Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 44 of 193
Found at i:13335868 original size:27 final size:29
Alignment explanation
Indices: 13335815--13335871 Score: 73
Period size: 30 Copynumber: 2.0 Consensus size: 29
13335805 TTTTAATAGT
13335815 TTATATTTTTATAATTTTTAGAAGATTAAA
1 TTATATTTTTATAATTTTTAG-AGATTAAA
* *
13335845 TTATTTTTTTATCA-TTTTAG-GATTAAA
1 TTATATTTTTATAATTTTTAGAGATTAAA
13335872 GTGTAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 7 0.28
29 6 0.24
30 12 0.48
ACGTcount: A:0.35, C:0.02, G:0.07, T:0.56
Consensus pattern (29 bp):
TTATATTTTTATAATTTTTAGAGATTAAA
Found at i:13336314 original size:5 final size:5
Alignment explanation
Indices: 13336299--13336339 Score: 64
Period size: 5 Copynumber: 8.2 Consensus size: 5
13336289 GAGATAGAAT
* *
13336299 TCGAA TTGAA TCGAA TCGAA TTGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA TCGAA T
13336340 ATATTTGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
5 32 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (5 bp):
TCGAA
Found at i:13336319 original size:15 final size:15
Alignment explanation
Indices: 13336299--13336339 Score: 73
Period size: 15 Copynumber: 2.7 Consensus size: 15
13336289 GAGATAGAAT
13336299 TCGAATTGAATCGAA
1 TCGAATTGAATCGAA
13336314 TCGAATTGAATCGAA
1 TCGAATTGAATCGAA
*
13336329 TCGAATCGAAT
1 TCGAATTGAAT
13336340 ATATTTGTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.27
Consensus pattern (15 bp):
TCGAATTGAATCGAA
Found at i:13336962 original size:34 final size:34
Alignment explanation
Indices: 13336919--13336994 Score: 116
Period size: 34 Copynumber: 2.2 Consensus size: 34
13336909 CCTAGCTGCT
* *
13336919 AGTTCAAATACTAAAATTCAGCTTTGGGTATTGC
1 AGTTCAAATACTAAAATTCAACTTTGGGTATTAC
*
13336953 AGTTCAAATACTAAAATTCAACTTTGTGTATTAC
1 AGTTCAAATACTAAAATTCAACTTTGGGTATTAC
*
13336987 AGTACAAA
1 AGTTCAAA
13336995 ACAAAAACTA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.34
Consensus pattern (34 bp):
AGTTCAAATACTAAAATTCAACTTTGGGTATTAC
Found at i:13337531 original size:58 final size:58
Alignment explanation
Indices: 13337468--13337592 Score: 187
Period size: 58 Copynumber: 2.2 Consensus size: 58
13337458 AAAATTGATT
**
13337468 TTGAGTTTAATTTATGGGTGCTTTTTAAGAATAAAATTATATTTGAGTTTAAAAATAA
1 TTGAGTTTAATTTATGAATGCTTTTTAAGAATAAAATTATATTTGAGTTTAAAAATAA
* * * *
13337526 TTGAGTTTAGTTTATGAATGTTTTTTAATAATAAAATTATATTTGAGTTTAAAAATAT
1 TTGAGTTTAATTTATGAATGCTTTTTAAGAATAAAATTATATTTGAGTTTAAAAATAA
*
13337584 TTGGGTTTA
1 TTGAGTTTA
13337593 GTTTTATTGA
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.36, C:0.01, G:0.15, T:0.48
Consensus pattern (58 bp):
TTGAGTTTAATTTATGAATGCTTTTTAAGAATAAAATTATATTTGAGTTTAAAAATAA
Found at i:13342663 original size:2 final size:2
Alignment explanation
Indices: 13342656--13342681 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13342646 AGCTATTCAA
13342656 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
13342682 GACATGTTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13347263 original size:33 final size:33
Alignment explanation
Indices: 13347226--13347289 Score: 101
Period size: 33 Copynumber: 1.9 Consensus size: 33
13347216 ATATCTGCAT
*
13347226 GAATTCCATATAAAACAGTATAAGTGGTTTTTA
1 GAATTCCATATAAAACAGGATAAGTGGTTTTTA
* *
13347259 GAATTCCATATAAAATAGGGTAAGTGGTTTT
1 GAATTCCATATAAAACAGGATAAGTGGTTTT
13347290 CTTCTATTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.19, T:0.36
Consensus pattern (33 bp):
GAATTCCATATAAAACAGGATAAGTGGTTTTTA
Found at i:13347935 original size:3 final size:3
Alignment explanation
Indices: 13347927--13347967 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
13347917 ATTAATATTC
13347927 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG TT
13347968 ATCAAGTATC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:13349360 original size:11 final size:11
Alignment explanation
Indices: 13349341--13349370 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
13349331 TATTTCACTT
13349341 TTTTA-TTTTA
1 TTTTAGTTTTA
13349351 TTTTAGTTTTA
1 TTTTAGTTTTA
13349362 TTTTAGTTT
1 TTTTAGTTT
13349371 GATGTTTCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.17, C:0.00, G:0.07, T:0.77
Consensus pattern (11 bp):
TTTTAGTTTTA
Found at i:13354229 original size:97 final size:97
Alignment explanation
Indices: 13354051--13354250 Score: 310
Period size: 97 Copynumber: 2.1 Consensus size: 97
13354041 TGTCACACAA
* *
13354051 AACTCAAACATATTTGTTCCTTCGACTTGCCGTATCATGATTTATATCCATTACCATCATTCTGT
1 AACTTAAACATATTTGTTCCTTCGACTTGCCATATCATGATTTATATCCATTACCATCATTCTGT
* * *
13354116 TAATAATTTTGGTCTTTCTAGGAATTTCTTTC
66 CAATAACTTTGATCTTTCTAGGAATTTCTTTC
* * * *
13354148 AACTTAAACATATTTGTTCCTTTGATTTGCCATATCATGATTTATATCCATTGCCATCATTTTGT
1 AACTTAAACATATTTGTTCCTTCGACTTGCCATATCATGATTTATATCCATTACCATCATTCTGT
*
13354213 CAATAACTTTGATCTTTCTAGGAATTTCTTTG
66 CAATAACTTTGATCTTTCTAGGAATTTCTTTC
13354245 AACTTA
1 AACTTA
13354251 TCTTATTTAT
Statistics
Matches: 93, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
97 93 1.00
ACGTcount: A:0.26, C:0.19, G:0.10, T:0.45
Consensus pattern (97 bp):
AACTTAAACATATTTGTTCCTTCGACTTGCCATATCATGATTTATATCCATTACCATCATTCTGT
CAATAACTTTGATCTTTCTAGGAATTTCTTTC
Found at i:13364318 original size:9 final size:10
Alignment explanation
Indices: 13364306--13364349 Score: 56
Period size: 10 Copynumber: 4.4 Consensus size: 10
13364296 AAAAGGTTCG
13364306 AAAAGA-AAA
1 AAAAGAGAAA
13364315 AAAAGAGAAA
1 AAAAGAGAAA
13364325 AAAAGGAGAAA
1 AAAA-GAGAAA
13364336 AAGAAGA-AAA
1 AA-AAGAGAAA
13364346 AAAA
1 AAAA
13364350 CATGGTTGCT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
9 8 0.25
10 12 0.38
11 10 0.31
12 2 0.06
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (10 bp):
AAAAGAGAAA
Found at i:13364325 original size:11 final size:11
Alignment explanation
Indices: 13364309--13364349 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
13364299 AGGTTCGAAA
13364309 AGAAAAAAAAG
1 AGAAAAAAAAG
*
13364320 AGAAAAAAAGG
1 AGAAAAAAAAG
*
13364331 AGAAAAAGAAG
1 AGAAAAAAAAG
13364342 A-AAAAAAA
1 AGAAAAAAA
13364350 CATGGTTGCT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
10 6 0.23
11 20 0.77
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (11 bp):
AGAAAAAAAAG
Found at i:13364334 original size:22 final size:21
Alignment explanation
Indices: 13364309--13364349 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
13364299 AGGTTCGAAA
13364309 AGAAAAAAAAGAGAAAAAAAGG
1 AGAAAAAAAAGA-AAAAAAAGG
*
13364331 AGAAAAAGAAGAAAAAAAA
1 AGAAAAAAAAGAAAAAAAA
13364350 CATGGTTGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (21 bp):
AGAAAAAAAAGAAAAAAAAGG
Found at i:13371799 original size:103 final size:103
Alignment explanation
Indices: 13371610--13371812 Score: 259
Period size: 103 Copynumber: 2.0 Consensus size: 103
13371600 TTCCAAATTA
* * *
13371610 AGGCAATGTTCCTTTATTTACGGAATTTGAGAAATTGTGCTCAAATGTACTGGATATGATTTTTC
1 AGGCAATGTTCCTTTATTTACGGAACTCGAGAAATTGTGCTCAAACGTACTGGATATGATTTTTC
* *
13371675 TTTGAACCTAAGTAATTGAATATCCTATTTGAAAAACG
66 TTTGAACCTAAATAATCGAATATCCTATTTGAAAAACG
* *
13371713 AGGCAATGTTTCTTTATTTA-GGAAACTCGA-AAAGTTTTGCTCAAACGTACTGG-TATGATTTT
1 AGGCAATGTTCCTTTATTTACGG-AACTCGAGAAA-TTGTGCTCAAACGTACTGGATATGA-TTT
* * * *
13371775 TTTTTTGGACCTAAATAATCGAATATTCTATTTTAAAA
63 TTCTTTGAACCTAAATAATCGAATATCCTATTTGAAAA
13371813 TTGAGACAAT
Statistics
Matches: 86, Mismatches: 11, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
102 10 0.12
103 76 0.88
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.39
Consensus pattern (103 bp):
AGGCAATGTTCCTTTATTTACGGAACTCGAGAAATTGTGCTCAAACGTACTGGATATGATTTTTC
TTTGAACCTAAATAATCGAATATCCTATTTGAAAAACG
Found at i:13374346 original size:27 final size:27
Alignment explanation
Indices: 13374284--13374347 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
13374274 GTATATTATA
*
13374284 ATTTTTATTTTTTTTTAAAAATATTCTC
1 ATTTTTA-TTTTTTATAAAAATATTCTC
* *
13374312 ATTATTATTTTTTATAATAAAT-TTCTT
1 ATTTTTATTTTTTATAA-AAATATTCTC
*
13374339 TTTTTTATT
1 ATTTTTATT
13374348 GCTAATTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
27 20 0.67
28 10 0.33
ACGTcount: A:0.28, C:0.05, G:0.00, T:0.67
Consensus pattern (27 bp):
ATTTTTATTTTTTATAAAAATATTCTC
Found at i:13376587 original size:28 final size:28
Alignment explanation
Indices: 13376556--13376612 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
13376546 AATGGGCTTG
*
13376556 ATTAAACTCAGCTTTATAAAAAATGACC
1 ATTAAACTCAGCTTTACAAAAAATGACC
*
13376584 ATTAAACTCAGCTTTACAAAAGATGACC
1 ATTAAACTCAGCTTTACAAAAAATGACC
13376612 A
1 A
13376613 AGTCATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.26
Consensus pattern (28 bp):
ATTAAACTCAGCTTTACAAAAAATGACC
Found at i:13385782 original size:27 final size:26
Alignment explanation
Indices: 13385746--13385799 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13385736 ATATTTTGTT
* *
13385746 AATTAAAAAATCCCCAAAAATATGAAA
1 AATTAAAAAAT-ACCAAAAAAATGAAA
*
13385773 AATTACAAAATACCAAAAAAATGAAA
1 AATTAAAAAATACCAAAAAAATGAAA
13385799 A
1 A
13385800 TGAAAATATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 14 0.58
27 10 0.42
ACGTcount: A:0.67, C:0.13, G:0.04, T:0.17
Consensus pattern (26 bp):
AATTAAAAAATACCAAAAAAATGAAA
Found at i:13387398 original size:58 final size:58
Alignment explanation
Indices: 13387312--13387431 Score: 179
Period size: 58 Copynumber: 2.1 Consensus size: 58
13387302 AAAAGAAGTT
* * *
13387312 GTTTATGAGTGTTATTTAGGAATAAAATTATATTTGGGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTATTATTTAAGAATAAAATTATATTTAGGTTTAAAAATATTTGGGTTTA
* *
13387370 GTTTATGAGTATT-TTTGAAGAATGAAATTATATTTATGTTTAAAAATATTTGGGTTTA
1 GTTTATGAGTATTATTT-AAGAATAAAATTATATTTAGGTTTAAAAATATTTGGGTTTA
13387428 GTTT
1 GTTT
13387432 GTTGATGAGT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
57 3 0.05
58 53 0.95
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.48
Consensus pattern (58 bp):
GTTTATGAGTATTATTTAAGAATAAAATTATATTTAGGTTTAAAAATATTTGGGTTTA
Found at i:13387687 original size:23 final size:23
Alignment explanation
Indices: 13387644--13387688 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13387634 AAAAAAATTC
**
13387644 AACTCGATTCGTTTAACTCGAAT
1 AACTCGATTCGAATAACTCGAAT
*
13387667 AACTCGATTCGAATAATTCGAA
1 AACTCGATTCGAATAACTCGAA
13387689 ATTCGAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.36, C:0.20, G:0.13, T:0.31
Consensus pattern (23 bp):
AACTCGATTCGAATAACTCGAAT
Found at i:13389889 original size:2 final size:2
Alignment explanation
Indices: 13389882--13389919 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13389872 ATTCAAAATA
13389882 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
13389920 TCCTTAAATT
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:13390740 original size:18 final size:18
Alignment explanation
Indices: 13390698--13390752 Score: 78
Period size: 18 Copynumber: 3.2 Consensus size: 18
13390688 ATCAAAAACA
*
13390698 TTTTAT-TTAACAATA-T
1 TTTTATCTTAAAAATATT
*
13390714 TTTTGTCTTAAAAATATT
1 TTTTATCTTAAAAATATT
13390732 TTTTATCTTAAAAATATT
1 TTTTATCTTAAAAATATT
13390750 TTT
1 TTT
13390753 AAAAAATAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
16 5 0.15
17 8 0.24
18 21 0.62
ACGTcount: A:0.35, C:0.05, G:0.02, T:0.58
Consensus pattern (18 bp):
TTTTATCTTAAAAATATT
Found at i:13391940 original size:25 final size:25
Alignment explanation
Indices: 13391906--13391955 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
13391896 TTTAAATATT
* * *
13391906 TTTTTAGTTTTTCATTTAAATTCTG
1 TTTTTAGTTTTACACTTAAACTCTG
13391931 TTTTTAGTTTTACACTTAAACTCTG
1 TTTTTAGTTTTACACTTAAACTCTG
13391956 ATTAGTGTAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.22, C:0.12, G:0.08, T:0.58
Consensus pattern (25 bp):
TTTTTAGTTTTACACTTAAACTCTG
Found at i:13396155 original size:29 final size:28
Alignment explanation
Indices: 13396108--13396211 Score: 131
Period size: 28 Copynumber: 3.6 Consensus size: 28
13396098 AAATTATTTT
13396108 AAATTATTAAAATTATTTTTTAAAATATA
1 AAATTATT-AAATTATTTTTTAAAATATA
*
13396137 AAATT-TCTAAATTATTTTTTAAAATATC
1 AAATTAT-TAAATTATTTTTTAAAATATA
*
13396165 AAATTATTAAAATT-TTTTTTGAAATAATA
1 AAATTATT-AAATTATTTTTTAAAAT-ATA
*
13396194 AAATTATTAAATAATTTT
1 AAATTATTAAATTATTTT
13396212 ATTTTCCAAT
Statistics
Matches: 66, Mismatches: 4, Indels: 10
0.82 0.05 0.12
Matches are distributed among these distances:
28 40 0.61
29 26 0.39
ACGTcount: A:0.48, C:0.02, G:0.01, T:0.49
Consensus pattern (28 bp):
AAATTATTAAATTATTTTTTAAAATATA
Found at i:13397274 original size:19 final size:19
Alignment explanation
Indices: 13397236--13397307 Score: 63
Period size: 19 Copynumber: 4.3 Consensus size: 19
13397226 TCATAATTTT
* *
13397236 AATAATTTTA-TATTTAAA
1 AATAATTATATTATTTTAA
13397254 AATAATTATATTATTTTAA
1 AATAATTATATTATTTTAA
13397273 AATAA--AT-TTA----AA
1 AATAATTATATTATTTTAA
13397285 AA-AATTATATTATTTTAA
1 AATAATTATATTATTTTAA
13397303 AATAA
1 AATAA
13397308 ATTTAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 17
0.69 0.03 0.27
Matches are distributed among these distances:
11 2 0.05
12 4 0.09
13 2 0.05
14 3 0.07
16 3 0.07
17 2 0.05
18 13 0.30
19 14 0.33
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
AATAATTATATTATTTTAA
Found at i:13397293 original size:30 final size:30
Alignment explanation
Indices: 13397247--13397325 Score: 149
Period size: 30 Copynumber: 2.6 Consensus size: 30
13397237 ATAATTTTAT
13397247 ATTTAAAAATAATTATATTATTTTAAAATAA
1 ATTTAAAAA-AATTATATTATTTTAAAATAA
13397278 ATTTAAAAAAATTATATTATTTTAAAATAA
1 ATTTAAAAAAATTATATTATTTTAAAATAA
13397308 ATTTAAAAAAATTATATT
1 ATTTAAAAAAATTATATT
13397326 TTAAAAAATA
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 39 0.81
31 9 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (30 bp):
ATTTAAAAAAATTATATTATTTTAAAATAA
Found at i:13397615 original size:18 final size:19
Alignment explanation
Indices: 13397581--13397616 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
13397571 ATTATACCTA
13397581 ATTAATATAGTAAAAATAG
1 ATTAATATAGTAAAAATAG
*
13397600 ATTAATA-AGTATAAATA
1 ATTAATATAGTAAAAATA
13397617 ATTGGATTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.33
Consensus pattern (19 bp):
ATTAATATAGTAAAAATAG
Found at i:13399542 original size:92 final size:92
Alignment explanation
Indices: 13399424--13399600 Score: 309
Period size: 92 Copynumber: 1.9 Consensus size: 92
13399414 AATTACGGGC
*
13399424 AAAGATAATTTTACTATAATGGCAAAACAACAAAGAGTACAAAAGATGGAAATAAAAACTAAATC
1 AAAGATAATATTACTATAATGGCAAAACAACAAAGAGTACAAAAGATGGAAATAAAAACTAAATC
*
13399489 TCGAAAAAATCAAAAACAAATAGTACA
66 CCGAAAAAATCAAAAACAAATAGTACA
* *
13399516 AAAGATAATATTACTATAATGGCAAAACAACAAAGAGTATAAAAGATGGAGATAAAAACTAAATC
1 AAAGATAATATTACTATAATGGCAAAACAACAAAGAGTACAAAAGATGGAAATAAAAACTAAATC
*
13399581 CCGAAAAACTCAAAAACAAA
66 CCGAAAAAATCAAAAACAAA
13399601 GAACATTCAA
Statistics
Matches: 80, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.59, C:0.12, G:0.11, T:0.18
Consensus pattern (92 bp):
AAAGATAATATTACTATAATGGCAAAACAACAAAGAGTACAAAAGATGGAAATAAAAACTAAATC
CCGAAAAAATCAAAAACAAATAGTACA
Found at i:13401583 original size:8 final size:9
Alignment explanation
Indices: 13401564--13401605 Score: 50
Period size: 9 Copynumber: 4.7 Consensus size: 9
13401554 TAAAAAGTTT
13401564 TTTTTATAA
1 TTTTTATAA
13401573 TTTTTAT-A
1 TTTTTATAA
13401581 TTTTTAATAA
1 TTTTT-ATAA
**
13401591 TTTAAATAA
1 TTTTTATAA
13401600 TTTTTA
1 TTTTTA
13401606 ATTTTAAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
8 6 0.22
9 17 0.63
10 4 0.15
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
TTTTTATAA
Found at i:13403198 original size:2 final size:2
Alignment explanation
Indices: 13403191--13403215 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13403181 CTTCTGATAT
13403191 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
13403216 TTTTATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:13404800 original size:26 final size:27
Alignment explanation
Indices: 13404766--13404821 Score: 96
Period size: 26 Copynumber: 2.1 Consensus size: 27
13404756 TCTTTGTAAT
13404766 ATTTAATTATTATTTTAATAT-ATTTA
1 ATTTAATTATTATTTTAATATAATTTA
*
13404792 ATTTAATTATTTTTTTAATATAATTTA
1 ATTTAATTATTATTTTAATATAATTTA
13404819 ATT
1 ATT
13404822 ATCTTTTTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 20 0.71
27 8 0.29
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (27 bp):
ATTTAATTATTATTTTAATATAATTTA
Found at i:13404818 original size:22 final size:22
Alignment explanation
Indices: 13404766--13404831 Score: 78
Period size: 22 Copynumber: 2.8 Consensus size: 22
13404756 TCTTTGTAAT
*
13404766 ATTTAATTATTATTTTAATATATTTA
1 ATTTAATTATT-TTTT--TA-ATATA
13404792 ATTTAATTATTTTTTTAATATA
1 ATTTAATTATTTTTTTAATATA
*
13404814 ATTTAATTATCTTTTTAA
1 ATTTAATTATTTTTTTAA
13404832 AAGTAAAGAA
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
22 21 0.55
23 2 0.05
25 4 0.11
26 11 0.29
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (22 bp):
ATTTAATTATTTTTTTAATATA
Found at i:13407879 original size:21 final size:23
Alignment explanation
Indices: 13407855--13407899 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
13407845 TAAAAAACTT
*
13407855 ATAAAAAA-ATTTAAAA-ATAAA
1 ATAAAAAATATATAAAATATAAA
13407876 ATAAAAAATATATAAAATATAAA
1 ATAAAAAATATATAAAATATAAA
13407899 A
1 A
13407900 CTTCAGAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 8 0.38
22 7 0.33
23 6 0.29
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (23 bp):
ATAAAAAATATATAAAATATAAA
Found at i:13410849 original size:24 final size:24
Alignment explanation
Indices: 13410806--13410856 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
13410796 AGTTTGACTC
* *
13410806 AAACAAATAAATAAAATTTAATTG
1 AAACAAATAAACAAAATTTAACTG
* *
13410830 AAACAAATAAACATAGTTTAACTG
1 AAACAAATAAACAAAATTTAACTG
13410854 AAA
1 AAA
13410857 GATTATTTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.61, C:0.08, G:0.06, T:0.25
Consensus pattern (24 bp):
AAACAAATAAACAAAATTTAACTG
Found at i:13411502 original size:24 final size:26
Alignment explanation
Indices: 13411444--13411503 Score: 79
Period size: 24 Copynumber: 2.3 Consensus size: 26
13411434 AGTTTTAAGG
13411444 TTAGATTTTCCTCTTTTCATTTTTAGA
1 TTAGATTTTCCTCTTTTCA-TTTTAGA
*
13411471 TTATATTTT-CTCTTTTC-TTTTAGA
1 TTAGATTTTCCTCTTTTCATTTTAGA
*
13411495 TTGGATTTT
1 TTAGATTTT
13411504 ATTTTTGTTG
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.47
26 8 0.27
27 8 0.27
ACGTcount: A:0.17, C:0.12, G:0.08, T:0.63
Consensus pattern (26 bp):
TTAGATTTTCCTCTTTTCATTTTAGA
Found at i:13413001 original size:40 final size:40
Alignment explanation
Indices: 13412956--13413048 Score: 150
Period size: 40 Copynumber: 2.3 Consensus size: 40
13412946 ATAGGTTCAG
* *
13412956 AAGTCTTCCTTTTAATCACTCTTATGCTTTACCGAGTCAT
1 AAGTCTTCCTTTTAATCACTCTTATGCTCTACAGAGTCAT
* *
13412996 AAGTCTTCCTTTAAATCACTCTTATGCTCTATAGAGTCAT
1 AAGTCTTCCTTTTAATCACTCTTATGCTCTACAGAGTCAT
13413036 AAGTCTTCCTTTT
1 AAGTCTTCCTTTT
13413049 TAAAAAAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 48 1.00
ACGTcount: A:0.24, C:0.24, G:0.10, T:0.43
Consensus pattern (40 bp):
AAGTCTTCCTTTTAATCACTCTTATGCTCTACAGAGTCAT
Found at i:13413139 original size:41 final size:41
Alignment explanation
Indices: 13413082--13413185 Score: 147
Period size: 41 Copynumber: 2.5 Consensus size: 41
13413072 CCCACATTTT
*
13413082 GAGACATGAA-TCTTCCTTTAATATAATCTTATTCTCATCCC
1 GAGACAT-AAGTCTTCCTTTAATATAATCTCATTCTCATCCC
* *
13413123 GAGACATAAGTCTTCCTTTAATATGATCTCATTCTCATCCT
1 GAGACATAAGTCTTCCTTTAATATAATCTCATTCTCATCCC
*
13413164 GAGACATGAGTCTTCCATTTAA
1 GAGACATAAGTCTTCC-TTTAA
13413186 ATATCGAGTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
40 2 0.04
41 50 0.88
42 5 0.09
ACGTcount: A:0.29, C:0.23, G:0.11, T:0.38
Consensus pattern (41 bp):
GAGACATAAGTCTTCCTTTAATATAATCTCATTCTCATCCC
Found at i:13420124 original size:40 final size:41
Alignment explanation
Indices: 13420079--13420174 Score: 142
Period size: 40 Copynumber: 2.4 Consensus size: 41
13420069 ATTTCATACT
*
13420079 TCATAAGTCTTCCTTTTAAA-CACTCTTATGCTCTACCGAG
1 TCATAAGTCTTCCTTTTAAATCACTCTTATGCTCTACCGAA
**
13420119 TCATAAGTCTT-CTTTTAAATCACTCTTATGCTCTATTGAA
1 TCATAAGTCTTCCTTTTAAATCACTCTTATGCTCTACCGAA
*
13420159 TAATAAGTCTTCCTTT
1 TCATAAGTCTTCCTTT
13420175 AAAAAAAAAA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
39 8 0.16
40 38 0.76
41 4 0.08
ACGTcount: A:0.26, C:0.23, G:0.08, T:0.43
Consensus pattern (41 bp):
TCATAAGTCTTCCTTTTAAATCACTCTTATGCTCTACCGAA
Found at i:13420238 original size:41 final size:41
Alignment explanation
Indices: 13420202--13420296 Score: 118
Period size: 41 Copynumber: 2.3 Consensus size: 41
13420192 GCTCATTTTG
* *
13420202 AGACAAGAGTTTTCCTATAATATAATCTCATTCTCATCCTA
1 AGACAAGAGTCTTACTATAATATAATCTCATTCTCATCCTA
* * * **
13420243 AGACATGAGTCTTACTTTAATATGATCTCATTCTCATCCCG
1 AGACAAGAGTCTTACTATAATATAATCTCATTCTCATCCTA
*
13420284 AGACATGAGTCTT
1 AGACAAGAGTCTT
13420297 CCATTTAAAT
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
41 47 1.00
ACGTcount: A:0.31, C:0.22, G:0.12, T:0.36
Consensus pattern (41 bp):
AGACAAGAGTCTTACTATAATATAATCTCATTCTCATCCTA
Found at i:13428002 original size:3 final size:3
Alignment explanation
Indices: 13427994--13428026 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
13427984 AGATTATGTT
*
13427994 TAA TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
13428027 AGTTATCATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.03, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:13438048 original size:69 final size:70
Alignment explanation
Indices: 13437900--13438071 Score: 197
Period size: 69 Copynumber: 2.5 Consensus size: 70
13437890 TCATTTACAC
* *
13437900 ACATACAAAAAATTACATTACTCCACCACCACACCCAATTACACGTACAAAAAAGTGACAACCTA
1 ACATACAAAAAATTATATTACTCCACCACCACACCCAATTACACATACAAAAAAGTGACAACCTA
*
13437965 CAATT
66 CAATG
* * * * * * * *
13437970 ACATTCAAAAAATGATATTAGTTCATCACCGCACTCATTTACACATAC-AAAAAGTGACAACCCT
1 ACATACAAAAAATTATATTACTCCACCACCACACCCAATTACACATACAAAAAAGTGACAA-CCT
*
13438034 -CTATG
65 ACAATG
13438039 ACATACAAAAAATTATATT-CATCCACCACCACA
1 ACATACAAAAAATTATATTAC-TCCACCACCACA
13438072 ACCACATCTT
Statistics
Matches: 82, Mismatches: 18, Indels: 5
0.78 0.17 0.05
Matches are distributed among these distances:
69 41 0.50
70 41 0.50
ACGTcount: A:0.45, C:0.28, G:0.05, T:0.22
Consensus pattern (70 bp):
ACATACAAAAAATTATATTACTCCACCACCACACCCAATTACACATACAAAAAAGTGACAACCTA
CAATG
Found at i:13440120 original size:20 final size:20
Alignment explanation
Indices: 13440087--13440176 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
13440077 ATAAAACATG
*
13440087 TTTAAATCTG-TTGTAGCAAA
1 TTTAAATC-GATTGTAGCAGA
*
13440107 TTTAAATCGATTGTAAG-TGA
1 TTTAAATCGATTGT-AGCAGA
* * **
13440127 TTTAAGTCGATTGAAATAGA
1 TTTAAATCGATTGTAGCAGA
*
13440147 TTTAAATCGATTGTAGCATA
1 TTTAAATCGATTGTAGCAGA
*
13440167 TTTGAATCGA
1 TTTAAATCGA
13440177 GTGAAACAGT
Statistics
Matches: 55, Mismatches: 12, Indels: 6
0.75 0.16 0.08
Matches are distributed among these distances:
19 2 0.04
20 51 0.93
21 2 0.04
ACGTcount: A:0.36, C:0.08, G:0.18, T:0.39
Consensus pattern (20 bp):
TTTAAATCGATTGTAGCAGA
Found at i:13440138 original size:10 final size:10
Alignment explanation
Indices: 13440106--13440158 Score: 54
Period size: 10 Copynumber: 5.3 Consensus size: 10
13440096 GTTGTAGCAA
13440106 ATTTAAATCG
1 ATTTAAATCG
*
13440116 ATTGTAAGT-G
1 ATT-TAAATCG
*
13440126 ATTTAAGTCG
1 ATTTAAATCG
* *
13440136 ATTGAAATAG
1 ATTTAAATCG
13440146 ATTTAAATCG
1 ATTTAAATCG
13440156 ATT
1 ATT
13440159 GTAGCATATT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
9 5 0.14
10 26 0.74
11 4 0.11
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.40
Consensus pattern (10 bp):
ATTTAAATCG
Found at i:13442135 original size:20 final size:20
Alignment explanation
Indices: 13442099--13442137 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
13442089 CTAATATATA
*
13442099 TAAACATTTTTAAAAAAATC
1 TAAACATTTTCAAAAAAATC
13442119 TAAA-ATTTTCAATAAAAAT
1 TAAACATTTTCAA-AAAAAT
13442138 ATATGGAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (20 bp):
TAAACATTTTCAAAAAAATC
Found at i:13445035 original size:2 final size:2
Alignment explanation
Indices: 13445023--13445066 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
13445013 GTTAATAAAT
13445023 TA TA T- 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 TA TA
13445063 TA TA
1 TA TA
13445067 CTTTACATAC
Statistics
Matches: 40, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:13456117 original size:7 final size:7
Alignment explanation
Indices: 13456105--13456130 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
13456095 GAAACTCCAC
13456105 TCAATTT
1 TCAATTT
13456112 TCAATTT
1 TCAATTT
13456119 TCAATTT
1 TCAATTT
13456126 TCAAT
1 TCAAT
13456131 CTGTAATCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.15, G:0.00, T:0.54
Consensus pattern (7 bp):
TCAATTT
Found at i:13462026 original size:30 final size:30
Alignment explanation
Indices: 13461990--13462051 Score: 115
Period size: 30 Copynumber: 2.1 Consensus size: 30
13461980 ATGAAAATAT
13461990 AATTAATAATTTTATATGGTTCTATTCAAC
1 AATTAATAATTTTATATGGTTCTATTCAAC
*
13462020 AATTAATAATTTTATATGGTTTTATTCAAC
1 AATTAATAATTTTATATGGTTCTATTCAAC
13462050 AA
1 AA
13462052 AACATTAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.47
Consensus pattern (30 bp):
AATTAATAATTTTATATGGTTCTATTCAAC
Found at i:13465512 original size:27 final size:27
Alignment explanation
Indices: 13465460--13465527 Score: 66
Period size: 27 Copynumber: 2.5 Consensus size: 27
13465450 TTCCTCTTTT
* **
13465460 GAGCCAAGTACAGAATATTATTCATTC
1 GAGCCAAGTACAGAATATAACACATTC
*
13465487 GAGCCAAGTACA-AAGTATAACACATTT
1 GAGCCAAGTACAGAA-TATAACACATTC
**
13465514 GAGCCGTGTACAGA
1 GAGCCAAGTACAGA
13465528 GTATTTGCTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
26 2 0.06
27 30 0.91
28 1 0.03
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.24
Consensus pattern (27 bp):
GAGCCAAGTACAGAATATAACACATTC
Found at i:13465576 original size:27 final size:27
Alignment explanation
Indices: 13465523--13465613 Score: 94
Period size: 27 Copynumber: 3.3 Consensus size: 27
13465513 TGAGCCGTGT
* * * *
13465523 ACAGAGTATTTGCTAATTCGGGTCAAAA
1 ACAGAGTA-TCGCTCATTCAGGCCAAAA
*
13465551 ATAGAGTATCGCTCATTC-GAGCCAAAA
1 ACAGAGTATCGCTCATTCAG-GCCAAAA
* *
13465578 ACAGTGTATCGCTCTTTCAGGCCAAAA
1 ACAGAGTATCGCTCATTCAGGCCAAAA
13465605 ACAGAGTAT
1 ACAGAGTAT
13465614 TGACCTTTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
26 1 0.02
27 44 0.83
28 8 0.15
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
ACAGAGTATCGCTCATTCAGGCCAAAA
Found at i:13466876 original size:14 final size:14
Alignment explanation
Indices: 13466857--13466891 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
13466847 TGTTTGACTG
*
13466857 AAAATGGTTTCTGA
1 AAAATGATTTCTGA
*
13466871 AAAATGATTTCTGG
1 AAAATGATTTCTGA
13466885 AAAATGA
1 AAAATGA
13466892 ATTACTTTTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (14 bp):
AAAATGATTTCTGA
Found at i:13467352 original size:46 final size:48
Alignment explanation
Indices: 13467258--13467366 Score: 132
Period size: 46 Copynumber: 2.3 Consensus size: 48
13467248 TTGTATTACA
* * *
13467258 AATTAGTAGTACACCACATGATGACTACAAATAAATTATCCAAGTGCAT
1 AATTAGTAGTACACAACATGATAACTACAAAT-AATTATCAAAGTGCAT
* *
13467307 AATTAGTAGTACACAACATTATAACTA-AAAT-ATTGTCAAAGTGCAT
1 AATTAGTAGTACACAACATGATAACTACAAATAATTATCAAAGTGCAT
* *
13467353 AACTAGTATTACAC
1 AATTAGTAGTACAC
13467367 CATATAATTT
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
46 25 0.47
48 4 0.08
49 24 0.45
ACGTcount: A:0.44, C:0.17, G:0.11, T:0.28
Consensus pattern (48 bp):
AATTAGTAGTACACAACATGATAACTACAAATAATTATCAAAGTGCAT
Found at i:13472264 original size:14 final size:14
Alignment explanation
Indices: 13472226--13472272 Score: 55
Period size: 13 Copynumber: 3.5 Consensus size: 14
13472216 GGTTTGTCTA
13472226 AGTCAAC-GATCAA-
1 AGTCAACAG-TCAAT
13472239 AGTCAA-AGTCAAT
1 AGTCAACAGTCAAT
13472252 AGTCAACAGTCAAT
1 AGTCAACAGTCAAT
*
13472266 GGTCAAC
1 AGTCAAC
13472273 GATTCGGGTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
12 4 0.13
13 13 0.43
14 13 0.43
ACGTcount: A:0.43, C:0.21, G:0.17, T:0.19
Consensus pattern (14 bp):
AGTCAACAGTCAAT
Found at i:13478356 original size:13 final size:13
Alignment explanation
Indices: 13478340--13478374 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
13478330 CGAATTCAAA
13478340 ATTCGAATTATTT
1 ATTCGAATTATTT
13478353 ATTCGAATTATTT
1 ATTCGAATTATTT
13478366 ATTCGAATT
1 ATTCGAATT
13478375 GACTCAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.31, C:0.09, G:0.09, T:0.51
Consensus pattern (13 bp):
ATTCGAATTATTT
Found at i:13479703 original size:3 final size:3
Alignment explanation
Indices: 13479695--13479724 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
13479685 ATCCTCCAAC
13479695 CTT CTT CTT CTT CTT CTT CTT CTT C-T CTT C
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT C
13479725 AAGTGGCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 2 0.08
3 24 0.92
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
CTT
Found at i:13481281 original size:19 final size:20
Alignment explanation
Indices: 13481257--13481297 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
13481247 ATTCGAAAAA
13481257 TAAATTTAATTT-TTTTATT
1 TAAATTTAATTTATTTTATT
13481276 TAAATTTAATTTGATTTTATT
1 TAAATTTAATTT-ATTTTATT
13481297 T
1 T
13481298 TTTAAATTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (20 bp):
TAAATTTAATTTATTTTATT
Found at i:13481316 original size:24 final size:24
Alignment explanation
Indices: 13481259--13481305 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13481249 TCGAAAAATA
*
13481259 AATTTAATTTTTTTATTTAAATTT
1 AATTTGATTTTTTTATTTAAATTT
13481283 AATTTGATTTTATTT-TTTAAATT
1 AATTTGATTTT-TTTATTTAAATT
13481306 AATCTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 18 0.86
25 3 0.14
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (24 bp):
AATTTGATTTTTTTATTTAAATTT
Found at i:13481461 original size:39 final size:40
Alignment explanation
Indices: 13481395--13481484 Score: 130
Period size: 39 Copynumber: 2.3 Consensus size: 40
13481385 TTAAAAATAT
*
13481395 TTATATTAAAAAAACTACCATAAATATAATAAATATTTTA
1 TTATATTAAAAAAACTACAATAAATATAATAAATATTTTA
*
13481435 TTATATT-AAAAAAC-ACAAATATATATAATAAATATTTTA
1 TTATATTAAAAAAACTAC-AATAAATATAATAAATATTTTA
*
13481474 TTTTATTAAAA
1 TTATATTAAAA
13481485 TATAAATTTT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
38 2 0.04
39 33 0.73
40 10 0.22
ACGTcount: A:0.54, C:0.06, G:0.00, T:0.40
Consensus pattern (40 bp):
TTATATTAAAAAAACTACAATAAATATAATAAATATTTTA
Found at i:13499971 original size:30 final size:30
Alignment explanation
Indices: 13499914--13499972 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
13499904 AGTTTGAACA
*
13499914 AGGTGAAGGGACAATAGGATGAGTATCCTT
1 AGGTGAAGGGACAATAGGATGAATATCCTT
* *
13499944 AGGTGGAGGGACAATATGA-GCAATATCCT
1 AGGTGAAGGGACAATAGGATG-AATATCCT
13499973 CAAGTTCTTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 1 0.04
30 24 0.96
ACGTcount: A:0.34, C:0.12, G:0.32, T:0.22
Consensus pattern (30 bp):
AGGTGAAGGGACAATAGGATGAATATCCTT
Found at i:13511125 original size:22 final size:22
Alignment explanation
Indices: 13511097--13511141 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
13511087 ACAAACCATG
13511097 ATTAAATATTTATTAATCAAAT
1 ATTAAATATTTATTAATCAAAT
13511119 ATTAAATATTTATTAATCAAAT
1 ATTAAATATTTATTAATCAAAT
13511141 A
1 A
13511142 CCCCTTTGAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (22 bp):
ATTAAATATTTATTAATCAAAT
Found at i:13511766 original size:46 final size:46
Alignment explanation
Indices: 13511708--13511804 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
13511698 ACGGAGCTAT
* * *
13511708 ATGCT-GCGAGCATGACTAGTGCGAACATGAATTTTGTGAGCACTG
1 ATGCTGGCAAGCATGACTAGTGCGAACATGAATGTTGGGAGCACTG
13511753 ATGCTGGCAAGCATGACTAGTGCGAACATGAATGTTGGGAGCACTG
1 ATGCTGGCAAGCATGACTAGTGCGAACATGAATGTTGGGAGCACTG
13511799 ATGCTG
1 ATGCTG
13511805 CAAACATTGA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
45 5 0.10
46 43 0.90
ACGTcount: A:0.27, C:0.18, G:0.31, T:0.25
Consensus pattern (46 bp):
ATGCTGGCAAGCATGACTAGTGCGAACATGAATGTTGGGAGCACTG
Found at i:13511825 original size:30 final size:30
Alignment explanation
Indices: 13511791--13511855 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
13511781 TGAATGTTGG
13511791 GAGCACTGATGCTGCAAACATTGACATTGC
1 GAGCACTGATGCTGCAAACATTGACATTGC
**
13511821 GAGCACTGATGCTGCAAACATTGATGTTGC
1 GAGCACTGATGCTGCAAACATTGACATTGC
13511851 GAGCA
1 GAGCA
13511856 TGGATGAAGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (30 bp):
GAGCACTGATGCTGCAAACATTGACATTGC
Found at i:13512209 original size:81 final size:81
Alignment explanation
Indices: 13512121--13512293 Score: 285
Period size: 81 Copynumber: 2.1 Consensus size: 81
13512111 GCCAAAAAAA
*
13512121 AATTTTAGGGGGTCGAAGTTAAATTGTAATTTTTATGATAGTAAAAATGTAAATTTTAAATGATT
1 AATTTTAGGGGGTCGAAGTTAAATTGTAATTTTTATGATAGTAAAAAAGTAAATTTTAAATGATT
*
13512186 AGATCAAAATTTTATC
66 AAATCAAAATTTTATC
* * *
13512202 -ATATTTAGGGGGTTGAAGTTAAATTGTAATTTTTATGATATTAAAAAAGTAATTTTTAAATGAT
1 AAT-TTTAGGGGGTCGAAGTTAAATTGTAATTTTTATGATAGTAAAAAAGTAAATTTTAAATGAT
13512266 TAAATCAAAATTTTATC
65 TAAATCAAAATTTTATC
13512283 AATTTTAGGGG
1 AATTTTAGGGG
13512294 ATAAAGTGTA
Statistics
Matches: 85, Mismatches: 5, Indels: 4
0.90 0.05 0.04
Matches are distributed among these distances:
80 2 0.02
81 81 0.95
82 2 0.02
ACGTcount: A:0.39, C:0.03, G:0.16, T:0.42
Consensus pattern (81 bp):
AATTTTAGGGGGTCGAAGTTAAATTGTAATTTTTATGATAGTAAAAAAGTAAATTTTAAATGATT
AAATCAAAATTTTATC
Found at i:13512586 original size:20 final size:19
Alignment explanation
Indices: 13512555--13512609 Score: 76
Period size: 18 Copynumber: 2.9 Consensus size: 19
13512545 AGATGAGTGT
13512555 AAAATTATAAAAAAAATAA
1 AAAATTATAAAAAAAATAA
* * *
13512574 AAAATTA-ATAAAAATTAT
1 AAAATTATAAAAAAAATAA
13512592 AAAATTATAAAAAAAATA
1 AAAATTATAAAAAAAATA
13512610 GTTTTGCATA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 15 0.50
19 15 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (19 bp):
AAAATTATAAAAAAAATAA
Found at i:13513010 original size:17 final size:17
Alignment explanation
Indices: 13512988--13513043 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 17
13512978 AATCTTTTAC
13512988 ATATTTAAAATTTTATA
1 ATATTTAAAATTTTATA
*
13513005 ATATTTACAATGTTTTAATA
1 ATATTTA-AA-ATTTT-ATA
*
13513025 ATATTTAATATTTT-TA
1 ATATTTAAAATTTTATA
13513041 ATA
1 ATA
13513044 ATTATAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 6 0.18
19 5 0.15
20 10 0.30
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
ATATTTAAAATTTTATA
Found at i:13513027 original size:20 final size:19
Alignment explanation
Indices: 13512988--13513055 Score: 72
Period size: 19 Copynumber: 3.7 Consensus size: 19
13512978 AATCTTTTAC
*
13512988 ATATTTAA-AATTTT-ATA
1 ATATTTAATATTTTTAATA
13513005 ATATTTACA-ATGTTTTAATA
1 ATATTTA-ATAT-TTTTAATA
13513025 ATATTTAATATTTTTAATA
1 ATATTTAATATTTTTAATA
*
13513044 AT-TATAATATTT
1 ATATTTAATATTT
13513056 AAATTTTTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
17 7 0.16
18 11 0.24
19 15 0.33
20 12 0.27
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (19 bp):
ATATTTAATATTTTTAATA
Found at i:13513070 original size:20 final size:20
Alignment explanation
Indices: 13512998--13513071 Score: 69
Period size: 20 Copynumber: 3.5 Consensus size: 20
13512988 ATATTTAAAA
*
13512998 TTTTATAATATTTACAA-TGT
1 TTTTATAATATTTA-AATTTT
*
13513018 TTTAATAATATTTAATATTTT
1 TTTTATAATATTTAA-ATTTT
13513039 TAATAATTATAATATTTAAATTTT
1 T--T--TTATAATATTTAAATTTT
13513063 TTTTATAAT
1 TTTTATAAT
13513072 TTTGCACTCA
Statistics
Matches: 45, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
19 1 0.02
20 21 0.47
21 3 0.07
22 1 0.02
23 1 0.02
24 6 0.13
25 12 0.27
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (20 bp):
TTTTATAATATTTAAATTTT
Found at i:13520776 original size:52 final size:54
Alignment explanation
Indices: 13520699--13520799 Score: 143
Period size: 52 Copynumber: 1.9 Consensus size: 54
13520689 GCTTTTCTTT
13520699 TTTTTAATTAAAATCTATTAATTTAAAATAT-AATTTA-TCCTTTAAATATGTC
1 TTTTTAATTAAAATCTATTAATTTAAAATATAAATTTATTCCTTTAAATATGTC
* ** * *
13520751 TTTTTAATTAAATTCTATTTTTTTAAAATTTAAATTTATTGCTTTAAAT
1 TTTTTAATTAAAATCTATTAATTTAAAATATAAATTTATTCCTTTAAAT
13520800 GGTAAAATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 27 0.64
53 6 0.14
54 9 0.21
ACGTcount: A:0.38, C:0.06, G:0.02, T:0.54
Consensus pattern (54 bp):
TTTTTAATTAAAATCTATTAATTTAAAATATAAATTTATTCCTTTAAATATGTC
Found at i:13520796 original size:21 final size:22
Alignment explanation
Indices: 13520758--13520798 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13520748 GTCTTTTTAA
**
13520758 TTAAATTCTATTTTTTTAAAAT
1 TTAAATTCTATTGCTTTAAAAT
13520780 TTAAATT-TATTGCTTTAAA
1 TTAAATTCTATTGCTTTAAA
13520799 TGGTAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.56
Consensus pattern (22 bp):
TTAAATTCTATTGCTTTAAAAT
Found at i:13520820 original size:17 final size:17
Alignment explanation
Indices: 13520798--13520833 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13520788 ATTGCTTTAA
13520798 ATGGTAAAATAAAGCAT
1 ATGGTAAAATAAAGCAT
13520815 ATGGTAAAATAAAGCAT
1 ATGGTAAAATAAAGCAT
13520832 AT
1 AT
13520834 ATGCTATTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (17 bp):
ATGGTAAAATAAAGCAT
Found at i:13521090 original size:95 final size:95
Alignment explanation
Indices: 13520982--13521164 Score: 287
Period size: 95 Copynumber: 1.9 Consensus size: 95
13520972 AAACTTCTTT
*
13520982 TTTATTCAATCAATCATTTAAGAAAAAAATATTTACCATAAAAATATT-AATTCCAATCAATAAT
1 TTTATTCAATCAATCATTTAAGAAAAAAACATTTACCATAAAAATATTAAATT-CAATCAATAAT
*
13521046 ATTTAATAAAGTTACCCAAATTAATTTATTG
65 ATTTAATAAAATTACCCAAATTAATTTATTG
* * *
13521077 TTTATTCAATCAATCATTTAAGAAGAAAACATTTACCATAAAAATATTAAATTCAATCCATCATA
1 TTTATTCAATCAATCATTTAAGAAAAAAACATTTACCATAAAAATATTAAATTCAATCAATAATA
* *
13521142 TTTAATAAAATTGCCTAAATTAA
66 TTTAATAAAATTACCCAAATTAA
13521165 ATATGATTGA
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
95 76 0.95
96 4 0.05
ACGTcount: A:0.48, C:0.13, G:0.03, T:0.37
Consensus pattern (95 bp):
TTTATTCAATCAATCATTTAAGAAAAAAACATTTACCATAAAAATATTAAATTCAATCAATAATA
TTTAATAAAATTACCCAAATTAATTTATTG
Found at i:13521339 original size:20 final size:20
Alignment explanation
Indices: 13521309--13521365 Score: 64
Period size: 19 Copynumber: 2.9 Consensus size: 20
13521299 AATGTATCTT
*
13521309 CTTTTAATTAAATTTTATT-
1 CTTTAAATTAAATTTTATTC
*
13521328 TTTTAAATTTAAA-TTTATTC
1 CTTTAAA-TTAAATTTTATTC
13521348 CTTTAAATTAATATTTTA
1 CTTTAAATTAA-ATTTTA
13521366 ATAATATTCG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
19 15 0.48
20 12 0.39
21 4 0.13
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (20 bp):
CTTTAAATTAAATTTTATTC
Found at i:13524192 original size:31 final size:30
Alignment explanation
Indices: 13524135--13524192 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13524125 TATATTTTAA
*
13524135 TTTTTAAAAATAATAAAAATTTAATTAATT
1 TTTTTAAAAATAATAAAAATTAAATTAATT
13524165 TTTTTAAAAA-ATATAAAAATATAAATTA
1 TTTTTAAAAATA-ATAAAAAT-TAAATTA
13524193 TTAAAATAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 18 0.72
31 6 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (30 bp):
TTTTTAAAAATAATAAAAATTAAATTAATT
Found at i:13524218 original size:25 final size:26
Alignment explanation
Indices: 13524157--13524220 Score: 64
Period size: 24 Copynumber: 2.6 Consensus size: 26
13524147 ATAAAAATTT
13524157 AATTA-ATTTTT-TTAAAAAATATAA
1 AATTATATTTTTATTAAAAAATATAA
* ** *
13524181 AAATATA-AATTATTAAAATA-ATAA
1 AATTATATTTTTATTAAAAAATATAA
13524205 AATTATATTTTTATTA
1 AATTATATTTTTATTA
13524221 TCATTAAAAT
Statistics
Matches: 30, Mismatches: 7, Indels: 5
0.71 0.17 0.12
Matches are distributed among these distances:
24 16 0.53
25 14 0.47
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATTATATTTTTATTAAAAAATATAA
Found at i:13533759 original size:340 final size:340
Alignment explanation
Indices: 13533139--13533823 Score: 1262
Period size: 340 Copynumber: 2.0 Consensus size: 340
13533129 TGTTTTTGAT
13533139 AAATTTGGCATAATGATGAAGAATTTTTAAATTTTTTAGCATAAAACCATTAAGTTCTATAGGTT
1 AAATTTGGCATAATGATGAAGAATTTTTAAATTTTTTAGCATAAAACCATTAAGTTCTATAGGTT
*
13533204 ACACTAAGTATAGATAGAAAGCAATTGTTGATACCAAATGATGTGAATGATATGAGTAAATAAAC
66 ACACTAAGTATAGATAGAAAGCAATTGTTGATACCAAATAATGTGAATGATATGAGTAAATAAAC
13533269 ATGCTAGTATATATGATAGATAGTAATTTTGGGATTATGTGACTAAATTGATATTTGTGCATATT
131 ATGCTAGTATATATGATAGATAGTAATTTTGGGATTATGTGACTAAATTGATATTTGTGCATATT
* *
13533334 GAGGTGTTTAAGGATGACCTAAGGCATTGTTTGGTTACATCTAGAGCTAAAAAGCTAGACCTTAT
196 GAGGTATTTAAGGATGACCTAAGGCATTGTTTAGTTACATCTAGAGCTAAAAAGCTAGACCTTAT
* *
13533399 AATGAATTCCCAATTAATACCCATCTTTGAGCTTTATGACCTTTCTTAATGAAGTACATTACAAG
261 AATGAATTCCCAATTAATACCCATCTTTGAGCCTTATGACCTTTCTTAATGAACTACATTACAAG
13533464 CCTCTAAAGCCTAAA
326 CCTCTAAAGCCTAAA
* *
13533479 AAATTTGGCATAATGATGAGGAATTTTTAAATTTTTTAGCATGAAACCATTAAGTTCTATAGGTT
1 AAATTTGGCATAATGATGAAGAATTTTTAAATTTTTTAGCATAAAACCATTAAGTTCTATAGGTT
* *
13533544 ACACTAAGTATAGATAGAAAGGAATTGTTGATACCAAATAATGTGAATTATATGAGTAAATAAAC
66 ACACTAAGTATAGATAGAAAGCAATTGTTGATACCAAATAATGTGAATGATATGAGTAAATAAAC
* *
13533609 ATGTTAGTATATATGATAGATAGTAATTTTGGGATTATGTGACTAAATTGATATTTGTGGATATT
131 ATGCTAGTATATATGATAGATAGTAATTTTGGGATTATGTGACTAAATTGATATTTGTGCATATT
13533674 GAGGTATTTAAGGATGACCTAAGGCATTGTTTAGTTACATCTAGAGCTAAAAAGCTAGACCTTAT
196 GAGGTATTTAAGGATGACCTAAGGCATTGTTTAGTTACATCTAGAGCTAAAAAGCTAGACCTTAT
*
13533739 AATGAATTCCCAATTAATACCCATCTTTGAGCCTTATGACCTTTCTTGATGAACTACATTACAAG
261 AATGAATTCCCAATTAATACCCATCTTTGAGCCTTATGACCTTTCTTAATGAACTACATTACAAG
13533804 CCTCTAAAGCCTAAA
326 CCTCTAAAGCCTAAA
13533819 AAATT
1 AAATT
13533824 ATTTGTGTGT
Statistics
Matches: 333, Mismatches: 12, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
340 333 1.00
ACGTcount: A:0.37, C:0.12, G:0.17, T:0.35
Consensus pattern (340 bp):
AAATTTGGCATAATGATGAAGAATTTTTAAATTTTTTAGCATAAAACCATTAAGTTCTATAGGTT
ACACTAAGTATAGATAGAAAGCAATTGTTGATACCAAATAATGTGAATGATATGAGTAAATAAAC
ATGCTAGTATATATGATAGATAGTAATTTTGGGATTATGTGACTAAATTGATATTTGTGCATATT
GAGGTATTTAAGGATGACCTAAGGCATTGTTTAGTTACATCTAGAGCTAAAAAGCTAGACCTTAT
AATGAATTCCCAATTAATACCCATCTTTGAGCCTTATGACCTTTCTTAATGAACTACATTACAAG
CCTCTAAAGCCTAAA
Found at i:13534651 original size:18 final size:18
Alignment explanation
Indices: 13534611--13534652 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
13534601 CTCAAGCTCC
13534611 TTTG-TTTTCTTGCTTTA
1 TTTGCTTTTCTTGCTTTA
* * *
13534628 TATGCTTTTCTTGTTTTG
1 TTTGCTTTTCTTGCTTTA
13534646 TTTGCTT
1 TTTGCTT
13534653 GTGGACAAGC
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 3 0.15
18 17 0.85
ACGTcount: A:0.05, C:0.12, G:0.14, T:0.69
Consensus pattern (18 bp):
TTTGCTTTTCTTGCTTTA
Found at i:13554731 original size:17 final size:17
Alignment explanation
Indices: 13554711--13554747 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
13554701 TTAGAATTGG
*
13554711 ATTGATAAAATAATTTA
1 ATTGAGAAAATAATTTA
*
13554728 ATTGAGAAATTAATTTA
1 ATTGAGAAAATAATTTA
13554745 ATT
1 ATT
13554748 AAAGTTAAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.08, T:0.43
Consensus pattern (17 bp):
ATTGAGAAAATAATTTA
Found at i:13555546 original size:23 final size:23
Alignment explanation
Indices: 13555514--13555558 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
13555504 ACTTTTATAT
*
13555514 TTTTACTTTTAAAAATTTAAAAA
1 TTTTAATTTTAAAAATTTAAAAA
**
13555537 TTTTAATTTTTTAAATTTAAAA
1 TTTTAATTTTAAAAATTTAAAA
13555559 TACAAGTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTAATTTTAAAAATTTAAAAA
Found at i:13577254 original size:31 final size:32
Alignment explanation
Indices: 13577216--13577275 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
13577206 TATTTTTTCA
*
13577216 ATTCAATTAAG-CTTTTGAACATTAAAATTAC
1 ATTCAATTAAGTCATTTGAACATTAAAATTAC
* *
13577247 ATTCAATTAAGTCATTTGACCGTTAAAAT
1 ATTCAATTAAGTCATTTGAACATTAAAAT
13577276 AAAAGGTCAA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 11 0.44
32 14 0.56
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (32 bp):
ATTCAATTAAGTCATTTGAACATTAAAATTAC
Found at i:13577401 original size:9 final size:9
Alignment explanation
Indices: 13577379--13577569 Score: 81
Period size: 10 Copynumber: 20.6 Consensus size: 9
13577369 TTTTATACTT
13577379 AAAATTATTA
1 AAAATTA-TA
13577389 AAAATTATA
1 AAAATTATA
**
13577398 AAAAAAATA
1 AAAATTATA
*
13577407 TAAA-TAT-
1 AAAATTATA
13577414 -AAATTATTA
1 AAAATTA-TA
*
13577423 AAATATTTTA
1 AAA-ATTATA
*
13577433 AAATTTATA
1 AAAATTATA
*
13577442 AAAGATTGTAA
1 AAA-ATTAT-A
13577453 AAAATTATA
1 AAAATTATA
* *
13577462 CAAAATTGTT
1 -AAAATTATA
* *
13577472 AACATAATAA
1 AAAATTAT-A
13577482 AAAATTATA
1 AAAATTATA
*
13577491 TAAATTATGA
1 AAAATTAT-A
13577501 AAAA--ATA
1 AAAATTATA
*
13577508 AAAATTTGTA
1 AAAA-TTATA
13577518 AAAATTATGA
1 AAAATTAT-A
*
13577528 AAAATGT-TT
1 AAAAT-TATA
13577537 AAAA-TATA
1 AAAATTATA
*
13577545 GAAAATTATT
1 -AAAATTATA
*
13577555 AAAACTATTA
1 AAAATTA-TA
13577565 AAAAT
1 AAAAT
13577570 GGAAAAGTGC
Statistics
Matches: 134, Mismatches: 28, Indels: 38
0.67 0.14 0.19
Matches are distributed among these distances:
6 3 0.02
7 8 0.06
8 6 0.04
9 50 0.37
10 59 0.44
11 8 0.06
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (9 bp):
AAAATTATA
Found at i:13577532 original size:26 final size:27
Alignment explanation
Indices: 13577450--13577531 Score: 92
Period size: 27 Copynumber: 3.0 Consensus size: 27
13577440 TAAAAGATTG
* * *
13577450 TAAAAAATTATACAAAATTGTTAACATAA
1 TAAAAAATTATA-AAAATTATGAA-AAAA
*
13577479 TAAAAAATTATATAAATTATGAAAAAA
1 TAAAAAATTATAAAAATTATGAAAAAA
* *
13577506 TAAAAATTTGTAAAAATTATGAAAAA
1 TAAAAAATTATAAAAATTATGAAAAA
13577532 TGTTTAAAAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
27 26 0.57
28 8 0.17
29 12 0.26
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.30
Consensus pattern (27 bp):
TAAAAAATTATAAAAATTATGAAAAAA
Found at i:13587289 original size:19 final size:20
Alignment explanation
Indices: 13587245--13587290 Score: 51
Period size: 19 Copynumber: 2.4 Consensus size: 20
13587235 ATAATCCAAT
*
13587245 AAAATAATTACATGTAGAAA
1 AAAATAATTACATGTAAAAA
*
13587265 ATAATAA-TACAT-TAAATAA
1 AAAATAATTACATGTAAA-AA
13587284 AAAATAA
1 AAAATAA
13587291 ATCTTAATTT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
18 3 0.14
19 13 0.59
20 6 0.27
ACGTcount: A:0.65, C:0.04, G:0.04, T:0.26
Consensus pattern (20 bp):
AAAATAATTACATGTAAAAA
Found at i:13587346 original size:19 final size:20
Alignment explanation
Indices: 13587295--13587347 Score: 51
Period size: 19 Copynumber: 2.8 Consensus size: 20
13587285 AAATAAATCT
13587295 TAATTTAA-AGAAAATAAACG
1 TAATTTAATAGAAAA-AAACG
**
13587315 TAA-TT-ATCTAAAAAAA-G
1 TAATTTAATAGAAAAAAACG
13587332 TAATTTAATAGAAAAA
1 TAATTTAATAGAAAAA
13587348 CTTCTCAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
17 4 0.15
18 6 0.23
19 13 0.50
20 3 0.12
ACGTcount: A:0.60, C:0.04, G:0.08, T:0.28
Consensus pattern (20 bp):
TAATTTAATAGAAAAAAACG
Found at i:13589624 original size:19 final size:19
Alignment explanation
Indices: 13589602--13589660 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
13589592 AAAACTGAAC
13589602 ATTAAAACTAAATTCAAGT
1 ATTAAAACTAAATTCAAGT
* * *
13589621 ATTAAGTACCAAATTGAA-T
1 ATTAA-AACTAAATTCAAGT
*
13589640 AATAAAACTAAATTCAAGT
1 ATTAAAACTAAATTCAAGT
13589659 AT
1 AT
13589661 GAAATGAGAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
18 9 0.30
19 12 0.40
20 9 0.30
ACGTcount: A:0.53, C:0.10, G:0.07, T:0.31
Consensus pattern (19 bp):
ATTAAAACTAAATTCAAGT
Found at i:13593987 original size:29 final size:29
Alignment explanation
Indices: 13593950--13594012 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
13593940 AAGTAATTTA
13593950 ATTTTTTATGT-TCTTTTGACTTTTCTTTT
1 ATTTTTTAT-TCTCTTTTGACTTTTCTTTT
* **
13593979 CTTTTTTATTCTCTTTTGTTTTTTCTTTT
1 ATTTTTTATTCTCTTTTGACTTTTCTTTT
13594008 ATTTT
1 ATTTT
13594013 CCTCTCTTCT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 1 0.03
29 28 0.97
ACGTcount: A:0.08, C:0.11, G:0.05, T:0.76
Consensus pattern (29 bp):
ATTTTTTATTCTCTTTTGACTTTTCTTTT
Found at i:13593994 original size:22 final size:22
Alignment explanation
Indices: 13593969--13594010 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
13593959 GTTCTTTTGA
13593969 CTTTTCTTTTCTT-TTTTATTCT
1 CTTTTCTTTT-TTCTTTTATTCT
*
13593991 CTTTTGTTTTTTCTTTTATT
1 CTTTTCTTTTTTCTTTTATT
13594011 TTCCTCTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.05, C:0.14, G:0.02, T:0.79
Consensus pattern (22 bp):
CTTTTCTTTTTTCTTTTATTCT
Found at i:13594699 original size:20 final size:19
Alignment explanation
Indices: 13594665--13594704 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
13594655 TATTAAAAAA
* *
13594665 TAAAAAAATAAAAAATATT
1 TAAAAAAAAAAAAAAAATT
13594684 TAAAAAAAAAAGAAAAAATT
1 TAAAAAAAAAA-AAAAAATT
13594704 T
1 T
13594705 CTATTCAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.23
Consensus pattern (19 bp):
TAAAAAAAAAAAAAAAATT
Found at i:13603120 original size:12 final size:12
Alignment explanation
Indices: 13603103--13603129 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
13603093 TTCGTCGTAG
13603103 TCATCATCATAA
1 TCATCATCATAA
13603115 TCATCATCATAA
1 TCATCATCATAA
13603127 TCA
1 TCA
13603130 AGTCCATAGT
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:0.41, C:0.26, G:0.00, T:0.33
Consensus pattern (12 bp):
TCATCATCATAA
Found at i:13604829 original size:25 final size:22
Alignment explanation
Indices: 13604795--13604850 Score: 58
Period size: 23 Copynumber: 2.4 Consensus size: 22
13604785 ATGTGTTGTA
*
13604795 ATATAATTATATATTATAAAAAAT
1 ATATACTTATATA-TA-AAAAAAT
*
13604819 GATATACTTATTTATAAAAAAAT
1 -ATATACTTATATATAAAAAAAT
13604842 ACTATACTT
1 A-TATACTT
13604851 TTTTGTCATA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 1 0.04
23 14 0.50
24 2 0.07
25 11 0.39
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.41
Consensus pattern (22 bp):
ATATACTTATATATAAAAAAAT
Found at i:13604900 original size:26 final size:29
Alignment explanation
Indices: 13604869--13604922 Score: 78
Period size: 26 Copynumber: 2.0 Consensus size: 29
13604859 TAACTTATTT
*
13604869 ATAAAAAA-TA-ATTTTTTA-AAGTTATA
1 ATAAAAAATTATATTATTTATAAGTTATA
13604895 ATAAAAAATTATATTATTTATAAGTTAT
1 ATAAAAAATTATATTATTTATAAGTTAT
13604923 TACAAACTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 8 0.33
27 2 0.08
28 7 0.29
29 7 0.29
ACGTcount: A:0.52, C:0.00, G:0.04, T:0.44
Consensus pattern (29 bp):
ATAAAAAATTATATTATTTATAAGTTATA
Found at i:13605929 original size:20 final size:21
Alignment explanation
Indices: 13605896--13605934 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
13605886 AAATTTAGAT
13605896 TTTTTTATCATAA-TAATAAA
1 TTTTTTATCATAATTAATAAA
13605916 TTTTTTAT-AGTAATTAATA
1 TTTTTTATCA-TAATTAATA
13605935 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 1 0.06
20 11 0.65
21 5 0.29
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (21 bp):
TTTTTTATCATAATTAATAAA
Found at i:13615648 original size:17 final size:17
Alignment explanation
Indices: 13615614--13615662 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
13615604 AAAAATTTCT
* * *
13615614 TCCTTCTCTCCTTTTCC
1 TCCTTCTTTTCTTCTCC
* *
13615631 TTCTTCTTTTTTTCTCC
1 TCCTTCTTTTCTTCTCC
13615648 TCCTTCTTTTCTTCT
1 TCCTTCTTTTCTTCT
13615663 TTCTCTTCCT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
TCCTTCTTTTCTTCTCC
Found at i:13615670 original size:17 final size:16
Alignment explanation
Indices: 13615609--13615670 Score: 51
Period size: 17 Copynumber: 3.9 Consensus size: 16
13615599 ACGACAAAAA
*
13615609 TTTCTTCCTTCTCTCCT
1 TTTCTT-CTTCTCTTCT
13615626 TTTCCTTCTTCT-TT-T
1 TTT-CTTCTTCTCTTCT
*
13615641 TTTC-TCCTC-CTTCT
1 TTTCTTCTTCTCTTCT
13615655 TTTCTTCTTTCTCTTC
1 TTTCTTC-TTCTCTTC
13615671 CTCAATACCC
Statistics
Matches: 36, Mismatches: 3, Indels: 12
0.71 0.06 0.24
Matches are distributed among these distances:
13 6 0.17
14 6 0.17
15 6 0.17
16 3 0.08
17 12 0.33
18 3 0.08
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (16 bp):
TTTCTTCTTCTCTTCT
Found at i:13622674 original size:71 final size:72
Alignment explanation
Indices: 13622558--13622702 Score: 238
Period size: 71 Copynumber: 2.0 Consensus size: 72
13622548 TGGATTAAAC
*
13622558 CGCAAAACAAATTGAGTCGCAAGTGCATTCCATGATATAATTGATCCAATAGGTAATCCAA-AAA
1 CGCAAAACAAATTGAGTCGCAAGTGCATTCCACGATATAATTGATCCAATAGGTAATCCAAGAAA
13622622 CTAGGTA
66 CTAGGTA
* * * *
13622629 CGCAAAACAAATTGAGTTGCAAGTGCATTCCACGATATAATTGATCTAGTAGGTAATCCAAGGAA
1 CGCAAAACAAATTGAGTCGCAAGTGCATTCCACGATATAATTGATCCAATAGGTAATCCAAGAAA
13622694 CTAGGTA
66 CTAGGTA
13622701 CG
1 CG
13622703 AGCCCTTCCT
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
71 57 0.84
72 11 0.16
ACGTcount: A:0.39, C:0.18, G:0.19, T:0.24
Consensus pattern (72 bp):
CGCAAAACAAATTGAGTCGCAAGTGCATTCCACGATATAATTGATCCAATAGGTAATCCAAGAAA
CTAGGTA
Found at i:13627327 original size:26 final size:26
Alignment explanation
Indices: 13627289--13627351 Score: 92
Period size: 26 Copynumber: 2.4 Consensus size: 26
13627279 GCTTATACAG
13627289 CGACAACTT-TGAACAAATTCCTGCAA
1 CGACAA-TTCTGAACAAATTCCTGCAA
* *
13627315 CGACAATTCTGAACAAGTTCTTGCAA
1 CGACAATTCTGAACAAATTCCTGCAA
13627341 CGACAATTCTG
1 CGACAATTCTG
13627352 GGTGCAATGC
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
25 2 0.06
26 32 0.94
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.25
Consensus pattern (26 bp):
CGACAATTCTGAACAAATTCCTGCAA
Found at i:13629036 original size:24 final size:25
Alignment explanation
Indices: 13628955--13629047 Score: 100
Period size: 24 Copynumber: 3.8 Consensus size: 25
13628945 CTTCCGGATT
* * ***
13628955 TTAGCTCATACGAGCCCAGATAAAA
1 TTAGCTCTTACGAGCCCAGAGATGG
* *
13628980 TTAGCTCTCACGAGCCTA-AGATGG
1 TTAGCTCTTACGAGCCCAGAGATGG
13629004 TTAGCTCTTACGAGCCCAGA-ATGG
1 TTAGCTCTTACGAGCCCAGAGATGG
*
13629028 TTAGCTCTTACAAGCCCAGA
1 TTAGCTCTTACGAGCCCAGA
13629048 AAGCTTAACC
Statistics
Matches: 57, Mismatches: 10, Indels: 3
0.81 0.14 0.04
Matches are distributed among these distances:
24 41 0.72
25 16 0.28
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (25 bp):
TTAGCTCTTACGAGCCCAGAGATGG
Found at i:13651526 original size:82 final size:82
Alignment explanation
Indices: 13651379--13651532 Score: 202
Period size: 82 Copynumber: 1.9 Consensus size: 82
13651369 ACCACTATAT
* * *
13651379 GATGCTGCTCACACAAGCTGATGAGAATTCACGACATACACGAAGACTCAGCCATCGATACGGTC
1 GATGCTGCTCACACAAGCTGATGAGAAGTCACAACAAACACGAAGACTCAGCCATCGATACGGTC
*
13651444 CAGAATTTCCCACTCTC
66 CACAATTTCCCACTCTC
* * * * * *
13651461 GATGCTGCTTACACAAGCTGATGAGAAGTCGCAACAAACTCGAAGACTTAGTCATCGA-AGGGGT
1 GATGCTGCTCACACAAGCTGATGAGAAGTCACAACAAACACGAAGACTCAGCCATCGATA-CGGT
13651525 CCACAATT
65 CCACAATT
13651533 CAATATTCGT
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
81 1 0.02
82 60 0.98
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (82 bp):
GATGCTGCTCACACAAGCTGATGAGAAGTCACAACAAACACGAAGACTCAGCCATCGATACGGTC
CACAATTTCCCACTCTC
Found at i:13655311 original size:712 final size:709
Alignment explanation
Indices: 13653857--13655985 Score: 3378
Period size: 712 Copynumber: 3.0 Consensus size: 709
13653847 CCTGCAGCGG
* * * * * *
13653857 CAATTCTAGGCACAATTCTGGACATCGTCATGCAGTGACAATTCTAGGCGCAATTCTGAATAGAC
1 CAATTCTGGGCGCAATTCTGGACATCATCATGCAGTGACAATTCTGGGCGTAATTCTGAATGGAC
* * * *
13653922 TCATGCAACTACATTAGTAGTAAAATATGATAAAATTAAAGGCAACTTAACTAAGGTCCATTGAG
66 TCATGCAGCGACATTAGTAGTAAAATATGATAAAA-TAAAAGCAACTTAGCTAAGGTCCATTGAG
*
13653987 TTAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGCTAAGAATGACTAAATGGGAA
130 TTAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGTTAAGAATGACTAAATGGGAA
* *
13654052 CAACTTAAACAATATGTAGAGAGAAATTCATGGTTCTTTCTAGTACTATCACATCCCCCAAACTT
195 CAACTTAAACAATAAGTAGGGAGAAATTCATGGTTCTTTCTAGTACTATCACA-CCCCCAAACTT
* * * *
13654117 GAGTTTTTACTTGTCCTCAAGTAAAACAAAAACTAGCAAGGCTATACAAAAATTTATCATGAAAA
259 GAGTTTTTACTTGTCCTCAAGTAAAACAGAAACTAGCAAGACTATACAAAAATTTATCAAGGAAA
* *
13654182 ATGATCATTCTAGCAACTTGAATCATCTAAAATTCCAATGAATGATTCACATTCCAATGATAGAA
324 ATGATCATTCTAGCAACTTGAATCATCTAAAATTCCAATGAATGAATCACATTCCAATGACAGAA
* *
13654247 TATTGTGCCGACAATTCATAAGCATGAATAACT-A-A-T--A--T--T----GC-AACATCATGC
389 TATTGCGCCGACAATTCATAAGCATGAATAACTAAGATTGAACTTCATCAAAGCTAGCATCATGC
* * * *
13654298 TTCAAATCCTACATTCTATCTACCAATACAACATTTATTGTATAATAATATAT--ATGTATTTTT
454 TTCAAATCTTACATTCTATCTACCAATACAACATTTATTGTACAATAATATATACATATATCTTT
* *
13654361 TTCTTTTCCCTTTTTTTTATGTGACTGAGGGATGTCGTTGCATTACTATACCCTTTATTCTTGAG
519 TTCTTTTCCC-TTTTTTTATGTGACTGAGGGATGACGTTGCATTACTATACCCTTTGTTCTTGAG
* * * *
13654426 AAGTAACGATGGAGTGCAACAAACCCCAGAGACTACGTAATTGCATCGACATACACTCTTGCAGT
583 AAGTAACGATGGAGTGCAACAAACCCAAG-GAGTACGTAA-T-CATCGACACACACTCTTGCAGC
* * *
13654491 AACACCCTTTGGCTAGATTCATTTTTCTAACACTTGCATTGGAGTGTTCCCCGTTAAACAGTTCA
645 GACAGCCTTTGGCTAGATTCATTTTTCTAACACTTGCATTGGAGTGTTCCCCCTTAAACAGTTCA
* *
13654556 CAATTCTGGGTGCAATTCTGGACATCATCATGCAGTGACAATTCTGGGTGTAATTCTGAATGGAC
1 CAATTCTGGGCGCAATTCTGGACATCATCATGCAGTGACAATTCTGGGCGTAATTCTGAATGGAC
* *
13654621 TCATGCAGCGAAATTAGAAGTAAAATATGATAAAATAAAAGACAACTTAGCTAAGGTCCATTGAG
66 TCATGCAGCGACATTAGTAGTAAAATATGATAAAATAAAAG-CAACTTAGCTAAGGTCCATTGAG
13654686 TTAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGTTAAGAATGACTAAATGGGAA
130 TTAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGTTAAGAATGACTAAATGGGAA
13654751 CAACTTAAACAATAAGTAGGGAGAAATTCATGGTTCTTTCTAGTACTATCACACCCCCAAACTTG
195 CAACTTAAACAATAAGTAGGGAGAAATTCATGGTTCTTTCTAGTACTATCACACCCCCAAACTTG
*
13654816 AATTTTTACTTGTCCTCAAGTAAAACAGAAACTAGCAAGACTATACAAAAATTTATCAAGGAAAA
260 AGTTTTTACTTGTCCTCAAGTAAAACAGAAACTAGCAAGACTATACAAAAATTTATCAAGGAAAA
*
13654881 TGATCATTCCAGCAACTTGAATCATCTAAAATTCCAATGAATGAATCACATTCCAATGACAGAAT
325 TGATCATTCTAGCAACTTGAATCATCTAAAATTCCAATGAATGAATCACATTCCAATGACAGAAT
*
13654946 ATTGCGTCGACAATTCATAAGCATGAATAACTAAGATTGCAACTTCATCAAAGCTAGCATCATGC
390 ATTGCGCCGACAATTCATAAGCATGAATAACTAAGATTG-AACTTCATCAAAGCTAGCATCATGC
* *
13655011 TTCAAATCTTACATTCTATCTACCAATGCAATATTTATTGTACAATAATATATACATATATCTTT
454 TTCAAATCTTACATTCTATCTACCAATACAACATTTATTGTACAATAATATATACATATATCTTT
*
13655076 TTCTTTTCCC-TTTTTT-TGTGACTGAGGGATGACATTGCATTACTATACCCTTTGTTCTTGAGA
519 TTCTTTTCCCTTTTTTTATGTGACTGAGGGATGACGTTGCATTACTATACCCTTTGTTCTTGAGA
* *
13655139 AGTAACGATGGAGTGCAATAAACCCAATGGAGTACGTAATCATACAGACACATACTCTTGCAGCG
584 AGTAACGATGGAGTGCAACAAACCCAA-GGAGTACGTAATCAT-C-GACACACACTCTTGCAGCG
* *
13655204 ACAGTCATTGGCTAGATTCATTTTTCTAACACTTGCATTGGAGTGTTCCCCCTTAAACAGTTCA
646 ACAGCCTTTGGCTAGATTCATTTTTCTAACACTTGCATTGGAGTGTTCCCCCTTAAACAGTTCA
* *
13655268 CAATTCTGGGCGCAATTCTGGACATCATCATGTAGTTACAATTCTGGGCGTAATTCTGAATGGAC
1 CAATTCTGGGCGCAATTCTGGACATCATCATGCAGTGACAATTCTGGGCGTAATTCTGAATGGAC
* *
13655333 TCATGCAGTGACATTAGTAGTAAAATATGATAAAATTAAAAGCAACTTAGCTAAGGTCAATTGAG
66 TCATGCAGCGACATTAGTAGTAAAATATGATAAAA-TAAAAGCAACTTAGCTAAGGTCCATTGAG
13655398 TTAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGTTAAGAATGACTAAATGGGAA
130 TTAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGTTAAGAATGACTAAATGGGAA
* *
13655463 CAACTTAAACAATAAGTAAGGAGAAATTCATGGTTCTTTCTAGTACTATCACACTCCCAAACTTG
195 CAACTTAAACAATAAGTAGGGAGAAATTCATGGTTCTTTCTAGTACTATCACACCCCCAAACTTG
* * * *
13655528 AGTTTTTTCTTGTTCTCAAGTAAAATAGAAACTAGAAAGACTATACAAAAATTTATCAA-GACAA
260 AGTTTTTACTTGTCCTCAAGTAAAACAGAAACTAGCAAGACTATACAAAAATTTATCAAGGA-AA
* *
13655592 ATGATCATTCTAGTAAATTGAATCATCTAAAATTCCAATGAATGAATCACATTCCAATGACAGAA
324 ATGATCATTCTAGCAACTTGAATCATCTAAAATTCCAATGAATGAATCACATTCCAATGACAGAA
* *
13655657 TATTACGCCGACAATTCATAAGCATTAATAACTAAGATTGAAACTTCATCAAAGCTAGCATCATG
389 TATTGCGCCGACAATTCATAAGCATGAATAACTAAGATTG-AACTTCATCAAAGCTAGCATCATG
*
13655722 CTTCAAATCTTACATTCTATCTACCAATACAACATTTATTGGACAATAATATATACATATATCTT
453 CTTCAAATCTTACATTCTATCTACCAATACAACATTTATTGTACAATAATATATACATATATCTT
13655787 TTTCTTTTCCCTTTTTTTATGTGACTGAGGGATGACGTTGCATTACTATACCCTTTGTTCTTGAG
518 TTTCTTTTCCCTTTTTTTATGTGACTGAGGGATGACGTTGCATTACTATACCCTTTGTTCTTGAG
* *
13655852 AAGTAACGATGAAGTGCAACAAACCCAAGGGAGTACGTAATTATGCTGACACACACTCTTGCAGC
583 AAGTAACGATGGAGTGCAACAAACCCAA-GGAGTACGTAATCAT-C-GACACACACTCTTGCAGC
*
13655917 GACAGCCTTTGGCTAGATTCATTTTTCTAGCACTTGCATTGGAGTGTTCCCCCTTAAACAGTTCA
645 GACAGCCTTTGGCTAGATTCATTTTTCTAACACTTGCATTGGAGTGTTCCCCCTTAAACAGTTCA
13655982 CAAT
1 CAAT
13655986 ACACCCACAT
Statistics
Matches: 1321, Mismatches: 84, Indels: 35
0.92 0.06 0.02
Matches are distributed among these distances:
698 169 0.13
699 226 0.17
700 1 0.00
701 1 0.00
704 1 0.00
706 1 0.00
708 1 0.00
710 3 0.00
711 4 0.00
712 650 0.49
713 77 0.06
714 169 0.13
715 18 0.01
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (709 bp):
CAATTCTGGGCGCAATTCTGGACATCATCATGCAGTGACAATTCTGGGCGTAATTCTGAATGGAC
TCATGCAGCGACATTAGTAGTAAAATATGATAAAATAAAAGCAACTTAGCTAAGGTCCATTGAGT
TAGAAAATGAAATGAACTAACTTAAAAATTGCTAAAATGTGTGTTAAGAATGACTAAATGGGAAC
AACTTAAACAATAAGTAGGGAGAAATTCATGGTTCTTTCTAGTACTATCACACCCCCAAACTTGA
GTTTTTACTTGTCCTCAAGTAAAACAGAAACTAGCAAGACTATACAAAAATTTATCAAGGAAAAT
GATCATTCTAGCAACTTGAATCATCTAAAATTCCAATGAATGAATCACATTCCAATGACAGAATA
TTGCGCCGACAATTCATAAGCATGAATAACTAAGATTGAACTTCATCAAAGCTAGCATCATGCTT
CAAATCTTACATTCTATCTACCAATACAACATTTATTGTACAATAATATATACATATATCTTTTT
CTTTTCCCTTTTTTTATGTGACTGAGGGATGACGTTGCATTACTATACCCTTTGTTCTTGAGAAG
TAACGATGGAGTGCAACAAACCCAAGGAGTACGTAATCATCGACACACACTCTTGCAGCGACAGC
CTTTGGCTAGATTCATTTTTCTAACACTTGCATTGGAGTGTTCCCCCTTAAACAGTTCA
Found at i:13660587 original size:26 final size:26
Alignment explanation
Indices: 13660552--13660618 Score: 98
Period size: 26 Copynumber: 2.6 Consensus size: 26
13660542 AACATATCAC
* *
13660552 ACAGCAATAATTTTGAACAAGTTCAT
1 ACAGCGATAATTCTGAACAAGTTCAT
* *
13660578 GCAGCGATAATTCTGAACAAGTTCTT
1 ACAGCGATAATTCTGAACAAGTTCAT
13660604 ACAGCGATAATTCTG
1 ACAGCGATAATTCTG
13660619 GGCGCAATGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (26 bp):
ACAGCGATAATTCTGAACAAGTTCAT
Found at i:13661634 original size:17 final size:16
Alignment explanation
Indices: 13661602--13661681 Score: 61
Period size: 17 Copynumber: 4.7 Consensus size: 16
13661592 ATTAAATTAC
13661602 AATGACAAATGGAAATGT
1 AATGAC-AAT-GAAATGT
*
13661620 AATGACAATGCAAATGC
1 AATGACAATG-AAATGT
* *
13661637 AGTGACAATTAGAATGT
1 AATGACAATGA-AATGT
* *
13661654 AATGGCAATAGGAATGT
1 AATGACAAT-GAAATGT
*
13661671 GATGACAATGA
1 AATGACAATGA
13661682 TTACTAACAG
Statistics
Matches: 48, Mismatches: 11, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
16 3 0.06
17 39 0.81
18 6 0.12
ACGTcount: A:0.45, C:0.09, G:0.24, T:0.23
Consensus pattern (16 bp):
AATGACAATGAAATGT
Found at i:13661740 original size:13 final size:12
Alignment explanation
Indices: 13661722--13661754 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
13661712 GGTATGCATG
13661722 AAAAACTAAAACT
1 AAAAACTAAAA-T
13661735 AAAAACTAAAAT
1 AAAAACTAAAAT
13661747 -AAAACTAA
1 AAAAACTAA
13661755 CTCAACTAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 8 0.40
12 1 0.05
13 11 0.55
ACGTcount: A:0.73, C:0.12, G:0.00, T:0.15
Consensus pattern (12 bp):
AAAAACTAAAAT
Found at i:13671847 original size:26 final size:26
Alignment explanation
Indices: 13671809--13671868 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
13671799 GCTTGTACAG
13671809 CGACAACTTTGAACAAGTTCCTGCAA
1 CGACAACTTTGAACAAGTTCCTGCAA
* *
13671835 CGACAA-TTCTGAACAAGTTCTTGCAG
1 CGACAACTT-TGAACAAGTTCCTGCAA
13671861 CGACAACT
1 CGACAACT
13671869 CTAGGCGCAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
25 2 0.07
26 27 0.90
27 1 0.03
ACGTcount: A:0.33, C:0.27, G:0.17, T:0.23
Consensus pattern (26 bp):
CGACAACTTTGAACAAGTTCCTGCAA
Found at i:13673543 original size:25 final size:24
Alignment explanation
Indices: 13673515--13673567 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
13673505 AGCTCATATA
13673515 AGCCTAGACAAAATTAGCTCTCACG
1 AGCCTA-ACAAAATTAGCTCTCACG
* * *
13673540 AGCCTAAGATAATTAGCTCTTACG
1 AGCCTAACAAAATTAGCTCTCACG
13673564 AGCC
1 AGCC
13673568 CAGAATGGTT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 19 0.76
25 6 0.24
ACGTcount: A:0.34, C:0.26, G:0.17, T:0.23
Consensus pattern (24 bp):
AGCCTAACAAAATTAGCTCTCACG
Found at i:13678143 original size:79 final size:79
Alignment explanation
Indices: 13678012--13678165 Score: 236
Period size: 79 Copynumber: 1.9 Consensus size: 79
13678002 CAACCATTTC
* ** * * *
13678012 GTCAACTCTTGGCACCCGGTGCCTAGCGAATAAATCGCGATGAATGAGCCCAACTCTAGTTGGAT
1 GTCAACTCATGGCACCAAGTGCCTAGCGAATAAACCGCAATAAATGAGCCCAACTCTAGTTGGAT
13678077 TAACCAACGAACCT
66 TAACCAACGAACCT
* *
13678091 GTCAATTCATGGCACCAAGTGCCTAGCGGATAAACCGCAATAAATGAGCCCAACTCTAGTTGGAT
1 GTCAACTCATGGCACCAAGTGCCTAGCGAATAAACCGCAATAAATGAGCCCAACTCTAGTTGGAT
13678156 TAACCAACGA
66 TAACCAACGA
13678166 TTTTGCGCCC
Statistics
Matches: 67, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 67 1.00
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.21
Consensus pattern (79 bp):
GTCAACTCATGGCACCAAGTGCCTAGCGAATAAACCGCAATAAATGAGCCCAACTCTAGTTGGAT
TAACCAACGAACCT
Found at i:13684295 original size:22 final size:21
Alignment explanation
Indices: 13684269--13684318 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 21
13684259 ATTTTTAAAA
13684269 TTTTAACTTTTTTAATATATAT
1 TTTTAA-TTTTTTAATATATAT
*
13684291 TTTTAGATTTTTTTATATATAT
1 TTTTA-ATTTTTTAATATATAT
13684313 TTTTAA
1 TTTTAA
13684319 AATATAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.92
23 1 0.04
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTAATTTTTTAATATATAT
Found at i:13684317 original size:35 final size:34
Alignment explanation
Indices: 13684277--13684349 Score: 92
Period size: 34 Copynumber: 2.1 Consensus size: 34
13684267 AATTTTAACT
* * ** *
13684277 TTTTTAATATATATTTTTAGATTTTTTTATATATA
1 TTTTTAAAATATAATTTT-GAAATTTTTATAAATA
13684312 TTTTTAAAATATAATTTTGAAATTTTTATAAATA
1 TTTTTAAAATATAATTTTGAAATTTTTATAAATA
13684346 TTTT
1 TTTT
13684350 AAATTTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
34 17 0.52
35 16 0.48
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (34 bp):
TTTTTAAAATATAATTTTGAAATTTTTATAAATA
Found at i:13684367 original size:20 final size:20
Alignment explanation
Indices: 13684311--13684371 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
13684301 TTTTATATAT
13684311 ATTTTTAAAATATAATTTTGAA
1 ATTTTTAAAAT-T-ATTTTGAA
13684333 ATTTTTATAAA-TATTTT-AA
1 ATTTTTA-AAATTATTTTGAA
13684352 ATTTTTGAAAATTATTTTGA
1 ATTTTT-AAAATTATTTTGA
13684372 TTTTTTTGTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
19 11 0.31
20 12 0.34
21 2 0.06
22 7 0.20
23 3 0.09
ACGTcount: A:0.41, C:0.00, G:0.05, T:0.54
Consensus pattern (20 bp):
ATTTTTAAAATTATTTTGAA
Found at i:13685476 original size:15 final size:16
Alignment explanation
Indices: 13685456--13685502 Score: 66
Period size: 14 Copynumber: 3.2 Consensus size: 16
13685446 GGTCAAAGTG
13685456 TAATTTT-AATTTTAT
1 TAATTTTAAATTTTAT
13685471 TAATTTTAAATTTTA-
1 TAATTTTAAATTTTAT
13685486 -AATTTTAAATTTT-T
1 TAATTTTAAATTTTAT
13685500 TAA
1 TAA
13685503 AGAACCTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
14 13 0.45
15 9 0.31
16 7 0.24
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TAATTTTAAATTTTAT
Found at i:13685484 original size:7 final size:7
Alignment explanation
Indices: 13685457--13685498 Score: 59
Period size: 7 Copynumber: 5.9 Consensus size: 7
13685447 GTCAAAGTGT
13685457 AATTTT-
1 AATTTTA
13685463 AATTTTA
1 AATTTTA
13685470 TTAATTTTA
1 --AATTTTA
13685479 AATTTTA
1 AATTTTA
13685486 AATTTTA
1 AATTTTA
13685493 AATTTT
1 AATTTT
13685499 TTAAAGAACC
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
6 6 0.18
7 20 0.61
9 7 0.21
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (7 bp):
AATTTTA
Found at i:13693573 original size:36 final size:36
Alignment explanation
Indices: 13693531--13693665 Score: 243
Period size: 36 Copynumber: 3.8 Consensus size: 36
13693521 TGGTAACAAG
13693531 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
* *
13693567 CATGACCTTTGGGTCAACAGGAAGTAAAATGAGTAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
13693603 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
1 CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
*
13693639 CATGACCTTGGGGTCAACAGGGAGTAA
1 CATGACCTTTGGGTCAACAGGGAGTAA
13693666 GCATGACCTT
Statistics
Matches: 94, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 94 1.00
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.22
Consensus pattern (36 bp):
CATGACCTTTGGGTCAACAGGGAGTAAAATGAGCAT
Found at i:13693680 original size:28 final size:28
Alignment explanation
Indices: 13693639--13693693 Score: 92
Period size: 28 Copynumber: 2.0 Consensus size: 28
13693629 AAATGAGCAT
*
13693639 CATGACCTTGGGGTCAACAGGGAGTAAG
1 CATGACCTTGGGGTCAACAGAGAGTAAG
*
13693667 CATGACCTTTGGGTCAACAGAGAGTAA
1 CATGACCTTGGGGTCAACAGAGAGTAA
13693694 ATTAGATATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.31, C:0.18, G:0.31, T:0.20
Consensus pattern (28 bp):
CATGACCTTGGGGTCAACAGAGAGTAAG
Found at i:13697953 original size:49 final size:49
Alignment explanation
Indices: 13697892--13698548 Score: 258
Period size: 48 Copynumber: 13.6 Consensus size: 49
13697882 TTCTCATCTT
* * *
13697892 ATCTCTAAGGTATAAGGTTTGCCGTTATGGCCTCGACCTTTCCCTTCAC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * ** ** * * **
13697941 ATCTCTAGGGTATAAGATTCGCCATTGCAGCCTTAATCTTT-CCATCTT
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * *
13697989 ATCTCTAAGATATAAGGTTCGCCGTTATGGCCTCGACCTTTCCCTTCAC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* ** * * *
13698038 ATCT-TAAGGGTATAAGATTTGCTATTGTAGCCTCAATCTTTTCACCTT---
1 ATCTCTAA-GGTATAAGATTCGCCGTTGTGGCCTCGA-CCTTTC-CCTTCAC
* * * *
13698086 ATCTCTAAAGTATAAGGTTCGCCGTTGCGGCCTCGACATTTCCCTTCAC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * * ** *** * * * **
13698135 ATCTTTAGGGTATAAGATTTGCTATTACAGCCTCAATCTTT-CCATCTT
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * * * ** * *
13698183 ATCTCTAAGGT-TCAAGATTCGCTGTTGCGGCTTCAAATTTTCCCATCAT
1 ATCTCTAAGGTAT-AAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * * ** ** * * *
13698232 GTCTCTAAGGTACAAGGTTCATCGTTACGGCTTCAACCTTTCCC-TCGC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
** * * * ** * * * *
13698280 ATCTCTATTGTATAAAATTCACTGTTGTGGATTCAATCTTTCCCATCAT
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
** * * * * **
13698329 GCCTCTAAGGAATAAGGTTCGTCGTTGTGGCTTTAACCTTTCCC-TCAC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * * * *
13698377 ATCTCCATGGTACAAGATTCGTCGTTGT-GCCTTCAACCTTTCCC-TCAC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCC-TCGACCTTTCCCTTCAC
* * * * * * * * *
13698425 ATCTCCATGGTACAAGATTCGCCATTGCGGCTTCAATCTTTCCCATCAC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
** * * * * * * *
13698474 GGCTCTAAGGTACAAGGTTTGCCGTTATGGCTTCAACCTTTCCC-TCGC
1 ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
* * * *
13698522 ATCTCCATGGTAAAAGATTCGTCGTTG
1 ATCTCTAAGGTATAAGATTCGCCGTTG
13698549 CGGCTTCAAT
Statistics
Matches: 451, Mismatches: 142, Indels: 31
0.72 0.23 0.05
Matches are distributed among these distances:
46 4 0.01
47 8 0.02
48 226 0.50
49 204 0.45
50 5 0.01
51 4 0.01
ACGTcount: A:0.21, C:0.27, G:0.17, T:0.35
Consensus pattern (49 bp):
ATCTCTAAGGTATAAGATTCGCCGTTGTGGCCTCGACCTTTCCCTTCAC
Found at i:13698010 original size:48 final size:48
Alignment explanation
Indices: 13697854--13698193 Score: 198
Period size: 49 Copynumber: 7.0 Consensus size: 48
13697844 CTTCAGGGTG
* * *
13697854 TAAGATTCGCCATTACAACTTCACATCTTTCTCATCTTATCTCTAAGGTA
1 TAAGGTTCGCCATTACAGCCTCA-ATCTTTC-CATCTTATCTCTAAGGTA
* * ** * * * ** *
13697904 TAAGGTTTGCCGTTATGGCCTCGACCTTTCCCTTCACATCTCTAGGGTA
1 TAAGGTTCGCCATTACAGCCTCAATCTTT-CCATCTTATCTCTAAGGTA
* * * *
13697953 TAAGATTCGCCATTGCAGCCTTAATCTTTCCATCTTATCTCTAAGATA
1 TAAGGTTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGTA
* ** * * * **
13698001 TAAGGTTCGCCGTTATGGCCTCGACCTTTCCCTTCACATCT-TAAGGGTA
1 TAAGGTTCGCCATTACAGCCTCAATCTTT-CCATCTTATCTCTAA-GGTA
* * * ** * * *
13698050 TAAGATTTGCTATTGTAGCCTCAATCTTTTCACCTTATCTCTAAAGTA
1 TAAGGTTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGTA
* * * * * ** * *
13698098 TAAGGTTCGCCGTTGCGGCCTCGACAT-TTCCCTTCACATCTTTAGGGTA
1 TAAGGTTCGCCATTACAGCCTC-A-ATCTTTCCATCTTATCTCTAAGGTA
* * *
13698147 TAAGATTTGCTATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGT
1 TAAGGTTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGT
13698194 TCAAGATTCG
Statistics
Matches: 203, Mismatches: 80, Indels: 16
0.68 0.27 0.05
Matches are distributed among these distances:
47 2 0.01
48 79 0.39
49 104 0.51
50 18 0.09
ACGTcount: A:0.23, C:0.26, G:0.15, T:0.37
Consensus pattern (48 bp):
TAAGGTTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGTA
Found at i:13698213 original size:97 final size:97
Alignment explanation
Indices: 13697848--13698193 Score: 476
Period size: 97 Copynumber: 3.5 Consensus size: 97
13697838 TCATCCCTTC
* * * *
13697848 AGGGTGTAAGATTCGCCATTACAACTTCACATCTTTCTCATCTTATCTCTAAGGTATAAGGTTTG
1 AGGGTATAAGATTCGCCATTACAGCCTCA-ATCTTTC-CATCTTATCTCTAAGGTATAAGGTTCG
* *
13697913 CCGTTATGGCCTCGACCTTTCCCTTCACATCTCT
64 CCGTTACGGCCTCGACCTTTCCCTTCACATCTTT
* * *
13697947 AGGGTATAAGATTCGCCATTGCAGCCTTAATCTTTCCATCTTATCTCTAAGATATAAGGTTCGCC
1 AGGGTATAAGATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGTATAAGGTTCGCC
* *
13698012 GTTATGGCCTCGACCTTTCCCTTCACATCTTA
66 GTTACGGCCTCGACCTTTCCCTTCACATCTTT
* * ** * * *
13698044 AGGGTATAAGATTTGCTATTGTAGCCTCAATCTTTTCACCTTATCTCTAAAGTATAAGGTTCGCC
1 AGGGTATAAGATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGTATAAGGTTCGCC
* *
13698109 GTTGCGGCCTCGACATTTCCCTTCACATCTTT
66 GTTACGGCCTCGACCTTTCCCTTCACATCTTT
* *
13698141 AGGGTATAAGATTTGCTATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGT
1 AGGGTATAAGATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGT
13698194 TCAAGATTCG
Statistics
Matches: 221, Mismatches: 26, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
97 190 0.86
98 7 0.03
99 24 0.11
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (97 bp):
AGGGTATAAGATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGTATAAGGTTCGCC
GTTACGGCCTCGACCTTTCCCTTCACATCTTT
Found at i:13698273 original size:97 final size:97
Alignment explanation
Indices: 13698167--13698381 Score: 227
Period size: 97 Copynumber: 2.2 Consensus size: 97
13698157 TATTACAGCC
* ** * * *
13698167 TCAATCTTTCCATCTTATCTCTAAGGT-TCAAGATTCGCTGTTGCGGCTTCAAAT-TTTCCCATC
1 TCAACCTTTCCATCGCATCTCTAAGGTAT-AAAATTCACTGTTGCGGATTC-AATCTTTCCCATC
* *
13698230 ATGTCTCTAAGGTACAAGGTTCATCGTTACGGCT
64 ATGCCTCTAAGGAACAAGGTTCATCGTTACGGCT
* ** *
13698264 TCAACCTTTCCCTCGCATCTCTATTGTATAAAATTCACTGTTGTGGATTCAATCTTTCCCATCAT
1 TCAACCTTTCCATCGCATCTCTAAGGTATAAAATTCACTGTTGCGGATTCAATCTTTCCCATCAT
* * **
13698329 GCCTCTAAGGAATAAGGTTCGTCGTTGTGGCT
66 GCCTCTAAGGAACAAGGTTCATCGTTACGGCT
* * *
13698361 TTAACCTTTCCCTCACATCTC
1 TCAACCTTTCCATCGCATCTC
13698382 CATGGTACAA
Statistics
Matches: 98, Mismatches: 18, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
96 3 0.03
97 94 0.96
98 1 0.01
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (97 bp):
TCAACCTTTCCATCGCATCTCTAAGGTATAAAATTCACTGTTGCGGATTCAATCTTTCCCATCAT
GCCTCTAAGGAACAAGGTTCATCGTTACGGCT
Found at i:13698286 original size:194 final size:194
Alignment explanation
Indices: 13697892--13698247 Score: 437
Period size: 194 Copynumber: 1.8 Consensus size: 194
13697882 TTCTCATCTT
* * * *
13697892 ATCTCTAAGGTATAAGGTTTGCCGTTATGGCCTCGACCTTTCCCTTCACATCTCTAGGGTATAAG
1 ATCTCTAAAGTATAAGGTTCGCCGTTACGGCCTCGACATTTCCCTTCACATCTCTAGGGTATAAG
* * * *
13697957 ATTCGCCATTGCAGCCTTAATCTTTCCATCTTATCTCTAAGATATAAGGTTCGCCGTTATGGCCT
66 ATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGATATAAGATTCGCCGTTACGGCCT
* * * * * * * *
13698022 CGACCTTTCCCTTCACATCTTAAGGGTATAAGATTTGCTATTGTAGCCTCAATCTTTTCACCTT
131 CAAACTTTCCCATCACATCTTAAGGGTACAAGAGTTGCTATCGTAGCCTCAATCCTTTCACCTC
* *
13698086 ATCTCTAAAGTATAAGGTTCGCCGTTGCGGCCTCGACATTTCCCTTCACATCTTTAGGGTATAAG
1 ATCTCTAAAGTATAAGGTTCGCCGTTACGGCCTCGACATTTCCCTTCACATCTCTAGGGTATAAG
* * * * * *
13698151 ATTTGCTATTACAGCCTCAATCTTTCCATCTTATCTCTAAGGT-TCAAGATTCGCTGTTGCGGCT
66 ATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGATAT-AAGATTCGCCGTTACGGCC
* **
13698215 TCAAATTTTCCCATCATGTCTCTAA-GGTACAAG
130 TCAAACTTTCCCATCACATCT-TAAGGGTACAAG
13698248 GTTCATCGTT
Statistics
Matches: 137, Mismatches: 23, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
193 1 0.01
194 133 0.97
195 3 0.02
ACGTcount: A:0.22, C:0.25, G:0.16, T:0.36
Consensus pattern (194 bp):
ATCTCTAAAGTATAAGGTTCGCCGTTACGGCCTCGACATTTCCCTTCACATCTCTAGGGTATAAG
ATTCGCCATTACAGCCTCAATCTTTCCATCTTATCTCTAAGATATAAGATTCGCCGTTACGGCCT
CAAACTTTCCCATCACATCTTAAGGGTACAAGAGTTGCTATCGTAGCCTCAATCCTTTCACCTC
Found at i:13698402 original size:145 final size:145
Alignment explanation
Indices: 13698240--13698564 Score: 416
Period size: 145 Copynumber: 2.2 Consensus size: 145
13698230 ATGTCTCTAA
* * * * * * * **
13698240 GGTACAAGGTTCATCGTTACGGCTTCAACCTTTCCCTCGCATCTCTATTGTATAAAATTCACTGT
1 GGTACAAGATTCGTCGTTGCGGCTTCAACCTTTCCCTCACATCTCCATGGTACAAAATTCACCAT
* * * * * *
13698305 TGTGGATTCAATCTTTCCCATCATGCCTCTAAGGAATAAGGTTCGTCGTTGTGGCTTTAACCTTT
66 TGCGGATTCAATCTTTCCCATCACGCCTCTAAGGAACAAGGTTCGCCGTTATGGCTTCAACCTTT
13698370 CCCTCACATCTCCAT
131 CCCTCACATCTCCAT
* * * *
13698385 GGTACAAGATTCGTCGTTGTGCCTTCAACCTTTCCCTCACATCTCCATGGTACAAGATTCGCCAT
1 GGTACAAGATTCGTCGTTGCGGCTTCAACCTTTCCCTCACATCTCCATGGTACAAAATTCACCAT
* * * *
13698450 TGCGGCTTCAATCTTTCCCATCACGGCTCTAAGGTACAAGGTTTGCCGTTATGGCTTCAACCTTT
66 TGCGGATTCAATCTTTCCCATCACGCCTCTAAGGAACAAGGTTCGCCGTTATGGCTTCAACCTTT
*
13698515 CCCTCGCATCTCCAT
131 CCCTCACATCTCCAT
* *
13698530 GGTAAAAGATTCGTCGTTGCGGCTTCAATCTTTCC
1 GGTACAAGATTCGTCGTTGCGGCTTCAACCTTTCC
13698565 TATTATGCCT
Statistics
Matches: 152, Mismatches: 28, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
145 152 1.00
ACGTcount: A:0.20, C:0.29, G:0.17, T:0.34
Consensus pattern (145 bp):
GGTACAAGATTCGTCGTTGCGGCTTCAACCTTTCCCTCACATCTCCATGGTACAAAATTCACCAT
TGCGGATTCAATCTTTCCCATCACGCCTCTAAGGAACAAGGTTCGCCGTTATGGCTTCAACCTTT
CCCTCACATCTCCAT
Found at i:13698404 original size:97 final size:97
Alignment explanation
Indices: 13698195--13698420 Score: 267
Period size: 97 Copynumber: 2.3 Consensus size: 97
13698185 CTCTAAGGTT
* * *
13698195 CAAGATTCGCTGTTGCGGCTTCAAAT-TTTCCCATCATGTCTCTAAGGTACAAGGTTCATCGTTA
1 CAAGATTCGCTGTTGTGGCTTC-AATCTTTCCCATCATGCCTCTAAGGAACAAGGTTCATCGTTA
* * *
13698259 CGGCTTCAACCTTTCCCTCGCATCTCTATTGTA
65 CGGCTTCAACCTTTCCCTCACATCTCCATGGTA
* * * * * * **
13698292 TAAAATTCACTGTTGTGGATTCAATCTTTCCCATCATGCCTCTAAGGAATAAGGTTCGTCGTTGT
1 CAAGATTCGCTGTTGTGGCTTCAATCTTTCCCATCATGCCTCTAAGGAACAAGGTTCATCGTTAC
*
13698357 GGCTTTAACCTTTCCCTCACATCTCCATGGTA
66 GGCTTCAACCTTTCCCTCACATCTCCATGGTA
* *
13698389 CAAGATTCG-TCGTTGTGCCTTCAACCTTTCCC
1 CAAGATTCGCT-GTTGTGGCTTCAATCTTTCCC
13698421 TCACATCTCC
Statistics
Matches: 106, Mismatches: 21, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
96 4 0.04
97 102 0.96
ACGTcount: A:0.21, C:0.27, G:0.16, T:0.35
Consensus pattern (97 bp):
CAAGATTCGCTGTTGTGGCTTCAATCTTTCCCATCATGCCTCTAAGGAACAAGGTTCATCGTTAC
GGCTTCAACCTTTCCCTCACATCTCCATGGTA
Found at i:13698417 original size:48 final size:48
Alignment explanation
Indices: 13698195--13698616 Score: 276
Period size: 48 Copynumber: 8.7 Consensus size: 48
13698185 CTCTAAGGTT
* ** ** * *
13698195 CAAGATTCG-CTGTTGCGGCTTCAAATTTTCCCATCATGTCTCTAAGGTA
1 CAAGATTCGTC-GTTGTGGCTTCAACCTTTCCC-TCACATCTCCATGGTA
* * ** * * *
13698244 CAAGGTTCATCGTTACGGCTTCAACCTTTCCCTCGCATCTCTATTGTA
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTCACATCTCCATGGTA
* * * * * *** * * *
13698292 TAAAATTC-ACTGTTGTGGATTCAATCTTTCCCATCATGCCTCTAAGGAA
1 CAAGATTCGTC-GTTGTGGCTTCAACCTTTCCC-TCACATCTCCATGGTA
* * *
13698341 TAAGGTTCGTCGTTGTGGCTTTAACCTTTCCCTCACATCTCCATGGTA
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTCACATCTCCATGGTA
*
13698389 CAAGATTCGTCGTTGTGCCTTCAACCTTTCCCTCACATCTCCATGGTA
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTCACATCTCCATGGTA
* * * * ** * *
13698437 CAAGATTCGCCATTGCGGCTTCAATCTTTCCCATCACGGCTCTAAGGTA
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCC-TCACATCTCCATGGTA
* * * * *
13698486 CAAGGTTTGCCGTTATGGCTTCAACCTTTCCCTCGCATCTCCATGGTA
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTCACATCTCCATGGTA
* * * * * *
13698534 AAAGATTCGTCGTTGCGGCTTCAATCTTT-CCT-ATTATGCCTCTAAGGTA
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTCA-CAT--CTCCATGGTA
* * **
13698583 CAAGGTTCATCGTTACGGCTTCAACCTTTCCCTC
1 CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTC
13698617 CATATCTCTA
Statistics
Matches: 286, Mismatches: 77, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
47 6 0.02
48 147 0.51
49 128 0.45
50 5 0.02
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (48 bp):
CAAGATTCGTCGTTGTGGCTTCAACCTTTCCCTCACATCTCCATGGTA
Found at i:13698488 original size:97 final size:97
Alignment explanation
Indices: 13698385--13698663 Score: 344
Period size: 97 Copynumber: 2.9 Consensus size: 97
13698375 ACATCTCCAT
* * * *
13698385 GGTACAAGATTCGTCGTTGTGCCTTCAACCTTTCCCTCACATCTCCATGGTACAAGATTCGCCAT
1 GGTACAAGGTTCGTCGTTATGGCTTCAACCTTTCCCTCACATCTCCATGGTACAAGATTCGCCGT
*
13698450 TGCGGCTTCAATCTTTCCCATCACGGCTCTAA
66 TGCGGCTTCAATCTTTCCCATCACGCCTCTAA
* * * * *
13698482 GGTACAAGGTTTGCCGTTATGGCTTCAACCTTTCCCTCGCATCTCCATGGTAAAAGATTCGTCGT
1 GGTACAAGGTTCGTCGTTATGGCTTCAACCTTTCCCTCACATCTCCATGGTACAAGATTCGCCGT
* * *
13698547 TGCGGCTTCAATCTTTCCTATTATGCCTCTAA
66 TGCGGCTTCAATCTTTCCCATCACGCCTCTAA
* * * * * * *
13698579 GGTACAAGGTTCATCGTTACGGCTTCAACCTTTCCCTCCATATCTCTAAGGCATCAA-ATTCGCT
1 GGTACAAGGTTCGTCGTTATGGCTTCAACCTTTCCCT-CACATCTCCATGGTA-CAAGATTCGCC
*
13698643 GTTGCAGCTTCAATCTTTCCC
64 GTTGCGGCTTCAATCTTTCCC
13698664 TTCAAACCAA
Statistics
Matches: 153, Mismatches: 27, Indels: 3
0.84 0.15 0.02
Matches are distributed among these distances:
97 117 0.76
98 34 0.22
99 2 0.01
ACGTcount: A:0.20, C:0.30, G:0.17, T:0.33
Consensus pattern (97 bp):
GGTACAAGGTTCGTCGTTATGGCTTCAACCTTTCCCTCACATCTCCATGGTACAAGATTCGCCGT
TGCGGCTTCAATCTTTCCCATCACGCCTCTAA
Found at i:13720674 original size:28 final size:28
Alignment explanation
Indices: 13720643--13720699 Score: 71
Period size: 28 Copynumber: 2.0 Consensus size: 28
13720633 ATTGCATTTG
*
13720643 TTTA-TCTCAATGTCTAAAATTCTAAATT
1 TTTATTCTCAAT-TATAAAATTCTAAATT
* *
13720671 TTTATTTTCAATTATAAAATTTTAAATT
1 TTTATTCTCAATTATAAAATTCTAAATT
13720699 T
1 T
13720700 CAAAACATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
28 19 0.76
29 6 0.24
ACGTcount: A:0.37, C:0.09, G:0.02, T:0.53
Consensus pattern (28 bp):
TTTATTCTCAATTATAAAATTCTAAATT
Found at i:13728106 original size:15 final size:15
Alignment explanation
Indices: 13728056--13728106 Score: 59
Period size: 15 Copynumber: 3.4 Consensus size: 15
13728046 GAGGAGGAAT
13728056 AGGAAGAAGAAAAAG
1 AGGAAGAAGAAAAAG
**
13728071 AAAAAGAAGACAAAAG
1 AGGAAGAAGA-AAAAG
*
13728087 A-GAAGAAGAGAAAG
1 AGGAAGAAGAAAAAG
13728101 AGGAAG
1 AGGAAG
13728107 TTCCTATCGT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.17
15 19 0.63
16 6 0.20
ACGTcount: A:0.67, C:0.02, G:0.31, T:0.00
Consensus pattern (15 bp):
AGGAAGAAGAAAAAG
Done.