGAATATAAAGGT
* * *
32989204 GGTTGCTAAGTGCTGATTTCACCGTATCTTTGATTGTGAAAGCGGTTGCTATGTGCTGATTCCCC
1 GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
*
32989269 GTATCACTGAAT-TTAAGGT
66 GTATCACTGAATATAAAGGT
*
32989288 GGTTGCTAAGTGCTGAATCCACCG
1 GGTTGCTAAGTGCTGATTCCACCG
32989312 AGTAACGGAT
Statistics
Matches: 184, Mismatches: 9, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
84 28 0.15
85 156 0.85
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (85 bp):
GGTTGCTAAGTGCTGATTCCACCGTATATTTGATTGTGAAAGGGGTTGCTATGTGCTGATTCCCC
GTATCACTGAATATAAAGGT
Found at i:32991383 original size:27 final size:28
Alignment explanation
Indices: 32991324--32991377 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 28
32991314 AAAATAATTA
*
32991324 AAATTAACTATGTTAATAATTTAAGTGC
1 AAATTAACTATGTTAATAATTAAAGTGC
* *
32991352 AAATTAATTAT-TTTATAATTAAAGTG
1 AAATTAACTATGTTAATAATTAAAGTG
32991378 TGAATTTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 13 0.57
28 10 0.43
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (28 bp):
AAATTAACTATGTTAATAATTAAAGTGC
Found at i:32993566 original size:2 final size:2
Alignment explanation
Indices: 32993559--32993598 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
32993549 TTGAATATTC
*
32993559 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32993599 TCCTCCTCCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:32995376 original size:24 final size:26
Alignment explanation
Indices: 32995349--32995409 Score: 74
Period size: 24 Copynumber: 2.5 Consensus size: 26
32995339 ATTTCACACT
32995349 GTAAAATTTTGAA-AATTTTAC-CCA
1 GTAAAATTTTGAATAATTTTACTCCA
* **
32995373 GTAAAATTTT-AATGATTTTACTCTG
1 GTAAAATTTTGAATAATTTTACTCCA
32995398 GTAAAATTTTGA
1 GTAAAATTTTGA
32995410 GAAAATTCGC
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
23 2 0.06
24 17 0.55
25 11 0.35
26 1 0.03
ACGTcount: A:0.38, C:0.08, G:0.11, T:0.43
Consensus pattern (26 bp):
GTAAAATTTTGAATAATTTTACTCCA
Found at i:32997666 original size:20 final size:20
Alignment explanation
Indices: 32997641--32997684 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
32997631 GTTAGTTGCA
32997641 ATGTCACTGCAGTAGGTTTC
1 ATGTCACTGCAGTAGGTTTC
* *
32997661 ATGTCATTGTAGTAGGTTTC
1 ATGTCACTGCAGTAGGTTTC
32997681 ATGT
1 ATGT
32997685 GCTAGCCCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.20, C:0.14, G:0.25, T:0.41
Consensus pattern (20 bp):
ATGTCACTGCAGTAGGTTTC
Found at i:33000249 original size:74 final size:74
Alignment explanation
Indices: 33000128--33000278 Score: 302
Period size: 74 Copynumber: 2.0 Consensus size: 74
33000118 GGTAAAAAGG
33000128 ATAGGTGATTGTCAGTGCATTAAACTGCAATGAATATCTTACCAAGCTTAACTTCTATATTTAAT
1 ATAGGTGATTGTCAGTGCATTAAACTGCAATGAATATCTTACCAAGCTTAACTTCTATATTTAAT
33000193 CTAAGACTT
66 CTAAGACTT
33000202 ATAGGTGATTGTCAGTGCATTAAACTGCAATGAATATCTTACCAAGCTTAACTTCTATATTTAAT
1 ATAGGTGATTGTCAGTGCATTAAACTGCAATGAATATCTTACCAAGCTTAACTTCTATATTTAAT
33000267 CTAAGACTT
66 CTAAGACTT
33000276 ATA
1 ATA
33000279 CATACAAATT
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 77 1.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.36
Consensus pattern (74 bp):
ATAGGTGATTGTCAGTGCATTAAACTGCAATGAATATCTTACCAAGCTTAACTTCTATATTTAAT
CTAAGACTT
Found at i:33009020 original size:20 final size:20
Alignment explanation
Indices: 33008995--33009034 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
33008985 ATTATTATTC
33008995 CGATGTTTATAATGATTTTT
1 CGATGTTTATAATGATTTTT
33009015 CGATGTTTATAATGATTTTT
1 CGATGTTTATAATGATTTTT
33009035 ACTTATTACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (20 bp):
CGATGTTTATAATGATTTTT
Found at i:33009201 original size:26 final size:26
Alignment explanation
Indices: 33009144--33009202 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 26
33009134 TTTATTTAGT
* * *
33009144 AGGCCTTGAGCCGGTGATTGTATAGT
1 AGGCTTTGAGCCGGTGATAGTATAGC
33009170 AGGCTTTGAGCCGGTGGATAGT-TAGC
1 AGGCTTTGAGCCGGT-GATAGTATAGC
*
33009196 ATGCTTT
1 AGGCTTT
33009203 AAGTCGGCGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 23 0.82
27 5 0.18
ACGTcount: A:0.19, C:0.15, G:0.34, T:0.32
Consensus pattern (26 bp):
AGGCTTTGAGCCGGTGATAGTATAGC
Found at i:33009281 original size:26 final size:26
Alignment explanation
Indices: 33009222--33009354 Score: 124
Period size: 26 Copynumber: 5.1 Consensus size: 26
33009212 TTTATTTAAA
* * * *
33009222 AGGCTTTGAGCCGGTAATTATTTAGT
1 AGGCTTTGAGCCGATGATTATCTAGC
* * * *
33009248 TGGGTTTGAGTCGATGTTTATCTAGC
1 AGGCTTTGAGCCGATGATTATCTAGC
*
33009274 AGGCTTTGAGCC-AGTGTTTATCTAGC
1 AGGCTTTGAGCCGA-TGATTATCTAGC
* *
33009300 AGACTTTGAGCCGATGATTATTTAGC
1 AGGCTTTGAGCCGATGATTATCTAGC
* * *
33009326 AGGATTTGAGCCAATGATTATTTAGC
1 AGGCTTTGAGCCGATGATTATCTAGC
33009352 AGG
1 AGG
33009355 TACTTTGTAC
Statistics
Matches: 88, Mismatches: 17, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
25 1 0.01
26 86 0.98
27 1 0.01
ACGTcount: A:0.23, C:0.14, G:0.27, T:0.36
Consensus pattern (26 bp):
AGGCTTTGAGCCGATGATTATCTAGC
Found at i:33009308 original size:52 final size:52
Alignment explanation
Indices: 33009252--33009353 Score: 141
Period size: 52 Copynumber: 2.0 Consensus size: 52
33009242 TTTAGTTGGG
* * * * *
33009252 TTTGAGTCGATGTTTATCTAGCAGGCTTTGAGCCAGTGTTTATCTAGCAGAC
1 TTTGAGCCGATGATTATCTAGCAGGATTTGAGCCAATGATTATCTAGCAGAC
* *
33009304 TTTGAGCCGATGATTATTTAGCAGGATTTGAGCCAATGATTATTTAGCAG
1 TTTGAGCCGATGATTATCTAGCAGGATTTGAGCCAATGATTATCTAGCAG
33009354 GTACTTTGTA
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.36
Consensus pattern (52 bp):
TTTGAGCCGATGATTATCTAGCAGGATTTGAGCCAATGATTATCTAGCAGAC
Found at i:33019675 original size:21 final size:21
Alignment explanation
Indices: 33019645--33019686 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
33019635 TGGGCATAAG
*
33019645 GGGGTTGCCACACGGGCGTGT
1 GGGGTAGCCACACGGGCGTGT
* *
33019666 GGGGTAGCCACATGGTCGTGT
1 GGGGTAGCCACACGGGCGTGT
33019687 TTGTGGCCAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.12, C:0.21, G:0.45, T:0.21
Consensus pattern (21 bp):
GGGGTAGCCACACGGGCGTGT
Found at i:33034528 original size:6 final size:6
Alignment explanation
Indices: 33034517--33034556 Score: 80
Period size: 6 Copynumber: 6.7 Consensus size: 6
33034507 TGATAACATA
33034517 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
33034557 TTCAAAATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 34 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:33043117 original size:360 final size:360
Alignment explanation
Indices: 33042022--33043100 Score: 2025
Period size: 360 Copynumber: 3.0 Consensus size: 360
33042012 TACACAGTCC
* * * *
33042022 CTTTTACTTACTTATTACTTGATTACGACTATGTAACTTGCACAAGCCCCAGTGTTGCAGCATGC
1 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
* *
33042087 AGACTCATTTTTGAAAAGAAATAAAGTCTAAGGTTTTGAACCTTGGATCTGATACCATTAAATGT
66 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
* *
33042152 AAACTCC-AAACTATGCCTAAATTTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
131 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
33042216 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
196 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
*
33042281 CCTTGTTATTTTTGGAAAACATTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
261 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
*
33042346 AGTGTGGCCTAGAAAACACTTTACTCATCATTGCT
326 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
33042381 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
1 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
33042446 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
66 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
*
33042511 AAACTCCAAAACTAGGCCTCAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
131 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
33042576 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
196 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
*
33042641 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAAACTTATTAAGTCATGTTATTAACATT
261 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
33042706 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
326 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
33042741 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
1 CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
33042806 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
66 AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
*
33042871 AAACTCCAAAACTAGGCTTAAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
131 AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
33042936 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
196 CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
*
33043001 CCTTGTTATTTTTGGAAAATGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
261 CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
33043066 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
326 AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
33043101 TTTGTAGAAC
Statistics
Matches: 703, Mismatches: 16, Indels: 1
0.98 0.02 0.00
Matches are distributed among these distances:
359 131 0.19
360 572 0.81
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.34
Consensus pattern (360 bp):
CTTTTACTTACTTATTACTTGATTACGACTGTGTAACTTGCACAAACCCCAGCGTTACAGCATGC
AGACTCATTTTTGAAAAGAAATAAAGTCTGAGGTTTTGAACCTTGGATCTGATACCACTAAATGT
AAACTCCAAAACTAGGCCTAAATGTTATGGCTAAATCGTGAAGATCACATTAGTCACCTATGCGA
CAAAGTTAGTCTATTGTTTGACAAAAACCTTAAGTACTCACCTTTTTAAGAAAAACCATGGTTAC
CCTTGTTATTTTTGGAAAACGTTCATTAATAAAAATCAACCTTATTAAGTCATGTTATTAACATT
AGTGTGGTCTAGAAAACACTTTACTCATCATTGCT
Found at i:33049193 original size:20 final size:20
Alignment explanation
Indices: 33049168--33049275 Score: 56
Period size: 20 Copynumber: 5.3 Consensus size: 20
33049158 CACATACGTG
33049168 CCCCTATTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
* * * ** *
33049188 CCCCTAAATTGCACATATGTG
1 CCCCT-ATTTGTACTTCGGTA
* *
33049209 CCCTTATTTGTACTTCGATA
1 CCCCTATTTGTACTTCGGTA
* ** * *
33049229 CCCCTAAATTACACAT-GCGTG
1 CCCCT-ATTTGTACTTCG-GTA
*
33049250 CCCCTGTTTGTACTTCGGTA
1 CCCCTATTTGTACTTCGGTA
33049270 CCCCTA
1 CCCCTA
33049276 AATTGCACAT
Statistics
Matches: 56, Mismatches: 28, Indels: 8
0.61 0.30 0.09
Matches are distributed among these distances:
20 30 0.54
21 26 0.46
ACGTcount: A:0.20, C:0.31, G:0.14, T:0.34
Consensus pattern (20 bp):
CCCCTATTTGTACTTCGGTA
Found at i:33049210 original size:41 final size:41
Alignment explanation
Indices: 33049149--33049355 Score: 290
Period size: 41 Copynumber: 5.1 Consensus size: 41
33049139 GAAGAATAAT
*
33049149 CCTAAATTGCACATACGTGCCCCTATTTGTACTTCGGTACC
1 CCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * *
33049190 CCTAAATTGCACATATGTGCCCTTATTTGTACTTCGATACC
1 CCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* *
33049231 CCTAAATTACACATGCGTGCCCCTGTTTGTACTTCGGTACC
1 CCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* *
33049272 CCTAAATTGCACATGCGT-CCCCTGTTTTTACTTCGGTACC
1 CCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
* * * *
33049312 CTTGAATTGCACAAACGTGCCCCTGTTTGTACTTTGGTACC
1 CCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
33049353 CCT
1 CCT
33049356 GGATGTGCTT
Statistics
Matches: 147, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 35 0.24
41 112 0.76
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.34
Consensus pattern (41 bp):
CCTAAATTGCACATACGTGCCCCTGTTTGTACTTCGGTACC
Found at i:33050532 original size:12 final size:12
Alignment explanation
Indices: 33050515--33050548 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
33050505 CGACCAGACC
33050515 ATATTAATTTTT
1 ATATTAATTTTT
*
33050527 ATATTATTTTTT
1 ATATTAATTTTT
33050539 ATA-TAATTTT
1 ATATTAATTTT
33050549 AAAATGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:33054975 original size:12 final size:12
Alignment explanation
Indices: 33054958--33054982 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33054948 TATATATATG
33054958 AAATCAAACACA
1 AAATCAAACACA
33054970 AAATCAAACACA
1 AAATCAAACACA
33054982 A
1 A
33054983 CATAAAATAA
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:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (12 bp):
AAATCAAACACA
Found at i:33063179 original size:52 final size:51
Alignment explanation
Indices: 33063071--33063172 Score: 136
Period size: 52 Copynumber: 2.0 Consensus size: 51
33063061 ACATAATATT
* * *
33063071 TAAATGTTAATGGTTAATTTGTTTAGATTCAAGACCAAATTGACATGCTATA
1 TAAATATTAAGGGTTAATTTGTTTAGATTCAAAACCAAATTGACA-GCTATA
*
33063123 TAAATATTAAGGGTTAAATTT-TTTAGATTCAAAATCAAATTGACA-CTATA
1 TAAATATTAAGGGTT-AATTTGTTTAGATTCAAAACCAAATTGACAGCTATA
33063173 CATAAATGTT
Statistics
Matches: 45, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
50 5 0.11
52 35 0.78
53 5 0.11
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.38
Consensus pattern (51 bp):
TAAATATTAAGGGTTAATTTGTTTAGATTCAAAACCAAATTGACAGCTATA
Done.