Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 162 of 182
Found at i:49818239 original size:329 final size:323
Alignment explanation
Indices: 49817592--49818219 Score: 798
Period size: 329 Copynumber: 1.9 Consensus size: 323
49817582 AGATAAGTAC
* *
49817592 TTTGTCACTTATGTCTTGTTTATGGTTAATACTTATTAAGGTACTTAGTTGCTTAAGGGAATTTG
1 TTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTT-A--GAATTTG
* * *
49817657 TGGTTGGCTGCTCATATCAAGATATATACTTGGTTACTTTTGTCGTTTTGATGGTTAATACTTAA
63 TGGTTGGCTGCTAATATCAAGATATATACTTGGTTACTTATGTCCTTTTGATGGTTAATACTTAA
* * * * **
49817722 TAAGGTACTTTGTTACTTAAGAGACTTTATGGGTGGTAGAATTGAATAAATTTGTAGGTAATTTG
128 TAAGGTAATTAGTTACTTAAGAGAATTTATGGGTGGTAGAAGTGAATAAATTTGTAGGTAATCGG
* * * **
49817787 CTGCTCATATCAAGATATATATATACTTGGTTACTTTTTGCGTGTTGATGGTTAATACTTTTTAA
193 CTGCTCATATCAAG--A-ATATACACTTGGTTACTTTGTGCGTATTGATGGTTAATACTTAATAA
** * **
49817852 GGTACTTAGTTACTTAAGAAAATTTGTGGGTGGAATTGGCTGCTCATACCAATATATATATGTAT
255 GGTACTTAGTTACTTAAGAAAATGCGGGGGTGGAATTGAATGCTCATACCAATATATATATGTAT
49817917 ATGT
320 ATGT
*
49817921 TTTGTTACTTATGTCTTGTTGATGGTTAATACTTCA-TAAGGTACTTAGTTACTT-GAATTTGTG
1 TTTGTCACTTATGTCTTGTTGATGGTTAATACTT-ATTAAGGTACTTAGTTACTTAGAA-TT-T-
*
49817984 GGTGGTTGGCTGCTAATATCAAGATATATATTTGGTTTACTTATGTCCTTTTGATGGTTAATACT
62 -GTGGTTGGCTGCTAATATCAAGATATATACTTGG-TTACTTATGTCCTTTTGATGGTTAATACT
* * * * *
49818049 TCATAAGGTAATTAGTTACTTCAGATAATTTTTGGGTGGTAGAAGTGAAT-AATTTGTGGGTAAT
125 TAATAAGGTAATTAGTTACTTAAGAGAATTTATGGGTGGTAGAAGTGAATAAATTTGTAGGTAAT
* * *
49818113 CGGCTGTTCATATCAAG-ATATGCACTTGGTTACTTATGT-CTTATTGATGGTTAATACTTAATA
190 CGGCTGCTCATATCAAGAATATACACTTGGTTACTT-TGTGCGTATTGATGGTTAATACTTAATA
* *
49818176 AGGTACTTAGTTACTTGAGAGAATGCGGGTGGTGGAATTGAATG
254 AGGTACTTAGTTACTTAAGAAAATGCGGG-GGTGGAATTGAATG
49818220 ACTTGTATCG
Statistics
Matches: 258, Mismatches: 33, Indels: 19
0.83 0.11 0.06
Matches are distributed among these distances:
325 63 0.24
326 16 0.06
327 1 0.00
329 108 0.42
330 70 0.27
ACGTcount: A:0.26, C:0.10, G:0.22, T:0.42
Consensus pattern (323 bp):
TTTGTCACTTATGTCTTGTTGATGGTTAATACTTATTAAGGTACTTAGTTACTTAGAATTTGTGG
TTGGCTGCTAATATCAAGATATATACTTGGTTACTTATGTCCTTTTGATGGTTAATACTTAATAA
GGTAATTAGTTACTTAAGAGAATTTATGGGTGGTAGAAGTGAATAAATTTGTAGGTAATCGGCTG
CTCATATCAAGAATATACACTTGGTTACTTTGTGCGTATTGATGGTTAATACTTAATAAGGTACT
TAGTTACTTAAGAAAATGCGGGGGTGGAATTGAATGCTCATACCAATATATATATGTATATGT
Found at i:49818299 original size:217 final size:216
Alignment explanation
Indices: 49817924--49818437 Score: 532
Period size: 217 Copynumber: 2.4 Consensus size: 216
49817914 TATATGTTTT
* * ** *
49817924 GTTACTTATGTCTTGTTGATGGTTAATACTTCATAAGGTACTTAGTTACTT--GAATTTGTG-GG
1 GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTTAGGAATGCGGGTGG
** *
49817986 TGG--TTGGCTGCTAATATCAAGATATATATTTGGTTTACTTATGTCCTTTTGATGGTTAATACT
66 TGGAATTGAATGCTAATATCAAGATATATATTTCGTTTACTTATGTCCTTTTGATGGTTAATA--
* * * *
49818049 TCATAAGGTAATTAGTTACTTCAGATAATTTTTGGGTGGTAGAAGT-GAAT-AATTTGTGGGTAA
129 -CAT-A-GCAATTAATTACTTAAGATAATTTTTGGGTGGTAGAA-TCGAATAAATTTCT-GGT--
* *
49818112 TCGGCTGTTCATATC-A-AGATATGCACTTG
187 TC-GCTGCTCACATCAACAGATATGCACTTG
49818141 GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTTGAGAGAATGCGGGT
1 GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTT-AG-GAATGCGGGT
** * **
49818206 GGTGGAATTGAATGACTTGTATCGAGATATATATTTCG-TTACTTATGTTGTTTTGATGGTTAAT
64 GGTGGAATTGAATG-CTAATATCAAGATATATATTTCGTTTACTTATGTCCTTTTGATGGTTAAT
* *
49818270 A-AT-GCATTTAATTACTTAAGATAATTTTTGGGTGGTAGAATCGAATAAAATTTCTGGTTCGTT
128 ACATAGCAATTAATTACTTAAGATAATTTTTGGGTGGTAGAATCGAAT-AAATTTCTGGTTCGCT
* *
49818333 GCTCACATCAACATATATGTACTTG
192 GCTCACATCAACAGATATGCACTTG
* **
49818358 GTTGCTTATGT-TGCTTCGATGGTTAATACTTAATAAGGTACTTAGTTACTTAAGGAAATTTGCG
1 GTTACTTATGTCTTATT-GATGGTTAATACTTAATAAGGTACTTAGTTACTT-AGG-AA--TGCG
49818422 GGTGGTGGAATTGAAT
61 GGTGGTGGAATTGAAT
49818438 AAGTTTTTCA
Statistics
Matches: 253, Mismatches: 27, Indels: 32
0.81 0.09 0.10
Matches are distributed among these distances:
215 9 0.04
216 8 0.03
217 145 0.57
218 3 0.01
219 26 0.10
220 2 0.01
221 6 0.02
222 5 0.02
224 30 0.12
225 19 0.08
ACGTcount: A:0.27, C:0.10, G:0.22, T:0.41
Consensus pattern (216 bp):
GTTACTTATGTCTTATTGATGGTTAATACTTAATAAGGTACTTAGTTACTTAGGAATGCGGGTGG
TGGAATTGAATGCTAATATCAAGATATATATTTCGTTTACTTATGTCCTTTTGATGGTTAATACA
TAGCAATTAATTACTTAAGATAATTTTTGGGTGGTAGAATCGAATAAATTTCTGGTTCGCTGCTC
ACATCAACAGATATGCACTTG
Found at i:49823394 original size:7 final size:7
Alignment explanation
Indices: 49823382--49823417 Score: 72
Period size: 7 Copynumber: 5.1 Consensus size: 7
49823372 TTGGAGACCC
49823382 TCCCTAG
1 TCCCTAG
49823389 TCCCTAG
1 TCCCTAG
49823396 TCCCTAG
1 TCCCTAG
49823403 TCCCTAG
1 TCCCTAG
49823410 TCCCTAG
1 TCCCTAG
49823417 T
1 T
49823418 ATTGTCCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.14, C:0.42, G:0.14, T:0.31
Consensus pattern (7 bp):
TCCCTAG
Found at i:49824580 original size:40 final size:40
Alignment explanation
Indices: 49824535--49824612 Score: 122
Period size: 40 Copynumber: 1.9 Consensus size: 40
49824525 CTCAATTTCC
49824535 TCTCAATTTCCT-TCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTCCTCT-CAAATTTCTCTCAAATCCATATTTAA
* *
49824575 TCTCAATTTCCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTT
49824613 TTTAATTATT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
40 34 0.97
41 1 0.03
ACGTcount: A:0.27, C:0.28, G:0.00, T:0.45
Consensus pattern (40 bp):
TCTCAATTTCCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:49826919 original size:422 final size:422
Alignment explanation
Indices: 49826135--49826978 Score: 1679
Period size: 422 Copynumber: 2.0 Consensus size: 422
49826125 TCATCGTTCC
49826135 GGAGTTAGCATGCGTGCCGGAATACATGCCATGGTTTAGGATCCATGGGAAGCCGTATTTACTGT
1 GGAGTTAGCATGCGTGCCGGAATACATGCCATGGTTTAGGATCCATGGGAAGCCGTATTTACTGT
49826200 CGGCAGAGGAGAGGCAGCGACAATTACGTGTCTCCCTAAACCCTAAACCCTAACCCTAATCTAAT
66 CGGCAGAGGAGAGGCAGCGACAATTACGTGTCTCCCTAAACCCTAAACCCTAACCCTAATCTAAT
49826265 TTTTAAAATTTTTTAATTAAATTACTCAAGTAATCCTAAACCCTAATTTAATTGATTTTTTCTTA
131 TTTTAAAATTTTTTAATTAAATTACTCAAGTAATCCTAAACCCTAATTTAATTGATTTTTTCTTA
49826330 AAAATTAATAAACACGAAAACTAATCCAATTTTGACAAATTTATAAATATTTTAATTGACAAACC
196 AAAATTAATAAACACGAAAACTAATCCAATTTTGACAAATTTATAAATATTTTAATTGACAAACC
49826395 CTAAACTCTAAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAAC
261 CTAAACTCTAAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAAC
49826460 CCTAAACCTAACCTTAACCTTAATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
326 CCTAAACCTAACCTTAACCTTAATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
49826525 TAAACCCTAATTTAATTGATTTTTTTAAAAAT
391 TAAACCCTAATTTAATTGATTTTTTTAAAAAT
49826557 GGAGTTAGCATGCGTGCCGGAATACATGCCATGGTTTAGGATCCATGGGAAGCCGTATTTACTGT
1 GGAGTTAGCATGCGTGCCGGAATACATGCCATGGTTTAGGATCCATGGGAAGCCGTATTTACTGT
49826622 CGGCAGAGGAGAGGCAGCGACAATTACGTGTCTCCCTAAACCCTAAACCCTAACCCTAATCTAAT
66 CGGCAGAGGAGAGGCAGCGACAATTACGTGTCTCCCTAAACCCTAAACCCTAACCCTAATCTAAT
49826687 TTTTAAAATTTTTTAATTAAATTACTCAAGTAATCCTAAACCCTAATTTAATTGATTTTTTCTTA
131 TTTTAAAATTTTTTAATTAAATTACTCAAGTAATCCTAAACCCTAATTTAATTGATTTTTTCTTA
49826752 AAAATTAATAAACACGAAAACTAATCCAATTTTGACAAATTTATAAATATTTTAATTGACAAACC
196 AAAATTAATAAACACGAAAACTAATCCAATTTTGACAAATTTATAAATATTTTAATTGACAAACC
49826817 CTAAACTCTAAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAAC
261 CTAAACTCTAAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAAC
*
49826882 CCTAAACCTAACCTTAACCTTGATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
326 CCTAAACCTAACCTTAACCTTAATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
49826947 TAAACCCTAATTTAATTGATTTTTTTAAAAAT
391 TAAACCCTAATTTAATTGATTTTTTTAAAAAT
49826979 TAATAAACAC
Statistics
Matches: 421, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
422 421 1.00
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (422 bp):
GGAGTTAGCATGCGTGCCGGAATACATGCCATGGTTTAGGATCCATGGGAAGCCGTATTTACTGT
CGGCAGAGGAGAGGCAGCGACAATTACGTGTCTCCCTAAACCCTAAACCCTAACCCTAATCTAAT
TTTTAAAATTTTTTAATTAAATTACTCAAGTAATCCTAAACCCTAATTTAATTGATTTTTTCTTA
AAAATTAATAAACACGAAAACTAATCCAATTTTGACAAATTTATAAATATTTTAATTGACAAACC
CTAAACTCTAAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAAC
CCTAAACCTAACCTTAACCTTAATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
TAAACCCTAATTTAATTGATTTTTTTAAAAAT
Found at i:49827101 original size:222 final size:218
Alignment explanation
Indices: 49826655--49827248 Score: 717
Period size: 222 Copynumber: 2.7 Consensus size: 218
49826645 TTACGTGTCT
*
49826655 CCCTAAACCCTAAACCCTAACCCTAATCTAATTTTTAAAATTTTTTAATTAAATTACTCAAGTAA
1 CCCTAAA-CCT-AA-CCTAA-CCT-ATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAA
*
49826720 TCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATTAATAAACACGAAAACTAATCCAATTTT
61 CCCTAAACCCTAATTTAATTGATTTTTTCTTAAAAATTAATAAACACGAAAACTAATCCAATTTT
* * * * **
49826785 GACAAATTTATAAATATTTTAATTGACAAACCCTAAACTCTAAACCCTAATTTATTTAATTTTTC
126 GACAAATTTATAAATAATTTAATTGAAAAACCCT-AACTCTAAACCCTAATTTATTAAATCTTAA
*
49826850 CTTAAAAATCTTAACTTAAAAACACCCTAAA
190 CTTAAAAATC-TAACCTAAAAACACCCT-AA
49826881 CCCTAAACCTAACCTTAACCTTGATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACC
1 CCCTAAACCTAACC-TAACC-T-ATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACC
49826946 CTAAACCCTAATTTAATTGA-TTTTT-TTAAAAATTAATAAACACGAAAACTAATCCAATTTTGA
63 CTAAACCCTAATTTAATTGATTTTTTCTTAAAAATTAATAAACACGAAAACTAATCCAATTTTGA
* * *
49827009 AAAATTTATAAATAATTTAATTGAAAAACCCTAA-T-T------T-ATTTGGTT---T-TT-TCT
128 CAAATTTATAAATAATTTAATTGAAAAACCCTAACTCTAAACCCTAATTT-ATTAAATCTTAACT
*
49827060 TAAAAATCCTTAACTTAAAAACACCCTAAA
192 TAAAAAT-C-TAACCTAAAAACACCCT-AA
* *
49827090 CCCTAACCCTAA-C---CCTAATCTAATTTTTTAAATTTTTTAAATTAAATTACTCAAGTAACCC
1 CCCTAAACCTAACCTAACCT-ATCTAA-TTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCC
* * *
49827151 TAAACCCTAATTTAATTGATTTTTTCTTAAAAAATAATAAACACAAAAACTAATCCAATTATGAC
64 TAAACCCTAATTTAATTGATTTTTTCTTAAAAATTAATAAACACGAAAACTAATCCAATTTTGAC
49827216 AAATTTATAAATAATTTAATT-AACAAACCCTAA
129 AAATTTATAAATAATTTAATTGAA-AAACCCTAA
49827249 ACTAGAGGTG
Statistics
Matches: 345, Mismatches: 15, Indels: 36
0.87 0.04 0.09
Matches are distributed among these distances:
203 7 0.02
204 57 0.17
205 7 0.02
206 65 0.19
208 10 0.03
209 35 0.10
210 1 0.00
212 4 0.01
213 3 0.01
219 1 0.00
220 1 0.00
221 2 0.01
222 67 0.19
223 9 0.03
224 66 0.19
225 3 0.01
226 7 0.02
ACGTcount: A:0.43, C:0.18, G:0.03, T:0.37
Consensus pattern (218 bp):
CCCTAAACCTAACCTAACCTATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCCTA
AACCCTAATTTAATTGATTTTTTCTTAAAAATTAATAAACACGAAAACTAATCCAATTTTGACAA
ATTTATAAATAATTTAATTGAAAAACCCTAACTCTAAACCCTAATTTATTAAATCTTAACTTAAA
AATCTAACCTAAAAACACCCTAA
Found at i:49827247 original size:206 final size:206
Alignment explanation
Indices: 49826826--49827248 Score: 658
Period size: 206 Copynumber: 2.0 Consensus size: 206
49826816 CCTAAACTCT
49826826 AAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAACCCTAAACCT
1 AAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAACCCTAAACC-
* * *
49826891 AACCTTAACCTTGATCTAATTTTTAAATTTTTTTAATTAAATTACTCAAGTAACCCTAAACCCTA
65 -ACCTTAACCCTAATCTAATTTTTAAATTTTTTAAATTAAATTACTCAAGTAACCCTAAACCCTA
* * *
49826956 ATTTAATTGATTTTTTTAAAAATTAATAAACACGAAAACTAATCCAATTTTGAAAAATTTATAAA
129 ATTTAATTGATTTTTTTAAAAAATAATAAACACAAAAACTAATCCAATTATGAAAAATTTATAAA
49827021 TAATTTAATTGAA
194 TAATTTAATTGAA
** *
49827034 AAACCCTAATTTATTTGGTTTTTTCTTAAAAATCCTTAACTTAAAAACACCCTAAACCCT-AA-C
1 AAACCCTAATTTATTTAATTTTTCCTTAAAAAT-CTTAACTTAAAAACACCCTAAACCCTAAACC
49827097 -CC-TAACCCTAATCTAATTTTTTAAATTTTTTAAATTAAATTACTCAAGTAACCCTAAACCCTA
65 ACCTTAACCCTAATCTAA-TTTTTAAATTTTTTAAATTAAATTACTCAAGTAACCCTAAACCCTA
*
49827160 ATTTAATTGATTTTTTCTTAAAAAATAATAAACACAAAAACTAATCCAATTATGACAAATTTATA
129 ATTTAATTGA-TTTTT-TTAAAAAATAATAAACACAAAAACTAATCCAATTATGAAAAATTTATA
49827225 AATAATTTAATT-AA
192 AATAATTTAATTGAA
49827239 CAAACCCTAA
1 -AAACCCTAA
49827249 ACTAGAGGTG
Statistics
Matches: 200, Mismatches: 10, Indels: 12
0.90 0.05 0.05
Matches are distributed among these distances:
203 12 0.06
204 57 0.28
205 7 0.04
206 65 0.32
207 1 0.00
208 32 0.16
209 26 0.13
ACGTcount: A:0.43, C:0.17, G:0.03, T:0.37
Consensus pattern (206 bp):
AAACCCTAATTTATTTAATTTTTCCTTAAAAATCTTAACTTAAAAACACCCTAAACCCTAAACCA
CCTTAACCCTAATCTAATTTTTAAATTTTTTAAATTAAATTACTCAAGTAACCCTAAACCCTAAT
TTAATTGATTTTTTTAAAAAATAATAAACACAAAAACTAATCCAATTATGAAAAATTTATAAATA
ATTTAATTGAA
Found at i:49827443 original size:24 final size:26
Alignment explanation
Indices: 49827416--49827478 Score: 78
Period size: 24 Copynumber: 2.5 Consensus size: 26
49827406 GAATATATAA
49827416 TAAATATTTTTTATTC-TTTA-ATTT
1 TAAATATTTTTTATTCTTTTATATTT
49827440 TAAA-ATATTTTTATTCTTTTTATATTT
1 TAAATAT-TTTTTATTC-TTTTATATTT
*
49827467 AAAATATTTTTT
1 TAAATATTTTTT
49827479 TGGTGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 2 0.06
24 13 0.39
26 4 0.12
27 12 0.36
28 2 0.06
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (26 bp):
TAAATATTTTTTATTCTTTTATATTT
Found at i:49827449 original size:25 final size:27
Alignment explanation
Indices: 49827417--49827478 Score: 94
Period size: 25 Copynumber: 2.4 Consensus size: 27
49827407 AATATATAAT
49827417 AAATATTTTTTATTC-TTTAAT-TTTA
1 AAATATTTTTTATTCTTTTAATATTTA
*
49827442 AAATA-TTTTTATTCTTTTTATATTTA
1 AAATATTTTTTATTCTTTTAATATTTA
49827468 AAATATTTTTT
1 AAATATTTTTT
49827479 TGGTGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
24 9 0.27
25 10 0.30
26 9 0.27
27 5 0.15
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (27 bp):
AAATATTTTTTATTCTTTTAATATTTA
Found at i:49827488 original size:26 final size:26
Alignment explanation
Indices: 49827417--49827477 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
49827407 AATATATAAT
*
49827417 AAATATTTTTTATTCT-TTAAT-TTTA
1 AAATA-TTTTTATTCTGTTTATATTTA
*
49827442 AAATATTTTTATTCTTTTTATATTTA
1 AAATATTTTTATTCTGTTTATATTTA
49827468 AAATATTTTT
1 AAATATTTTT
49827478 TTGGTGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
24 10 0.30
25 9 0.27
26 14 0.42
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (26 bp):
AAATATTTTTATTCTGTTTATATTTA
Found at i:49833661 original size:14 final size:14
Alignment explanation
Indices: 49833642--49833676 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49833632 TGACATTTTT
*
49833642 TTCTAATGATACTA
1 TTCTAACGATACTA
*
49833656 TTCTAACGATATTA
1 TTCTAACGATACTA
49833670 TTCTAAC
1 TTCTAAC
49833677 ATGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:49834877 original size:14 final size:14
Alignment explanation
Indices: 49834854--49834888 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
49834844 AAAACTTGGA
*
49834854 ATAAACTTTGTAAT
1 ATAAATTTTGTAAT
49834868 ATAAATTTTGTAAT
1 ATAAATTTTGTAAT
49834882 ATAAATT
1 ATAAATT
49834889 AAATTCATTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.46, C:0.03, G:0.06, T:0.46
Consensus pattern (14 bp):
ATAAATTTTGTAAT
Found at i:49834922 original size:62 final size:62
Alignment explanation
Indices: 49834831--49834998 Score: 309
Period size: 62 Copynumber: 2.7 Consensus size: 62
49834821 GCAACATACA
* *
49834831 ACATTACAACATTAAAACTTGGAATAAACTTTGTAATATAAATTTTGTAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
*
49834893 TCATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
49834955 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
1 ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATT
49834999 AGGTACATTG
Statistics
Matches: 102, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
62 102 1.00
ACGTcount: A:0.48, C:0.10, G:0.06, T:0.36
Consensus pattern (62 bp):
ACATTACAACATTAAAACTTGGAACAAACTTTGTAATATAAATTTTATAATATAAATTAAAT
Found at i:49840968 original size:3 final size:3
Alignment explanation
Indices: 49840962--49840998 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
49840952 TATAAACACA
49840962 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
49840999 GTATAAACTT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:49842858 original size:22 final size:21
Alignment explanation
Indices: 49842836--49842880 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
49842826 TTTTAATTAA
*
49842836 TAATTTTT-TTTCAAT-TTTT
1 TAATTTTTAATTCAATATTTT
49842855 TAATTTTTAATTCAATATTTT
1 TAATTTTTAATTCAATATTTT
49842876 TAATT
1 TAATT
49842881 AAAAACTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 6 0.26
21 9 0.39
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (21 bp):
TAATTTTTAATTCAATATTTT
Found at i:49843165 original size:26 final size:26
Alignment explanation
Indices: 49843117--49843167 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
49843107 ATATAATTAT
49843117 TATTTTTATATGTAAAATATTTCAAA
1 TATTTTTATATGTAAAATATTTCAAA
49843143 TATTTTTATATGTAAAATATTTCAA
1 TATTTTTATATGTAAAATATTTCAA
49843168 TTAATTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (26 bp):
TATTTTTATATGTAAAATATTTCAAA
Found at i:49843932 original size:24 final size:24
Alignment explanation
Indices: 49843882--49843933 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
49843872 AAATTTTGGT
*
49843882 AAATAAAAAATTTAGTGAACATTA
1 AAATAAAAAATTTAGTGAACATCA
**
49843906 AAATAAAAAATTTAGTGAGTATCA
1 AAATAAAAAATTTAGTGAACATCA
49843930 AAAT
1 AAAT
49843934 CAAATATATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.04, G:0.10, T:0.29
Consensus pattern (24 bp):
AAATAAAAAATTTAGTGAACATCA
Found at i:49855599 original size:23 final size:21
Alignment explanation
Indices: 49855569--49855615 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
49855559 TCATCCGTCT
49855569 AAAAATTATAAAAAATGAAACAG
1 AAAAATTA-AAAAAATGAAA-AG
* *
49855592 AAAAATTAAATAAATGTAAAG
1 AAAAATTAAAAAAATGAAAAG
49855613 AAA
1 AAA
49855616 TCGAAAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 9 0.41
23 8 0.36
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (21 bp):
AAAAATTAAAAAAATGAAAAG
Found at i:49861010 original size:37 final size:37
Alignment explanation
Indices: 49860941--49861031 Score: 112
Period size: 37 Copynumber: 2.5 Consensus size: 37
49860931 ACACAAGTAG
49860941 TCCAACCAA-AACACGCCAAACACTCATAAGAGCTAA
1 TCCAACCAATAACACGCCAAACACTCATAAGAGCTAA
* * ** *
49860977 TCCAACCAATAACACTCCAAGCGGTCATGAGAGCTAA
1 TCCAACCAATAACACGCCAAACACTCATAAGAGCTAA
* *
49861014 TCCAACTAATAATACGCC
1 TCCAACCAATAACACGCC
49861032 TCGACACTAA
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
36 9 0.20
37 37 0.80
ACGTcount: A:0.42, C:0.32, G:0.11, T:0.15
Consensus pattern (37 bp):
TCCAACCAATAACACGCCAAACACTCATAAGAGCTAA
Found at i:49868674 original size:3 final size:3
Alignment explanation
Indices: 49868666--49868692 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
49868656 AGATTTAATA
49868666 TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT
49868693 AAGGTTAGTA
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49869757 original size:4 final size:4
Alignment explanation
Indices: 49869748--49869774 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
49869738 TGTTGTTATT
49869748 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
49869775 CGATTTTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:49877468 original size:15 final size:15
Alignment explanation
Indices: 49877428--49877469 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
49877418 TAAAGTGGTG
*
49877428 ATTGAAATATTT-TA
1 ATTGAAATATTTCAA
*
49877442 ATT-AATTATTTCAA
1 ATTGAAATATTTCAA
49877456 ATTGAAATATTTCA
1 ATTGAAATATTTCA
49877470 CTTATAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
13 7 0.30
14 7 0.30
15 9 0.39
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (15 bp):
ATTGAAATATTTCAA
Found at i:49882780 original size:24 final size:24
Alignment explanation
Indices: 49882744--49882803 Score: 77
Period size: 24 Copynumber: 2.5 Consensus size: 24
49882734 ATTACCATTG
*
49882744 TTTTTACTATTACTCA-TATTATTA
1 TTTTTATTATTACT-ATTATTATTA
*
49882768 TTTTTATTCTTACTATTATTATTA
1 TTTTTATTATTACTATTATTATTA
*
49882792 TTATTATTATTA
1 TTTTTATTATTA
49882804 TTATCATCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
23 1 0.03
24 30 0.97
ACGTcount: A:0.28, C:0.08, G:0.00, T:0.63
Consensus pattern (24 bp):
TTTTTATTATTACTATTATTATTA
Found at i:49882827 original size:3 final size:3
Alignment explanation
Indices: 49882760--49882807 Score: 69
Period size: 3 Copynumber: 16.0 Consensus size: 3
49882750 CTATTACTCA
* * *
49882760 TAT TAT TAT TTT TAT TCT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49882808 CATCATCATC
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:49883027 original size:12 final size:13
Alignment explanation
Indices: 49883010--49883038 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
49883000 GTTTTAATAT
49883010 TATTTG-TTTGTA
1 TATTTGTTTTGTA
49883022 TATTTGTTTTGTA
1 TATTTGTTTTGTA
49883035 TATT
1 TATT
49883039 ATGGATTTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.17, C:0.00, G:0.14, T:0.69
Consensus pattern (13 bp):
TATTTGTTTTGTA
Found at i:49886988 original size:26 final size:26
Alignment explanation
Indices: 49886950--49887031 Score: 92
Period size: 26 Copynumber: 3.2 Consensus size: 26
49886940 GTTAACACTT
* *
49886950 TGAAATGGCTATACGAAATGATTATA
1 TGAAATGGTTATACGAAATGGTTATA
* *
49886976 TGAATTGGTTATACGAAATGGTTATG
1 TGAAATGGTTATACGAAATGGTTATA
* * * *
49887002 TGAAATGATTAAAAGAATTGGTTATA
1 TGAAATGGTTATACGAAATGGTTATA
49887028 TGAA
1 TGAA
49887032 TAAGTTATAC
Statistics
Matches: 46, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 46 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (26 bp):
TGAAATGGTTATACGAAATGGTTATA
Found at i:49887006 original size:13 final size:13
Alignment explanation
Indices: 49886950--49887031 Score: 74
Period size: 13 Copynumber: 6.3 Consensus size: 13
49886940 GTTAACACTT
*
49886950 TGAAATGGCTATA
1 TGAAATGGTTATA
* *
49886963 CGAAATGATTATA
1 TGAAATGGTTATA
*
49886976 TGAATTGGTTATA
1 TGAAATGGTTATA
* *
49886989 CGAAATGGTTATG
1 TGAAATGGTTATA
* *
49887002 TGAAATGATTAAA
1 TGAAATGGTTATA
* *
49887015 AGAATTGGTTATA
1 TGAAATGGTTATA
49887028 TGAA
1 TGAA
49887032 TAAGTTATAC
Statistics
Matches: 51, Mismatches: 18, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (13 bp):
TGAAATGGTTATA
Found at i:49887086 original size:27 final size:25
Alignment explanation
Indices: 49887056--49887112 Score: 69
Period size: 27 Copynumber: 2.2 Consensus size: 25
49887046 ACAAATAAAC
*
49887056 GAAATACCTATATGAAGCGGTTATAT
1 GAAATAACTATATGAAG-GGTTATAT
* *
49887082 AGAAATAATTATATGAAGTGTTATAT
1 -GAAATAACTATATGAAGGGTTATAT
49887108 GAAAT
1 GAAAT
49887113 GTTTATATGG
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
25 5 0.19
26 7 0.26
27 15 0.56
ACGTcount: A:0.44, C:0.05, G:0.18, T:0.33
Consensus pattern (25 bp):
GAAATAACTATATGAAGGGTTATAT
Found at i:49887118 original size:25 final size:27
Alignment explanation
Indices: 49887064--49887121 Score: 75
Period size: 25 Copynumber: 2.2 Consensus size: 27
49887054 ACGAAATACC
49887064 TATATGAAGCGGTTATATAGAAATAAT
1 TATATGAAGCGGTTATATAGAAATAAT
* **
49887091 TATATGAAG-TGTTATAT-GAAATGTT
1 TATATGAAGCGGTTATATAGAAATAAT
49887116 TATATG
1 TATATG
49887122 GATAGATATG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
25 12 0.43
26 7 0.25
27 9 0.32
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (27 bp):
TATATGAAGCGGTTATATAGAAATAAT
Found at i:49890141 original size:13 final size:13
Alignment explanation
Indices: 49890125--49890180 Score: 85
Period size: 13 Copynumber: 4.3 Consensus size: 13
49890115 GAAGTGCTTG
49890125 AGAAGTACTTTTC
1 AGAAGTACTTTTC
49890138 AGAAGTACTTTTC
1 AGAAGTACTTTTC
* *
49890151 AGAAGTGCTTTTG
1 AGAAGTACTTTTC
*
49890164 AGAAGTACTTTTG
1 AGAAGTACTTTTC
49890177 AGAA
1 AGAA
49890181 ATTTGAGTGT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 40 1.00
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.36
Consensus pattern (13 bp):
AGAAGTACTTTTC
Found at i:49890175 original size:39 final size:37
Alignment explanation
Indices: 49890108--49890180 Score: 110
Period size: 39 Copynumber: 1.9 Consensus size: 37
49890098 TTCTTCATTG
*
49890108 CTTTTGAGAAGTGCTTGAGAAGTACTTTTCAGAAGTA
1 CTTTTCAGAAGTGCTTGAGAAGTACTTTTCAGAAGTA
*
49890145 CTTTTCAGAAGTGCTTTTGAGAAGTACTTTTGAGAA
1 CTTTTCAGAAGTGC--TTGAGAAGTACTTTTCAGAA
49890181 ATTTGAGTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
37 13 0.41
39 19 0.59
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (37 bp):
CTTTTCAGAAGTGCTTGAGAAGTACTTTTCAGAAGTA
Found at i:49898866 original size:21 final size:22
Alignment explanation
Indices: 49898842--49898890 Score: 57
Period size: 21 Copynumber: 2.2 Consensus size: 22
49898832 GCCTAAATGG
*
49898842 CCAGCCAGTGTGGC-CA-ATAGT
1 CCAGCC-GTGTGCCTCACATAGT
49898863 CCAGACCGTGTGCCTCACATAGT
1 CCAG-CCGTGTGCCTCACATAGT
49898886 CCAGC
1 CCAGC
49898891 ACATGGCCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 10 0.42
22 5 0.21
23 9 0.38
ACGTcount: A:0.22, C:0.35, G:0.24, T:0.18
Consensus pattern (22 bp):
CCAGCCGTGTGCCTCACATAGT
Found at i:49905476 original size:24 final size:25
Alignment explanation
Indices: 49905423--49905473 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
49905413 GCAAAGCACA
*
49905423 AACTAGTGTTTTATGTTTAAAACTT
1 AACTAGTGTTTAATGTTTAAAACTT
49905448 AACTAGTGTTTAATGTTTAAAACTT
1 AACTAGTGTTTAATGTTTAAAACTT
49905473 A
1 A
49905474 CTACGTATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.12, T:0.45
Consensus pattern (25 bp):
AACTAGTGTTTAATGTTTAAAACTT
Found at i:49905484 original size:24 final size:25
Alignment explanation
Indices: 49905423--49905492 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
49905413 GCAAAGCACA
* *
49905423 AACTAGTGTTTTATGTTTAAAACTT
1 AACTAGTGATTAATGTTTAAAACTT
*
49905448 AACTAGTGTTTAATGTTTAAAACTT
1 AACTAGTGATTAATGTTTAAAACTT
*
49905473 -ACTACGT-ATTAAAGTTTAAA
1 AACTA-GTGATTAATGTTTAAA
49905493 CCAAAGATTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
24 15 0.37
25 26 0.63
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (25 bp):
AACTAGTGATTAATGTTTAAAACTT
Found at i:49906131 original size:37 final size:38
Alignment explanation
Indices: 49906044--49906133 Score: 119
Period size: 37 Copynumber: 2.4 Consensus size: 38
49906034 ACCACTCCGA
* * * *
49906044 CCACCCTACACACCACATATGGGCTATAGTATGCCCAT
1 CCACCCTACACACCACATATGGACCATAATAGGCCCAT
* *
49906082 CCACCTTGCACACCACATA-GGACCATAATAGGCCCAT
1 CCACCCTACACACCACATATGGACCATAATAGGCCCAT
49906119 CCACCCTACACACCA
1 CCACCCTACACACCA
49906134 AAATTGTGGA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
37 27 0.61
38 17 0.39
ACGTcount: A:0.31, C:0.41, G:0.11, T:0.17
Consensus pattern (38 bp):
CCACCCTACACACCACATATGGACCATAATAGGCCCAT
Found at i:49910697 original size:24 final size:24
Alignment explanation
Indices: 49910670--49910717 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
49910660 ATTGAAATGG
49910670 ATTG-ATTTAGTATGTGA-TGAATTT
1 ATTGAATTTA-TAT-TGATTGAATTT
49910694 ATTGAATTTATATTGATTGAATTT
1 ATTGAATTTATATTGATTGAATTT
49910718 GTATATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 3 0.14
24 14 0.64
25 5 0.23
ACGTcount: A:0.31, C:0.00, G:0.17, T:0.52
Consensus pattern (24 bp):
ATTGAATTTATATTGATTGAATTT
Found at i:49917677 original size:25 final size:23
Alignment explanation
Indices: 49917623--49917687 Score: 78
Period size: 24 Copynumber: 2.8 Consensus size: 23
49917613 AAACAACCAT
*
49917623 AAAAATAAAAAAATAT-AGTTCA
1 AAAAATAAAAAAAAATAAGTTCA
* *
49917645 AAATATAAAAACAAAATAAGTTTA
1 AAAAATAAAAA-AAAATAAGTTCA
49917669 AGAAAATAAAAAAAAATAA
1 A-AAAATAAAAAAAAATAA
49917688 AAATAAAAAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
22 10 0.28
23 4 0.11
24 13 0.36
25 9 0.25
ACGTcount: A:0.72, C:0.03, G:0.05, T:0.20
Consensus pattern (23 bp):
AAAAATAAAAAAAAATAAGTTCA
Found at i:49917680 original size:6 final size:6
Alignment explanation
Indices: 49917671--49917719 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
49917661 TAAGTTTAAG
*
49917671 AAAAT- AAAA-A AAAATA AAAATA AAAATA AAAATA AAAATA AAAACA
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
49917717 AAA
1 AAA
49917720 TAGACTCAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.86, C:0.02, G:0.00, T:0.12
Consensus pattern (6 bp):
AAAATA
Found at i:49919508 original size:35 final size:36
Alignment explanation
Indices: 49919462--49919540 Score: 99
Period size: 35 Copynumber: 2.2 Consensus size: 36
49919452 AAGGACAAAT
*
49919462 GTTAAATTGAG-TTTAATGACTCATTTAATTCA-GAC
1 GTTAATTTGAGTTTTAATGACTC-TTTAATTCACGAC
*
49919497 GTTAATTTGAGTTTTTAATGGCTCTTTAATTCACGGAC
1 GTTAATTTGAG-TTTTAATGACTCTTTAATTCAC-GAC
49919535 GTTAAT
1 GTTAAT
49919541 GGCTCCAGTA
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
35 10 0.26
36 9 0.24
37 10 0.26
38 9 0.24
ACGTcount: A:0.29, C:0.11, G:0.16, T:0.43
Consensus pattern (36 bp):
GTTAATTTGAGTTTTAATGACTCTTTAATTCACGAC
Found at i:49920525 original size:31 final size:32
Alignment explanation
Indices: 49920475--49920544 Score: 79
Period size: 31 Copynumber: 2.2 Consensus size: 32
49920465 TTGATATAAT
* * * *
49920475 TATACACTTGAAATTTTAATTGTGGTTTAA-A
1 TATATACTTAAAACTTTAATTGTGATTTAACA
*
49920506 TATATACTTAAAACTTTAATTTTGATTTAATCA
1 TATATACTTAAAACTTTAATTGTGATTTAA-CA
49920539 TATATA
1 TATATA
49920545 TTTACAAAAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
31 25 0.78
33 7 0.22
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.47
Consensus pattern (32 bp):
TATATACTTAAAACTTTAATTGTGATTTAACA
Found at i:49920542 original size:33 final size:31
Alignment explanation
Indices: 49920466--49920544 Score: 77
Period size: 31 Copynumber: 2.5 Consensus size: 31
49920456 TTTATTAAAT
* * * * *
49920466 TGATATAATTATACACTTGAAATTTTAATTG
1 TGATTTAAATATATACTTAAAACTTTAATTG
* *
49920497 TGGTTTAAATATATACTTAAAACTTTAATTT
1 TGATTTAAATATATACTTAAAACTTTAATTG
49920528 TGATTTAATCATATATA
1 TGATTTAA--ATATATA
49920545 TTTACAAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
31 31 0.82
33 7 0.18
ACGTcount: A:0.39, C:0.06, G:0.08, T:0.47
Consensus pattern (31 bp):
TGATTTAAATATATACTTAAAACTTTAATTG
Found at i:49920701 original size:29 final size:31
Alignment explanation
Indices: 49920655--49920718 Score: 80
Period size: 30 Copynumber: 2.1 Consensus size: 31
49920645 GTAAATAATT
49920655 TATAAGAATTAAATC-AAATCAAAATTTCATG
1 TATAAGAATTAAATCAAAATCAAAATTT-ATG
* *
49920686 TATAA-AATTACA-CAAAATCAAAGTTTATG
1 TATAAGAATTAAATCAAAATCAAAATTTATG
49920715 TATA
1 TATA
49920719 CACTTGCACA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
29 8 0.27
30 17 0.57
31 5 0.17
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (31 bp):
TATAAGAATTAAATCAAAATCAAAATTTATG
Found at i:49926186 original size:5 final size:5
Alignment explanation
Indices: 49926171--49926221 Score: 93
Period size: 5 Copynumber: 10.0 Consensus size: 5
49926161 AATTTAAAAT
49926171 TATACA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
1 TATA-A TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA TATAA
49926222 ATTGTGATCT
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 41 0.91
6 4 0.09
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (5 bp):
TATAA
Found at i:49927692 original size:37 final size:37
Alignment explanation
Indices: 49927651--49927764 Score: 92
Period size: 37 Copynumber: 3.1 Consensus size: 37
49927641 TAGTTGAGTT
49927651 GATTTATTTGATGTGGAATAAAATTAGGTTGTCGCGA
1 GATTTATTTGATGTGGAATAAAATTAGGTTGTCGCGA
* * * ** * * **
49927688 GATTTCTATGACTTTATAA-ATAATTTA-GTTG-AG-TT
1 GATTTATTTGA-TGTGGAATA-AAATTAGGTTGTCGCGA
*
49927723 GATTTATTTGATGTGGAATAAAATTAGGTGGTCGCGA
1 GATTTATTTGATGTGGAATAAAATTAGGTTGTCGCGA
49927760 GATTT
1 GATTT
49927765 GTTCGACTAG
Statistics
Matches: 52, Mismatches: 19, Indels: 12
0.63 0.23 0.14
Matches are distributed among these distances:
34 9 0.17
35 13 0.25
36 2 0.04
37 19 0.37
38 9 0.17
ACGTcount: A:0.30, C:0.05, G:0.24, T:0.41
Consensus pattern (37 bp):
GATTTATTTGATGTGGAATAAAATTAGGTTGTCGCGA
Found at i:49927736 original size:72 final size:72
Alignment explanation
Indices: 49927619--49927764 Score: 274
Period size: 72 Copynumber: 2.0 Consensus size: 72
49927609 CAAAAAAAAA
*
49927619 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTTGTC
1 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
49927684 GCGAGAT
66 GCGAGAT
*
49927691 TTCTATGACTTTATAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
1 TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
49927756 GCGAGAT
66 GCGAGAT
49927763 TT
1 TT
49927765 GTTCGACTAG
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 72 1.00
ACGTcount: A:0.30, C:0.05, G:0.22, T:0.42
Consensus pattern (72 bp):
TTCTATGACTTTAGAAATAATTTAGTTGAGTTGATTTATTTGATGTGGAATAAAATTAGGTGGTC
GCGAGAT
Found at i:49930793 original size:27 final size:27
Alignment explanation
Indices: 49930755--49930812 Score: 116
Period size: 27 Copynumber: 2.1 Consensus size: 27
49930745 TTTGGCTAAA
49930755 CATCCCTGGACTCAGAAAGAAATGACC
1 CATCCCTGGACTCAGAAAGAAATGACC
49930782 CATCCCTGGACTCAGAAAGAAATGACC
1 CATCCCTGGACTCAGAAAGAAATGACC
49930809 CATC
1 CATC
49930813 TTTACGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.36, C:0.31, G:0.17, T:0.16
Consensus pattern (27 bp):
CATCCCTGGACTCAGAAAGAAATGACC
Found at i:49941100 original size:16 final size:15
Alignment explanation
Indices: 49941075--49941112 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
49941065 AAAGAAAAAC
*
49941075 AATATGTAAATGATAT
1 AATATATAAATGAT-T
49941091 AATATATAAATGATT
1 AATATATAAATGATT
49941106 AA-ATATA
1 AATATATA
49941113 CAAATAAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 5 0.24
15 3 0.14
16 13 0.62
ACGTcount: A:0.55, C:0.00, G:0.08, T:0.37
Consensus pattern (15 bp):
AATATATAAATGATT
Found at i:49944591 original size:20 final size:20
Alignment explanation
Indices: 49944566--49944604 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
49944556 CGTAAAATAA
*
49944566 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
49944586 TTTCTGTAAAATGATTTAC
1 TTTCTGAAAAATGATTTAC
49944605 CGGAAATATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:49946133 original size:21 final size:21
Alignment explanation
Indices: 49946108--49946150 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
49946098 TATAAACAAA
* *
49946108 AAATGCTCGTAGCAGCAACAC
1 AAATGCTCGTAACAACAACAC
49946129 AAATGCTCGTAACAACAACAC
1 AAATGCTCGTAACAACAACAC
49946150 A
1 A
49946151 TAACAATCCT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.44, C:0.28, G:0.14, T:0.14
Consensus pattern (21 bp):
AAATGCTCGTAACAACAACAC
Found at i:49946778 original size:162 final size:170
Alignment explanation
Indices: 49946377--49946783 Score: 397
Period size: 162 Copynumber: 2.4 Consensus size: 170
49946367 ATTCGGTTCA
* * * * * * * *
49946377 AATAAAGCATCAAAATAATCATTACAACCATAGAACCCAACTTCAAAACTAAATAAAAATCTGAA
1 AATAAAGCATCATAATAATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGAA
* * *
49946442 CTTTAAGGACTATCTATATTTCCTATATTTTCCCATCCATTTTTTAACCCAAATTTCTCATTTTC
66 CTGTAAAGACTA--TATATTTCCTATATTTTCCCATCCATTTTCTAACCCAAATTTCTCATTTTC
**
49946507 CATTCCTTTCTCAGAGACCAAACAAACTTTCCTTTTCATTTAGTTC
129 CATTCCTTTCTCAGAGACCAAACAAACGGTCC---TCATTTA-TTC
* * * * * * ** *
49946553 AGATAAAGCATAATAATAAATCCTTATATACTTATAACCCAACTTTCGTATGTAGTAAAAATCTG
1 A-ATAAAGCATCATAAT-AATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTG
* *
49946618 AACTGTAAAGACTA-A-A-TTCACTGTATTTTCCCATCCATTTTCTAA-CCAAACTTT-TCCTTT
64 AACTGTAAAGACTATATATTTC-CTATATTTTCCCATCCATTTTCTAACCCAAA-TTTCT-CATT
49946678 TTCCA-TCCTTTCTCAGAGACCAAAC-AA-GGTCC-CA-TT-TTC
126 TTCCATTCCTTTCTCAGAGACCAAACAAACGGTCCTCATTTATTC
*
49946717 -ATTAAGCATCATAATACATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGA
1 AATAAAGCATCATAATA-ATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGA
49946781 ACT
65 ACT
49946784 TTAAGATCAC
Statistics
Matches: 192, Mismatches: 33, Indels: 26
0.76 0.13 0.10
Matches are distributed among these distances:
161 1 0.01
162 55 0.29
164 3 0.02
166 2 0.01
167 2 0.01
171 3 0.02
172 2 0.01
173 29 0.15
174 35 0.18
175 1 0.01
176 1 0.01
177 13 0.07
178 45 0.23
ACGTcount: A:0.37, C:0.23, G:0.06, T:0.34
Consensus pattern (170 bp):
AATAAAGCATCATAATAATCATTACATCCTTAAAACCCAACTTCCAAATTTAGTAAAAATCTGAA
CTGTAAAGACTATATATTTCCTATATTTTCCCATCCATTTTCTAACCCAAATTTCTCATTTTCCA
TTCCTTTCTCAGAGACCAAACAAACGGTCCTCATTTATTC
Found at i:49948591 original size:13 final size:13
Alignment explanation
Indices: 49948556--49948588 Score: 50
Period size: 12 Copynumber: 2.5 Consensus size: 13
49948546 TAATTGAAAT
49948556 AATAGTTTAATTTG
1 AATA-TTTAATTTG
49948570 AATATTTAA-TTG
1 AATATTTAATTTG
49948582 AATATTT
1 AATATTT
49948589 TAAATTTTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 10 0.53
13 5 0.26
14 4 0.21
ACGTcount: A:0.39, C:0.00, G:0.09, T:0.52
Consensus pattern (13 bp):
AATATTTAATTTG
Found at i:49952115 original size:33 final size:33
Alignment explanation
Indices: 49952073--49952223 Score: 134
Period size: 33 Copynumber: 4.7 Consensus size: 33
49952063 ACTCTAGCTA
*
49952073 TGTTTACTGTCCCAATGA-ACTATCTCTTTTCTG
1 TGTTTACTGTCCCAATCAGACTATCTCTTTT-TG
* *
49952106 TGTTTACTGTCTC-ATCAGACAATCTCTTTTT-
1 TGTTTACTGTCCCAATCAGACTATCTCTTTTTG
* * *
49952137 TGTTTACTGTTCCACT-GGACTATCTCTGTTTTG
1 TGTTTACTGTCCCAATCAGACTATCTCT-TTTTG
* * * * *
49952170 TGTTTACTATCCCAA-CAGACTATTTATGTTCTA
1 TGTTTACTGTCCCAATCAGACTATCTCT-TTTTG
49952203 TGTTTACTGTCCCAAT-AGACT
1 TGTTTACTGTCCCAATCAGACT
49952224 GTCATTGTGG
Statistics
Matches: 95, Mismatches: 17, Indels: 12
0.77 0.14 0.10
Matches are distributed among these distances:
31 20 0.21
32 9 0.09
33 66 0.69
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.45
Consensus pattern (33 bp):
TGTTTACTGTCCCAATCAGACTATCTCTTTTTG
Found at i:49952482 original size:51 final size:51
Alignment explanation
Indices: 49952427--49952533 Score: 162
Period size: 51 Copynumber: 2.1 Consensus size: 51
49952417 TCCTTGGTTG
* *
49952427 TACGCTACATAA-TCTATACTAAACTGCCAAAGCGTCTTTTATCTATAGTCT
1 TACGCTACATAATTC-ATACTAAACTGCCAAAGCATCTTTCATCTATAGTCT
* *
49952478 TACGCTACATACTTCATACTAGACTGCCAAAGCATCTTTCATCTATAGTCT
1 TACGCTACATAATTCATACTAAACTGCCAAAGCATCTTTCATCTATAGTCT
49952529 TACGC
1 TACGC
49952534 CATATATCGT
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
51 49 0.96
52 2 0.04
ACGTcount: A:0.30, C:0.26, G:0.10, T:0.34
Consensus pattern (51 bp):
TACGCTACATAATTCATACTAAACTGCCAAAGCATCTTTCATCTATAGTCT
Found at i:49959330 original size:29 final size:30
Alignment explanation
Indices: 49959293--49959363 Score: 85
Period size: 28 Copynumber: 2.4 Consensus size: 30
49959283 TTATAGCATG
*
49959293 TTTA-TTTTTATTTTAAAAATAGG-AATTT
1 TTTATTTTTTATTTTAAAAATAGGAAATTA
* *
49959321 TTTGTTTTTT-TTTTAAACATAGGAAATTA
1 TTTATTTTTTATTTTAAAAATAGGAAATTA
49959350 TTTATTATTTTATT
1 TTTATT-TTTTATT
49959364 AGTAATTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
28 15 0.43
29 14 0.40
30 4 0.11
31 2 0.06
ACGTcount: A:0.31, C:0.01, G:0.07, T:0.61
Consensus pattern (30 bp):
TTTATTTTTTATTTTAAAAATAGGAAATTA
Found at i:49963489 original size:44 final size:41
Alignment explanation
Indices: 49963441--49963549 Score: 98
Period size: 44 Copynumber: 2.6 Consensus size: 41
49963431 AGTATTATAT
49963441 ATTATGATTTTAGTAAATTCATATAAGAATAAGAATT-TTATTAA
1 ATTAT-ATTTTAGTAAATT-ATAT-AGAATAAGAATTATT-TTAA
* ** *
49963485 ATTATATATTATTATTAAATTATATTTAATAATAATTATTTTAA
1 A-T-TATATT-TTAGTAAATTATATAGAATAAGAATTATTTTAA
49963529 ATTATATTTTAGT--ATTATATA
1 ATTATATTTTAGTAAATTATATA
49963550 TTATGATTTT
Statistics
Matches: 55, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
39 7 0.13
41 4 0.07
42 6 0.11
43 1 0.02
44 15 0.27
45 10 0.18
46 12 0.22
ACGTcount: A:0.44, C:0.01, G:0.05, T:0.50
Consensus pattern (41 bp):
ATTATATTTTAGTAAATTATATAGAATAAGAATTATTTTAA
Found at i:49963528 original size:26 final size:28
Alignment explanation
Indices: 49963474--49963771 Score: 143
Period size: 27 Copynumber: 10.4 Consensus size: 28
49963464 TAAGAATAAG
* * *
49963474 AATTTTATTAAATTATATATTATTATTA
1 AATTATATTTAATAATATATTATTATTA
49963502 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* * *
49963528 AATTATATTTTAGTATTATATATTATGATTT
1 AATTATA-TTTA--ATAATATATTATTATTA
* * *
49963559 TATTAGTAAATTCATATAAGA-A-TATTTATTAA
1 AATTA-T--ATTTA-ATAATATATTA-TTATT-A
* * *
49963591 CAATTTTATTAAATTATATATT-TTATTA
1 -AATTATATTTAATAATATATTATTATTA
49963619 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
* * *
49963645 AATTATATTTTAGTATTATATATTATGATTT
1 AATTATA-TTTA--ATAATATATTATTATTA
* * *
49963676 TATTAGTAAATTCATATAAGA-A-TATTTATTTA
1 AATTA-T--ATTTA-ATAATATATTA-TTA-TTA
* * *
49963708 CAATTTTATTAAATTATATATT-TTATTA
1 -AATTATATTTAATAATATATTATTATTA
49963736 AATTATATTTAATAATA-ATTATT-TTA
1 AATTATATTTAATAATATATTATTATTA
49963762 AATTATATTT
1 AATTATATTT
49963772 TAGTATTATA
Statistics
Matches: 205, Mismatches: 37, Indels: 58
0.68 0.12 0.19
Matches are distributed among these distances:
26 39 0.19
27 46 0.22
28 18 0.09
29 26 0.13
30 24 0.12
31 22 0.11
32 16 0.08
33 12 0.06
34 2 0.01
ACGTcount: A:0.42, C:0.01, G:0.03, T:0.54
Consensus pattern (28 bp):
AATTATATTTAATAATATATTATTATTA
Found at i:49963613 original size:17 final size:17
Alignment explanation
Indices: 49963593--49963743 Score: 70
Period size: 17 Copynumber: 9.0 Consensus size: 17
49963583 TTTATTAACA
49963593 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49963610 ATTTTATTAAA-T-TAT
1 ATTTTATTAAATTATAT
*
49963625 A-TTTAAT-AA-TA-AT
1 ATTTTATTAAATTATAT
*
49963638 -TATT-TTAAATTATAT
1 ATTTTATTAAATTATAT
49963653 -TTTAGTATTATATATTATGAT
1 ATTT--TATTA-A-ATTAT-AT
* *
49963674 TTTATTAGTAAATTCATAT
1 ATT-TTATTAAATT-ATAT
*** * * *
49963693 AAGAATATTTATTTACA-
1 -ATTTTATTAAATTATAT
49963710 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49963727 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49963744 TTAATAATAA
Statistics
Matches: 99, Mismatches: 19, Indels: 32
0.66 0.13 0.21
Matches are distributed among these distances:
12 1 0.01
13 9 0.09
14 7 0.07
15 8 0.08
16 11 0.11
17 29 0.29
18 5 0.05
19 12 0.12
20 8 0.08
21 6 0.06
22 2 0.02
23 1 0.01
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:49963639 original size:117 final size:117
Alignment explanation
Indices: 49963391--49963880 Score: 831
Period size: 117 Copynumber: 4.3 Consensus size: 117
49963381 AAGTAGATTA
49963391 TAAATTATATTTAATAATAATTA-TTTAAATTATATTTTATAGTATTATATATTATGA--TT-TT
1 TAAATTATATTTAATAATAATTATTTTAAATTATA-TTT-TAGTATTATATATTATGATTTTATT
*
49963452 AGTAAATTCATATAAG---A---A-TAAGAATTTTATTAAATTATATATTATTAT
64 AGTAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATT-TTAT
49963500 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
49963565 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
49963617 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
*
49963682 TAAATTCATATAAGAATATTTATTTACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
49963734 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
1 TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
49963799 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
66 TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
* * *
49963851 TAAATTATATTTTATAACAATTATGTTAAA
1 TAAATTATATTTAATAATAATTATTTTAAA
49963881 ATATGATTAC
Statistics
Matches: 364, Mismatches: 6, Indels: 14
0.95 0.02 0.04
Matches are distributed among these distances:
108 18 0.05
109 26 0.07
110 13 0.04
111 18 0.05
114 1 0.00
117 264 0.73
118 24 0.07
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (117 bp):
TAAATTATATTTAATAATAATTATTTTAAATTATATTTTAGTATTATATATTATGATTTTATTAG
TAAATTCATATAAGAATATTTATTAACAATTTTATTAAATTATATATTTTAT
Found at i:49963865 original size:15 final size:17
Alignment explanation
Indices: 49963827--49963860 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
49963817 TTTATTAACA
49963827 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49963844 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
49963861 TTTATAACAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:49963874 original size:16 final size:15
Alignment explanation
Indices: 49963827--49963874 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
49963817 TTTATTAACA
*
49963827 ATTTTATTAAATTATAT
1 ATTTTA-TAAAAT-TAT
*
49963844 ATTTTATTAAATTAT
1 ATTTTATAAAATTAT
49963859 ATTTTATAACAATTAT
1 ATTTTATAA-AATTAT
49963875 GTTAAAATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 11 0.41
16 10 0.37
17 6 0.22
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (15 bp):
ATTTTATAAAATTAT
Found at i:49964052 original size:39 final size:43
Alignment explanation
Indices: 49964007--49964114 Score: 143
Period size: 46 Copynumber: 2.5 Consensus size: 43
49963997 TTTCCTTATG
* *
49964007 CTATTACACCTCTATTCCATT-C-AACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTACTAACCAAACAAAAGAATTAC
49964047 C-ATTACGCCTCTATTCCATTACATTTAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTAC---TAACCAAACAAAAGAATTAC
49964092 CTATTACGCCTCTATTCCATTAC
1 CTATTACGCCTCTATTCCATTAC
49964115 AGCGAACCAA
Statistics
Matches: 59, Mismatches: 2, Indels: 8
0.86 0.03 0.12
Matches are distributed among these distances:
39 18 0.31
40 2 0.03
44 14 0.24
45 4 0.07
46 21 0.36
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.30
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACTAACCAAACAAAAGAATTAC
Found at i:49964108 original size:46 final size:44
Alignment explanation
Indices: 49964024--49964115 Score: 148
Period size: 46 Copynumber: 2.0 Consensus size: 44
49964014 ACCTCTATTC
*
49964024 CATTCAACCAAACACAAGAATACCATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
*
49964068 CATTTAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAA-TACC-ATTACGCCTCTATTCCATTA
49964114 CA
1 CA
49964116 GCGAACCAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
44 18 0.41
45 4 0.09
46 22 0.50
ACGTcount: A:0.39, C:0.29, G:0.04, T:0.27
Consensus pattern (44 bp):
CATTCAACCAAACAAAAGAATACCATTACGCCTCTATTCCATTA
Found at i:49966889 original size:23 final size:26
Alignment explanation
Indices: 49966830--49966882 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
49966820 TAATTAAAAG
*
49966830 ATTAAATAATAAATCTAATATATATT
1 ATTAAATAATAAACCTAATATATATT
49966856 ATTAAATAATAAACCTAATATATATT
1 ATTAAATAATAAACCTAATATATATT
49966882 A
1 A
49966883 AATAATATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.40
Consensus pattern (26 bp):
ATTAAATAATAAACCTAATATATATT
Found at i:49969342 original size:43 final size:43
Alignment explanation
Indices: 49969265--49969384 Score: 118
Period size: 43 Copynumber: 2.8 Consensus size: 43
49969255 CGTACAATGT
* ***
49969265 CAACGTCCCAGACGTGGTCTTACATGTGCTCACAAATCGACGC
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGACGC
* *
49969308 C-ACTGTCCCAGACAG-GGTCTTACACGTAAACACAAGTCGATGC
1 CAAC-GTCCCAGAC-GTGGTCTTACACGTAAACACAAATCGACGC
* * **
49969351 CAACGTCCCAGATGTGGTCCTACACAAAAACACA
1 CAACGTCCCAGACGTGGTCTTACACGTAAACACA
49969385 TATAAAAAAT
Statistics
Matches: 63, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 3 0.05
43 57 0.90
44 3 0.05
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.18
Consensus pattern (43 bp):
CAACGTCCCAGACGTGGTCTTACACGTAAACACAAATCGACGC
Found at i:49992246 original size:16 final size:16
Alignment explanation
Indices: 49992221--49992252 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
49992211 GATTTGGGAG
*
49992221 ATTTTCTTTTTATTTT
1 ATTTTATTTTTATTTT
49992237 ATTTTATTTTTATTTT
1 ATTTTATTTTTATTTT
49992253 TTTCTGTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.03, G:0.00, T:0.81
Consensus pattern (16 bp):
ATTTTATTTTTATTTT
Found at i:49994609 original size:17 final size:18
Alignment explanation
Indices: 49994584--49994621 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49994574 AATTCATTAA
49994584 TAAACAAAT-AATAAAAG
1 TAAACAAATAAATAAAAG
* *
49994601 TAAATAAATAAATAAGAG
1 TAAACAAATAAATAAAAG
49994619 TAA
1 TAA
49994622 TAATAGTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.68, C:0.03, G:0.08, T:0.21
Consensus pattern (18 bp):
TAAACAAATAAATAAAAG
Found at i:49994629 original size:9 final size:9
Alignment explanation
Indices: 49994611--49994728 Score: 64
Period size: 9 Copynumber: 13.2 Consensus size: 9
49994601 TAAATAAATA
*
49994611 AATAAGAGT
1 AATAATAGT
49994620 AATAATAGT
1 AATAATAGT
49994629 AATAATAATGGT
1 AATAAT-A--GT
* * *
49994641 AGTAAAAAT
1 AATAATAGT
*
49994650 AA-AATA-A
1 AATAATAGT
* *
49994657 AAAAATAAT
1 AATAATAGT
*
49994666 AGTAATAGT
1 AATAATAGT
*
49994675 AATAACAGT
1 AATAATAGT
49994684 AATAATAGT
1 AATAATAGT
* *
49994693 AACAA-AAT
1 AATAATAGT
*
49994701 AATAATAAT
1 AATAATAGT
*
49994710 AATAATAGG
1 AATAATAGT
49994719 AATAA-AGT
1 AATAATAGT
49994727 AA
1 AA
49994729 AATGCAAAGA
Statistics
Matches: 83, Mismatches: 20, Indels: 13
0.72 0.17 0.11
Matches are distributed among these distances:
7 2 0.02
8 17 0.20
9 56 0.67
10 1 0.01
11 1 0.01
12 6 0.07
ACGTcount: A:0.62, C:0.02, G:0.11, T:0.25
Consensus pattern (9 bp):
AATAATAGT
Found at i:49994634 original size:3 final size:3
Alignment explanation
Indices: 49994619--49994716 Score: 67
Period size: 3 Copynumber: 33.7 Consensus size: 3
49994609 TAAATAAGAG
* ** * * *
49994619 TAA TAA TAG TAA TAA TAA TGG TAG TAA AAA TAA -AA TAA -AA AAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * * *
49994665 TAG TAA TAG TAA TAA CAG TAA TAA TAG TAA CAA -AA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
49994712 TAA TA
1 TAA TA
49994717 GGAATAAAGT
Statistics
Matches: 72, Mismatches: 20, Indels: 6
0.73 0.20 0.06
Matches are distributed among these distances:
2 6 0.08
3 66 0.92
ACGTcount: A:0.62, C:0.02, G:0.08, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:49999029 original size:3 final size:3
Alignment explanation
Indices: 49999021--49999051 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
49999011 TATAATGATA
49999021 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T
49999052 TTATAATGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:49999420 original size:31 final size:29
Alignment explanation
Indices: 49999353--49999420 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
49999343 TATTATTTGC
* *
49999353 CTAATTTTTCTGATTTTAAATATATTTTT
1 CTAATTTTTCTAATTTTAAAAATATTTTT
*
49999382 CTTATTTTT-TAATTATTAAAAATTATATTTT
1 CTAATTTTTCTAATT-TTAAAAA-TAT-TTTT
49999413 CTAATTTT
1 CTAATTTT
49999421 GAACTGATCT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
28 4 0.12
29 14 0.44
30 3 0.09
31 11 0.34
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (29 bp):
CTAATTTTTCTAATTTTAAAAATATTTTT
Found at i:50009219 original size:8 final size:8
Alignment explanation
Indices: 50009208--50009232 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
50009198 TGATGATAGA
50009208 TTATATGT
1 TTATATGT
50009216 TTATATGT
1 TTATATGT
50009224 TTATATGT
1 TTATATGT
50009232 T
1 T
50009233 CACTGAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.12, T:0.64
Consensus pattern (8 bp):
TTATATGT
Found at i:50012376 original size:15 final size:15
Alignment explanation
Indices: 50012356--50012387 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
50012346 AATTTCACTG
*
50012356 TTATGTCTTTTGTAT
1 TTATGTCTTTTATAT
50012371 TTATGTCTTTTATAT
1 TTATGTCTTTTATAT
50012386 TT
1 TT
50012388 TGCATACATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.16, C:0.06, G:0.09, T:0.69
Consensus pattern (15 bp):
TTATGTCTTTTATAT
Found at i:50016783 original size:17 final size:17
Alignment explanation
Indices: 50016748--50016783 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
50016738 ATTATTTTAA
*
50016748 TAGTTTAATATTAAATT
1 TAGTTTAATACTAAATT
*
50016765 TAGTTTAATACTAATTT
1 TAGTTTAATACTAAATT
50016782 TA
1 TA
50016784 ATAGTATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.06, T:0.53
Consensus pattern (17 bp):
TAGTTTAATACTAAATT
Found at i:50016809 original size:25 final size:26
Alignment explanation
Indices: 50016776--50016829 Score: 67
Period size: 25 Copynumber: 2.1 Consensus size: 26
50016766 AGTTTAATAC
* *
50016776 TAATTTTAATAGT-ATTTTATTAAT-T
1 TAATATTAA-AGTGATTATATTAATGT
50016801 TAATATTAAAGTGATTATATTAATGT
1 TAATATTAAAGTGATTATATTAATGT
50016827 TAA
1 TAA
50016830 ATTTAATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 3 0.12
25 18 0.72
26 4 0.16
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (26 bp):
TAATATTAAAGTGATTATATTAATGT
Found at i:50016817 original size:20 final size:18
Alignment explanation
Indices: 50016735--50016841 Score: 51
Period size: 20 Copynumber: 5.8 Consensus size: 18
50016725 TTCTAAAAAT
* *
50016735 AATATTATTTTAATAGTTT
1 AATATTAATTTAATA-TTA
*
50016754 AATATTAAATTTAGT-TT-
1 AATATT-AATTTAATATTA
* *
50016771 AATACTAATTTTAATAGTA
1 AATATTAA-TTTAATATTA
**
50016790 TTTTATTAATTTAATATTA
1 -AATATTAATTTAATATTA
*
50016809 AAGTGATT-ATATTAATGTTA
1 AA-T-ATTAAT-TTAATATTA
50016829 AAT-TTAATTTAAT
1 AATATTAATTTAAT
50016842 GTTTATCATG
Statistics
Matches: 67, Mismatches: 12, Indels: 20
0.68 0.12 0.20
Matches are distributed among these distances:
16 2 0.03
17 17 0.25
18 5 0.07
19 19 0.28
20 24 0.36
ACGTcount: A:0.41, C:0.01, G:0.06, T:0.52
Consensus pattern (18 bp):
AATATTAATTTAATATTA
Found at i:50016891 original size:61 final size:59
Alignment explanation
Indices: 50016820--50016935 Score: 160
Period size: 61 Copynumber: 1.9 Consensus size: 59
50016810 AGTGATTATA
* * * * *
50016820 TTAATGTTAAATTTAATTTAATGTTTATCATGTGATAAACATTCTATTATTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TGATAAACATTATATTAATTTAATAAGAT
*
50016881 TTAATATTAAATTTAATCTAATATTTATCTTGATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATA
50016936 TTAAAGTGAT
Statistics
Matches: 49, Mismatches: 6, Indels: 2
0.86 0.11 0.04
Matches are distributed among these distances:
59 22 0.45
60 1 0.02
61 26 0.53
ACGTcount: A:0.41, C:0.04, G:0.05, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTGATAAACATTATATTAATTTAATAAGAT
Found at i:50020575 original size:20 final size:20
Alignment explanation
Indices: 50020552--50020599 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
50020542 TGTACTTCGG
*
50020552 TGCCCCTGAATGCAAATTTA
1 TGCCCCTGAACGCAAATTTA
* * *
50020572 TGCCCCTAAACGCACATTTG
1 TGCCCCTGAACGCAAATTTA
50020592 TGCCCCTG
1 TGCCCCTG
50020600 TTCACACTTC
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.23, C:0.33, G:0.17, T:0.27
Consensus pattern (20 bp):
TGCCCCTGAACGCAAATTTA
Found at i:50020614 original size:20 final size:20
Alignment explanation
Indices: 50020591--50020633 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
50020581 ACGCACATTT
50020591 GTGCCCCTGT-TCACACTTCG
1 GTGCCCCTGTAT-ACACTTCG
*
50020611 GTGCCCTTGTATACACTTCG
1 GTGCCCCTGTATACACTTCG
50020631 GTG
1 GTG
50020634 TCCTTGTTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 20 0.95
21 1 0.05
ACGTcount: A:0.12, C:0.33, G:0.23, T:0.33
Consensus pattern (20 bp):
GTGCCCCTGTATACACTTCG
Found at i:50020638 original size:20 final size:20
Alignment explanation
Indices: 50020603--50020640 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
50020593 GCCCCTGTTC
50020603 ACACTTCGGTGCCCTTGTAT
1 ACACTTCGGTGCCCTTGTAT
*
50020623 ACACTTCGGTGTCCTTGT
1 ACACTTCGGTGCCCTTGT
50020641 TTGCACATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.21, T:0.37
Consensus pattern (20 bp):
ACACTTCGGTGCCCTTGTAT
Found at i:50021388 original size:20 final size:20
Alignment explanation
Indices: 50021358--50021415 Score: 82
Period size: 20 Copynumber: 2.9 Consensus size: 20
50021348 AAAGTATATT
*
50021358 TTGTAAAAAGTATAGATA-C
1 TTGTGAAAAGTATAGATACC
50021377 TTGGTGAAAAGTATAGATACC
1 TT-GTGAAAAGTATAGATACC
*
50021398 TTGTGTAAAGTATAGATA
1 TTGTGAAAAGTATAGATA
50021416 TCAAATTGGC
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 2 0.06
20 30 0.86
21 3 0.09
ACGTcount: A:0.41, C:0.05, G:0.21, T:0.33
Consensus pattern (20 bp):
TTGTGAAAAGTATAGATACC
Found at i:50027871 original size:29 final size:28
Alignment explanation
Indices: 50027837--50027912 Score: 89
Period size: 29 Copynumber: 2.6 Consensus size: 28
50027827 AAGTTGTGGG
* *
50027837 TTTAGTCCCTATACTTTAATTTTGTCACT
1 TTTAGTCCCTATACTTTAATTTGGTCA-A
*
50027866 TTTAGTCCCTGTACTTTTTAATTTGGTCAA
1 TTTAGTCCCTATAC--TTTAATTTGGTCAA
*
50027896 TTTAATCCCTATACTTT
1 TTTAGTCCCTATACTTT
50027913 TTAAATTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
28 3 0.08
29 13 0.32
30 12 0.30
31 12 0.30
ACGTcount: A:0.21, C:0.20, G:0.08, T:0.51
Consensus pattern (28 bp):
TTTAGTCCCTATACTTTAATTTGGTCAA
Found at i:50027911 original size:30 final size:31
Alignment explanation
Indices: 50027837--50027916 Score: 103
Period size: 30 Copynumber: 2.7 Consensus size: 31
50027827 AAGTTGTGGG
* *
50027837 TTTAGTCCCTATAC--TTTAATTTTGTCACT
1 TTTAGTCCCTATACTTTTTAATTTGGTCACA
*
50027866 TTTAGTCCCTGTACTTTTTAATTTGGTCA-A
1 TTTAGTCCCTATACTTTTTAATTTGGTCACA
*
50027896 TTTAATCCCTATACTTTTTAA
1 TTTAGTCCCTATACTTTTTAA
50027917 ATTTAAATTT
Statistics
Matches: 44, Mismatches: 5, Indels: 3
0.85 0.10 0.06
Matches are distributed among these distances:
29 13 0.30
30 19 0.43
31 12 0.27
ACGTcount: A:0.23, C:0.19, G:0.07, T:0.51
Consensus pattern (31 bp):
TTTAGTCCCTATACTTTTTAATTTGGTCACA
Found at i:50028679 original size:23 final size:23
Alignment explanation
Indices: 50028635--50028680 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
50028625 AGGACAAAAG
**
50028635 AAAACTCAAGTACCAATTTGAAA
1 AAAACTCAAGTACCAAGGTGAAA
* *
50028658 AAAACTTAGGTACCAAGGTGAAA
1 AAAACTCAAGTACCAAGGTGAAA
50028681 CTTGAAGCCA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (23 bp):
AAAACTCAAGTACCAAGGTGAAA
Found at i:50031742 original size:13 final size:13
Alignment explanation
Indices: 50031724--50031751 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
50031714 ATTCTAAACA
50031724 AAATTTAGTATTT
1 AAATTTAGTATTT
50031737 AAATTTAGTATTT
1 AAATTTAGTATTT
50031750 AA
1 AA
50031752 TTTTTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (13 bp):
AAATTTAGTATTT
Found at i:50032782 original size:23 final size:25
Alignment explanation
Indices: 50032745--50032794 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 25
50032735 TTATGAAAAT
*
50032745 TAAATCAAATCAAAATTTTA-TTTA
1 TAAATCAAATCAAAATTATAGTTTA
*
50032769 TAAATTAAA-CAAAATTATAGTTTA
1 TAAATCAAATCAAAATTATAGTTTA
50032793 TA
1 TA
50032795 TATAATATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.52, C:0.06, G:0.02, T:0.40
Consensus pattern (25 bp):
TAAATCAAATCAAAATTATAGTTTA
Found at i:50037707 original size:68 final size:66
Alignment explanation
Indices: 50037598--50037791 Score: 227
Period size: 68 Copynumber: 2.9 Consensus size: 66
50037588 CGGAATCGAA
*
50037598 AGTCCTCCAGGACAATAAACATAAGATCATATTGTGTAAGACCATAACTGGGCTATGGCAACATA
1 AGTCCGCCAGGACAATAAACAT-AGATCATATTGTGTAAGACCATAA-TGGGCTATGGCAACATA
50037663 TGG
64 TGG
* *
50037666 AGTCCGCTAGGACAATAAACATGAGATCATATTGTGTAAGACCAT-A--GGCTAT-GAAGACATA
1 AGTCCGCCAGGACAATAAACAT-AGATCATATTGTGTAAGACCATAATGGGCTATGGCA-ACATA
50037727 TGG
64 TGG
* * * * *
50037730 AGTCTGCCAAGA-GATAAACATAGGATCACATTGTGTAAGACCATAGATGAGCTATGGCAACA
1 AGTCCGCCAGGACAATAAACATA-GATCATATTGTGTAAGACCATA-ATGGGCTATGGCAACA
50037792 AATGAAGTTT
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
62 1 0.01
63 30 0.28
64 23 0.21
65 1 0.01
67 9 0.08
68 44 0.41
ACGTcount: A:0.38, C:0.18, G:0.22, T:0.23
Consensus pattern (66 bp):
AGTCCGCCAGGACAATAAACATAGATCATATTGTGTAAGACCATAATGGGCTATGGCAACATATG
G
Found at i:50038119 original size:30 final size:30
Alignment explanation
Indices: 50038085--50038149 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
50038075 ACTTATTTTA
* *
50038085 TTGTTAATTTTGTTATTATTTTCA-AGGCAT
1 TTGTTAACTTTGTTATTATTTT-AGAGACAT
50038115 TTGTTAACTTTGTTATTATTTTAGAGACAT
1 TTGTTAACTTTGTTATTATTTTAGAGACAT
50038145 TTGTT
1 TTGTT
50038150 TGTTAAGTTA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 1 0.03
30 31 0.97
ACGTcount: A:0.23, C:0.06, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAACTTTGTTATTATTTTAGAGACAT
Found at i:50039150 original size:25 final size:23
Alignment explanation
Indices: 50039122--50039178 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 23
50039112 ATCAAAAATA
50039122 CTAAAAATATCAAAATAAATATTT
1 CTAAAAATATCAAAATAAA-ATTT
*
50039146 CCTAACAAAT-TGAAAATAAAATTT
1 -CTAA-AAATATCAAAATAAAATTT
50039170 -TAAAAATAT
1 CTAAAAATAT
50039179 GGATACTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
21 4 0.14
22 4 0.14
24 4 0.14
25 13 0.45
26 4 0.14
ACGTcount: A:0.58, C:0.09, G:0.02, T:0.32
Consensus pattern (23 bp):
CTAAAAATATCAAAATAAAATTT
Found at i:50039255 original size:30 final size:30
Alignment explanation
Indices: 50039219--50039281 Score: 117
Period size: 30 Copynumber: 2.1 Consensus size: 30
50039209 ACTTAACAAG
50039219 CAAATGCCTCTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
*
50039249 CAAATGCCTTTAAAATAATAACAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
50039279 CAA
1 CAA
50039282 TAAAATAAGT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.57, C:0.16, G:0.03, T:0.24
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:50039933 original size:69 final size:69
Alignment explanation
Indices: 50039854--50039991 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
50039844 AACTATCAAA
*
50039854 GAAAATTATTGTCTTTATTAGTTGTCTAGAAATCCAATTTTTTTATTATATTATTTTGAATCTTT
1 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
50039919 CACG
66 CACG
50039923 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
1 GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
50039988 CACG
66 CACG
50039992 CTAAGCTAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.29, C:0.11, G:0.10, T:0.50
Consensus pattern (69 bp):
GAAAATTATTGTCTTTATTAGTTGTCTAGAAACCCAATTTTTTTATTATATTATTTTGAATCTTT
CACG
Found at i:50042040 original size:7 final size:7
Alignment explanation
Indices: 50042028--50042052 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
50042018 TGCTGCAAAT
50042028 TTTATTA
1 TTTATTA
50042035 TTTATTA
1 TTTATTA
50042042 TTTATTA
1 TTTATTA
50042049 TTTA
1 TTTA
50042053 CGATCTGTAT
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:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATTA
Found at i:50048891 original size:227 final size:227
Alignment explanation
Indices: 50048496--50048953 Score: 907
Period size: 227 Copynumber: 2.0 Consensus size: 227
50048486 CCTCAAAAGT
50048496 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
1 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
*
50048561 ATGGATCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
66 ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
50048626 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
131 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
50048691 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
196 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
50048723 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
1 GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
50048788 ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
66 ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
50048853 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
131 TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
50048918 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
196 TACAGAAAGAGAAAACCAATCTATTAAGAGAA
50048950 GTTT
1 GTTT
50048954 GGTTAAATTT
Statistics
Matches: 230, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
227 230 1.00
ACGTcount: A:0.42, C:0.16, G:0.17, T:0.24
Consensus pattern (227 bp):
GTTTTGAAATTCATGAGCATTTTGCTCAAATAACTTAGAATCAAACGGCAAATCAAAATTTGAAG
ATGGACCCATGGACCATTTAGGCAGCTCTAAGGCATTGTCAGCCAAAGGAGTCTGAAAGATGTAC
TTGAATTAGAACATCTATAAATCATGATTTCGACAAAAGATCCAAATAAGACCAAACATCAAAAG
TACAGAAAGAGAAAACCAATCTATTAAGAGAA
Found at i:50053482 original size:14 final size:14
Alignment explanation
Indices: 50053463--50053503 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
50053453 TGAGAAGAGG
50053463 TTTTTTCTTTTTCTTT
1 TTTTTTC-TTTT-TTT
50053479 TTTTTTCTTTTTTT
1 TTTTTTCTTTTTTT
*
50053493 TTTTCTCTTTT
1 TTTTTTCTTTT
50053504 GCTTCCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 13 0.54
15 4 0.17
16 7 0.29
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (14 bp):
TTTTTTCTTTTTTT
Found at i:50053484 original size:16 final size:15
Alignment explanation
Indices: 50053463--50053496 Score: 59
Period size: 16 Copynumber: 2.2 Consensus size: 15
50053453 TGAGAAGAGG
50053463 TTTTTTCTTTTTCTTT
1 TTTTTTCTTTTT-TTT
50053479 TTTTTTCTTTTTTTT
1 TTTTTTCTTTTTTTT
50053494 TTT
1 TTT
50053497 CTCTTTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 6 0.33
16 12 0.67
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (15 bp):
TTTTTTCTTTTTTTT
Found at i:50053489 original size:9 final size:10
Alignment explanation
Indices: 50053465--50053494 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
50053455 AGAAGAGGTT
50053465 TTTTCTTTTTC
1 TTTT-TTTTTC
50053476 TTTTTTTTTC
1 TTTTTTTTTC
50053486 TTTTTTTTT
1 TTTTTTTTT
50053495 TTCTCTTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 15 0.79
11 4 0.21
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:50053491 original size:12 final size:12
Alignment explanation
Indices: 50053463--50053503 Score: 50
Period size: 12 Copynumber: 3.4 Consensus size: 12
50053453 TGAGAAGAGG
50053463 TTTTTTCTTTTTC
1 TTTTTT-TTTTTC
50053476 --TTTTTTTTTC
1 TTTTTTTTTTTC
50053486 TTTTTTTTTTTC
1 TTTTTTTTTTTC
50053498 TCTTTT
1 T-TTTT
50053504 GCTTCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 11 0.44
13 4 0.16
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (12 bp):
TTTTTTTTTTTC
Found at i:50053512 original size:24 final size:23
Alignment explanation
Indices: 50053463--50053513 Score: 59
Period size: 23 Copynumber: 2.2 Consensus size: 23
50053453 TGAGAAGAGG
* *
50053463 TTTTTTCTTTTTCTTTTTTTTTC
1 TTTTTTCTTTTTCTTTTTCTTCC
50053486 TTTTTT-TTTTTCTCTTTTGCTTCC
1 TTTTTTCTTTTTCT-TTTT-CTTCC
50053510 TTTT
1 TTTT
50053514 GACTGTCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 7 0.29
23 10 0.42
24 7 0.29
ACGTcount: A:0.00, C:0.16, G:0.02, T:0.82
Consensus pattern (23 bp):
TTTTTTCTTTTTCTTTTTCTTCC
Found at i:50054487 original size:21 final size:21
Alignment explanation
Indices: 50054458--50054497 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
50054448 TTATTTGAAC
50054458 ACCTCCAAACACATCCTACTT
1 ACCTCCAAACACATCCTACTT
* * *
50054479 ACCTTCAAACTCCTCCTAC
1 ACCTCCAAACACATCCTAC
50054498 CCGTATAAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.30, C:0.45, G:0.00, T:0.25
Consensus pattern (21 bp):
ACCTCCAAACACATCCTACTT
Found at i:50062870 original size:21 final size:21
Alignment explanation
Indices: 50062844--50062883 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
50062834 ACGATTGTTT
50062844 GTCGGGTTGACTCTTTTGCTC
1 GTCGGGTTGACTCTTTTGCTC
50062865 GTCGGGTTGACTCTTTTGC
1 GTCGGGTTGACTCTTTTGC
50062884 GTGTCCATTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.05, C:0.23, G:0.30, T:0.42
Consensus pattern (21 bp):
GTCGGGTTGACTCTTTTGCTC
Found at i:50066738 original size:15 final size:15
Alignment explanation
Indices: 50066713--50066747 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
50066703 GACTCTATTT
*
50066713 TAATT-ATATTAGGA
1 TAATTAATATTAAGA
50066727 TAATTAATATTAAGA
1 TAATTAATATTAAGA
50066742 TAATTA
1 TAATTA
50066748 TTAAGAACTA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.09, T:0.43
Consensus pattern (15 bp):
TAATTAATATTAAGA
Found at i:50069274 original size:20 final size:18
Alignment explanation
Indices: 50069229--50069266 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
50069219 ACTTAATGTT
50069229 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
50069247 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
50069265 AT
1 AT
50069267 TGTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
ATATATGTGAATTATATA
Found at i:50069643 original size:25 final size:26
Alignment explanation
Indices: 50069552--50069644 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 26
50069542 GTCCCGTTAT
**
50069552 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
** * *
50069578 AAAGCTATTTGTGAGCTTCATGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
* *
50069604 ATGGCTC-AC-TAGAGCTTCTTGATTA
1 ATGGCTCTTCGT-GAGCTTCATGATTA
50069629 ATGGCTCTTCG-GAGCT
1 ATGGCTCTTCGTGAGCT
50069645 ACCCGTTATT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.49
26 25 0.49
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCATGATTA
Found at i:50073550 original size:20 final size:18
Alignment explanation
Indices: 50073505--50073542 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
50073495 ACTTAATGTT
50073505 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
50073523 ATATATGTGAATTATATA
1 ATATATGTGAATTATATA
50073541 AT
1 AT
50073543 TGTCATGTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.11, T:0.45
Consensus pattern (18 bp):
ATATATGTGAATTATATA
Found at i:50073919 original size:25 final size:26
Alignment explanation
Indices: 50073828--50073920 Score: 84
Period size: 25 Copynumber: 3.7 Consensus size: 26
50073818 GTCCCGTTAT
**
50073828 ATGGCTCTTCGTGAGCTTCCCGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
** * *
50073854 AAAGCTATTTGTGAGCTTCATGATTA
1 ATGGCTCTTCGTGAGCTTCATGATTA
* *
50073880 ATGGCTC-AC-TAGAGCTTCTTGATTA
1 ATGGCTCTTCGT-GAGCTTCATGATTA
50073905 ATGGCTCTTCG-GAGCT
1 ATGGCTCTTCGTGAGCT
50073921 ACCCGTTATT
Statistics
Matches: 51, Mismatches: 13, Indels: 7
0.72 0.18 0.10
Matches are distributed among these distances:
24 1 0.02
25 25 0.49
26 25 0.49
ACGTcount: A:0.22, C:0.20, G:0.23, T:0.35
Consensus pattern (26 bp):
ATGGCTCTTCGTGAGCTTCATGATTA
Found at i:50078529 original size:20 final size:20
Alignment explanation
Indices: 50078478--50078529 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 20
50078468 TTCAATTATG
50078478 ATTAAACTTAATCACTTTAAT
1 ATTAAA-TTAATCACTTTAAT
*
50078499 ATTAAGA-TAATCATTTTAAT
1 ATTAA-ATTAATCACTTTAAT
50078519 ATTAAATTAAT
1 ATTAAATTAAT
50078530 AAAATACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
19 1 0.04
20 21 0.75
21 5 0.18
22 1 0.04
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (20 bp):
ATTAAATTAATCACTTTAAT
Found at i:50081340 original size:21 final size:21
Alignment explanation
Indices: 50081274--50081351 Score: 68
Period size: 21 Copynumber: 3.7 Consensus size: 21
50081264 CTTGGGGCAA
* *
50081274 CTTCTTGGTGAGTTGATGTAG
1 CTTCTTGATGAGTTGAAGTAG
* * * *
50081295 CTTGTTGATGAGTTG-GGACAA
1 CTTCTTGATGAGTTGAAG-TAG
*
50081316 CTTCTTGGTGAGTTGAAGTAG
1 CTTCTTGATGAGTTGAAGTAG
*
50081337 CTTCTTAATGAGTTG
1 CTTCTTGATGAGTTG
50081352 GGGCAACCAC
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
20 1 0.02
21 41 0.95
22 1 0.02
ACGTcount: A:0.19, C:0.10, G:0.31, T:0.40
Consensus pattern (21 bp):
CTTCTTGATGAGTTGAAGTAG
Found at i:50081366 original size:42 final size:42
Alignment explanation
Indices: 50081265--50081358 Score: 152
Period size: 42 Copynumber: 2.2 Consensus size: 42
50081255 AGTTTTTCTC
* * *
50081265 TTGGGGCAACTTCTTGGTGAGTTGATGTAGCTTGTTGATGAG
1 TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
*
50081307 TTGGGACAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
1 TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
50081349 TTGGGGCAAC
1 TTGGGGCAAC
50081359 CACTTGGTTA
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 47 1.00
ACGTcount: A:0.20, C:0.12, G:0.33, T:0.35
Consensus pattern (42 bp):
TTGGGGCAACTTCTTGGTGAGTTGAAGTAGCTTCTTAATGAG
Found at i:50083442 original size:15 final size:15
Alignment explanation
Indices: 50083424--50083453 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
50083414 CTCTCAGAAT
50083424 TATCACTATCAGACA
1 TATCACTATCAGACA
*
50083439 TATCACTATTAGACA
1 TATCACTATCAGACA
50083454 CATTAAAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.23, G:0.07, T:0.30
Consensus pattern (15 bp):
TATCACTATCAGACA
Found at i:50083661 original size:44 final size:44
Alignment explanation
Indices: 50083608--50083809 Score: 176
Period size: 44 Copynumber: 4.8 Consensus size: 44
50083598 ACAAAAACAA
50083608 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * *
50083652 TTTAATACAAAGAAATCCA---TT-TC-TGC-TATG-TATA-A-
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * *
50083687 --TAA-CCAAACAAATTCGTTTATGTCATGCACATGCCATACAC
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
* * * * * * *
50083728 TTTAATACAAAGAAATCCATTTATGTCATGTACAATAACCAAACAA
1 TTTAATACAAACAAATTCATTTTTGTCATGCAC-AT-GCCATACAC
50083774 TTTAATACAAACAAATTCATTTTTGTCATGCACATG
1 TTTAATACAAACAAATTCATTTTTGTCATGCACATG
50083810 GTAGACAATA
Statistics
Matches: 120, Mismatches: 24, Indels: 28
0.70 0.14 0.16
Matches are distributed among these distances:
32 9 0.08
33 3 0.03
35 1 0.01
36 3 0.03
37 6 0.05
38 6 0.05
39 6 0.05
40 3 0.03
41 2 0.02
43 3 0.03
44 39 0.32
45 4 0.03
46 35 0.29
ACGTcount: A:0.40, C:0.20, G:0.08, T:0.33
Consensus pattern (44 bp):
TTTAATACAAACAAATTCATTTTTGTCATGCACATGCCATACAC
Found at i:50083711 original size:76 final size:76
Alignment explanation
Indices: 50083615--50083773 Score: 266
Period size: 76 Copynumber: 2.1 Consensus size: 76
50083605 CAATTTAATA
* *
50083615 CAAACAAATTCATTTTTGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTCTG-CT
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTC-
*
50083679 ATGTATAATAAC
65 ATGTACAATAAC
*
50083691 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
1 CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
50083756 TGTACAATAAC
66 TGTACAATAAC
50083767 CAAACAA
1 CAAACAA
50083774 TTTAATACAA
Statistics
Matches: 78, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
76 77 0.99
77 1 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.30
Consensus pattern (76 bp):
CAAACAAATTCATTTATGTCATGCACATGCCATACACTTTAATACAAAGAAATCCATTTATGTCA
TGTACAATAAC
Found at i:50083795 original size:46 final size:44
Alignment explanation
Indices: 50083691--50083808 Score: 146
Period size: 46 Copynumber: 2.6 Consensus size: 44
50083681 GTATAATAAC
* * * *
50083691 CAAACAAATTCGTTTATGTCATGCACATGCCATACACTTTAATA
1 CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
* * *
50083735 CAAAGAAATCCATTTATGTCATGTACAATAACCAAACAATTTAATA
1 CAAACAAATTCATTTATGTCATGCAC-AT-ACCAAACAATTTAATA
*
50083781 CAAACAAATTCATTTTTGTCATGCACAT
1 CAAACAAATTCATTTATGTCATGCACAT
50083809 GGTAGACAAT
Statistics
Matches: 61, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
44 22 0.36
45 4 0.07
46 35 0.57
ACGTcount: A:0.41, C:0.20, G:0.08, T:0.31
Consensus pattern (44 bp):
CAAACAAATTCATTTATGTCATGCACATACCAAACAATTTAATA
Found at i:50084214 original size:11 final size:11
Alignment explanation
Indices: 50084198--50084233 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 11
50084188 CATACACAAT
50084198 TTTGAATCATA
1 TTTGAATCATA
50084209 TTTGAATCATA
1 TTTGAATCATA
50084220 TGTTTGAATCATA
1 --TTTGAATCATA
50084233 T
1 T
50084234 GTAACCTAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
11 12 0.52
13 11 0.48
ACGTcount: A:0.33, C:0.08, G:0.11, T:0.47
Consensus pattern (11 bp):
TTTGAATCATA
Found at i:50084227 original size:13 final size:13
Alignment explanation
Indices: 50084198--50084235 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
50084188 CATACACAAT
50084198 TTTGAATCATA--
1 TTTGAATCATATG
50084209 TTTGAATCATATG
1 TTTGAATCATATG
50084222 TTTGAATCATATG
1 TTTGAATCATATG
50084235 T
1 T
50084236 AACCTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
11 11 0.44
13 14 0.56
ACGTcount: A:0.32, C:0.08, G:0.13, T:0.47
Consensus pattern (13 bp):
TTTGAATCATATG
Found at i:50086636 original size:39 final size:37
Alignment explanation
Indices: 50086569--50086661 Score: 98
Period size: 39 Copynumber: 2.5 Consensus size: 37
50086559 ACCAGAATGG
* *
50086569 CACCCAGTGCCTCATCGGATAGTTCGAAGCAATAGTTGA
1 CACCCAGTGCCTCATCGGAAAGTCCGAAG-AA-AGTTGA
* *
50086608 CACCCAGTGTCTCATCGGCAAAG-CCGAAGAAAGTTGG
1 CACCCAGTGCCTCATCGG-AAAGTCCGAAGAAAGTTGA
* *
50086645 TACCCAGTACCTCATCG
1 CACCCAGTGCCTCATCG
50086662 AATCTATCCG
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
37 19 0.41
38 2 0.04
39 22 0.48
40 3 0.07
ACGTcount: A:0.28, C:0.29, G:0.23, T:0.20
Consensus pattern (37 bp):
CACCCAGTGCCTCATCGGAAAGTCCGAAGAAAGTTGA
Found at i:50087024 original size:3 final size:3
Alignment explanation
Indices: 50087016--50087069 Score: 90
Period size: 3 Copynumber: 18.0 Consensus size: 3
50087006 ATTCCCACTC
*
50087016 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA CTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
50087064 TTA ATA
1 ATA ATA
50087070 CTTACCTCAC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:50087837 original size:19 final size:19
Alignment explanation
Indices: 50087792--50087831 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
50087782 TTTGTTTTGT
*
50087792 TTTTATTT-CTTTACTTTC
1 TTTTATTTACTTTACTTTA
50087810 TTTTATTTACTTTACTTTA
1 TTTTATTTACTTTACTTTA
50087829 TTT
1 TTT
50087832 CTTTTATTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.72
Consensus pattern (19 bp):
TTTTATTTACTTTACTTTA
Found at i:50087991 original size:5 final size:5
Alignment explanation
Indices: 50087983--50088037 Score: 53
Period size: 5 Copynumber: 11.2 Consensus size: 5
50087973 TATTTAATTT
* *
50087983 ATATA ATATA ATACA ATATA ATATA TTATATT ATATA ATA-A A-ATA ATAT-
1 ATATA ATATA ATATA ATATA ATATA --ATATA ATATA ATATA ATATA ATATA
50088032 ATATA A
1 ATATA A
50088038 AACATAAAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
3 1 0.02
4 8 0.20
5 28 0.68
7 4 0.10
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (5 bp):
ATATA
Found at i:50088012 original size:27 final size:25
Alignment explanation
Indices: 50087981--50088033 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 25
50087971 TCTATTTAAT
50087981 TTATATAATATAATACAATATAATATA
1 TTATATAATATAATA-AA-ATAATATA
*
50088008 TTATATTATATAATAAAATAATATA
1 TTATATAATATAATAAAATAATATA
50088033 T
1 T
50088034 ATAAAACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
25 9 0.36
26 2 0.08
27 14 0.56
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (25 bp):
TTATATAATATAATAAAATAATATA
Found at i:50089458 original size:38 final size:36
Alignment explanation
Indices: 50089362--50089463 Score: 96
Period size: 39 Copynumber: 2.7 Consensus size: 36
50089352 GCCCCGACCC
** *
50089362 CAATTATATATTAAATATATATATTTTTATTTTTAAT
1 CAATTATATATTAAATATATAT-TTTAGACTTTTAAT
* * *
50089399 CAAATATACTTTTTATTATATATATTTTAGACTTTTAATT
1 CAATTATA--TATTA-AATATATATTTTAGACTTTTAA-T
50089439 CGAATTATATATTAAATATATATTT
1 C-AATTATATATTAAATATATATTT
50089464 ATTTTTAATT
Statistics
Matches: 51, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
37 7 0.14
38 10 0.20
39 18 0.35
40 10 0.20
41 6 0.12
ACGTcount: A:0.39, C:0.05, G:0.02, T:0.54
Consensus pattern (36 bp):
CAATTATATATTAAATATATATTTTAGACTTTTAAT
Found at i:50103101 original size:26 final size:25
Alignment explanation
Indices: 50103069--50103121 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 25
50103059 AATATGATTT
*
50103069 AATAAATTGTATATTTATTGTATAAA
1 AATAAATTGTATATTTATT-CATAAA
*
50103095 AATAAATTTTATATTTATTCATAAA
1 AATAAATTGTATATTTATTCATAAA
50103120 AA
1 AA
50103122 ATATTTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
25 7 0.28
26 18 0.72
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (25 bp):
AATAAATTGTATATTTATTCATAAA
Done.