Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032246.1 Gossypioides kirkii chromosome KI_03
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: 42061019
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 2000 characters in sequence are not A, C, G, or T
File 61 of 135
Found at i:17862956 original size:21 final size:20
Alignment explanation
Indices: 17862914--17862962 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 20
17862904 AATAAAAATA
17862914 ATATTTTTATTATTTTAAGT
1 ATATTTTTATTATTTTAAGT
17862934 AT-TTTTTATATATTTTCAAGT
1 ATATTTTTAT-TATTTT-AAGT
17862955 ATATTTTT
1 ATATTTTT
17862963 GAATTTAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
20 8 0.31
21 6 0.23
22 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (20 bp):
ATATTTTTATTATTTTAAGT
Found at i:17871525 original size:21 final size:22
Alignment explanation
Indices: 17871499--17871545 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
17871489 AAATGATAGT
*
17871499 AAAATAGTGA-AAAACAACAAA
1 AAAATAGTAACAAAACAACAAA
*
17871520 AAAATAGTAACAAAACAATAAA
1 AAAATAGTAACAAAACAACAAA
17871542 AAAA
1 AAAA
17871546 GCAAGAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.74, C:0.09, G:0.06, T:0.11
Consensus pattern (22 bp):
AAAATAGTAACAAAACAACAAA
Found at i:17872561 original size:57 final size:57
Alignment explanation
Indices: 17872436--17872606 Score: 166
Period size: 57 Copynumber: 2.9 Consensus size: 57
17872426 ATTTAGGTAT
* * * *
17872436 CAAATTGAATCTAAAAAAAAGCTTAGGTACAAAATTAGGAAAAAAATG-CTAAGTTCAAGTAC
1 CAAATTGAATCT--AAAAAAGTTTAGATACCAAATTAGG---AAAGTGTC-AAGTTCAAGTAC
*
17872498 CAAATTGAATCTAAAAAAGTTTAGATACCAAATTAGGAAAGTGTCAAGTTCAAGTGC
1 CAAATTGAATCTAAAAAAGTTTAGATACCAAATTAGGAAAGTGTCAAGTTCAAGTAC
** * *
17872555 CAAATTGGGTCAAAAAAAGTTTA-AGTACCAAATTAAGAAAAAGTGTCAAGTT
1 CAAATTGAATCTAAAAAAGTTTAGA-TACCAAATT-AG-GAAAGTGTCAAGTT
17872607 TAGGTATCAA
Statistics
Matches: 96, Mismatches: 9, Indels: 11
0.83 0.08 0.09
Matches are distributed among these distances:
56 1 0.01
57 45 0.47
58 3 0.03
59 13 0.14
60 22 0.23
62 12 0.12
ACGTcount: A:0.48, C:0.11, G:0.16, T:0.25
Consensus pattern (57 bp):
CAAATTGAATCTAAAAAAGTTTAGATACCAAATTAGGAAAGTGTCAAGTTCAAGTAC
Found at i:17877471 original size:15 final size:14
Alignment explanation
Indices: 17877448--17877490 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
17877438 AACTTTATCT
*
17877448 TTAGCTTAGATTAA
1 TTAGTTTAGATTAA
17877462 CTTAGTTTAGATTAA
1 -TTAGTTTAGATTAA
*
17877477 -TACTTTAGATTAA
1 TTAGTTTAGATTAA
17877490 T
1 T
17877491 ATCCTTCATA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 12 0.48
15 13 0.52
ACGTcount: A:0.35, C:0.07, G:0.12, T:0.47
Consensus pattern (14 bp):
TTAGTTTAGATTAA
Found at i:17877485 original size:13 final size:13
Alignment explanation
Indices: 17877453--17877491 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
17877443 TATCTTTAGC
*
17877453 TTAGATTAACTTAGT
1 TTAGATTAA--TACT
17877468 TTAGATTAATACT
1 TTAGATTAATACT
17877481 TTAGATTAATA
1 TTAGATTAATA
17877492 TCCTTCATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.05, G:0.10, T:0.46
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:17878302 original size:61 final size:61
Alignment explanation
Indices: 17878227--17878348 Score: 244
Period size: 61 Copynumber: 2.0 Consensus size: 61
17878217 CTAGGGCTTG
17878227 GTTGAACTCGTTCCCACCAAATTCTATTACAACATGACAAGAGTTAGTAGAACGATTCCGT
1 GTTGAACTCGTTCCCACCAAATTCTATTACAACATGACAAGAGTTAGTAGAACGATTCCGT
17878288 GTTGAACTCGTTCCCACCAAATTCTATTACAACATGACAAGAGTTAGTAGAACGATTCCGT
1 GTTGAACTCGTTCCCACCAAATTCTATTACAACATGACAAGAGTTAGTAGAACGATTCCGT
17878349 AGGAAGTATT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
61 61 1.00
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (61 bp):
GTTGAACTCGTTCCCACCAAATTCTATTACAACATGACAAGAGTTAGTAGAACGATTCCGT
Found at i:17882263 original size:41 final size:41
Alignment explanation
Indices: 17882206--17882437 Score: 324
Period size: 41 Copynumber: 5.6 Consensus size: 41
17882196 AATTACTTGA
*
17882206 TATATTAAAGGAAGACTCGTGACTCAAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
17882247 TATATTAAAGGAAGACTCGTGACTCGAAATGA-CTATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGC-ATGAGAT
*
17882288 TATATTAAAGGAAAACTCGTGACTCGAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* * **
17882329 TATATTAAAGGAAGACTCATGTCTCGAGGTGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* * *
17882370 TATATTAAAGGAAGACTCGTGTCTC-AGGAGGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGA-AATGAGCATGAGAT
**
17882411 TATATTTAAAGGAAGACTTATGACTCG
1 TATA-TTAAAGGAAGACTCGTGACTCG
17882438 GTAGAGCATA
Statistics
Matches: 173, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
40 2 0.01
41 152 0.88
42 19 0.11
ACGTcount: A:0.38, C:0.12, G:0.24, T:0.26
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
Found at i:17882445 original size:41 final size:41
Alignment explanation
Indices: 17882206--17882466 Score: 307
Period size: 41 Copynumber: 6.4 Consensus size: 41
17882196 AATTACTTGA
**
17882206 TATATTAAAGGAAGACTCGTGACTCAAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAT
*
17882247 TATATTAAAGGAAGACTCGTGACTCGAAATGA-CTATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGGAATGAGC-ATGAGAT
* *
17882288 TATATTAAAGGAAAACTCGTGACTCGAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAT
* * *
17882329 TATATTAAAGGAAGACTCATGTCTC-GAGGTGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGGA-ATGAGCATGAGAT
* *
17882370 TATATTAAAGGAAGACTCGTGTCTCAGG-AGGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTC-GGAATGAGCATGAGAT
** * *
17882411 TATATTTAAAGGAAGACTTATGACTCGGTA-GAGCATAAGAT
1 TATA-TTAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAT
*
17882452 TGT-TTAAAAGGAAGA
1 TATATT-AAAGGAAGA
17882467 TATACGACTC
Statistics
Matches: 197, Mismatches: 15, Indels: 17
0.86 0.07 0.07
Matches are distributed among these distances:
39 2 0.01
40 11 0.06
41 163 0.83
42 20 0.10
43 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCGTGACTCGGAATGAGCATGAGAT
Found at i:17887361 original size:123 final size:123
Alignment explanation
Indices: 17886999--17887382 Score: 479
Period size: 123 Copynumber: 3.1 Consensus size: 123
17886989 AATTAATTGA
* *
17886999 TATATTGAAGGAAGACTCATGACTTGAAGTGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
1 TATATTAAAGGAAGACTCATGACTCGAAGTGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
* * * *
17887064 CAAAATGAGCATTAGATTATATTAAAGGAAGACTCGTGACTCAAAATGAGCATGAGAT
66 CGAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
* * * * * * *
17887122 TATATTAAAGGAAGACTCGTAACTCCTAA-TGAGCATGAAATTATATTAAAGAAAGACTCATAAC
1 TATATTAAAGGAAGACTCATGACT-CGAAGTGAGCATGAGATTATATTAAAGGAAGACTCGTGAC
* *
17887186 TCGAAATGAGCTTGAGATTAAATTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
65 TCGAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
* ** *
17887245 TATATTAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGATTATATTAAAGGAAGACTCGTGTCT
1 TATATTAAAGGAAGACTCATGACTCGAAGTGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
* ** **
17887310 CGGAAA-GAGCATGAGATTATATTTAAAGGAAGAGTTATGACTCGGTA-GAGCATAAGAT
66 C-GAAATGAGCATGAGATTATA-TTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
*
17887368 TGT-TTAAAAGGAAGA
1 TATATT-AAAGGAAGA
17887383 TCTACGACTC
Statistics
Matches: 222, Mismatches: 34, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
122 3 0.01
123 193 0.87
124 26 0.12
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (123 bp):
TATATTAAAGGAAGACTCATGACTCGAAGTGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
CGAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
Found at i:17887362 original size:41 final size:41
Alignment explanation
Indices: 17886999--17887342 Score: 456
Period size: 41 Copynumber: 8.4 Consensus size: 41
17886989 AATTAATTGA
* * * *
17886999 TATATTGAAGGAAGACTCATGACTTGAAGTGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* *
17887040 TATATTAAAGGAAGACTCGTGACTCAAAATGAGCATTAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
*
17887081 TATATTAAAGGAAGACTCGTGACTCAAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* ** *
17887122 TATATTAAAGGAAGACTCGTAACTCCTAATGAGCATGAAAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* * * *
17887163 TATATTAAAGAAAGACTCATAACTCGAAATGAGCTTGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* *
17887204 TAAATTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* * ***
17887245 TATATTAAAGGAAGACTCATGTCTCGGGGTGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
*
17887286 TATATTAAAGGAAGACTCGTGTCTCGGAAA-GAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTC-GAAATGAGCATGAGAT
17887327 TATATTTAAAGGAAGA
1 TATA-TTAAAGGAAGA
17887343 GTTATGACTC
Statistics
Matches: 267, Mismatches: 34, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
41 255 0.96
42 12 0.04
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.26
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
Found at i:17887368 original size:41 final size:40
Alignment explanation
Indices: 17886999--17887382 Score: 247
Period size: 41 Copynumber: 9.4 Consensus size: 40
17886989 AATTAATTGA
* * * *
17886999 TATATTGAAGGAAGACTCATGACTTGAAGT-GAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCG--GTAGAGCATAAGAT
* * *** *
17887040 TATATTAAAGGAAGACTCGTGACTCAAAATGAGCATTAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGTA-GAGCATAAGAT
* * *** *
17887081 TATATTAAAGGAAGACTCGTGACTCAAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGTA-GAGCATAAGAT
* ** *
17887122 TATATTAAAGGAAGACTCGTAACTC-CTAATGAGCATGAA-AT
1 TATATTAAAGGAAGACTCATGTCTCGGT-A-GAGCAT-AAGAT
* ** ** * *
17887163 TATATTAAAGAAAGACTCATAACTCGAAATGAGCTTGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGTA-GAGCATAAGAT
* * * **
17887204 TAAATTAAAGGAAGACTCGTGACTCGAAATGAGCATAAGAT
1 TATATTAAAGGAAGACTCATGTCTCGGTA-GAGCATAAGAT
*
17887245 TATATTAAAGGAAGACTCATGTCTCGGGGT-GAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTC--GGTAGAGCATAAGAT
* * *
17887286 TATATTAAAGGAAGACTCGTGTCTCGGAAAGAGCATGAGAT
1 TATATTAAAGGAAGACTCATGTCTCGG-TAGAGCATAAGAT
* * *
17887327 TATATTTAAAGGAAGAGTTATGACTCGGTAGAGCATAAGAT
1 TATA-TTAAAGGAAGACTCATGTCTCGGTAGAGCATAAGAT
*
17887368 TGT-TTAAAAGGAAGA
1 TATATT-AAAGGAAGA
17887383 TCTACGACTC
Statistics
Matches: 292, Mismatches: 39, Indels: 25
0.82 0.11 0.07
Matches are distributed among these distances:
39 4 0.01
40 10 0.03
41 257 0.88
42 20 0.07
43 1 0.00
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.26
Consensus pattern (40 bp):
TATATTAAAGGAAGACTCATGTCTCGGTAGAGCATAAGAT
Found at i:17892017 original size:41 final size:41
Alignment explanation
Indices: 17891960--17892319 Score: 483
Period size: 41 Copynumber: 8.6 Consensus size: 41
17891950 AATTACTTGA
*
17891960 TATATTAAAGGAAGACTCGTAACTCGAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
17892001 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* *
17892042 TATATTAAAGGAAGACTCATGACTTGAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* * * *
17892083 TATATTAAAGGAAAGGAAGACTTGTGACTTGAAATAAGCTTGAGAT
1 TATATT-----AAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
*
17892129 TATATTAAATGG-AGACTCGTGACTCAAAATGAGCATGAGAT
1 TATATTAAA-GGAAGACTCGTGACTCGAAATGAGCATGAGAT
17892170 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
* * **
17892211 TATATTAAAGGAAGACTCATGTCTCGAGGTGAGCATGAGAT
1 TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
*
17892252 TATATTAAAGGAAGACTCAG-GTCTCGAGAA-GAGCATGAGAT
1 TATATTAAAGGAAGACTC-GTGACTCGA-AATGAGCATGAGAT
**
17892293 TATATTTAAAGGAAGACTTATGACTCG
1 TATA-TTAAAGGAAGACTCGTGACTCG
17892320 GTAGAGCAGA
Statistics
Matches: 285, Mismatches: 23, Indels: 21
0.87 0.07 0.06
Matches are distributed among these distances:
40 2 0.01
41 226 0.79
42 20 0.07
46 37 0.13
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.26
Consensus pattern (41 bp):
TATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGAT
Found at i:17892199 original size:128 final size:128
Alignment explanation
Indices: 17891966--17892319 Score: 463
Period size: 128 Copynumber: 2.8 Consensus size: 128
17891956 TTGATATATT
* *
17891966 AAAGGAAGACTCGTAACTCGAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGAAAT
1 AAAGGAAGACTCGTAACTCGAAATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAAAT
*
17892031 GAGCATGAGATTATATTAAAGGAAGACTCATGACTTGAAATGAGCATGAGATTATATTAAAGG
66 GAGCATGAGATTATATTAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATATTAAAGG
* * * *
17892094 AAAGGAAGACTTGTGACTTGAAATAAGCTTGAGATTATATTAAATGG-AGACTCGTGACTCAAAA
1 AAAGGAAGACTCGTAACTCGAAATAAGCATGAGATTATATTAAA-GGAAGACTCGTGACTCAAAA
*
17892158 TGAGCATGAGATTATATTAAAGGAAGACTCGTGACTCGAAATGAGCATGAGATTATATT-----
65 TGAGCATGAGATTATATTAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATATTAAAGG
* ** ** * * *
17892217 AAAGGAAGACTCATGTCTCGAGGTGAGCATGAGATTATATTAAAGGAAGACTCAG-GTCTCGAGA
1 AAAGGAAGACTCGTAACTCGAAATAAGCATGAGATTATATTAAAGGAAGACTC-GTGACTC-AAA
*
17892281 A-GAGCATGAGATTATATTTAAAGGAAGACTTATGACTCG
64 ATGAGCATGAGATTATA-TTAAAGGAAGACTCATGACTCG
17892320 GTAGAGCAGA
Statistics
Matches: 201, Mismatches: 20, Indels: 14
0.86 0.09 0.06
Matches are distributed among these distances:
122 2 0.01
123 61 0.30
124 24 0.12
128 112 0.56
129 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.24, T:0.25
Consensus pattern (128 bp):
AAAGGAAGACTCGTAACTCGAAATAAGCATGAGATTATATTAAAGGAAGACTCGTGACTCAAAAT
GAGCATGAGATTATATTAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATATTAAAGG
Found at i:17892246 original size:169 final size:169
Alignment explanation
Indices: 17891960--17892264 Score: 540
Period size: 169 Copynumber: 1.8 Consensus size: 169
17891950 AATTACTTGA
*
17891960 TATATTAAAGGAAGACTCGTAACTCGAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
1 TATATTAAAGGAAGACTCGTAACTCAAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
*
17892025 CGAAATGAGCATGAGATTATATTAAAGGAAGACTCATGACTTGAAATGAGCATGAGATTATATTA
66 CGAAATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATATTA
17892090 AAGGAAAGGAAGACTTGTGACTTGAAATAAGCTTGAGAT
131 AAGGAAAGGAAGACTTGTGACTTGAAATAAGCTTGAGAT
*
17892129 TATATTAAATGG-AGACTCGTGACTCAAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGAC
1 TATATTAAA-GGAAGACTCGTAACTCAAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGAC
* **
17892193 TCGAAATGAGCATGAGATTATATTAAAGGAAGACTCATGTCTCGAGGTGAGCATGAGATTATATT
65 TCGAAATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATATT
17892258 AAAGGAA
130 AAAGGAA
17892265 GACTCAGGTC
Statistics
Matches: 129, Mismatches: 6, Indels: 2
0.94 0.04 0.01
Matches are distributed among these distances:
169 127 0.98
170 2 0.02
ACGTcount: A:0.40, C:0.10, G:0.23, T:0.26
Consensus pattern (169 bp):
TATATTAAAGGAAGACTCGTAACTCAAAATGAGCATGAGATTATATTAAAGGAAGACTCGTGACT
CGAAATGAGCATGAGATTATATTAAAGGAAGACTCATGACTCGAAATGAGCATGAGATTATATTA
AAGGAAAGGAAGACTTGTGACTTGAAATAAGCTTGAGAT
Found at i:17896679 original size:16 final size:15
Alignment explanation
Indices: 17896648--17896696 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
17896638 AAAAATAAAG
17896648 TTTTACTTTTATTTA
1 TTTTACTTTTATTTA
*
17896663 TTTTTCTTTTATGTTA
1 TTTTACTTTTAT-TTA
*
17896679 -TTAAC-TTTATTTA
1 TTTTACTTTTATTTA
17896692 TTTTA
1 TTTTA
17896697 AAATTTCATA
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
13 3 0.11
14 8 0.29
15 14 0.50
16 3 0.11
ACGTcount: A:0.20, C:0.06, G:0.02, T:0.71
Consensus pattern (15 bp):
TTTTACTTTTATTTA
Found at i:17899286 original size:21 final size:21
Alignment explanation
Indices: 17899261--17899305 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
17899251 GATACCTGAT
*
17899261 AAAAGGTATTGATACT-TTTTG
1 AAAAGGTATCGATA-TGTTTTG
17899282 AAAAGGTATCGATATGTTTTG
1 AAAAGGTATCGATATGTTTTG
17899303 AAA
1 AAA
17899306 TTGTTTGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 1 0.05
21 21 0.95
ACGTcount: A:0.38, C:0.04, G:0.20, T:0.38
Consensus pattern (21 bp):
AAAAGGTATCGATATGTTTTG
Found at i:17904988 original size:16 final size:16
Alignment explanation
Indices: 17904963--17905025 Score: 54
Period size: 16 Copynumber: 3.6 Consensus size: 16
17904953 CTAAATATTC
17904963 AGGCTATGTGCCTAGT
1 AGGCTATGTGCCTAGT
* *
17904979 AGGCTTTGTGCCGGTGTATT
1 AGGCTATGTGCC----TAGT
17904999 CAGGCTATGTGCCTAGT
1 -AGGCTATGTGCCTAGT
*
17905016 AGGCTTTGTG
1 AGGCTATGTG
17905026 TCGATGTATT
Statistics
Matches: 37, Mismatches: 5, Indels: 10
0.71 0.10 0.19
Matches are distributed among these distances:
16 20 0.54
17 3 0.08
20 3 0.08
21 11 0.30
ACGTcount: A:0.14, C:0.17, G:0.33, T:0.35
Consensus pattern (16 bp):
AGGCTATGTGCCTAGT
Found at i:17904999 original size:37 final size:37
Alignment explanation
Indices: 17904958--17905216 Score: 392
Period size: 37 Copynumber: 7.0 Consensus size: 37
17904948 TGCATCTAAA
17904958 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
17904995 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGTCGATG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
17905032 TATTCAGGCTATGTGCCAAGTAGGCTTTGTACCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
17905069 TATTCAAGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
*
17905106 TATTCAGGCTATGTGCCTAGTAGGCTTCGTGCCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* *
17905143 TTTTCAGGCTATGTGCCTAGTAGGCTTTGTACCGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
* * * * *
17905180 TATTCGGGCTATGTGCTTAGCAAGCTTTGTGCTGGTG
1 TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
17905217 ATCCAAGAAC
Statistics
Matches: 201, Mismatches: 21, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 201 1.00
ACGTcount: A:0.15, C:0.19, G:0.31, T:0.35
Consensus pattern (37 bp):
TATTCAGGCTATGTGCCTAGTAGGCTTTGTGCCGGTG
Found at i:17909236 original size:21 final size:22
Alignment explanation
Indices: 17909188--17909246 Score: 72
Period size: 21 Copynumber: 2.8 Consensus size: 22
17909178 CATTGAAGAG
17909188 TGTTGT-GACTGCATCT-GATTC
1 TGTTGTGGA-TGCATCTGGATTC
17909209 TAG-TGTGGATGCATCTGGATT-
1 T-GTTGTGGATGCATCTGGATTC
17909230 TGTTGTGGATGCATCTG
1 TGTTGTGGATGCATCTG
17909247 AGTATGCTGA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
20 1 0.03
21 26 0.76
22 7 0.21
ACGTcount: A:0.15, C:0.14, G:0.31, T:0.41
Consensus pattern (22 bp):
TGTTGTGGATGCATCTGGATTC
Found at i:17913565 original size:83 final size:83
Alignment explanation
Indices: 17913466--17913730 Score: 336
Period size: 83 Copynumber: 3.1 Consensus size: 83
17913456 CGCTAAAAAT
* * * *
17913466 AACGCCACTATAGAACATGGTCTTTAGCGACGCTTTTTCCACAAATGCCGCTAAAGAACATGGTC
1 AACGCCACTAAAGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACATGATC
*
17913531 TTTAGCGGCTTCTCCACA
66 TTTAGCGGCTTTTCCACA
* * *
17913549 AACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGATC
1 AACGCCACTAAAGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACATGATC
17913614 TTTAGCGGAGCTTTTCTCACA
66 TTTAGC-G-GCTTTTC-CACA
* ** * *
17913635 AACACTGCTAAAGGACATGGTCTTTAGC-AGCGC-TTTCCCACAAACGCCGCCAAAGAACATGAT
1 AACGCCACTAAAGAACATGGTCTTTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAGAACATGAT
17913698 CTTTAGCGGCGTTTTTCCCACA
65 CTTTAGCGGC--TTTT-CCACA
17913720 AACGCCACTAA
1 AACGCCACTAA
17913731 CATTAACAAA
Statistics
Matches: 158, Mismatches: 17, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
83 66 0.42
84 2 0.01
85 58 0.37
86 32 0.20
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (83 bp):
AACGCCACTAAAGAACATGGTCTTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACATGATC
TTTAGCGGCTTTTCCACA
Found at i:17913605 original size:43 final size:43
Alignment explanation
Indices: 17913466--17913730 Score: 340
Period size: 43 Copynumber: 6.3 Consensus size: 43
17913456 CGCTAAAAAT
* * * *
17913466 AACGCCACTATAGAACATGGTCTTTAGCGACGCTTTTTCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
* *
17913509 AATGCCGCTAAAGAACATGGTCTTTAGC-G-GCTTCT-CCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
*
17913549 AACGCCGCTAAAGAACATGGTCTTTAGCGGCACTTTTCCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
* * *
17913592 AACGCCGCTAAAGAACATGATCTTTAGCGGAGCTTTTCTCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
* * * *
17913635 AACACTGCTAAAGGACATGGTCTTTAGCAGCGC-TTTCCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
* * *
17913677 AACGCCGCCAAAGAACATGATCTTTAGCGGCGTTTTTCCCACA
1 AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
*
17913720 AACGCCACTAA
1 AACGCCGCTAA
17913731 CATTAACAAA
Statistics
Matches: 190, Mismatches: 28, Indels: 8
0.84 0.12 0.04
Matches are distributed among these distances:
40 32 0.17
41 6 0.03
42 38 0.20
43 114 0.60
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (43 bp):
AACGCCGCTAAAGAACATGGTCTTTAGCGGCGCTTTTCCCACA
Found at i:17913696 original size:85 final size:83
Alignment explanation
Indices: 17913477--17913722 Score: 325
Period size: 85 Copynumber: 2.9 Consensus size: 83
17913467 ACGCCACTAT
* * *
17913477 AGAACATGGTCTTTAGCGACGCTTTTTCCACAAATGCCGCTAAAGAACATGGTCTTTAGC-GGCT
1 AGAACATGGTCTTTAGCG-CGCTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGGGCT
* *
17913541 TCTCCACAAACGCCGCTAA
65 TTTCCACAAACACCGCTAA
*
17913560 AGAACATGGTCTTTAGCGGCACTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGGAGC
1 AGAACATGGTCTTTAGC-GCGCTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGG-GC
*
17913625 TTTTCTCACAAACACTGCTAA
64 TTTTC-CACAAACACCGCTAA
* * *
17913646 AGGACATGGTCTTTAGCAGCGC-TTTCCCACAAACGCCGCCAAAGAACATGATCTTTAGCGGCGT
1 AGAACATGGTCTTTAGC-GCGCTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGG-GC
17913710 TTTTCCCACAAAC
64 TTTT-CCACAAAC
17913723 GCCACTAACA
Statistics
Matches: 145, Mismatches: 13, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
83 54 0.37
84 2 0.01
85 56 0.39
86 33 0.23
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (83 bp):
AGAACATGGTCTTTAGCGCGCTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCGGGCTT
TTCCACAAACACCGCTAA
Found at i:17917731 original size:13 final size:13
Alignment explanation
Indices: 17917699--17917737 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
17917689 TATCTTTAAC
*
17917699 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
17917714 TTAGATTAATACT
1 TTAGATTAATACT
17917727 TTAGATTAATA
1 TTAGATTAATA
17917738 TCCTTTATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:17919987 original size:9 final size:9
Alignment explanation
Indices: 17919975--17920003 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
17919965 TATTTCTAAA
17919975 TTTCTTATT
1 TTTCTTATT
17919984 TTTCTTATT
1 TTTCTTATT
17919993 TTT-TTATT
1 TTTCTTATT
17920001 TTT
1 TTT
17920004 TCTAAATCTA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (9 bp):
TTTCTTATT
Found at i:17919987 original size:17 final size:18
Alignment explanation
Indices: 17919967--17920010 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
17919957 ATTTATTCTA
17919967 TTTCTAAATTTCTTA-TT
1 TTTCTAAATTTCTTATTT
* * *
17919984 TTTCTTATTTTTTTATTT
1 TTTCTAAATTTCTTATTT
17920002 TTTCTAAAT
1 TTTCTAAAT
17920011 CTATTTGGTT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTCTAAATTTCTTATTT
Found at i:17924545 original size:19 final size:19
Alignment explanation
Indices: 17924521--17924557 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
17924511 AAAATTAATA
* *
17924521 ACAAATTTGATTATGATAG
1 ACAAATTTAATTACGATAG
17924540 ACAAATTTAATTACGATA
1 ACAAATTTAATTACGATA
17924558 AGTGACATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (19 bp):
ACAAATTTAATTACGATAG
Found at i:17931538 original size:29 final size:28
Alignment explanation
Indices: 17931497--17931562 Score: 71
Period size: 30 Copynumber: 2.3 Consensus size: 28
17931487 TTTTTTTGAA
17931497 AAAAAAAACTT-AACAGTTCAATGACTT
1 AAAAAAAACTTAAACAGTTCAATGACTT
* * *
17931524 TAAAAAAACTTTTAAATAGTTCAGTGACTT
1 AAAAAAAAC--TTAAACAGTTCAATGACTT
17931554 AAATAAAAA
1 AAA-AAAAA
17931563 TTTCAAATAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
27 8 0.26
29 2 0.06
30 16 0.52
31 5 0.16
ACGTcount: A:0.53, C:0.11, G:0.08, T:0.29
Consensus pattern (28 bp):
AAAAAAAACTTAAACAGTTCAATGACTT
Found at i:17931580 original size:30 final size:30
Alignment explanation
Indices: 17931511--17931580 Score: 88
Period size: 30 Copynumber: 2.3 Consensus size: 30
17931501 AAAACTTAAC
* * *
17931511 AGTTCAATGACTTTAAAAAAACTTTTAAAT
1 AGTTCAGTGACTTTAAAAAAAATTTCAAAT
17931541 AGTTCAGTGAC-TTAAATAAAAATTTCAAAT
1 AGTTCAGTGACTTTAAA-AAAAATTTCAAAT
*
17931571 AGTTTAGTGA
1 AGTTCAGTGA
17931581 TCAAATTATA
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 5 0.14
30 30 0.86
ACGTcount: A:0.44, C:0.09, G:0.11, T:0.36
Consensus pattern (30 bp):
AGTTCAGTGACTTTAAAAAAAATTTCAAAT
Found at i:17937651 original size:25 final size:22
Alignment explanation
Indices: 17937616--17937701 Score: 109
Period size: 23 Copynumber: 3.7 Consensus size: 22
17937606 TACTGAAGTA
*
17937616 CTAAACAGAGAGCACACATAATG
1 CTAAACGGAGAGCACACA-AATG
17937639 CTAATAACGGAGAGCACACAAAGTG
1 CT-A-AACGGAGAGCACACAAA-TG
*
17937664 CTAAACGGAGAGCACACACAGTG
1 CTAAACGGAGAGCACACA-AATG
17937687 CTAAACGGAGAGCAC
1 CTAAACGGAGAGCAC
17937702 GCTAAGGTCC
Statistics
Matches: 57, Mismatches: 2, Indels: 8
0.85 0.03 0.12
Matches are distributed among these distances:
23 34 0.60
24 5 0.09
25 18 0.32
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.10
Consensus pattern (22 bp):
CTAAACGGAGAGCACACAAATG
Found at i:17937656 original size:23 final size:22
Alignment explanation
Indices: 17937596--17937701 Score: 97
Period size: 23 Copynumber: 4.6 Consensus size: 22
17937586 ATATGGAACA
* ** *
17937596 AAACGGAGAGTACTGAAGTACT
1 AAACGGAGAGCACAAAAGTGCT
*
17937618 AAACAGAGAGCACACATAA-TGCT
1 AAACGGAGAGCACA-A-AAGTGCT
17937641 AATAACGGAGAGCACACAAAGTGCT
1 -A-AACGGAGAGCACA-AAAGTGCT
*
17937666 AAACGGAGAGCACACACAGTGCT
1 AAACGGAGAGCACA-AAAGTGCT
17937689 AAACGGAGAGCAC
1 AAACGGAGAGCAC
17937702 GCTAAGGTCC
Statistics
Matches: 72, Mismatches: 7, Indels: 9
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.15
23 37 0.51
24 6 0.08
25 18 0.25
ACGTcount: A:0.43, C:0.21, G:0.25, T:0.11
Consensus pattern (22 bp):
AAACGGAGAGCACAAAAGTGCT
Found at i:17937675 original size:48 final size:46
Alignment explanation
Indices: 17937611--17937701 Score: 128
Period size: 48 Copynumber: 1.9 Consensus size: 46
17937601 GAGAGTACTG
*
17937611 AAGTACTAAACAGAGAGCACACATAATGCTAATAACGGAGAGCACACA
1 AAGTACTAAACAGAGAGCACACACAATGCT-A-AACGGAGAGCACACA
* * *
17937659 AAGTGCTAAACGGAGAGCACACACAGTGCTAAACGGAGAGCAC
1 AAGTACTAAACAGAGAGCACACACAATGCTAAACGGAGAGCAC
17937702 GCTAAGGTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
46 12 0.31
47 1 0.03
48 26 0.67
ACGTcount: A:0.44, C:0.22, G:0.23, T:0.11
Consensus pattern (46 bp):
AAGTACTAAACAGAGAGCACACACAATGCTAAACGGAGAGCACACA
Found at i:17944065 original size:20 final size:20
Alignment explanation
Indices: 17944028--17944067 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
17944018 TTCCAGAGGT
*
17944028 ATCGATAATTTTCATTAAAA
1 ATCGATAATTTACATTAAAA
* *
17944048 ATCGATACTTTACTTTAAAA
1 ATCGATAATTTACATTAAAA
17944068 CGATACCAAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.42, C:0.12, G:0.05, T:0.40
Consensus pattern (20 bp):
ATCGATAATTTACATTAAAA
Found at i:17944778 original size:23 final size:23
Alignment explanation
Indices: 17944709--17944868 Score: 185
Period size: 23 Copynumber: 6.9 Consensus size: 23
17944699 GAGAGTACCG
* *
17944709 AAGTACTAAACAGAGAGCACACA
1 AAGTACTAATCGGAGAGCACACA
* * * *
17944732 TAGTGCTAATAATGGAGAGTACACA
1 AAGTACTAAT--CGGAGAGCACACA
*
17944757 AAGCACTAATCGGAGAGCACACA
1 AAGTACTAATCGGAGAGCACACA
17944780 AAGTACTAATCGGAGAGCACACA
1 AAGTACTAATCGGAGAGCACACA
17944803 AAGTACTAATCGGAGAGCACACA
1 AAGTACTAATCGGAGAGCACACA
* * *
17944826 AAGTGCTAAACGGAGAGCACAGA
1 AAGTACTAATCGGAGAGCACACA
* * *
17944849 CAGTGCTAAACGGAGAGCAC
1 AAGTACTAATCGGAGAGCAC
17944869 GCTAAGGTCC
Statistics
Matches: 119, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
23 102 0.86
25 17 0.14
ACGTcount: A:0.43, C:0.21, G:0.24, T:0.12
Consensus pattern (23 bp):
AAGTACTAATCGGAGAGCACACA
Found at i:17949975 original size:17 final size:17
Alignment explanation
Indices: 17949953--17949998 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
17949943 ATGATAAGTG
*
17949953 GCATTGTAAGAACGTTT
1 GCATTGCAAGAACGTTT
*
17949970 GCATTGCGAGAACGTTT
1 GCATTGCAAGAACGTTT
*
17949987 GCATTGCGAGAA
1 GCATTGCAAGAA
17949999 AGACAACTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 27 1.00
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (17 bp):
GCATTGCAAGAACGTTT
Found at i:17951839 original size:30 final size:30
Alignment explanation
Indices: 17951805--17951962 Score: 144
Period size: 30 Copynumber: 5.3 Consensus size: 30
17951795 AGGAAAAATA
*
17951805 GGGTCAAAAATGAAATTTTGGAAAGTTTAG
1 GGGTCAAAAATGAATTTTTGGAAAGTTTAG
* *
17951835 GGGTC-AAATTAGAATTTTTGGGAAGTTT-G
1 GGGTCAAAAAT-GAATTTTTGGAAAGTTTAG
** * * * *
17951864 AGGGTCAAATCTGAATTTTTAGAAAATTCAA
1 -GGGTCAAAAATGAATTTTTGGAAAGTTTAG
* *
17951895 GTGTCAAAACAT-AATTTTTGAAAAGTTTAG
1 GGGTCAAAA-ATGAATTTTTGGAAAGTTTAG
*
17951925 GGGTCAAATAAT-AATTTTTGGAAAGTTCAG
1 GGGTCAAA-AATGAATTTTTGGAAAGTTTAG
17951955 GGGTCAAA
1 GGGTCAAA
17951963 TCCAAATTTT
Statistics
Matches: 101, Mismatches: 21, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
29 5 0.05
30 91 0.90
31 5 0.05
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.33
Consensus pattern (30 bp):
GGGTCAAAAATGAATTTTTGGAAAGTTTAG
Found at i:17951872 original size:60 final size:59
Alignment explanation
Indices: 17951803--17951983 Score: 177
Period size: 60 Copynumber: 3.0 Consensus size: 59
17951793 TAAGGAAAAA
* * * **
17951803 TAGGGTCAAAAATGAAATTTTGGAAAGTTTAGGGGTCAAATTAGAATTTTTGGGAAGTT
1 TAGGGTCAAAAATGAATTTTTGGAAAGTTCAGGGGTCAAATCAGAATTTTTGAAAAGTT
** * * * * * *
17951862 TGAGGGTCAAATCTGAATTTTTAGAAAATTCAAGTGTCAAAACATAATTTTTGAAAAGTT
1 T-AGGGTCAAAAATGAATTTTTGGAAAGTTCAGGGGTCAAATCAGAATTTTTGAAAAGTT
* *
17951922 TAGGGGTCAAATAAT-AATTTTTGGAAAGTTCAGGGGTCAAATCCA-AATTTTTGGATAGTT
1 TA-GGGTCAAA-AATGAATTTTTGGAAAGTTCAGGGGTCAAAT-CAGAATTTTTGAAAAGTT
17951982 TA
1 TA
17951984 AATAAAATAG
Statistics
Matches: 96, Mismatches: 22, Indels: 7
0.77 0.18 0.06
Matches are distributed among these distances:
59 2 0.02
60 91 0.95
61 3 0.03
ACGTcount: A:0.36, C:0.07, G:0.22, T:0.35
Consensus pattern (59 bp):
TAGGGTCAAAAATGAATTTTTGGAAAGTTCAGGGGTCAAATCAGAATTTTTGAAAAGTT
Found at i:17951914 original size:90 final size:90
Alignment explanation
Indices: 17951807--17951973 Score: 230
Period size: 90 Copynumber: 1.9 Consensus size: 90
17951797 GAAAAATAGG
* * * *
17951807 GTCAAAAATGAAATTTTGGAAAGTTTAGGGGTCAAATTAGAATTTTTGGGAAGTT-TGAGGGTCA
1 GTCAAAAATGAAATTTTGAAAAGTTTAGGGGTCAAATAAGAATTTTTGGAAAGTTCAG-GGGTCA
**
17951871 AATCTGAATTTTTAGAAAATTCAAGT
65 AATCCAAATTTTTAGAAAATTCAAGT
* *
17951897 GTCAAAACAT-AATTTTTGAAAAGTTTAGGGGTCAAATAATAATTTTTGGAAAGTTCAGGGGTCA
1 GTCAAAA-ATGAAATTTTGAAAAGTTTAGGGGTCAAATAAGAATTTTTGGAAAGTTCAGGGGTCA
17951961 AATCCAAATTTTT
65 AATCCAAATTTTT
17951974 GGATAGTTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
90 64 0.96
91 3 0.04
ACGTcount: A:0.37, C:0.07, G:0.21, T:0.35
Consensus pattern (90 bp):
GTCAAAAATGAAATTTTGAAAAGTTTAGGGGTCAAATAAGAATTTTTGGAAAGTTCAGGGGTCAA
ATCCAAATTTTTAGAAAATTCAAGT
Found at i:17951963 original size:30 final size:30
Alignment explanation
Indices: 17951805--17951981 Score: 139
Period size: 30 Copynumber: 5.9 Consensus size: 30
17951795 AGGAAAAATA
* *
17951805 GGGTCAAA-AATGAAATTTTGGAAAGTTTAG
1 GGGTCAAATAAT-AATTTTTGGAAAGTTCAG
* * * *
17951835 GGGTCAAATTAGAATTTTTGGGAAGTT-TG
1 GGGTCAAATAATAATTTTTGGAAAGTTCAG
* * * *
17951864 AGGGTCAAAT-CTGAATTTTTAGAAAATTCAA
1 -GGGTCAAATAAT-AATTTTTGGAAAGTTCAG
* * *
17951895 GTGTCAAA-ACATAATTTTTGAAAAGTTTAG
1 GGGTCAAATA-ATAATTTTTGGAAAGTTCAG
17951925 GGGTCAAATAATAATTTTTGGAAAGTTCAG
1 GGGTCAAATAATAATTTTTGGAAAGTTCAG
* *
17951955 GGGTCAAATCCA-AATTTTTGGATAGTT
1 GGGTCAAAT-AATAATTTTTGGAAAGTT
17951982 TAAATAAAAT
Statistics
Matches: 115, Mismatches: 24, Indels: 16
0.74 0.15 0.10
Matches are distributed among these distances:
29 1 0.01
30 110 0.96
31 4 0.03
ACGTcount: A:0.36, C:0.07, G:0.23, T:0.34
Consensus pattern (30 bp):
GGGTCAAATAATAATTTTTGGAAAGTTCAG
Found at i:17953856 original size:78 final size:78
Alignment explanation
Indices: 17953741--17954114 Score: 341
Period size: 78 Copynumber: 4.7 Consensus size: 78
17953731 GAGATGGTAA
* * *
17953741 CTTCAATCTGCCCCTATTGACTTAGGGGTAAAAGATTGCATGCTTCAATCTGCCCTATGATTGGA
1 CTTCAATCTG-CCCT-CTGA-TTA-GGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGA
17953806 GTAAGAGATTGGTGTGT
62 GTAAGAGATTGGTGTGT
*
17953823 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGA-TCGAGGTA
1 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGA-GTA
*
17953887 TA-AGATTGGTATGT
65 -AGAGATTGGTGTGT
* * * *
17953901 CTTCAATCTACCCTCTGATTAGGGTAAAAGATTGGATACTTTAATCTGCCCCATGATCAGG-GTA
1 CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGAT-TGGAGTA
*
17953965 TGAGATTGGATGGTGT
65 AGAGATTGG-T-GTGT
** * *
17953981 CTTCAATCTG-CCTCATGATCGGGGTAAGAGATTGGATAGTGTCTTCAA-CTTGCCCCATGATCG
1 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTGG--A-TG-CTTCAATC-TGCCCCATGATTG
* * *
17954044 GGGTAGGAGATTGG-ATG-
60 GAGTAAGAGATTGGTGTGT
** * *
17954061 CTTCAATCTGCCC-CATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCCC
1 CTTCAATCTGCCCTC-TGATTAGGGTAAAAGATTGG-ATG-CTTCAATCTGCCCC
17954115 CTAATTAGGG
Statistics
Matches: 254, Mismatches: 22, Indels: 36
0.81 0.07 0.12
Matches are distributed among these distances:
77 3 0.01
78 125 0.49
79 11 0.04
80 65 0.26
81 8 0.03
82 11 0.04
83 4 0.02
84 27 0.11
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (78 bp):
CTTCAATCTGCCCTCTGATTAGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATTGGAGTAA
GAGATTGGTGTGT
Found at i:17953892 original size:38 final size:40
Alignment explanation
Indices: 17953766--17954164 Score: 321
Period size: 38 Copynumber: 10.1 Consensus size: 40
17953756 ATTGACTTAG
* * *
17953766 GGGTAAAAGATTGCATG-CTTCAATCTGCCCTATGATTG-
1 GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGA
* * * *
17953804 GAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTC-TGAT-TA
1 GGGTAAAAGATTGG-ATGTCTTCAATCTGCCC-CATGATCGA
17953844 GGGTAAAAGATTGGATG-CTTCAATCTGCCCCATGATCGA
1 GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGA
* * *
17953883 -GGTATAAGATTGGTATGTCTTCAATCTACCCTC-TGAT-TA
1 GGGTAAAAGATTGG-ATGTCTTCAATCTGCCC-CATGATCGA
* *
17953922 GGGTAAAAGATTGGAT-ACTTTAATCTGCCCCATGATC-A
1 GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGA
** *
17953960 GGGTATGAGATTGGATGGTGTCTTCAATCTGCCTCATGATCG-
1 GGGTAAAAGATTGGA---TGTCTTCAATCTGCCCCATGATCGA
*
17954002 GGGTAAGAGATTGGATAGTGTCTTCAA-CTTGCCCCATGATCG-
1 GGGTAAAAGATTGG--A-TGTCTTCAATC-TGCCCCATGATCGA
**
17954044 GGGTAGGAGATTGGATG-CTTCAATCTGCCCCATGATCG-
1 GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGA
* * * * *
17954082 GGGTAAGAGATTGGTGTGTCTTCAATCTGCCCCCTAAT-TA
1 GGGTAAAAGATTGG-ATGTCTTCAATCTGCCCCATGATCGA
* * * *
17954122 GGGTAAAAGATTAGATG-ATTCAATTTGCCCCATTATC-A
1 GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGA
17954160 GGGTA
1 GGGTA
17954165 TGAGATCGGA
Statistics
Matches: 299, Mismatches: 37, Indels: 50
0.77 0.10 0.13
Matches are distributed among these distances:
37 2 0.01
38 122 0.41
39 18 0.06
40 87 0.29
41 3 0.01
42 66 0.22
44 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.25, T:0.31
Consensus pattern (40 bp):
GGGTAAAAGATTGGATGTCTTCAATCTGCCCCATGATCGA
Found at i:17954095 original size:200 final size:198
Alignment explanation
Indices: 17953783--17954178 Score: 550
Period size: 200 Copynumber: 2.0 Consensus size: 198
17953773 AGATTGCATG
* *
17953783 CTTCAATCTGCCCTATGATTGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATTAGGGT
1 CTTCAATCTGCCCTATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATCAGGGT
17953848 AAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTATAAGATTGGTATGTCTTCAATCTACC
66 AAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTATAAGATTGGTATGTCTTCAATCTACC
* * * * *
17953913 CTCTGATTAGGGTAAAAGATTGGAT-ACTTTAATCTGCCCCATGATCAGGGTATGAGATTGGATG
131 CCCTAATTAGGGTAAAAGATTAGATGA-TTCAATCTGCCCCATGATCAGGGTATGAGATCGGATG
17953977 GTGT
195 GTGT
*
17953981 CTTCAATCTG-CCTCATGATCGGGGTAAGAGATTGGATAGTGTCTTCAA-CTTGCCC-CATGATC
1 CTTCAATCTGCCCT-ATGATCGGAGTAAGAGATTGG-T-GTGTCTTCAATC-TGCCCTC-TGATC
* ** * *
17954043 GGGGTAGGAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTA-AGAGATTGGTGTGTCTTCAA
61 AGGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTATA-AGATTGGTATGTCTTCAA
* * *
17954107 TCTGCCCCCTAATTAGGGTAAAAGATTAGATGATTCAATTTGCCCCATTATCAGGGTATGAGATC
125 TCTACCCCCTAATTAGGGTAAAAGATTAGATGATTCAATCTGCCCCATGATCAGGGTATGAGATC
17954172 GGATGGT
190 GGATGGT
17954179 AGCTTCGCTT
Statistics
Matches: 175, Mismatches: 16, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
197 3 0.02
198 29 0.17
199 4 0.02
200 138 0.79
201 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (198 bp):
CTTCAATCTGCCCTATGATCGGAGTAAGAGATTGGTGTGTCTTCAATCTGCCCTCTGATCAGGGT
AAAAGATTGGATGCTTCAATCTGCCCCATGATCGAGGTATAAGATTGGTATGTCTTCAATCTACC
CCCTAATTAGGGTAAAAGATTAGATGATTCAATCTGCCCCATGATCAGGGTATGAGATCGGATGG
TGT
Found at i:17954151 original size:78 final size:80
Alignment explanation
Indices: 17953982--17954175 Score: 232
Period size: 78 Copynumber: 2.5 Consensus size: 80
17953972 GGATGGTGTC
* * *
17953982 TTCAATCTGCCTCATGATCGGGGTAAGAGATTGGATAGTGTCTTCAACTTGCCCCATGATCGGGG
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATAGTGTCTTCAACTTGCCCCATAATCAGGG
** * *
17954047 TAGGAGATTGGATGC
66 TAAAAGATTAGATGA
* *
17954062 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGG-T-GTGTCTTCAA-TCTGCCCCCTAATTAGG
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATAGTGTCTTCAACT-TGCCCCATAATCAGG
17954124 GTAAAAGATTAGATGA
65 GTAAAAGATTAGATGA
* * * * *
17954140 TTCAATTTGCCCCATTATCAGGGTATGAGATCGGAT
1 TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGAT
17954176 GGTAGCTTCG
Statistics
Matches: 98, Mismatches: 14, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
77 1 0.01
78 62 0.63
79 2 0.02
80 33 0.34
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (80 bp):
TTCAATCTGCCCCATGATCGGGGTAAGAGATTGGATAGTGTCTTCAACTTGCCCCATAATCAGGG
TAAAAGATTAGATGA
Found at i:17954488 original size:49 final size:49
Alignment explanation
Indices: 17954435--17954924 Score: 231
Period size: 49 Copynumber: 10.0 Consensus size: 49
17954425 TGCTTTTCCT
* * * * *
17954435 CATCTTCAGGGTATAAGATTCACCGTTGTGGCCTCAATCTTTCCCTTCA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCCTCCA
* * *
17954484 CATCTTTAAGGTATAAGGTTCGCCATTGCGGCTTCAA-CTTTTCCCTCCA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATC-TTTCCCTCCA
* * * * *
17954533 TATCTCCATGGTACAAGATTCACCATTGCGGCTTCAATCTTTCCAAT-CA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCC-CTCCA
** * * * * * * *
17954582 TGTCTCCAAGGTACAAGGTTCGCCATTGCTGCTTCAACCTTTCCCTCTA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCCTCCA
* * * ** *
17954631 TATCTCCATGGTATAAGATTCACTGTTGCGACTTCAATCTTTCCCAT-CA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCC-TCCA
** * * * ** * *
17954680 TGTC-TCTAAGGTACAAGGTTCGCTGTTGCAGCTTCAACCTTTCCCTCCA
1 CATCTTC-AAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCCTCCA
* * * *** * * *
17954729 CATCTCCATGGTACAAGATTTGTCGTTGTGGCTTCAATCTTTCCCAT-TA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCC-TCCA
** * * * * ** * *
17954778 TTTTTTTAAGGTATAAGGTTCGCCATTGCAACGTCAACCTTTCCCTCCA
1 CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCCTCCA
* * * * * *
17954827 TATCTTCATGGTACT-ATATTCACCGTTGCAGCTTCAATATTTCCCAT-CA
1 CATCTTCAAGGTA-TAAGATTCACCATTGCGGCTTCAATCTTTCCC-TCCA
* * * * * * *
17954876 CGTC-TCTAAAGCACAAGGTTCACCTTTGCGGCTTCAACCTTTCCCTCCA
1 CATCTTC-AAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCCTCCA
17954925 AACCTATAGA
Statistics
Matches: 329, Mismatches: 97, Indels: 30
0.72 0.21 0.07
Matches are distributed among these distances:
48 8 0.02
49 314 0.95
50 7 0.02
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (49 bp):
CATCTTCAAGGTATAAGATTCACCATTGCGGCTTCAATCTTTCCCTCCA
Found at i:17954593 original size:98 final size:98
Alignment explanation
Indices: 17954444--17954924 Score: 575
Period size: 98 Copynumber: 4.9 Consensus size: 98
17954434 TCATCTTCAG
* * * * ** * *
17954444 GGTATAAGATTCACCGTTGTGGCCTCAATCTTTCCCTTCACATCTTTAAGGTATAAGGTTCGCCA
1 GGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCCA
* *
17954509 TTGCGGCTTCAACTTTTCCCTCCATATCTCCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* * *
17954542 GGTACAAGATTCACCATTGCGGCTTCAATCTTTCCAATCATGTCTCCAAGGTACAAGGTTCGCCA
1 GGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCCA
* *
17954607 TTGCTGCTTCAACCTTTCCCTCTATATCTCCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* * * **
17954640 GGTATAAGATTCACTGTTGCGACTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCTG
1 GGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCCA
*
17954705 TTGCAGCTTCAACCTTTCCCTCCACATCTCCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
*** * * * * * *
17954738 GGTACAAGATTTGTCGTTGTGGCTTCAATCTTTCCCATTATTTTTTTAAGGTATAAGGTTCGCCA
1 GGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCCA
* * *
17954803 TTGCAACGTCAACCTTTCCCTCCATATCTTCAT
66 TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
* * * * * * * * *
17954836 GGTACTATATTCACCGTTGCAGCTTCAATATTTCCCATCACGTCTCTAAAGCACAAGGTTCACCT
1 GGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCCA
*
17954901 TTGCGGCTTCAACCTTTCCCTCCA
66 TTGCAGCTTCAACCTTTCCCTCCA
17954925 AACCTATAGA
Statistics
Matches: 319, Mismatches: 64, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
98 319 1.00
ACGTcount: A:0.22, C:0.29, G:0.15, T:0.35
Consensus pattern (98 bp):
GGTACAAGATTCACCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCGCCA
TTGCAGCTTCAACCTTTCCCTCCATATCTCCAT
Found at i:17955512 original size:112 final size:112
Alignment explanation
Indices: 17955310--17955531 Score: 354
Period size: 112 Copynumber: 2.0 Consensus size: 112
17955300 CCTTATATTG
* * * *
17955310 TTAGACCACTAACCGTTATTTCAATGTAAAAATGCTTGAATAGGGTTGTAAGGTGGATGAAATTG
1 TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTG
* *
17955375 AATTTGATTTGAGGCAAAGCTCGCATGATTGAAAAGATTAAAAATCA
66 AATTTGATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCA
* * *
17955422 TTAGTCCACTAACTGTCATTTCAATGCAAGAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTG
1 TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTG
*
17955487 AATTTTATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAAT
66 AATTTGATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAAT
17955532 GGCAAACATT
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
112 100 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (112 bp):
TTAGACCACTAACCGTCATTTCAATGCAAAAATGCTTGAACAGGGTTGTAAGGTGGATAAAATTG
AATTTGATTGGAGGCAAAGCTCGCATGAATGAAAAGATTAAAAATCA
Found at i:17956738 original size:19 final size:20
Alignment explanation
Indices: 17956710--17956752 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
17956700 TCTTTACTGG
17956710 TTTTCATCTTAAC-TTTCTT
1 TTTTCATCTTAACTTTTCTT
* **
17956729 TTTTCTTCTTTTCTTTTCTT
1 TTTTCATCTTAACTTTTCTT
17956749 TTTT
1 TTTT
17956753 TTAAAAAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.07, C:0.19, G:0.00, T:0.74
Consensus pattern (20 bp):
TTTTCATCTTAACTTTTCTT
Found at i:17961024 original size:30 final size:30
Alignment explanation
Indices: 17960983--17961154 Score: 177
Period size: 30 Copynumber: 5.8 Consensus size: 30
17960973 AAAAATAAAA
* *
17960983 TTTTGGAAAGTTTAGGGGCCAAATTAGAAC
1 TTTTGGAAAGTTTAGGGGTCAAATTAGAAT
* * *
17961013 TTTTGGGAAGTTTAAGGGTCAAATTTGAAT
1 TTTTGGAAAGTTTAGGGGTCAAATTAGAAT
* * * * * *
17961043 TTTTGAAAAGTTCATGGGTTAAAATATAAT
1 TTTTGGAAAGTTTAGGGGTCAAATTAGAAT
* *
17961073 TTTTGGAAAGTTTAGGGGTCAAATCATAAT
1 TTTTGGAAAGTTTAGGGGTCAAATTAGAAT
17961103 TTTTGGAAAGTTTA-GGGTCAAA-TATGAAT
1 TTTTGGAAAGTTTAGGGGTCAAATTA-GAAT
* * *
17961132 ATTTGGATAGTTTATGGGTCAAA
1 TTTTGGAAAGTTTAGGGGTCAAA
17961155 ACATAATTTT
Statistics
Matches: 117, Mismatches: 23, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
28 1 0.01
29 23 0.20
30 93 0.79
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.37
Consensus pattern (30 bp):
TTTTGGAAAGTTTAGGGGTCAAATTAGAAT
Found at i:17961160 original size:59 final size:59
Alignment explanation
Indices: 17960968--17961165 Score: 167
Period size: 60 Copynumber: 3.3 Consensus size: 59
17960958 AGGAAAAATG
* *
17960968 GGGTCAAAA-ATAAAATTTTGGAAAGTTTAGGGGCCAAAT-TAGAACTTTTGGGAAGTTTAA
1 GGGTCAAAACATAAATTTTTGGAAAGTTTAGGGGTCAAATAT-GAA-TTTT-GGAAGTTTAA
** * * * * * *
17961028 GGGTC-AAATTTGAATTTTTGAAAAGTTCATGGGTTAAAATAT-AATTTTTGGAAAGTTTAG
1 GGGTCAAAACATAAATTTTTGGAAAGTTTA-GGGGTCAAATATGAA-TTTTGG-AAGTTTAA
* *
17961088 GGGTCAAATCAT-AATTTTTGGAAAGTTTA-GGGTCAAATATGAATATTTGGATAGTTTAT
1 GGGTCAAAACATAAATTTTTGGAAAGTTTAGGGGTCAAATATGAAT-TTTGGA-AGTTTAA
17961147 GGGTCAAAACAT-AATTTTT
1 GGGTCAAAACATAAATTTTT
17961166 ATATAAAATA
Statistics
Matches: 111, Mismatches: 19, Indels: 17
0.76 0.13 0.12
Matches are distributed among these distances:
58 11 0.10
59 36 0.32
60 53 0.48
61 10 0.09
62 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (59 bp):
GGGTCAAAACATAAATTTTTGGAAAGTTTAGGGGTCAAATATGAATTTTGGAAGTTTAA
Found at i:17961178 original size:89 final size:90
Alignment explanation
Indices: 17960968--17961180 Score: 207
Period size: 89 Copynumber: 2.4 Consensus size: 90
17960958 AGGAAAAATG
* * ** * *
17960968 GGGTCAAAA-ATAAAATTTTGGAAAGTTTAGGGGCCAAATTAGAACTTTTGGGAAGTTTAAGGGT
1 GGGTCAAAACAT-AATTTTTAGAAAGAATAGGGGCCAAATCAGAACTTTTGGAAAGTTTAAGGGT
* *
17961032 CAAATTTGAATTTTTGAAAAGTTCAT
65 CAAATATGAATATTTGAAAAGTTCAT
* * * ** * * *
17961058 GGGTTAAAATATAATTTTTGGAAAGTTTAGGGGTCAAATCATAATTTTTGGAAAGTTT-AGGGTC
1 GGGTCAAAACATAATTTTTAGAAAGAATAGGGGCCAAATCAGAACTTTTGGAAAGTTTAAGGGTC
* * *
17961122 AAATATGAATATTTGGATAGTTTAT
66 AAATATGAATATTTGAAAAGTTCAT
*
17961147 GGGTCAAAACATAATTTTTATATAA-AATAGGGGC
1 GGGTCAAAACATAATTTTTAGA-AAGAATAGGGGC
17961181 TTCGTGGGTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
89 50 0.49
90 50 0.49
91 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (90 bp):
GGGTCAAAACATAATTTTTAGAAAGAATAGGGGCCAAATCAGAACTTTTGGAAAGTTTAAGGGTC
AAATATGAATATTTGAAAAGTTCAT
Found at i:17963312 original size:26 final size:24
Alignment explanation
Indices: 17963283--17963333 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 24
17963273 AGTTGTAGAG
17963283 AGAAAATTCTCTGAAGAAATTATTTT
1 AGAAAATT-TCTGAAGAAATT-TTTT
* *
17963309 AGAAAATTTCTGGAGATATTTTTT
1 AGAAAATTTCTGAAGAAATTTTTT
17963333 A
1 A
17963334 TTTATAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 5 0.22
25 10 0.43
26 8 0.35
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.41
Consensus pattern (24 bp):
AGAAAATTTCTGAAGAAATTTTTT
Found at i:17966373 original size:7 final size:7
Alignment explanation
Indices: 17966363--17966392 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
17966353 CAAAATTAAA
17966363 AATGTCC
1 AATGTCC
17966370 AATGTCC
1 AATGTCC
17966377 AATGTCC
1 AATGTCC
17966384 AA-GTCC
1 AATGTCC
17966390 AAT
1 AAT
17966393 TACAACTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.33, C:0.27, G:0.13, T:0.27
Consensus pattern (7 bp):
AATGTCC
Found at i:17979608 original size:37 final size:37
Alignment explanation
Indices: 17979558--17979738 Score: 247
Period size: 37 Copynumber: 4.9 Consensus size: 37
17979548 CTCGGTGGAA
* * *
17979558 TGCTTACGTCTCGGTTAGAGCGTAATGATATATGATT
1 TGCTTACGTCTCGGTTAGAGTGTAATGCTATGTGATT
* *
17979595 TGCTTACATCTCGGTTAGAGTATAATGCTATGTGATT
1 TGCTTACGTCTCGGTTAGAGTGTAATGCTATGTGATT
*
17979632 TGCTTACGTCTCGGTTAGAGTGTAATGCTATGTGGTT
1 TGCTTACGTCTCGGTTAGAGTGTAATGCTATGTGATT
* * *
17979669 TGCTTACGTCTCAGTTAGAGCGTAATGTTATGTGATT
1 TGCTTACGTCTCGGTTAGAGTGTAATGCTATGTGATT
* *
17979706 T-CTTTACGTCTCAGTTAGAGTGTAATGCCATGT
1 TGC-TTACGTCTCGGTTAGAGTGTAATGCTATGT
17979739 ATGGCTTAGG
Statistics
Matches: 128, Mismatches: 15, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
36 1 0.01
37 127 0.99
ACGTcount: A:0.22, C:0.14, G:0.24, T:0.40
Consensus pattern (37 bp):
TGCTTACGTCTCGGTTAGAGTGTAATGCTATGTGATT
Found at i:17980519 original size:51 final size:51
Alignment explanation
Indices: 17980444--17980544 Score: 166
Period size: 51 Copynumber: 2.0 Consensus size: 51
17980434 ACACGTGGGC
* *
17980444 CAATACACGGACGTGTGCCTTGGGAAAAATAGGTGCAGGGTTCACACGGGT
1 CAATACACGGACGTGTACCCTGGGAAAAATAGGTGCAGGGTTCACACGGGT
* *
17980495 CAATACACGGGCGTGTACCCTGGGAAAAATAGGTGCAGGGTTCATACGGG
1 CAATACACGGACGTGTACCCTGGGAAAAATAGGTGCAGGGTTCACACGGG
17980545 CTACATACGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
51 46 1.00
ACGTcount: A:0.28, C:0.20, G:0.34, T:0.19
Consensus pattern (51 bp):
CAATACACGGACGTGTACCCTGGGAAAAATAGGTGCAGGGTTCACACGGGT
Found at i:17980553 original size:11 final size:11
Alignment explanation
Indices: 17980537--17980569 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
17980527 GTGCAGGGTT
17980537 CATACGGGCTA
1 CATACGGGCTA
17980548 CATACGGGCTA
1 CATACGGGCTA
*
17980559 CACACGGGCTA
1 CATACGGGCTA
17980570 GGACACGGCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.27, C:0.30, G:0.27, T:0.15
Consensus pattern (11 bp):
CATACGGGCTA
Found at i:17984229 original size:20 final size:20
Alignment explanation
Indices: 17984205--17984253 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
17984195 TTTTCAACCT
17984205 AAATTAATTATTTTCACTAA
1 AAATTAATTATTTTCACTAA
* * **
17984225 TAATTATTTATTTTCTTTAA
1 AAATTAATTATTTTCACTAA
17984245 AAATTAATT
1 AAATTAATT
17984254 TTTCAAGAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (20 bp):
AAATTAATTATTTTCACTAA
Found at i:17986767 original size:15 final size:15
Alignment explanation
Indices: 17986747--17986784 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
17986737 GATGAATGTA
17986747 CATCCATAACCACCT
1 CATCCATAACCACCT
*
17986762 CATCCAT-CCCACCT
1 CATCCATAACCACCT
17986776 CATTCCATA
1 CA-TCCATA
17986785 TTTATTAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 8 0.40
15 12 0.60
ACGTcount: A:0.29, C:0.47, G:0.00, T:0.24
Consensus pattern (15 bp):
CATCCATAACCACCT
Found at i:17989831 original size:30 final size:31
Alignment explanation
Indices: 17989784--17990144 Score: 163
Period size: 30 Copynumber: 12.2 Consensus size: 31
17989774 GCCCAGAAGG
*
17989784 CCCTTAAACTT-TCCAAAAATTA-CATTTTGA
1 CCCTCAAACTTCT-CAAAAATTACCATTTTGA
* *
17989814 CCCTCGAACTTCTCAAAAATTA-CATTTTTGC
1 CCCTCAAACTTCTCAAAAATTACCA-TTTTGA
* *
17989845 CCCTTAAACTTC-C-AAAATTACCGTTTT-A
1 CCCTCAAACTTCTCAAAAATTACCATTTTGA
* * * * *
17989873 ACCTTAAACTTTTCCAAAATCA-CATTTTTGA
1 CCCTCAAACTTCTCAAAAATTACCA-TTTTGA
*
17989904 CCCT-AAGCTT-TCCAAAAATTACCATTTT-A
1 CCCTCAAACTTCT-CAAAAATTACCATTTTGA
* *
17989933 CCCTCGAACATC-CAAAAATTACCATTTT-A
1 CCCTCAAACTTCTCAAAAATTACCATTTTGA
* **
17989962 CCGTCGCA-TGTC-CAAAAA--ACACATTTTTGA
1 CCCTCAAACT-TCTCAAAAATTAC-CA-TTTTGA
* * * *
17989992 -CCTCGAACTTTTCCAAAATCA-CATTTTTGA
1 CCCTCAAACTTCTCAAAAATTACCA-TTTTGA
17990022 CCC-CAAACTT-TCCAAAAATTACCATTTT-A
1 CCCTCAAACTTCT-CAAAAATTACCATTTTGA
*
17990051 CCC-CAAACATC-CAAAAATTACCATTTT-A
1 CCCTCAAACTTCTCAAAAATTACCATTTTGA
* *
17990079 CCAC-CAGA-TGTC-CAAAAATCA-CATTTTTGA
1 CC-CTCAAACT-TCTCAAAAATTACCA-TTTTGA
*
17990109 CCC-CTAAACATC-CAAAAATTACCATTTT-A
1 CCCTC-AAACTTCTCAAAAATTACCATTTTGA
*
17990138 CCTTCAA
1 CCCTCAA
17990145 GTGTCCAAAA
Statistics
Matches: 264, Mismatches: 36, Indels: 63
0.73 0.10 0.17
Matches are distributed among these distances:
27 2 0.01
28 33 0.12
29 96 0.36
30 104 0.39
31 28 0.11
32 1 0.00
ACGTcount: A:0.35, C:0.28, G:0.04, T:0.32
Consensus pattern (31 bp):
CCCTCAAACTTCTCAAAAATTACCATTTTGA
Found at i:17989871 original size:29 final size:30
Alignment explanation
Indices: 17989784--17990158 Score: 177
Period size: 29 Copynumber: 12.7 Consensus size: 30
17989774 GCCCAGAAGG
17989784 CCCTTAAACTTTCCAAAAATTA-CATTTTGA
1 CCCTTAAAC-TTCCAAAAATTACCATTTTGA
** *
17989814 CCCTCGAACTTCTCAAAAATTA-CATTTTTGC
1 CCCTTAAACTTC-CAAAAATTACCA-TTTTGA
*
17989845 CCCTTAAACTTCC-AAAATTACCGTTTT-A
1 CCCTTAAACTTCCAAAAATTACCATTTTGA
* *
17989873 ACCTTAAACTTTTCC-AAAATCA-CATTTTTGA
1 CCCTTAAAC--TTCCAAAAATTACCA-TTTTGA
*
17989904 CCC-TAAGCTTTCCAAAAATTACCATTTT-A
1 CCCTTAAAC-TTCCAAAAATTACCATTTTGA
** *
17989933 CCCTCGAACATCCAAAAATTACCATTTT-A
1 CCCTTAAACTTCCAAAAATTACCATTTTGA
* ***
17989962 CCGTCGCA-TGTCCAAAAA--ACACATTTTTGA
1 CCCTTAAACT-TCCAAAAATTAC-CA-TTTTGA
** *
17989992 -CCTCGAACTTTTCC-AAAATCA-CATTTTTGA
1 CCCTTAAAC--TTCCAAAAATTACCA-TTTTGA
*
17990022 CCC-CAAACTTTCCAAAAATTACCATTTT-A
1 CCCTTAAAC-TTCCAAAAATTACCATTTTGA
* *
17990051 CCC-CAAACATCCAAAAATTACCATTTT-A
1 CCCTTAAACTTCCAAAAATTACCATTTTGA
* * *
17990079 CCAC-CAGA-TGTCCAAAAATCA-CATTTTTGA
1 CC-CTTAAACT-TCCAAAAATTACCA-TTTTGA
* *
17990109 CCCCTAAACATCCAAAAATTACCATTTT-A
1 CCCTTAAACTTCCAAAAATTACCATTTTGA
* *
17990138 -CCTTCAAGTGTCCAAAAATTA
1 CCCTTAAACT-TCCAAAAATTA
17990159 ACGTTTTACC
Statistics
Matches: 279, Mismatches: 36, Indels: 61
0.74 0.10 0.16
Matches are distributed among these distances:
27 2 0.01
28 38 0.14
29 111 0.40
30 97 0.35
31 29 0.10
32 2 0.01
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.32
Consensus pattern (30 bp):
CCCTTAAACTTCCAAAAATTACCATTTTGA
Found at i:17989951 original size:89 final size:88
Alignment explanation
Indices: 17989785--17990156 Score: 256
Period size: 88 Copynumber: 4.2 Consensus size: 88
17989775 CCCAGAAGGC
* * *
17989785 CCTTAAACTTTCCAAAAATTACATTTTGACCCTCGAACTTCTCAAAAATTACATTTTTGCCCCTT
1 CCTTAAACTTTCCAAAAATCACATTTTGACCCTC-AACTTCTCAAAAATTACATTTTTGACCCTC
* *
17989850 AAACTTCCAAAATTACCGTTTTAA
65 AAACATCCAAAATTACCATTTTAA
17989874 CCTTAAACTTTTCC-AAAATCACATTTTTGACCCT-AAGCTT-TCCAAAAATTACCA-TTTT-AC
1 CCTTAAAC-TTTCCAAAAATCACA-TTTTGACCCTCAA-CTTCT-CAAAAATTA-CATTTTTGAC
*
17989934 CCTCGAACATCCAAAAATTACCATTTT-A
61 CCTCAAACATCC-AAAATTACCATTTTAA
* ** * * * * *
17989962 CCGT-CGCATGTCCAAAAAACACATTTTTGA-CCTCGAACTTTTCCAAAATCACATTTTTGACCC
1 CCTTAAAC-TTTCCAAAAATCACA-TTTTGACCCTC-AACTTCTCAAAAATTACATTTTTGACCC
*
17990025 -CAAACTTTCCAAAAATTACCATTTT-A
63 TCAAAC-ATCC-AAAATTACCATTTTAA
** * * *
17990051 CCCCAAAC-ATCCAAAAATTACCATTTT-ACCAC-CAGA-TGTC-CAAAAATCACATTTTTGACC
1 CCTTAAACTTTCCAAAAATCA-CATTTTGACC-CTCA-ACT-TCTCAAAAATTACATTTTTGACC
17990111 C-CTAAACATCCAAAAATTACCATTTT-A
62 CTC-AAACATCC-AAAATTACCATTTTAA
* * *
17990138 CCTTCAAGTGTCCAAAAAT
1 CCTTAAACTTTCCAAAAAT
17990157 TAACGTTTTA
Statistics
Matches: 231, Mismatches: 31, Indels: 43
0.76 0.10 0.14
Matches are distributed among these distances:
87 57 0.25
88 80 0.35
89 76 0.33
90 18 0.08
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.32
Consensus pattern (88 bp):
CCTTAAACTTTCCAAAAATCACATTTTGACCCTCAACTTCTCAAAAATTACATTTTTGACCCTCA
AACATCCAAAATTACCATTTTAA
Found at i:17990017 original size:118 final size:117
Alignment explanation
Indices: 17989879--17990110 Score: 385
Period size: 118 Copynumber: 2.0 Consensus size: 117
17989869 TTTAACCTTA
* * *
17989879 AACTTTTCCAAAATCACATTTTTGACCCTAAGCTTTCCAAAAATTACCATTTTACCCTCGAACAT
1 AACTTTTCCAAAATCACATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCC-CAAACAT
**
17989944 CCAAAAATTACCATTTTACCGTC-GCATGTCCAAAAAACACATTTTTGACCTCG
65 CCAAAAATTACCATTTTACCACCAG-ATGTCCAAAAAACACATTTTTGACCTCG
17989997 AACTTTTCCAAAATCACATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCAAACATC
1 AACTTTTCCAAAATCACATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCAAACATC
*
17990062 CAAAAATTACCATTTTACCACCAGATGTCCAAAAATCACATTTTTGACC
66 CAAAAATTACCATTTTACCACCAGATGTCCAAAAAACACATTTTTGACC
17990111 CCTAAACATC
Statistics
Matches: 107, Mismatches: 6, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
117 51 0.48
118 56 0.52
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.31
Consensus pattern (117 bp):
AACTTTTCCAAAATCACATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCCCAAACATC
CAAAAATTACCATTTTACCACCAGATGTCCAAAAAACACATTTTTGACCTCG
Found at i:17990076 original size:59 final size:59
Alignment explanation
Indices: 17989789--17990136 Score: 217
Period size: 59 Copynumber: 5.9 Consensus size: 59
17989779 GAAGGCCCTT
* *
17989789 AAACTTTCCAAAAATTA-CATTTTGACCCTCGAACTTCTCAAAAATTACATTTTTG-CCCC
1 AAACTTTCCAAAAATTACCATTTTGACCC-CAAACATC-CAAAAATTACATTTTTGACCCC
* * ** * * *
17989848 TTAAAC-TTCC-AAAATTACCGTTTTAACCTTAAACTTTTCC-AAAATCACATTTTTGACCCT
1 --AAACTTTCCAAAAATTACCATTTTGACCCCAAAC--ATCCAAAAATTACATTTTTGACCCC
* * *
17989908 AAGCTTTCCAAAAATTACCATTTT-ACCCTCGAACATCCAAAAATTACCA-TTTT-ACCGTC
1 AAACTTTCCAAAAATTACCATTTTGACCC-CAAACATCCAAAAATTA-CATTTTTGACC-CC
** * * * * *
17989967 GCA-TGTCCAAAAA--ACACATTTTTGACCTCGAACTTTTCC-AAAATCACATTTTTGACCCC
1 AAACTTTCCAAAAATTAC-CA-TTTTGACCCCAAAC--ATCCAAAAATTACATTTTTGACCCC
17990026 AAACTTTCCAAAAATTACCATTTT-ACCCCAAACATCCAAAAATTACCA-TTTT-ACCACC
1 AAACTTTCCAAAAATTACCATTTTGACCCCAAACATCCAAAAATTA-CATTTTTGACC-CC
* * *
17990084 AGA-TGTCCAAAAATCA-CATTTTTGACCCCTAAACATCCAAAAATTACCATTTT
1 AAACTTTCCAAAAATTACCA-TTTTGACCCC-AAACATCCAAAAATTA-CATTTT
17990137 ACCTTCAAGT
Statistics
Matches: 226, Mismatches: 34, Indels: 55
0.72 0.11 0.17
Matches are distributed among these distances:
56 4 0.02
57 23 0.10
58 48 0.21
59 84 0.37
60 56 0.25
61 9 0.04
62 2 0.01
ACGTcount: A:0.36, C:0.28, G:0.05, T:0.32
Consensus pattern (59 bp):
AAACTTTCCAAAAATTACCATTTTGACCCCAAACATCCAAAAATTACATTTTTGACCCC
Found at i:17990165 original size:29 final size:29
Alignment explanation
Indices: 17990119--17990194 Score: 107
Period size: 29 Copynumber: 2.6 Consensus size: 29
17990109 CCCCTAAACA
* * *
17990119 TCCAAAAATTACCATTTTACCTTCAAGTG
1 TCCAAAAATTAACGTTTTACCCTCAAGTG
*
17990148 TCCAAAAATTAACGTTTTACCCTCGAGTG
1 TCCAAAAATTAACGTTTTACCCTCAAGTG
*
17990177 TCCAAAAATTATCGTTTT
1 TCCAAAAATTAACGTTTT
17990195 GCCCCCCCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (29 bp):
TCCAAAAATTAACGTTTTACCCTCAAGTG
Found at i:17990181 original size:117 final size:117
Alignment explanation
Indices: 17989885--17990187 Score: 339
Period size: 117 Copynumber: 2.6 Consensus size: 117
17989875 CTTAAACTTT
* * *
17989885 TCCAAAATCACATTTTTGACCCTAAGCTTTCCAAAAATTACCATTTTACCCTCGAACATCCAAAA
1 TCCAAAATCACATTTTTGACCCCAAACTGTCCAAAAATTACCATTTTACCCTCGAACATCCAAAA
** * * *
17989950 ATTACCATTTTACCGTCGCATGTCCAAAAAACACATTTTTGACCTCGAACTTT
66 ATTACCATTTTACCACCGCATGTCCAAAAAACACATTTTTGACCCCAAAC-TA
* *
17990003 TCCAAAATCACATTTTTGACCCCAAACTTTCCAAAAATTACCATTTTACCC-CAAACATCCAAAA
1 TCCAAAATCACATTTTTGACCCCAAACTGTCCAAAAATTACCATTTTACCCTCGAACATCCAAAA
*
17990067 ATTACCATTTTACCACCAG-ATGTCCAAAAATCACATTTTTGACCCCTAAAC-A
66 ATTACCATTTTACCACC-GCATGTCCAAAAAACACATTTTTGACCCC-AAACTA
* * * * * ***
17990119 TCCAAAAATTACCA-TTTT-ACCTTC-AAGTGTCCAAAAATTAACGTTTTACCCTCGAGTGTCCA
1 TCC-AAAATCA-CATTTTTGACC-CCAAACTGTCCAAAAATTACCATTTTACCCTCGAACATCCA
17990181 AAAATTA
63 AAAATTA
17990188 TCGTTTTGCC
Statistics
Matches: 160, Mismatches: 19, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
116 29 0.18
117 76 0.47
118 55 0.34
ACGTcount: A:0.36, C:0.28, G:0.06, T:0.30
Consensus pattern (117 bp):
TCCAAAATCACATTTTTGACCCCAAACTGTCCAAAAATTACCATTTTACCCTCGAACATCCAAAA
ATTACCATTTTACCACCGCATGTCCAAAAAACACATTTTTGACCCCAAACTA
Found at i:18003435 original size:55 final size:55
Alignment explanation
Indices: 18003327--18003489 Score: 191
Period size: 55 Copynumber: 2.9 Consensus size: 55
18003317 TTACTTAATA
* * * * * *
18003327 AAAAAAATTTAAGTATCAAATTAGAAAAAAATACTAAATTCAGACACCAAATTGAGT
1 AAAAAAATTTAAATATCAAATTA-AAAAAAATA-TAAATTTAAATACTAAATTGAAT
* * * *
18003384 CAAAAAATTTAAATACCAAATTAAAAAATATATAAATTTAAATATTAAATTGAAT
1 AAAAAAATTTAAATATCAAATTAAAAAAAATATAAATTTAAATACTAAATTGAAT
* *
18003439 AAAAAAATTTAAATATCAAATTAAAAAAAATTTTAAATTTAACTACTAAAT
1 AAAAAAATTTAAATATCAAATTAAAAAAAA-TATAAATTTAAATACTAAAT
18003490 ATTATATTAA
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
55 44 0.49
56 25 0.28
57 20 0.22
ACGTcount: A:0.59, C:0.07, G:0.04, T:0.30
Consensus pattern (55 bp):
AAAAAAATTTAAATATCAAATTAAAAAAAATATAAATTTAAATACTAAATTGAAT
Found at i:18003439 original size:12 final size:14
Alignment explanation
Indices: 18003409--18003454 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
18003399 CCAAATTAAA
18003409 AAATATATAAATTT
1 AAATATATAAATTT
18003423 AAATAT-TAAA-TT
1 AAATATATAAATTT
* * *
18003435 GAATAAAAAAATTT
1 AAATATATAAATTT
18003449 AAATAT
1 AAATAT
18003455 CAAATTAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 4
0.74 0.15 0.12
Matches are distributed among these distances:
12 6 0.24
13 7 0.28
14 12 0.48
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (14 bp):
AAATATATAAATTT
Found at i:18003473 original size:24 final size:24
Alignment explanation
Indices: 18003385--18003476 Score: 87
Period size: 24 Copynumber: 3.6 Consensus size: 24
18003375 AAATTGAGTC
*
18003385 AAAAAA-TTTAAATACCAAATTAA
1 AAAAAATTTTAAATATCAAATTAA
*
18003408 AAAATATATAAATTTAAATATTAAATTGAA
1 AAAA-A-AT---TTTAAATATCAAATT-AA
*
18003438 TAAAAAAATTTAAATATCAAATTAA
1 -AAAAAATTTTAAATATCAAATTAA
18003463 AAAAAATTTTAAAT
1 AAAAAATTTTAAAT
18003477 TTAACTACTA
Statistics
Matches: 56, Mismatches: 5, Indels: 15
0.74 0.07 0.20
Matches are distributed among these distances:
23 4 0.07
24 14 0.25
25 3 0.05
26 14 0.25
29 14 0.25
30 3 0.05
31 4 0.07
ACGTcount: A:0.63, C:0.03, G:0.01, T:0.33
Consensus pattern (24 bp):
AAAAAATTTTAAATATCAAATTAA
Found at i:18003801 original size:23 final size:23
Alignment explanation
Indices: 18003775--18003823 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
18003765 CTTATATCAA
* *
18003775 AATTAATAT-TTTAAATTAAGAAT
1 AATTAAAATATTTAAAATAA-AAT
18003798 AATTAAAATATTTAAAATAAAAT
1 AATTAAAATATTTAAAATAAAAT
18003821 AAT
1 AAT
18003824 ACTTATCAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (23 bp):
AATTAAAATATTTAAAATAAAAT
Found at i:18011798 original size:22 final size:22
Alignment explanation
Indices: 18011768--18011828 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 22
18011758 GCCAAGTGGA
18011768 CTGACCGTTGACCGACCCGAAC
1 CTGACCGTTGACCGACCCGAAC
* * *
18011790 CTGATCGTTGATCGACCTGAAC
1 CTGACCGTTGACCGACCCGAAC
* *
18011812 CCGACCATTGACCGACC
1 CTGACCGTTGACCGACC
18011829 TAGACCCGTT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.23, C:0.38, G:0.21, T:0.18
Consensus pattern (22 bp):
CTGACCGTTGACCGACCCGAAC
Found at i:18012486 original size:2 final size:2
Alignment explanation
Indices: 18012481--18012509 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
18012471 GTGTGTTGTG
18012481 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
18012510 CATGTATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:18015029 original size:23 final size:23
Alignment explanation
Indices: 18014999--18015045 Score: 85
Period size: 23 Copynumber: 2.0 Consensus size: 23
18014989 GGAGTTAGCA
18014999 TTCAGTGAGTTTGATATTATACT
1 TTCAGTGAGTTTGATATTATACT
*
18015022 TTCAGTGAGTTTGATCTTATACT
1 TTCAGTGAGTTTGATATTATACT
18015045 T
1 T
18015046 GGAATGAGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.23, C:0.11, G:0.17, T:0.49
Consensus pattern (23 bp):
TTCAGTGAGTTTGATATTATACT
Found at i:18015053 original size:23 final size:23
Alignment explanation
Indices: 18015004--18015055 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 23
18014994 TAGCATTCAG
* *
18015004 TGAGTTTGATATTATACTTTCAG
1 TGAGTTTGATATTATACTTGCAA
* *
18015027 TGAGTTTGATCTTATACTTGGAA
1 TGAGTTTGATATTATACTTGCAA
18015050 TGAGTT
1 TGAGTT
18015056 AGCTTTCTAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.08, G:0.21, T:0.46
Consensus pattern (23 bp):
TGAGTTTGATATTATACTTGCAA
Found at i:18019903 original size:39 final size:38
Alignment explanation
Indices: 18019860--18019998 Score: 161
Period size: 39 Copynumber: 3.6 Consensus size: 38
18019850 CTTACTACAT
* * *
18019860 TTGTTGCAGATTCTTAGGGTAATACAACGAGATCTAGTC
1 TTGTTGCAGATTCTT-GGGTAATATAATGAGATCTAGCC
* * *
18019899 TTGTTGCAGATTCTCAGGGTAATATAATGAGATATTGCC
1 TTGTTGCAGATTCT-TGGGTAATATAATGAGATCTAGCC
* *
18019938 TTATTGCAGATTCTTGGGTAATATAATGAGATCCAGCC
1 TTGTTGCAGATTCTTGGGTAATATAATGAGATCTAGCC
**
18019976 TTTGTTGTGGATTCTTGGGTAAT
1 -TTGTTGCAGATTCTTGGGTAAT
18019999 GCATAACACA
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
38 20 0.24
39 64 0.76
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.37
Consensus pattern (38 bp):
TTGTTGCAGATTCTTGGGTAATATAATGAGATCTAGCC
Found at i:18020657 original size:12 final size:12
Alignment explanation
Indices: 18020640--18020666 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
18020630 AGAGACTAGG
18020640 TAAGTTCAAATT
1 TAAGTTCAAATT
18020652 TAAGTTCAAATT
1 TAAGTTCAAATT
18020664 TAA
1 TAA
18020667 CTTAGTGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.07, G:0.07, T:0.41
Consensus pattern (12 bp):
TAAGTTCAAATT
Found at i:18021325 original size:7 final size:7
Alignment explanation
Indices: 18021313--18021337 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
18021303 TTTTTCAACT
18021313 CTAAACC
1 CTAAACC
18021320 CTAAACC
1 CTAAACC
18021327 CTAAACC
1 CTAAACC
18021334 CTAA
1 CTAA
18021338 TTGGATAGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.44, C:0.40, G:0.00, T:0.16
Consensus pattern (7 bp):
CTAAACC
Found at i:18029714 original size:55 final size:55
Alignment explanation
Indices: 18029626--18029824 Score: 184
Period size: 55 Copynumber: 3.6 Consensus size: 55
18029616 TGAAAGATAG
* * * *
18029626 CTCGATTAGAGCTTTAATTC-ACTTATAGCTCGGGTAGAGCTTTGGTTTGCTTACAT
1 CTCGATTAGAGC-GTAATGCTA-TTATAGCTCGGGTAGAGCTTTGGTCTGCTTACGT
* * * *
18029682 CTCGATTAGAGCGTAATGCTATTATAGCTCGGGTAAAGATTTGGACCGCTTACGT
1 CTCGATTAGAGCGTAATGCTATTATAGCTCGGGTAGAGCTTTGGTCTGCTTACGT
** * * * ** * *
18029737 CTCGATTAGAGTATAAAGCTAGTATAGTTTAGGTAGAGCTTTGATCTACTTACGT
1 CTCGATTAGAGCGTAATGCTATTATAGCTCGGGTAGAGCTTTGGTCTGCTTACGT
* * * *
18029792 CTTGATTAGAGCGTAAGGTTATTTTAGCTCGGG
1 CTCGATTAGAGCGTAATGCTATTATAGCTCGGG
18029825 AGGAGCATTG
Statistics
Matches: 111, Mismatches: 31, Indels: 3
0.77 0.21 0.02
Matches are distributed among these distances:
55 98 0.88
56 13 0.12
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.36
Consensus pattern (55 bp):
CTCGATTAGAGCGTAATGCTATTATAGCTCGGGTAGAGCTTTGGTCTGCTTACGT
Found at i:18038508 original size:21 final size:22
Alignment explanation
Indices: 18038484--18038531 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 22
18038474 TTTTGTCCTA
18038484 CTCCATCTCACC-TTCTTATTT
1 CTCCATCTCACCTTTCTTATTT
**
18038505 CTCC-TCTTGCCTTTCTTATTT
1 CTCCATCTCACCTTTCTTATTT
18038526 CTCCAT
1 CTCCAT
18038532 TTTTAGGAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 5 0.22
21 17 0.74
22 1 0.04
ACGTcount: A:0.10, C:0.38, G:0.02, T:0.50
Consensus pattern (22 bp):
CTCCATCTCACCTTTCTTATTT
Found at i:18039445 original size:14 final size:14
Alignment explanation
Indices: 18039426--18039455 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
18039416 CCCTTATAAG
*
18039426 CCTTTTGACCCAAA
1 CCTTTTAACCCAAA
18039440 CCTTTTAACCCAAA
1 CCTTTTAACCCAAA
18039454 CC
1 CC
18039456 AAGTGAACCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.40, G:0.03, T:0.27
Consensus pattern (14 bp):
CCTTTTAACCCAAA
Found at i:18048747 original size:7 final size:7
Alignment explanation
Indices: 18048735--18048788 Score: 54
Period size: 7 Copynumber: 7.7 Consensus size: 7
18048725 GACCTGAACT
18048735 CGTTGAC
1 CGTTGAC
18048742 CGTTGAC
1 CGTTGAC
*
18048749 CATTGAC
1 CGTTGAC
* *
18048756 AGGTGAC
1 CGTTGAC
*
18048763 CGTTGAT
1 CGTTGAC
*
18048770 TGTTGAC
1 CGTTGAC
*
18048777 CATTGAC
1 CGTTGAC
18048784 CGTTG
1 CGTTG
18048789 GCTTTTTTCG
Statistics
Matches: 35, Mismatches: 12, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
7 35 1.00
ACGTcount: A:0.19, C:0.22, G:0.28, T:0.31
Consensus pattern (7 bp):
CGTTGAC
Found at i:18049829 original size:5 final size:5
Alignment explanation
Indices: 18049819--18049853 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
18049809 TAATTATAGA
18049819 TTTAT TTTAT TTTATCT TTTAT TTTAT TTTAT TTT
1 TTTAT TTTAT TTTA--T TTTAT TTTAT TTTAT TTT
18049854 TGGGTTTTTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
5 23 0.82
7 5 0.18
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTAT
Found at i:18049841 original size:17 final size:16
Alignment explanation
Indices: 18049819--18049854 Score: 63
Period size: 17 Copynumber: 2.2 Consensus size: 16
18049809 TAATTATAGA
18049819 TTTATTTTATTTTATCT
1 TTTATTTTATTTTAT-T
18049836 TTTATTTTATTTTATT
1 TTTATTTTATTTTATT
18049852 TTT
1 TTT
18049855 GGGTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 4 0.21
17 15 0.79
ACGTcount: A:0.17, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:18051039 original size:19 final size:19
Alignment explanation
Indices: 18051001--18051039 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
18050991 AAGTTACAAG
* *
18051001 TCTTTAAAATAAATCCAAA
1 TCTTAAAAATAAATCAAAA
*
18051020 TCTTAAAAATAAATTAAAA
1 TCTTAAAAATAAATCAAAA
18051039 T
1 T
18051040 TCACTCGTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.33
Consensus pattern (19 bp):
TCTTAAAAATAAATCAAAA
Found at i:18053637 original size:36 final size:38
Alignment explanation
Indices: 18053590--18053690 Score: 116
Period size: 39 Copynumber: 2.7 Consensus size: 38
18053580 GCAAAAAAAT
* *
18053590 GTAGTCATTTTCCATTC-TA-GGAAAGTATTATACATA
1 GTAGTCATTTTCCATTCAAATCGAAAGTATTATACATA
** *
18053626 GTAGTCATTTTCCATTCGAAATCGAATTTTTTATACATA
1 GTAGTCATTTTCCATTC-AAATCGAAAGTATTATACATA
*
18053665 GTAGTCATTTTCCATTGGAAATCGAA
1 GTAGTCATTTTCCATT-CAAATCGAA
18053691 TTTTTTTTCA
Statistics
Matches: 55, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
36 17 0.31
38 1 0.02
39 37 0.67
ACGTcount: A:0.32, C:0.15, G:0.14, T:0.40
Consensus pattern (38 bp):
GTAGTCATTTTCCATTCAAATCGAAAGTATTATACATA
Found at i:18053671 original size:39 final size:39
Alignment explanation
Indices: 18053617--18053696 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
18053607 TAGGAAAGTA
18053617 TTATACATAGTAGTCATTTTCCATTCGAAATCGAATTTT
1 TTATACATAGTAGTCATTTTCCATTCGAAATCGAATTTT
*
18053656 TTATACATAGTAGTCATTTTCCATTGGAAATCGAATTTT
1 TTATACATAGTAGTCATTTTCCATTCGAAATCGAATTTT
18053695 TT
1 TT
18053697 TTCAAGGATA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.30, C:0.14, G:0.11, T:0.45
Consensus pattern (39 bp):
TTATACATAGTAGTCATTTTCCATTCGAAATCGAATTTT
Found at i:18054569 original size:11 final size:11
Alignment explanation
Indices: 18054531--18054569 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
18054521 TTGAGAGCAT
18054531 AAAAATAAAAG
1 AAAAATAAAAG
* *
18054542 ATAAATAAAAT
1 AAAAATAAAAG
18054553 AGAAAATAAAAG
1 A-AAAATAAAAG
18054565 AAAAA
1 AAAAA
18054570 GTTTGAGATG
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
11 14 0.61
12 9 0.39
ACGTcount: A:0.79, C:0.00, G:0.08, T:0.13
Consensus pattern (11 bp):
AAAAATAAAAG
Found at i:18063792 original size:30 final size:30
Alignment explanation
Indices: 18063715--18063882 Score: 155
Period size: 30 Copynumber: 5.6 Consensus size: 30
18063705 AAGGAAAAAC
* * * *
18063715 AGGGTCAAAATTAAAATTTTGAAAAAGTTTA
1 AGGGTCAAAATCAAATTTTTG-GAAAGTTTG
* * *
18063746 AGAGTCAAAATGAAATTTTTAGAAAGTTTG
1 AGGGTCAAAATCAAATTTTTGGAAAGTTTG
* * * *
18063776 AGGCT-AAAATCAAAATTATGGAAAGTTCG
1 AGGGTCAAAATCAAATTTTTGGAAAGTTTG
18063805 -GGGTCAAAATCAAATTTTTGGAAAGTTTG
1 AGGGTCAAAATCAAATTTTTGGAAAGTTTG
*
18063834 AGGGTCAAAA-CTAAATTTTT-GAGAAGTTAG
1 AGGGTCAAAATC-AAATTTTTGGA-AAGTTTG
* *
18063864 AGGGTCGAATTCAAATTTT
1 AGGGTCAAAATCAAATTTT
18063883 GGGATAAAAT
Statistics
Matches: 112, Mismatches: 20, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
28 3 0.03
29 43 0.38
30 48 0.43
31 18 0.16
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.32
Consensus pattern (30 bp):
AGGGTCAAAATCAAATTTTTGGAAAGTTTG
Found at i:18063850 original size:58 final size:60
Alignment explanation
Indices: 18063749--18063882 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 60
18063739 AAGTTTAAGA
* *
18063749 GTCAAAATGAAATTTTTAGAAAGTTTGAGGCTAAAATCAAAATTATGGA-AAGTTCG-GG
1 GTCAAAATCAAATTTTTAGAAAGTTTGAGGCTAAAATCAAAATTATGGAGAAGTTAGAGG
* * * * *
18063807 GTCAAAATCAAATTTTTGGAAAGTTTGAGGGTCAAAA-CTAAATTTTTGAGAAGTTAGAGG
1 GTCAAAATCAAATTTTTAGAAAGTTTGAGGCT-AAAATCAAAATTATGGAGAAGTTAGAGG
* *
18063867 GTCGAATTCAAATTTT
1 GTCAAAATCAAATTTT
18063883 GGGATAAAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
58 38 0.59
59 10 0.16
60 16 0.25
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (60 bp):
GTCAAAATCAAATTTTTAGAAAGTTTGAGGCTAAAATCAAAATTATGGAGAAGTTAGAGG
Found at i:18063852 original size:29 final size:29
Alignment explanation
Indices: 18063715--18063884 Score: 130
Period size: 29 Copynumber: 5.7 Consensus size: 29
18063705 AAGGAAAAAC
* *
18063715 AGGGTCAAAATTAAAATTTTGAAAAAGTTTA
1 AGGGTCAAAA-TAAAATTTTG-GAAAGTTTG
* * *
18063746 AGAGTCAAAATGAAATTTTTAGAAAGTTTG
1 AGGGTCAAAAT-AAAATTTTGGAAAGTTTG
* * *
18063776 AGGCT-AAAATCAAAATTATGGAAAGTTCG
1 AGGGTCAAAAT-AAAATTTTGGAAAGTTTG
*
18063805 -GGGTCAAAATCAAATTTTTGGAAAGTTTG
1 AGGGTCAAAAT-AAAATTTTGGAAAGTTTG
* *
18063834 AGGGTCAAAACT-AAATTTTTGAGAAGTTAG
1 AGGGTCAAAA-TAAAATTTTGGA-AAGTTTG
* * *
18063864 AGGGTCGAATTCAAATTTTGG
1 AGGGTCAAAATAAAATTTTGG
18063885 GATAAAATAG
Statistics
Matches: 111, Mismatches: 22, Indels: 13
0.76 0.15 0.09
Matches are distributed among these distances:
28 3 0.03
29 49 0.44
30 42 0.38
31 17 0.15
ACGTcount: A:0.41, C:0.06, G:0.22, T:0.31
Consensus pattern (29 bp):
AGGGTCAAAATAAAATTTTGGAAAGTTTG
Found at i:18064539 original size:23 final size:23
Alignment explanation
Indices: 18064512--18064558 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
18064502 GGGTTTTAAA
* * *
18064512 TCCTTCTTTTTTTGTTTTGTTTT
1 TCCTTATTTTTTTATTTTATTTT
18064535 TCCTTATTTTTTTATTTTATTTT
1 TCCTTATTTTTTTATTTTATTTT
18064558 T
1 T
18064559 GAAATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.06, C:0.11, G:0.04, T:0.79
Consensus pattern (23 bp):
TCCTTATTTTTTTATTTTATTTT
Found at i:18074627 original size:25 final size:25
Alignment explanation
Indices: 18074578--18074627 Score: 82
Period size: 25 Copynumber: 2.0 Consensus size: 25
18074568 TTCTGAAAAT
* *
18074578 GAAATGAAAATAACTAAAGCTTAAA
1 GAAATGAAAATAACTAAAACCTAAA
18074603 GAAATGAAAATAACTAAAACCTAAA
1 GAAATGAAAATAACTAAAACCTAAA
18074628 TTACAATAGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.62, C:0.10, G:0.10, T:0.18
Consensus pattern (25 bp):
GAAATGAAAATAACTAAAACCTAAA
Found at i:18078130 original size:52 final size:52
Alignment explanation
Indices: 18078052--18078227 Score: 239
Period size: 52 Copynumber: 3.4 Consensus size: 52
18078042 CCCATTTAAC
* * *
18078052 ACTCACGATGACACA-ATGTCATCGGACCTTA-AACCCGTAATAGGATCCATAT
1 ACTCACGATGACACATA-GTCATCGGACCTCATAATCCGTAA-AGGATTCATAT
* * * *
18078104 ACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAACGAATTCATAA
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
*
18078156 ACTCACGATGATACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
1 ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
*
18078208 ACTCACGATGATACATAGTC
1 ACTCACGATGACACATAGTC
18078228 TCAGATTTAA
Statistics
Matches: 110, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
52 101 0.92
53 9 0.08
ACGTcount: A:0.36, C:0.26, G:0.14, T:0.24
Consensus pattern (52 bp):
ACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCATAT
Found at i:18078477 original size:3 final size:3
Alignment explanation
Indices: 18078469--18078495 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
18078459 CATGAAGACC
18078469 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
18078496 AGAATAAAGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:18080474 original size:21 final size:21
Alignment explanation
Indices: 18080450--18080499 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
18080440 GAGATAATAT
18080450 TACCGATACAAGT-ATGACTTC
1 TACCGATACAAGTCATG-CTTC
* *
18080471 TACCGAAACATGTCATGCTTC
1 TACCGATACAAGTCATGCTTC
18080492 TACCGATA
1 TACCGATA
18080500 AAAACTCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 22 0.88
22 3 0.12
ACGTcount: A:0.32, C:0.26, G:0.14, T:0.28
Consensus pattern (21 bp):
TACCGATACAAGTCATGCTTC
Found at i:18081448 original size:52 final size:53
Alignment explanation
Indices: 18081383--18081565 Score: 195
Period size: 52 Copynumber: 3.5 Consensus size: 53
18081373 TTCCCATTTA
* * * *
18081383 ATACTCACAATGACATAAT-GTCATCGAACCTTA-AACCCGTAATAGGATCCAT
1 ATACTCACGATGACATAATAGTCATCGGACCTCATAATCCGTAA-AGGATCCAT
* *
18081435 ATACTCACGATGACA-CATAGTCATCGGACCTCATAATCTGTAAAGGA-CTCAT
1 ATACTCACGATGACATAATAGTCATCGGACCTCATAATCCGTAAAGGATC-CAT
* *
18081487 ATACTCACGATG--ATACATAGTCATCGGACCTCATAATGCGTAAAGGATTCAT
1 ATACTCACGATGACATA-ATAGTCATCGGACCTCATAATCCGTAAAGGATCCAT
18081539 ATACTCACGATG-C-TACATAGTC-TCGGA
1 ATACTCACGATGACATA-ATAGTCATCGGA
18081566 TTGAACTCAT
Statistics
Matches: 114, Mismatches: 10, Indels: 15
0.82 0.07 0.11
Matches are distributed among these distances:
50 1 0.01
51 8 0.07
52 98 0.86
53 7 0.06
ACGTcount: A:0.35, C:0.24, G:0.15, T:0.26
Consensus pattern (53 bp):
ATACTCACGATGACATAATAGTCATCGGACCTCATAATCCGTAAAGGATCCAT
Found at i:18084734 original size:52 final size:52
Alignment explanation
Indices: 18084653--18084830 Score: 234
Period size: 52 Copynumber: 3.4 Consensus size: 52
18084643 TTCCCATTTA
* * * * *
18084653 ATACTCACGATGACACA-ATGTCATTGGACCTTA-AACCCATAATAGGATCCAT
1 ATACTCACGATGACACATA-GTCATCGGACCTCATAATCCGTAA-AGGATTCAT
* *
18084705 GTACTCACGATGACACATAGTCATCGGACCTCATAATTCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
18084757 ATACTCACGATGATACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* *
18084809 ATACTCATGATGATACATAGTC
1 ATACTCACGATGACACATAGTC
18084831 TCGAATTTAA
Statistics
Matches: 113, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
52 106 0.94
53 7 0.06
ACGTcount: A:0.35, C:0.23, G:0.15, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:18085885 original size:16 final size:16
Alignment explanation
Indices: 18085861--18085893 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
18085851 TCCTTACAAA
*
18085861 TTTATTCCTTTAACAT
1 TTTAGTCCTTTAACAT
18085877 TTTAGTCCTTTAACAT
1 TTTAGTCCTTTAACAT
18085893 T
1 T
18085894 AAAATCATCA
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:0.24, C:0.18, G:0.03, T:0.55
Consensus pattern (16 bp):
TTTAGTCCTTTAACAT
Found at i:18098021 original size:28 final size:27
Alignment explanation
Indices: 18097978--18098067 Score: 89
Period size: 28 Copynumber: 3.3 Consensus size: 27
18097968 GCTACAACCA
* *
18097978 AATAATAATACTAGTAATAATAATAA-
1 AATAATAACACGAGTAATAATAATAAT
18098004 AA-AATATATCAACGAGTAATAATAATAAT
1 AATAATA-A-C-ACGAGTAATAATAATAAT
18098033 AATAATAACACG-GTAATAATAAATACA-
1 AATAATAACACGAGTAATAAT-AATA-AT
18098060 AATAATAA
1 AATAATAA
18098068 TTACTAGCAT
Statistics
Matches: 55, Mismatches: 2, Indels: 13
0.79 0.03 0.19
Matches are distributed among these distances:
25 4 0.07
26 11 0.20
27 15 0.27
28 18 0.33
29 3 0.05
30 4 0.07
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (27 bp):
AATAATAACACGAGTAATAATAATAAT
Found at i:18098057 original size:27 final size:27
Alignment explanation
Indices: 18097978--18098067 Score: 80
Period size: 27 Copynumber: 3.3 Consensus size: 27
18097968 GCTACAACCA
* *
18097978 AATAATAATACTAGTAATAAT-AATAAAA
1 AATAATAA-ACGAGTAATAATAAAT-AAT
*
18098006 AATATATCAACGAGTAATAAT-AATAAT
1 AATA-ATAAACGAGTAATAATAAATAAT
18098033 AATAATAACACG-GTAATAATAAATACA-
1 AATAATAA-ACGAGTAATAATAAATA-AT
18098060 AATAATAA
1 AATAATAA
18098068 TTACTAGCAT
Statistics
Matches: 54, Mismatches: 4, Indels: 9
0.81 0.06 0.13
Matches are distributed among these distances:
26 11 0.20
27 21 0.39
28 19 0.35
29 3 0.06
ACGTcount: A:0.61, C:0.07, G:0.06, T:0.27
Consensus pattern (27 bp):
AATAATAAACGAGTAATAATAAATAAT
Found at i:18098266 original size:17 final size:17
Alignment explanation
Indices: 18098240--18098301 Score: 54
Period size: 17 Copynumber: 3.5 Consensus size: 17
18098230 AAAATGCTAA
18098240 AAAT-AAATAAACAAAC
1 AAATAAAATAAACAAAC
* *
18098256 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAC
*
18098273 AAATGAATAGAATAAACAAAG
1 AAAT--A-A-AATAAACAAAC
18098294 AAATAAAA
1 AAATAAAA
18098302 AATAAGGAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
16 4 0.11
17 16 0.43
18 1 0.03
19 2 0.05
20 1 0.03
21 13 0.35
ACGTcount: A:0.74, C:0.05, G:0.05, T:0.16
Consensus pattern (17 bp):
AAATAAAATAAACAAAC
Found at i:18098281 original size:21 final size:20
Alignment explanation
Indices: 18098239--18098306 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 20
18098229 TAAAATGCTA
*
18098239 AAAATAAATAAACAAACAAAT
1 AAAATAAATAAACAAA-TAAT
*
18098260 AAAATAAATAAATAAATGAAT
1 AAAATAAATAAACAAAT-AAT
* * *
18098281 AGAATAAACAAAGAAATAA-
1 AAAATAAATAAACAAATAAT
18098300 AAAATAA
1 AAAATAA
18098307 GGAAAGGACT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
19 6 0.15
20 2 0.05
21 32 0.80
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (20 bp):
AAAATAAATAAACAAATAAT
Found at i:18098285 original size:5 final size:4
Alignment explanation
Indices: 18098240--18098306 Score: 64
Period size: 4 Copynumber: 16.5 Consensus size: 4
18098230 AAAATGCTAA
* * * *
18098240 AAAT AAAT AAAC AAAC AAAT AAAAT AAAT AAAT AAAT GAAT AGAAT AAAC
1 AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT A-AAT AAAT
*
18098290 AAAG AAAT AAA- AAAT AA
1 AAAT AAAT AAAT AAAT AA
18098307 GGAAAGGACT
Statistics
Matches: 53, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.06
4 42 0.79
5 8 0.15
ACGTcount: A:0.75, C:0.04, G:0.04, T:0.16
Consensus pattern (4 bp):
AAAT
Found at i:18098383 original size:17 final size:19
Alignment explanation
Indices: 18098363--18098398 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
18098353 AAAAAATAGA
18098363 AAAT-AAAAGG-CTAAATT
1 AAATAAAAAGGACTAAATT
18098380 AAATAAAAAGGACTAAATT
1 AAATAAAAAGGACTAAATT
18098399 GAAACCTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 6 0.35
19 7 0.41
ACGTcount: A:0.61, C:0.06, G:0.11, T:0.22
Consensus pattern (19 bp):
AAATAAAAAGGACTAAATT
Found at i:18101569 original size:87 final size:86
Alignment explanation
Indices: 18101470--18101628 Score: 210
Period size: 87 Copynumber: 1.8 Consensus size: 86
18101460 TTAAGTTCAG
* ** *
18101470 TGAATTCATCAAGTCCATCTCAATAGGACTGCCCAAAATCTGAGATCTGAACTCATTAAGAGTAA
1 TGAATTCATCAAGTCCATCTCAATAAGACCACCCAAAATCTGAGATATGAACTCATTAAGAGTAA
18101535 TAAACTCAACCTTTCAAGTCGA
66 -AAACTCAACCTTTCAAGTCGA
* * * * * * *
18101557 TGAATTCTTCAAGTTCGTCTCAATAAGACCACCGAAAATCTGGGCTATGAATTCATTAAGAGTAA
1 TGAATTCATCAAGTCCATCTCAATAAGACCACCCAAAATCTGAGATATGAACTCATTAAGAGTAA
18101622 AAACTCA
66 AAACTCA
18101629 TTCTTATGCA
Statistics
Matches: 61, Mismatches: 11, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
86 7 0.11
87 54 0.89
ACGTcount: A:0.37, C:0.21, G:0.14, T:0.27
Consensus pattern (86 bp):
TGAATTCATCAAGTCCATCTCAATAAGACCACCCAAAATCTGAGATATGAACTCATTAAGAGTAA
AAACTCAACCTTTCAAGTCGA
Found at i:18107758 original size:36 final size:36
Alignment explanation
Indices: 18107709--18107801 Score: 114
Period size: 36 Copynumber: 2.6 Consensus size: 36
18107699 TTGAACAAAA
*
18107709 CTATTGACCCCAAAGGTCATGATGCTCGTTCTACTCC
1 CTATTGA-CCCAAAGGTCATGATGCTCATTCTACTCC
* * * *
18107746 CTATTGGCCCAAAGGTCATTATGCTCATTTTTCTCC
1 CTATTGACCCAAAGGTCATGATGCTCATTCTACTCC
* *
18107782 CTATTGACCCCAAGTTCATG
1 CTATTGACCCAAAGGTCATG
18107802 CCTATTACTA
Statistics
Matches: 47, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
36 41 0.87
37 6 0.13
ACGTcount: A:0.22, C:0.30, G:0.15, T:0.33
Consensus pattern (36 bp):
CTATTGACCCAAAGGTCATGATGCTCATTCTACTCC
Found at i:18110119 original size:16 final size:16
Alignment explanation
Indices: 18110098--18110128 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18110088 ATAATGTGAA
18110098 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
18110114 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
18110129 GGATCCATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:18110987 original size:26 final size:27
Alignment explanation
Indices: 18110930--18110987 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
18110920 TTGAGTGTAA
*
18110930 TCCTGGACACGGTCATGCAACGACAAT
1 TCCTGGACACGGTCATACAACGACAAT
* *
18110957 T-CTGGACATGTTCATACAACGAC-AT
1 TCCTGGACACGGTCATACAACGACAAT
18110982 TCCTGG
1 TCCTGG
18110988 GTGCGATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 3 0.11
26 23 0.85
27 1 0.04
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (27 bp):
TCCTGGACACGGTCATACAACGACAAT
Found at i:18114213 original size:16 final size:16
Alignment explanation
Indices: 18114192--18114222 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
18114182 AAAATGTGAA
18114192 AATAAAGATAAAATGT
1 AATAAAGATAAAATGT
*
18114208 AATAAAGGTAAAATG
1 AATAAAGATAAAATG
18114223 GGATCCACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.00, G:0.16, T:0.23
Consensus pattern (16 bp):
AATAAAGATAAAATGT
Found at i:18115622 original size:103 final size:103
Alignment explanation
Indices: 18115440--18115632 Score: 359
Period size: 103 Copynumber: 1.9 Consensus size: 103
18115430 TTCTCTAACG
* *
18115440 ATGCTGCTCACACGAGCTGTCGGGAGTATGCATAAAGCGTAAGTCTTAGCCATCGAAGGGCCTTT
1 ATGCTGCTCACACGAGCTATCGGGAGTATGCATAAAGCGTAAGTCTCAGCCATCGAAGGGCCTTT
18115505 AATCCATTTAGGATTCATATTTCTTTTTCCAAATCACA
66 AATCCATTTAGGATTCATATTTCTTTTTCCAAATCACA
18115543 ATGCTGCTCACACGAGCTATCGGGAGTATGCATAAAGCGTAAGTCTCAGCCATCGAAGGGCCTTT
1 ATGCTGCTCACACGAGCTATCGGGAGTATGCATAAAGCGTAAGTCTCAGCCATCGAAGGGCCTTT
*
18115608 AATCCATTTTGGATTCATATTTCTT
66 AATCCATTTAGGATTCATATTTCTT
18115633 ACCCCAACCA
Statistics
Matches: 87, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
103 87 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.31
Consensus pattern (103 bp):
ATGCTGCTCACACGAGCTATCGGGAGTATGCATAAAGCGTAAGTCTCAGCCATCGAAGGGCCTTT
AATCCATTTAGGATTCATATTTCTTTTTCCAAATCACA
Found at i:18117503 original size:26 final size:26
Alignment explanation
Indices: 18117474--18117540 Score: 116
Period size: 26 Copynumber: 2.6 Consensus size: 26
18117464 TTTTGGACAC
*
18117474 GTTCATGCAGCGATAATTCTGGACTT
1 GTTCATGCAACGATAATTCTGGACTT
18117500 GTTCATGCAACGATAATTCTGGACTT
1 GTTCATGCAACGATAATTCTGGACTT
*
18117526 GTTCAGGCAACGATA
1 GTTCATGCAACGATA
18117541 TTCCTTGGTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.27, C:0.19, G:0.22, T:0.31
Consensus pattern (26 bp):
GTTCATGCAACGATAATTCTGGACTT
Found at i:18117688 original size:36 final size:37
Alignment explanation
Indices: 18117605--18117688 Score: 109
Period size: 36 Copynumber: 2.3 Consensus size: 37
18117595 AAGAATATTT
* * *
18117605 ATGCAGTGATAGTCTTGGGTGCAATCTAGAAGTGCTA
1 ATGCAGCGACAGTCTTGGGCGCAATCTAGAAGTGCTA
*
18117642 ATGC-GACGACAGT-TTGGGCGCAATCTAGAAGTGCTC
1 ATGCAG-CGACAGTCTTGGGCGCAATCTAGAAGTGCTA
18117678 ATGCAGCGACA
1 ATGCAGCGACA
18117689 TTAGTAGTAA
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 31 0.76
37 10 0.24
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.24
Consensus pattern (37 bp):
ATGCAGCGACAGTCTTGGGCGCAATCTAGAAGTGCTA
Found at i:18122924 original size:36 final size:36
Alignment explanation
Indices: 18122860--18122963 Score: 136
Period size: 36 Copynumber: 2.9 Consensus size: 36
18122850 TGATCGTTAT
*
18122860 TCATTTTACTCCCTGTTGACCCCAAAGGTCATAATGC
1 TCATTTTTCTCCCTGTTGA-CCCAAAGGTCATAATGC
** * * *
18122897 TTGTTTTTCTTCTTGTTGACCCAAAGGTCATTATGC
1 TCATTTTTCTCCCTGTTGACCCAAAGGTCATAATGC
*
18122933 TCATTTTTCTCCCTGTTAACCCAAAGGTCAT
1 TCATTTTTCTCCCTGTTGACCCAAAGGTCAT
18122964 TCCTGTTACT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
36 42 0.75
37 14 0.25
ACGTcount: A:0.21, C:0.26, G:0.13, T:0.39
Consensus pattern (36 bp):
TCATTTTTCTCCCTGTTGACCCAAAGGTCATAATGC
Found at i:18124105 original size:591 final size:591
Alignment explanation
Indices: 18122984--18124166 Score: 2285
Period size: 591 Copynumber: 2.0 Consensus size: 591
18122974 AGTATACGAT
18122984 ACTATTCTTAGCCATCGATACGGTATATTTGTTCCCTACGATGCTGCTCACACTAAGCTAACAAG
1 ACTATTCTTAGCCATCGATACGGTATATTTGTTCCCTACGATGCTGCTCACACTAAGCTAACAAG
18123049 AGTATGCAATCAGGCATAAATCTCAGCCATCATAGGGCCTGTAATCCATTCTTGGATTCTATTCA
66 AGTATGCAATCAGGCATAAATCTCAGCCATCATAGGGCCTGTAATCCATTCTTGGATTCTATTCA
**
18123114 CTTTATAGTGACTCACAATGCCGTAGAGAATCTGTAACAAATGCAAGATCTCAATCATCGGACTA
131 CTTTATAGTGACTCACAATGCCGTAGAGAATCTACAACAAATGCAAGATCTCAATCATCGGACTA
18123179 TTTAACTTTGACACAAGGCCGGGTAATCTTTCTTCTGTCGTTTTTATCTTACACATCATTAGTTT
196 TTTAACTTTGACACAAGGCCGGGTAATCTTTCTTCTGTCGTTTTTATCTTACACATCATTAGTTT
18123244 GTTGTTCCAACATCAACCATCCATAAAAAAATAGTTATAAGCAGTTACAAGTAAGAATTTAACAT
261 GTTGTTCCAACATCAACCATCCATAAAAAAATAGTTATAAGCAGTTACAAGTAAGAATTTAACAT
*
18123309 TACGAACTTACCGAACTAAATTTGCGATTATGGATAGACTTCGAAGACTAGTCCATAACTTTTCC
326 TACGAACTTACCGAACTAAATTTGCGATTATGGATAGACTTCGAAGACTAATCCATAACTTTTCC
*
18123374 TTTCACACGATCTGCGGCTTGATCATAATCTAACACAACAATTCATCCAATTTCTCACACCAAAT
391 TTTCACACGATCTGCGGCTTGATCATAATCTAACACAACAATTCATCCAATTTATCACACCAAAT
18123439 CATGTATAAAATCATTTAAAACATTTTTATCCTTTTTGGGAAATTTATGAAATTACCCCTAGCAT
456 CATGTATAAAATCATTTAAAACATTTTTATCCTTTTTGGGAAATTTATGAAATTACCCCTAGCAT
18123504 TTCACTTTTATTCAATTTAGTCCCTAAACACAAAACATGTAAAATAACCCCTTTCTCACTAAACC
521 TTCACTTTTATTCAATTTAGTCCCTAAACACAAAACATGTAAAATAACCCCTTTCTCACTAAACC
18123569 CATACC
586 CATACC
18123575 ACTATTCTTAGCCATCGATACGGTATATTTGTTCCCTACGATGCTGCTCACACTAAGCTAACAAG
1 ACTATTCTTAGCCATCGATACGGTATATTTGTTCCCTACGATGCTGCTCACACTAAGCTAACAAG
*
18123640 AGTATGCAATCAGGCATAAATCTCAGCCATCATAGGGCCTGTAATCCATTCTTGGATTCTATTTA
66 AGTATGCAATCAGGCATAAATCTCAGCCATCATAGGGCCTGTAATCCATTCTTGGATTCTATTCA
18123705 CTTTATAGTGACTCACAATGCCGTAGAGAATCTACAACAAATGCAAGATCTCAATCATCGGACTA
131 CTTTATAGTGACTCACAATGCCGTAGAGAATCTACAACAAATGCAAGATCTCAATCATCGGACTA
*
18123770 TTTAACTTTGACACAAGGCCGGGTAATCTTTCTTTTGTCGTTTTTATCTTACACATCATTAGTTT
196 TTTAACTTTGACACAAGGCCGGGTAATCTTTCTTCTGTCGTTTTTATCTTACACATCATTAGTTT
* *
18123835 GTTGTTCTAACATCAACCATCCATAAAAAAATAGTTATAAGTAGTTACAAGTAAGAATTTAACAT
261 GTTGTTCCAACATCAACCATCCATAAAAAAATAGTTATAAGCAGTTACAAGTAAGAATTTAACAT
18123900 TACGAACTTACCGAACTAAATTTGCGATTATGGATAGACTTCGAAGACTAATCCATAACTTTTCC
326 TACGAACTTACCGAACTAAATTTGCGATTATGGATAGACTTCGAAGACTAATCCATAACTTTTCC
18123965 TTTCACACGATCTGCGGCTTGATCATAATCTAACACAACAATTCATCCAATTTATCACACCAAAT
391 TTTCACACGATCTGCGGCTTGATCATAATCTAACACAACAATTCATCCAATTTATCACACCAAAT
*
18124030 CATGTATTAAATCATTTAAAACATTTTTATCCTTTTTGGGAAATTTATGAAATTACCCCTAGCAT
456 CATGTATAAAATCATTTAAAACATTTTTATCCTTTTTGGGAAATTTATGAAATTACCCCTAGCAT
18124095 TTCACTTTTATTCAATTTAGTCCCTAAACACAAAACATGTAAAATAACCCCTTTCTCACTAAACC
521 TTCACTTTTATTCAATTTAGTCCCTAAACACAAAACATGTAAAATAACCCCTTTCTCACTAAACC
18124160 CATACC
586 CATACC
18124166 A
1 A
18124167 GTTGATTGCT
Statistics
Matches: 583, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
591 583 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (591 bp):
ACTATTCTTAGCCATCGATACGGTATATTTGTTCCCTACGATGCTGCTCACACTAAGCTAACAAG
AGTATGCAATCAGGCATAAATCTCAGCCATCATAGGGCCTGTAATCCATTCTTGGATTCTATTCA
CTTTATAGTGACTCACAATGCCGTAGAGAATCTACAACAAATGCAAGATCTCAATCATCGGACTA
TTTAACTTTGACACAAGGCCGGGTAATCTTTCTTCTGTCGTTTTTATCTTACACATCATTAGTTT
GTTGTTCCAACATCAACCATCCATAAAAAAATAGTTATAAGCAGTTACAAGTAAGAATTTAACAT
TACGAACTTACCGAACTAAATTTGCGATTATGGATAGACTTCGAAGACTAATCCATAACTTTTCC
TTTCACACGATCTGCGGCTTGATCATAATCTAACACAACAATTCATCCAATTTATCACACCAAAT
CATGTATAAAATCATTTAAAACATTTTTATCCTTTTTGGGAAATTTATGAAATTACCCCTAGCAT
TTCACTTTTATTCAATTTAGTCCCTAAACACAAAACATGTAAAATAACCCCTTTCTCACTAAACC
CATACC
Found at i:18126392 original size:19 final size:19
Alignment explanation
Indices: 18126347--18126395 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
18126337 TTGGTACAAT
*
18126347 AATTTTTATAATTTTTTTAC
1 AATTTTTAT-ATTTCTTTAC
*
18126367 AAATTTTATATTTCTTTAC
1 AATTTTTATATTTCTTTAC
*
18126386 ATTTTTTATA
1 AATTTTTATA
18126396 ATTTTCATAT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
19 17 0.68
20 8 0.32
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (19 bp):
AATTTTTATATTTCTTTAC
Found at i:18126481 original size:18 final size:19
Alignment explanation
Indices: 18126460--18126500 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
18126450 TTTATAAAAG
*
18126460 TTTACAATTTTTT-TATTT
1 TTTACAATTTTTTCTAATT
*
18126478 TTTATAATTTTTTCTAATT
1 TTTACAATTTTTTCTAATT
18126497 TTTA
1 TTTA
18126501 ATAAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 12 0.60
19 8 0.40
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTACAATTTTTTCTAATT
Found at i:18126490 original size:20 final size:20
Alignment explanation
Indices: 18126465--18126504 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
18126455 AAAAGTTTAC
*
18126465 AATTTTTT-T-ATTTTTTAT
1 AATTTTTTCTAATTTTTAAT
18126483 AATTTTTTCTAATTTTTAAT
1 AATTTTTTCTAATTTTTAAT
18126503 AA
1 AA
18126505 AATTTAAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 1 0.05
20 10 0.53
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.68
Consensus pattern (20 bp):
AATTTTTTCTAATTTTTAAT
Found at i:18126516 original size:26 final size:27
Alignment explanation
Indices: 18126487--18126543 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
18126477 TTTTATAATT
18126487 TTTTCTAA-TTTTTAATAAAATTTAAA
1 TTTTCTAATTTTTTAATAAAATTTAAA
* **
18126513 TTTTGTAATTTTTTTTTAAAATTTAAA
1 TTTTCTAATTTTTTAATAAAATTTAAA
18126540 TTTT
1 TTTT
18126544 TTTATAACTT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TTTTCTAATTTTTTAATAAAATTTAAA
Found at i:18126555 original size:27 final size:27
Alignment explanation
Indices: 18126502--18126555 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
18126492 TAATTTTTAA
***
18126502 TAAAATTTAAATTTTGTAATTTTTTTT
1 TAAAATTTAAATTTTGTAATAACTTTT
* *
18126529 TAAAATTTAAATTTTTTTATAACTTTT
1 TAAAATTTAAATTTTGTAATAACTTTT
18126556 ATTAATTTTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (27 bp):
TAAAATTTAAATTTTGTAATAACTTTT
Found at i:18138361 original size:28 final size:28
Alignment explanation
Indices: 18138320--18138373 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
18138310 GATATTCAAT
*
18138320 TTACTCTCTATTGACCCAAAGGTCATGC
1 TTACTCCCTATTGACCCAAAGGTCATGC
* *
18138348 TTACTCCCTGTTGACCTAAAGGTCAT
1 TTACTCCCTATTGACCCAAAGGTCAT
18138374 TTACTAGTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (28 bp):
TTACTCCCTATTGACCCAAAGGTCATGC
Found at i:18141116 original size:50 final size:50
Alignment explanation
Indices: 18141057--18141216 Score: 155
Period size: 50 Copynumber: 3.2 Consensus size: 50
18141047 CAACAATCAT
* * *
18141057 CAAAT-CTTATATCCCTGAAGTTGCAGTGATCGGATTAAAACTACAGAAG
1 CAAATCCTTATATCCCTGAAGTTACAGTGATCGGATTAAAGCTACAGAAC
* * * * * *
18141106 CAAATCCTTATCTCTCTGAAGTTACAGTAGAGCGGGA-TGAAGTTACAAAAC
1 CAAATCCTTATATCCCTGAAGTTACAGT-GATC-GGATTAAAGCTACAGAAC
* * * *
18141157 CAAATCCTT-TATCCCTGAAGTTACAGGGATCAGATTAAAGCTACAGTAT
1 CAAATCCTTATATCCCTGAAGTTACAGTGATCGGATTAAAGCTACAGAAC
*
18141206 CAAATCTTTAT
1 CAAATCCTTAT
18141217 CTCTTTGAAG
Statistics
Matches: 86, Mismatches: 20, Indels: 9
0.75 0.17 0.08
Matches are distributed among these distances:
48 2 0.02
49 25 0.29
50 35 0.41
51 21 0.24
52 3 0.03
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (50 bp):
CAAATCCTTATATCCCTGAAGTTACAGTGATCGGATTAAAGCTACAGAAC
Found at i:18141228 original size:50 final size:48
Alignment explanation
Indices: 18141055--18141217 Score: 148
Period size: 49 Copynumber: 3.3 Consensus size: 48
18141045 GGCAACAATC
* * *
18141055 ATCAAATCTTATATCCCTGAAGTTGCAGTGATCGGATTAAAACTACAGA
1 ATCAAATCTT-TATCCCTGAAGTTACAGAGATCGGATTAAAGCTACAGA
* * * * * *
18141104 AGCAAATCCTTATCTCTCTGAAGTTACAGTAGAGCGGGA-TGAAGTTACAAA
1 ATCAAATCTTTATC-C-CTGAAGTTACAG-AGATC-GGATTAAAGCTACAGA
* * * *
18141155 ACCAAATCCTTTATCCCTGAAGTTACAGGGATCAGATTAAAGCTACAGT
1 ATCAAAT-CTTTATCCCTGAAGTTACAGAGATCGGATTAAAGCTACAGA
18141204 ATCAAATCTTTATC
1 ATCAAATCTTTATC
18141218 TCTTTGAAGT
Statistics
Matches: 89, Mismatches: 19, Indels: 13
0.74 0.16 0.11
Matches are distributed among these distances:
48 13 0.15
49 26 0.29
50 23 0.26
51 18 0.20
52 9 0.10
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.28
Consensus pattern (48 bp):
ATCAAATCTTTATCCCTGAAGTTACAGAGATCGGATTAAAGCTACAGA
Found at i:18141318 original size:100 final size:100
Alignment explanation
Indices: 18141057--18141333 Score: 285
Period size: 100 Copynumber: 2.8 Consensus size: 100
18141047 CAACAATCAT
* * *
18141057 CAAATCTTATATCCCTGAAGTTGCAGT-GATCGGATTAAAACTACAGAAGCAAATCCTTATCTCT
1 CAAATCCTATATCCCTGAAGTTGAAGTGGATCGGATTAAAACTACAGAAACAAATCC-TATCTCT
* ** *
18141121 CTGAAGTTACAGTAGAGCGGGATGAAGTTACAAAAC
65 CTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAAC
* * * * * *
18141157 CAAATCCTTTATCCCTGAAGTT-ACAG-GGATCAGATTAAAGCTACAGTATCAAATCTTTATCTC
1 CAAATCCTATATCCCTGAAGTTGA-AGTGGATCGGATTAAAACTACAGAAACAAATC-CTATCTC
* * *
18141220 TTTGAAGTTGCAGTAGAGCAAGATGAAGCTACCACAC
64 TCTGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAAC
* * * **
18141257 CAAATCCTATACCCCTGAAGTTGAAGTGGGTCGGATTGAATTTAC-GAAAACAAATCCTATCT-T
1 CAAATCCTATATCCCTGAAGTTGAAGTGGATCGGATTAAAACTACAG-AAACAAATCCTATCTCT
18141320 CCTGAAGTTGCAGT
65 -CTGAAGTTGCAGT
18141334 GAAGCGGATA
Statistics
Matches: 144, Mismatches: 26, Indels: 14
0.78 0.14 0.08
Matches are distributed among these distances:
99 1 0.01
100 122 0.85
101 21 0.15
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (100 bp):
CAAATCCTATATCCCTGAAGTTGAAGTGGATCGGATTAAAACTACAGAAACAAATCCTATCTCTC
TGAAGTTGCAGTAGAGCAAGATGAAGCTACAAAAC
Done.