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 61 of 182
Found at i:18827813 original size:451 final size:439
Alignment explanation
Indices: 18826971--18827907 Score: 1381
Period size: 451 Copynumber: 2.1 Consensus size: 439
18826961 AACATGTTCG
* * *
18826971 TATTTCAACCATTTGTTCGTATTTTTTTCCCAAATTTTATTACTTTAAAAAAATATATTATTTTC
1 TATTTCAACCCTTTGTTCGTATTTTTTTCTCAGATTTTATTACTTT-AAAAAATATATTATTTTC
18827036 TAATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTTTGATTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTTTGATTTT
18827101 TAAATAAATTAAAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTTATTACTT
130 TAAATAAATTAAAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTTATTACTT
* *
18827166 CCAGTAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAA
195 CCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTACGTTTGAAA
* * *
18827231 TGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACCCTTATTTTGGCCTTTTTTCGTAT
260 TGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTTTGCCCTTTATTCGTAT
*
18827296 TTTTTCTCAAATTTTATTACTTTAAAAAATTATACTATTTTCTAATTTTATTATTTTACATTATT
325 TTTTTCTCAAATTTTATTACTTTAAAAAAATATACTATTTTCTAA--TT-TTA---T-CATTA--
18827361 TTAGTACATTATTTTTGAAATGTATTCA-TTAGTGTGTTTTTTAAAT-AATTTAAAAAAAC-AT
381 -TA-T--ATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTT-AAAAAACTAT
* *
18827422 TATTTCAACCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTT-AATAATATATTATTTTCG
1 TATTTCAACCCTTTGTTCGTATTTTTTTCTCAGATTTTATTACTTTAAAAAATATATTATTTTC-
18827486 T-ATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTTTGATTTT
65 TAATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTTTGATTTT
* * * *
18827550 TAAATAAATTTAAAAAAACCATTATTTCGGCTC-TTTGTTCGTATTTTTTTCCCGGATTTTATTG
130 TAAATAAA-TTAAAAAAAAC-TTATTTCGAC-CATTTGTTCGCATTTTTTTCCCGGATTTTATTA
*
18827614 CTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTACGTTTG
192 CTTCCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTACGTTTG
*
18827679 AAATTTATTAATTTACTGTG-TTTTTAAATAAA-TTAAAAAAA-ACTTATTTCTGCCCTTTATTC
257 AAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTT-TGCCCTTTATTC
** * *
18827741 GTATTTTTTTCTCCGGATTTTATTATTTTAAAAAAATATACTATTTTCTAATTTTATTATTATAT
321 GTA-TTTTTTCT-CAAATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATCATTATAT
*
18827806 ATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAACTTT
384 ATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAACTAT
**
18827862 TATTTCGGCCCTTTGTTCGTATTTTTTT-TCCAGATTTTATTACTTT
1 TATTTCAACCCTTTGTTCGTATTTTTTTCT-CAGATTTTATTACTTT
18827908 TAATTTATTT
Statistics
Matches: 450, Mismatches: 25, Indels: 33
0.89 0.05 0.06
Matches are distributed among these distances:
438 21 0.05
439 26 0.06
440 48 0.11
441 2 0.00
444 4 0.01
445 1 0.00
448 10 0.02
449 111 0.25
450 31 0.07
451 195 0.43
452 1 0.00
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (439 bp):
TATTTCAACCCTTTGTTCGTATTTTTTTCTCAGATTTTATTACTTTAAAAAATATATTATTTTCT
AATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTTTGATTTTT
AAATAAATTAAAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTTATTACTTC
CAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTACGTTTGAAAT
GTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTTTGCCCTTTATTCGTATT
TTTTCTCAAATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTTATCATTATATATTATTT
TTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAACTAT
Found at i:18828004 original size:451 final size:443
Alignment explanation
Indices: 18827094--18828000 Score: 1052
Period size: 451 Copynumber: 2.0 Consensus size: 443
18827084 TCATTTAGTT
18827094 TGATTTTTAAATAAATTAAAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTT
1 TGATTTTTAAATAAATTAAAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTT
* *
18827159 ATTACTTCCAGTAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTATG
66 ATTACTTCCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTACG
* * *
18827224 TTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACCCTTATTTTGGCCTTTT
131 TTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTTTGCCCTTTA
*
18827289 TTCGTATTTTTTCTCAAATTTTATTACTTTAAAAAATTATACTATTTTCTAATTTTATTATTTTA
196 TTCGTATTTTTTCTCAAATTTTATTACTTTAAAAAAATATACTATTTTCTAA-TTTATTA-TTTA
18827354 CATTATTTTAGTACATTATTTTTGAAATGTATTCATTAGTGTGTTTTTTAAATAATTTAAAAAAA
259 -ATTA--TTAGTA-ATTATTTTTGAAATGTATTCATTAGTGTGTTTTTTAAATAATTTAAAAAAA
* ** ****
18827419 CATTATTTCAACCCTTTGTTCGTATTTTTTTCTCGGATTTTATTACTTTAATAATATATTATTTT
320 CATTATTTCAACCCTTTGTTCGTATTTTTTTCTCAGATTTTATTACTTTAATAATATAAAAAACA
* * * * * * * * * *** * * ** * *
18827484 CGTATTTTATTATTTTACATTATTTTAGTACATTATTTTTGAAATGTATTCATTTAGTT
385 CGTAATTAATAATTTAACATTAATGTACTAAATGATTTAAAAAATGAATACAAATAATA
* * *
18827543 TGATTTTTAAATAAATTTAAAAAAACCATTATTTCGGCTC-TTTGTTCGTATTTTTTTCCCGGAT
1 TGATTTTTAAATAAA-TTAAAAAAAAC-TTATTTCGAC-CATTTGTTCGCATTTTTTTCCCGGAT
* *
18827607 TTTATTGCTTTCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATT
63 TTTATTACTTCCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATT
*
18827672 ACGTTTGAAATTTATTAATTTACTGTG-TTTTTAAATAAA-TTAAAAAAA-ACTTATTTCTGCCC
128 ACGTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTT-TGCCC
** *
18827734 TTTATTCGTATTTTTTTCTCCGGATTTTATTATTTTAAAAAAATATACTATTTTCTAA-TT-TTA
192 TTTATTCGTA-TTTTTTCT-CAAATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTATTA
18827797 -TT-ATTA-TA-T-ATTATTTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTT-AAAA
255 TTTAATTATTAGTAATTATTTTTGAAATGTATTCA-TTAGTGTGTTTTTTAAAT-AATTTAAAAA
* ** * *
18827856 AACTTTTATTTCGGCCCTTTGTTCGTATTTTTTT-TCCAGATTTTATTACTTTTAATTTATTTAA
318 AAC-ATTATTTCAACCCTTTGTTCGTATTTTTTTCT-CAGATTTTATTAC-TTTAA-TAATATAA
18827920 AAAACACAGTAAATTAATAAATTTCAAACA-TAATGTACTAAAATGATTTAAAATAATGAAATAC
379 AAAACAC-GT-AATTAAT-AATTT--AACATTAATGTACT-AAATGATTTAAAA-AATG-AATAC
18827984 AAAAATAATA
436 --AAATAATA
18827994 T-ATTTTT
1 TGATTTTT
18828001 TAAAAGTAAT
Statistics
Matches: 391, Mismatches: 45, Indels: 43
0.82 0.09 0.09
Matches are distributed among these distances:
438 21 0.05
439 26 0.07
440 45 0.12
441 7 0.02
442 7 0.02
443 2 0.01
444 9 0.02
445 4 0.01
446 8 0.02
447 11 0.03
448 14 0.04
449 42 0.11
450 36 0.09
451 158 0.40
452 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.07, T:0.51
Consensus pattern (443 bp):
TGATTTTTAAATAAATTAAAAAAAACTTATTTCGACCATTTGTTCGCATTTTTTTCCCGGATTTT
ATTACTTCCAATAAAAATATATTATTTTTGTATTTTATTATTTTACATTATTTTAGTACATTACG
TTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTAAAAAAACACTTATTTTGCCCTTTA
TTCGTATTTTTTCTCAAATTTTATTACTTTAAAAAAATATACTATTTTCTAATTTATTATTTAAT
TATTAGTAATTATTTTTGAAATGTATTCATTAGTGTGTTTTTTAAATAATTTAAAAAAACATTAT
TTCAACCCTTTGTTCGTATTTTTTTCTCAGATTTTATTACTTTAATAATATAAAAAACACGTAAT
TAATAATTTAACATTAATGTACTAAATGATTTAAAAAATGAATACAAATAATA
Found at i:18828228 original size:154 final size:152
Alignment explanation
Indices: 18827905--18828642 Score: 703
Period size: 154 Copynumber: 4.9 Consensus size: 152
18827895 ATTTTATTAC
* ** * * * *
18827905 TTTT-AATTTATTTAAAAAACACAGTAAATTAATAAATTTCAAACATAATGTACTAAAATGATTT
1 TTTTAAATTTATTTAAAAAATACAACAAATTAATACATTTCAAAAATAATGTACTAAAATAATGT
* * * ** * *
18827969 AAAATAATGAAAT-ACAAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAATAATACGAA
66 AAAATAATAAAATGA-GAAAATAATATATTTTTTTAAAGTAATAAAATTTGAGAAAAAATACGAA
* *
18828033 CAAATGGTCGAAATAAGGGTTTT
130 CAAAGGGCCGAAATAAGGGTTTT
** * * *
18828056 TTAAAAAAAATTATTTAAAAAATACAGCAAATTAATACATTTCAAATATAATGTACTAAAATAAT
1 TT--TTAAATTTATTTAAAAAATACAACAAATTAATACATTTCAAAAATAATGTACTAAAATAAT
*
18828121 GTAAAATAATAAAATGCGAAAATAATATATTTTTATTAAAAGTAATAAAATTTGAGAAAAAATAC
64 GTAAAATAATAAAATGAGAAAATAATATATTTTT-TT-AAAGTAATAAAATTTGAGAAAAAATAC
*
18828186 GAACAAAGGGCCGAAATAAGAGTTTT
127 GAACAAAGGGCCGAAATAAGGGTTTT
* * *
18828212 TTTTAAATTTACTT-AAAAAT-CAAACTAAATGAATACATTTCAAAAATAATGTAATAAAATAAT
1 TTTTAAATTTATTTAAAAAATAC-AAC-AAATTAATACATTTCAAAAATAATGTACTAAAATAAT
* * * * * *
18828275 ATAAAATTAGAAAATTAGAAAAT-A-GTATTTTTTT-AAGTAATAAAATCTGA-AAAAACAT---
64 GTAAAATAATAAAATGAGAAAATAATATATTTTTTTAAAGTAATAAAATTTGAGAAAAA-ATACG
* *
18828333 AA-TAA----TGAAATAAGGGTTTT
128 AACAAAGGGCCGAAATAAGGGTTTT
* * * * ** *
18828353 TTTAAAATTTATTTAAAAAACATAATAAATTAATACATTTCAAACCTAATGTACTAAAATAATTT
1 TTTTAAATTTATTTAAAAAATACAACAAATTAATACATTTCAAAAATAATGTACTAAAATAATGT
* *
18828418 AAAATAATAAAAT-AGGAAAATAATATATTTTTATTGAAAGTAAGAAAA-TTCAGGAAAAAAATA
66 AAAATAATAAAATGA-GAAAATAATATATTTTT-TT-AAAGTAATAAAATTTGA-G-AAAAAATA
* * *
18828481 CAAACAAAGGGGCGAAATAATGG-TTT
126 CGAACAAAGGGCCGAAATAAGGGTTTT
* *
18828507 TTTT-AATTTA-TTAAAAAAT-CAAACTAAATGAATAAATTTCAAAAATAATGTACTAAAATAAT
1 TTTTAAATTTATTTAAAAAATAC-AAC-AAATTAATACATTTCAAAAATAATGTACTAAAATAAT
* * *
18828569 GTAAAATAATAAAATTAAAAAATAATATA-TTTTTTAAAGTAATAAAATTTGAGAAAAAAATATG
64 GTAAAATAATAAAATGAGAAAATAATATATTTTTTTAAAGTAATAAAATTTGAG-AAAAAATACG
*
18828633 AATAAAGGGC
128 AACAAAGGGC
18828643 AAAAATACGA
Statistics
Matches: 482, Mismatches: 73, Indels: 65
0.78 0.12 0.10
Matches are distributed among these distances:
140 1 0.00
141 76 0.16
142 8 0.02
143 7 0.01
144 2 0.00
145 4 0.01
146 12 0.02
147 2 0.00
148 10 0.02
149 17 0.04
150 31 0.06
151 11 0.02
152 22 0.05
153 73 0.15
154 148 0.31
155 10 0.02
156 48 0.10
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.32
Consensus pattern (152 bp):
TTTTAAATTTATTTAAAAAATACAACAAATTAATACATTTCAAAAATAATGTACTAAAATAATGT
AAAATAATAAAATGAGAAAATAATATATTTTTTTAAAGTAATAAAATTTGAGAAAAAATACGAAC
AAAGGGCCGAAATAAGGGTTTT
Found at i:18828535 original size:153 final size:151
Alignment explanation
Indices: 18828339--18828630 Score: 396
Period size: 153 Copynumber: 1.9 Consensus size: 151
18828329 ACATAATAAT
* * **
18828339 GAAATAAGGGTTTTTTTAAAATTTATTTAAAAAACATAATAAATTAATACATTTCAAACCTAATG
1 GAAATAAGGGTTTTTTT-AAATTTATTTAAAAAACATAATAAATGAATAAATTTCAAAAATAATG
* *
18828404 TACTAAAATAATTTAAAATAATAAAA-TAGGAAAATAATATATTTTTATTGAAAGTAAGAAAATT
65 TACTAAAATAATGTAAAATAATAAAATTA-AAAAATAATATA-TTTT-TT-AAAGTAAGAAAATT
18828468 CAG-GAAAAAAATACAAACAAAGGGGC
126 -AGAGAAAAAAATACAAACAAAGGGGC
*
18828494 GAAATAATGGTTTTTTT-AATTTA-TTAAAAAATCA-AACTAAATGAATAAATTTCAAAAATAAT
1 GAAATAAGGGTTTTTTTAAATTTATTTAAAAAA-CATAA-TAAATGAATAAATTTCAAAAATAAT
* *
18828556 GTACTAAAATAATGTAAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATTTGA
64 GTACTAAAATAATGTAAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAAGAAAATTAGA
18828621 GAAAAAAATA
129 GAAAAAAATA
18828631 TGAATAAAGG
Statistics
Matches: 124, Mismatches: 9, Indels: 13
0.85 0.06 0.09
Matches are distributed among these distances:
149 1 0.01
150 23 0.19
151 2 0.02
152 14 0.11
153 66 0.53
154 2 0.02
155 16 0.13
ACGTcount: A:0.54, C:0.05, G:0.09, T:0.32
Consensus pattern (151 bp):
GAAATAAGGGTTTTTTTAAATTTATTTAAAAAACATAATAAATGAATAAATTTCAAAAATAATGT
ACTAAAATAATGTAAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAAGAAAATTAGAGA
AAAAAATACAAACAAAGGGGC
Found at i:18828604 original size:295 final size:301
Alignment explanation
Indices: 18827905--18828626 Score: 914
Period size: 295 Copynumber: 2.4 Consensus size: 301
18827895 ATTTTATTAC
* * * * * * *
18827905 TTTTAATTTATTTAAAAAA-CACAGTAAATTAATAAATTTCAAACATAATGTACTAAAATGATTT
1 TTTTAATTTACTTAAAAAATCAAACTAAATGAATAAATTTCAAAAATAATGTACTAAAATAATAT
* *
18827969 AAAATAATGAAA-TACAAAAATAATATATTTTTTAAAAGTAATAAAATCCGGGAAATAATACGAA
66 AAAATAATAAAATTA-AAAAATAATATATTTTTT-AAAGTAATAAAAT-C-TGAAA-AA-AC-AA
** * *
18828033 CAAATGGTCGAAATAAGGGTTTTTTAAAAAAAATTATTTAAAAAATACAGCAAATTAATACATTT
124 CAAATAATCGAAATAAGGGTTTTTT-AAAAAAATTATTTAAAAAACACAACAAATTAATACATTT
*
18828098 CAAATATAATGTACTAAAATAATGTAAAATAATAAAATGCGAAAATAATATATTTTTATTAAAAG
188 CAAACATAATGTACTAAAATAATGTAAAATAATAAAATGCGAAAATAATATATTTTTATTAAAAG
* * *
18828163 TAATAAAATTTGAGAAAAAATACGAACAAAGGGCCGAAATAAGAGTTTT
253 TAAGAAAATTGGAGAAAAAATACAAACAAAGGGCCGAAATAAGAGTTTT
* *
18828212 TTTTAAATTTACTT-AAAAATCAAACTAAATGAATACATTTCAAAAATAATGTAATAAAATAATA
1 TTTT-AATTTACTTAAAAAATCAAACTAAATGAATAAATTTCAAAAATAATGTACTAAAATAATA
* * * * *
18828276 TAAAATTAGAAAATTAGAAAATAGTAT-TTTTTT-AAGTAATAAAATCTGAAAAAAC-A-TAATA
65 TAAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATCTGAAAAAACAACAAATA
* * * * *
18828337 AT-GAAATAAGGGTTTTTT-TAAAATTTATTTAAAAAACATAATAAATTAATACATTTCAAACCT
130 ATCGAAATAAGGGTTTTTTAAAAAAATTATTTAAAAAACACAACAAATTAATACATTTCAAACAT
* *
18828400 AATGTACTAAAATAATTTAAAATAATAAAATAG-GAAAATAATATATTTTTATTGAAAGTAAGAA
195 AATGTACTAAAATAATGTAAAATAATAAAAT-GCGAAAATAATATATTTTTATTAAAAGTAAGAA
*
18828464 AATTCAGGA-AAAAAATACAAACAAAGGGGCGAAATAATG-G-TTT
259 AATT--GGAGAAAAAATACAAACAAAGGGCCGAAATAA-GAGTTTT
*
18828507 TTTTAATTTA-TTAAAAAATCAAACTAAATGAATAAATTTCAAAAATAATGTACTAAAATAATGT
1 TTTTAATTTACTTAAAAAATCAAACTAAATGAATAAATTTCAAAAATAATGTACTAAAATAATAT
*
18828571 AAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATTTGAGAAAAA
66 AAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATCTGA-AAAAA
18828627 AATATGAATA
Statistics
Matches: 364, Mismatches: 40, Indels: 32
0.83 0.09 0.07
Matches are distributed among these distances:
293 2 0.01
294 76 0.21
295 113 0.31
296 43 0.12
297 24 0.07
298 4 0.01
299 1 0.00
301 2 0.01
302 2 0.01
303 4 0.01
304 1 0.00
305 12 0.03
307 15 0.04
308 63 0.17
309 2 0.01
ACGTcount: A:0.54, C:0.06, G:0.09, T:0.32
Consensus pattern (301 bp):
TTTTAATTTACTTAAAAAATCAAACTAAATGAATAAATTTCAAAAATAATGTACTAAAATAATAT
AAAATAATAAAATTAAAAAATAATATATTTTTTAAAGTAATAAAATCTGAAAAAACAACAAATAA
TCGAAATAAGGGTTTTTTAAAAAAATTATTTAAAAAACACAACAAATTAATACATTTCAAACATA
ATGTACTAAAATAATGTAAAATAATAAAATGCGAAAATAATATATTTTTATTAAAAGTAAGAAAA
TTGGAGAAAAAATACAAACAAAGGGCCGAAATAAGAGTTTT
Found at i:18829761 original size:13 final size:13
Alignment explanation
Indices: 18829743--18829767 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18829733 GTTTCTGATT
18829743 TTATATTTAATAA
1 TTATATTTAATAA
18829756 TTATATTTAATA
1 TTATATTTAATA
18829768 TTTTTTTTTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATTTAATAA
Found at i:18833213 original size:12 final size:12
Alignment explanation
Indices: 18833196--18833221 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
18833186 ATTGTTTGAT
18833196 TCACTATCATCA
1 TCACTATCATCA
18833208 TCACTATCATCA
1 TCACTATCATCA
18833220 TC
1 TC
18833222 GTCGTCGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.35, G:0.00, T:0.35
Consensus pattern (12 bp):
TCACTATCATCA
Found at i:18834393 original size:72 final size:73
Alignment explanation
Indices: 18834302--18834476 Score: 259
Period size: 72 Copynumber: 2.4 Consensus size: 73
18834292 AAAATTACAT
*
18834302 ATAAACAACTATTGATAAAACTAATTTAGTAAA-AAATAAGTAGAACATAAATTCAATA-TCTAA
1 ATAAACAACTATTGATAAAACTAATTTAGCAAATAAATAAGTAGAACATAAATTCAATATTC-AA
*
18834365 AGACCAAAC
65 AAACCAAAC
*
18834374 ATAAACAACTATTAATAAAACTAGA-TTA-CAAATAAATAAGTAGAACATAAATTCAATATTCAA
1 ATAAACAACTATTGATAAAACTA-ATTTAGCAAATAAATAAGTAGAACATAAATTCAATATTCAA
18834437 AAACCAAAC
65 AAACCAAAC
* *
18834446 ATAAATAACTATTGATAAAACTAGTTTAGCA
1 ATAAACAACTATTGATAAAACTAATTTAGCA
18834477 TTGTTGTTTA
Statistics
Matches: 92, Mismatches: 6, Indels: 9
0.86 0.06 0.08
Matches are distributed among these distances:
71 3 0.03
72 84 0.91
73 5 0.05
ACGTcount: A:0.55, C:0.13, G:0.06, T:0.26
Consensus pattern (73 bp):
ATAAACAACTATTGATAAAACTAATTTAGCAAATAAATAAGTAGAACATAAATTCAATATTCAAA
AACCAAAC
Found at i:18837293 original size:26 final size:26
Alignment explanation
Indices: 18837263--18837379 Score: 173
Period size: 26 Copynumber: 4.5 Consensus size: 26
18837253 GGTGGAGAAG
18837263 AGGAACAAAGAACCGGCAGAGGGCAA
1 AGGAACAAAGAACCGGCAGAGGGCAA
*
18837289 AGGAACAAAGAACCGACAGAGGGCAA
1 AGGAACAAAGAACCGGCAGAGGGCAA
*
18837315 GGGAACAAAGAACCGGCAGAGGGCAA
1 AGGAACAAAGAACCGGCAGAGGGCAA
* * * *
18837341 AGGAACAAAGAACCAGTATAGGGC-G
1 AGGAACAAAGAACCGGCAGAGGGCAA
18837366 AGGAACAAAGAACC
1 AGGAACAAAGAACC
18837380 AACGATAAGA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
25 14 0.17
26 69 0.83
ACGTcount: A:0.47, C:0.19, G:0.32, T:0.02
Consensus pattern (26 bp):
AGGAACAAAGAACCGGCAGAGGGCAA
Found at i:18854241 original size:24 final size:24
Alignment explanation
Indices: 18854214--18854265 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
18854204 TTAGTAAGTC
*
18854214 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
18854238 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
18854262 AAAT
1 AAAT
18854266 CTTCTAGAAA
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:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:18858386 original size:17 final size:18
Alignment explanation
Indices: 18858352--18858386 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
18858342 TTTAATCCCA
*
18858352 GTGAAAAATATAATTCTC
1 GTGAAAAATATAAATCTC
18858370 GTGAAAAATA-AAATCTC
1 GTGAAAAATATAAATCTC
18858387 TTCTCCAACC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.49, C:0.11, G:0.11, T:0.29
Consensus pattern (18 bp):
GTGAAAAATATAAATCTC
Found at i:18860688 original size:29 final size:29
Alignment explanation
Indices: 18860656--18860718 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
18860646 AAAAATTCCA
*
18860656 AAAATATTAGAGATTTAATTAA-AAGTTTT
1 AAAATATTAAAGATTTAA-TAAGAAGTTTT
* * *
18860685 AAAATTTTAAAGGTTTAATAAGAATTTTT
1 AAAATATTAAAGATTTAATAAGAAGTTTT
18860714 AAAAT
1 AAAAT
18860719 TCTAAAAGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
28 3 0.10
29 26 0.90
ACGTcount: A:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (29 bp):
AAAATATTAAAGATTTAATAAGAAGTTTT
Found at i:18862439 original size:139 final size:139
Alignment explanation
Indices: 18862256--18862646 Score: 441
Period size: 141 Copynumber: 2.8 Consensus size: 139
18862246 TCTCCTACTC
* * *
18862256 ATATATTTTT-TTTCATGTTACTTTAAGCTTTTTTAATTTCTAATT-A-ATTTTTAATATATTAG
1 ATAT-TTTTTATTTCATGTTGCTTTAAGCTTTTTAAATTTTTAATTAATATTTTTAATATATTAG
* * * *
18862318 TTCTTTAATTAGATGGTTAGATAATTGCAATTACATTCTTGAGT-CTATAGTTAAATTCCTCTTC
65 TTCTTTAGTTAGATGGTTAGATAATTGCAATTACATTCTTGAGTCCCA-AATTAAATTCCTCTAC
18862382 TACTCATATTT
129 TACTCATATTT
*
18862393 ATATTTTTTTTATTTCATGTTGCTTTAAGCTTTTTAAATTTTTAATTAATATTTTTAACATATTA
1 ATA--TTTTTTATTTCATGTTGCTTTAAGCTTTTTAAATTTTTAATTAATATTTTTAATATATTA
* * * * *
18862458 GTTCTTTCGTTAGATGGTTAGATAGTTGTAATTACA-TCATTGAATCCCAAATTCAATTCCTCTA
64 GTTCTTTAGTTAGATGGTTAGATAATTGCAATTACATTC-TTGAGTCCCAAATTAAATTCCTCTA
18862522 CTACTCATATTT
128 CTACTCATATTT
* * *
18862534 GTATTTTTTATTTCATGTTGCTTCAAGTTTTTTTTAAAATTTTTTAATTAATATTTTTAATATAT
1 ATATTTTTTATTTCATGTTGCTTTAAG--CTTTTT-AAA-TTTTTAATTAATATTTTTAATATAT
* * * * * ** *
18862599 TAACTCCTTTTGTTTGATGATTAGATAATTGCGCTTACATCCTTGAGT
62 T-AGTTCTTTAGTTAGATGGTTAGATAATTGCAATTACATTCTTGAGT
18862647 TTGAGGTTCC
Statistics
Matches: 213, Mismatches: 28, Indels: 19
0.82 0.11 0.07
Matches are distributed among these distances:
137 3 0.01
138 5 0.02
139 56 0.26
140 3 0.01
141 82 0.38
142 5 0.02
143 25 0.12
144 33 0.15
145 1 0.00
ACGTcount: A:0.28, C:0.11, G:0.09, T:0.52
Consensus pattern (139 bp):
ATATTTTTTATTTCATGTTGCTTTAAGCTTTTTAAATTTTTAATTAATATTTTTAATATATTAGT
TCTTTAGTTAGATGGTTAGATAATTGCAATTACATTCTTGAGTCCCAAATTAAATTCCTCTACTA
CTCATATTT
Found at i:18862925 original size:41 final size:38
Alignment explanation
Indices: 18862823--18862928 Score: 108
Period size: 41 Copynumber: 2.6 Consensus size: 38
18862813 TATAAAAATG
*
18862823 ATTAAAAACAAAAAATACATTAATTAAAAATTAAAAAA
1 ATTAAAAATAAAAAATACATTAATTAAAAATTAAAAAA
*
18862861 ATTTAAAAATATAATCAAA-ACATTAATTAAAAAAACTTAAAACA
1 A-TTAAAAATA-AA--AAATACATTAATT--AAAAA-TTAAAAAA
18862905 A-TAAGAAATAAAAAATACATTAAT
1 ATTAA-AAATAAAAAATACATTAAT
18862929 ATGTTTATAA
Statistics
Matches: 57, Mismatches: 2, Indels: 15
0.77 0.03 0.20
Matches are distributed among these distances:
38 1 0.02
39 8 0.14
40 5 0.09
41 17 0.30
42 8 0.14
43 10 0.18
44 8 0.14
ACGTcount: A:0.67, C:0.07, G:0.01, T:0.25
Consensus pattern (38 bp):
ATTAAAAATAAAAAATACATTAATTAAAAATTAAAAAA
Found at i:18871485 original size:26 final size:26
Alignment explanation
Indices: 18871449--18871515 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
18871439 CGGCCCGGCC
* * *
18871449 TATTTTTAAAATAAACATTAAAAAAT
1 TATTTTAAAAATAAAAATAAAAAAAT
18871475 TATTTTAAAAATAAAAAAATAAAAAAAT
1 TATTTTAAAAAT--AAAAATAAAAAAAT
18871503 TATTTTAAAAATA
1 TATTTTAAAAATA
18871516 TATATATTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 12 0.33
28 24 0.67
ACGTcount: A:0.63, C:0.01, G:0.00, T:0.36
Consensus pattern (26 bp):
TATTTTAAAAATAAAAATAAAAAAAT
Found at i:18872145 original size:19 final size:20
Alignment explanation
Indices: 18872103--18872145 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
18872093 TTAAAATACT
* * *
18872103 TTTAAAATATTTTTTTTATT
1 TTTAAAATATATTTTTAATG
18872123 TTTAAAATA-ATTTTTAATG
1 TTTAAAATATATTTTTAATG
18872142 TTTA
1 TTTA
18872146 TTTTAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (20 bp):
TTTAAAATATATTTTTAATG
Found at i:18872150 original size:30 final size:31
Alignment explanation
Indices: 18872085--18872151 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
18872075 TATTTTTATT
* *
18872085 TTTTAATTTTAAAATACTTTTAAAATATTTT
1 TTTTAATTTTAAAATAATTTTAAAATATTTA
* * *
18872116 TTTTATTTTTAAAATAATTTT-TAATGTTTA
1 TTTTAATTTTAAAATAATTTTAAAATATTTA
18872146 TTTTAA
1 TTTTAA
18872152 AAATGGGTCG
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
30 11 0.37
31 19 0.63
ACGTcount: A:0.36, C:0.01, G:0.01, T:0.61
Consensus pattern (31 bp):
TTTTAATTTTAAAATAATTTTAAAATATTTA
Found at i:18872794 original size:61 final size:62
Alignment explanation
Indices: 18872698--18872816 Score: 213
Period size: 61 Copynumber: 1.9 Consensus size: 62
18872688 CTTAAAGATC
* *
18872698 AATCAAAAACAACCTAGAGCTTAATTATTTCATACATTTTCTTATAAACACTTGTGAGCTTT
1 AATCAAAAACAACCTAGAGCTTAATTATTTCATACATTTTCTTAAAAACACTTCTGAGCTTT
18872760 AATC-AAAACAACCTAGAGCTTAATTATTTCATACATTTTCTTAAAAACACTTCTGAG
1 AATCAAAAACAACCTAGAGCTTAATTATTTCATACATTTTCTTAAAAACACTTCTGAG
18872817 ATTTCATTAT
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
61 51 0.93
62 4 0.07
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (62 bp):
AATCAAAAACAACCTAGAGCTTAATTATTTCATACATTTTCTTAAAAACACTTCTGAGCTTT
Found at i:18873326 original size:23 final size:23
Alignment explanation
Indices: 18873264--18873331 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
18873254 ACGATACACG
18873264 AGCACAAAAGTGTTGGAAA-CACT
1 AGCACAAAAGTGTT-GAAATCACT
** *
18873287 AGCACTGAAGTGCTGAAATCACT
1 AGCACAAAAGTGTTGAAATCACT
*
18873310 AGCACCAAAGTGTTGAAATCAC
1 AGCACAAAAGTGTTGAAATCAC
18873332 AAACTATCAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
22 4 0.11
23 34 0.89
ACGTcount: A:0.40, C:0.21, G:0.21, T:0.19
Consensus pattern (23 bp):
AGCACAAAAGTGTTGAAATCACT
Found at i:18875602 original size:30 final size:31
Alignment explanation
Indices: 18875558--18875619 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
18875548 AATATAATAT
* *
18875558 AATATAAAACAAAGAAATAAAA-GAAATAGA
1 AATAGAAAACAAAGAAAGAAAACGAAATAGA
*
18875588 AATAGAAAAGAAAGAAAGAAAACGAAATAGA
1 AATAGAAAACAAAGAAAGAAAACGAAATAGA
18875619 A
1 A
18875620 GGGAAAAAGA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 19 0.68
31 9 0.32
ACGTcount: A:0.73, C:0.03, G:0.15, T:0.10
Consensus pattern (31 bp):
AATAGAAAACAAAGAAAGAAAACGAAATAGA
Found at i:18875608 original size:25 final size:26
Alignment explanation
Indices: 18875568--18875619 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 26
18875558 AATATAAAAC
18875568 AAAGAAATAAAAGAAATA-GAAATAGA
1 AAAGAAATAAAAGAAA-ACGAAATAGA
*
18875594 AAAGAAA-GAAAGAAAACGAAATAGA
1 AAAGAAATAAAAGAAAACGAAATAGA
18875619 A
1 A
18875620 GGGAAAAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 1 0.04
25 16 0.67
26 7 0.29
ACGTcount: A:0.73, C:0.02, G:0.17, T:0.08
Consensus pattern (26 bp):
AAAGAAATAAAAGAAAACGAAATAGA
Found at i:18875625 original size:25 final size:25
Alignment explanation
Indices: 18875568--18875636 Score: 70
Period size: 25 Copynumber: 2.7 Consensus size: 25
18875558 AATATAAAAC
18875568 AAAGAAATA-AAAGAAATAGAAATAGA
1 AAAGAAA-AGAAAGAAA-AGAAATAGA
18875594 AAAG-AAAGAAAGAAAACGAAATAGA
1 AAAGAAAAGAAAGAAAA-GAAATAGA
**
18875619 AGGGAAAAAGAAAGAAAA
1 AAAG-AAAAGAAAGAAAA
18875637 AGGAAAGAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
24 2 0.05
25 19 0.51
26 4 0.11
27 12 0.32
ACGTcount: A:0.72, C:0.01, G:0.20, T:0.06
Consensus pattern (25 bp):
AAAGAAAAGAAAGAAAAGAAATAGA
Found at i:18875626 original size:30 final size:31
Alignment explanation
Indices: 18875563--18875635 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 31
18875553 AATATAATAT
* * *
18875563 AAAACAAAGAAATAAAAGAAATAGAAATAG-
1 AAAAGAAAGAAAGAAAAGAAATAGAAAGAGA
*
18875593 AAAAGAAAGAAAGAAAACGAAATAG-AAGGGA
1 AAAAGAAAGAAAGAAAA-GAAATAGAAAGAGA
18875624 AAAAGAAAGAAA
1 AAAAGAAAGAAA
18875636 AAGGAAAGAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 18 0.49
31 19 0.51
ACGTcount: A:0.73, C:0.03, G:0.19, T:0.05
Consensus pattern (31 bp):
AAAAGAAAGAAAGAAAAGAAATAGAAAGAGA
Found at i:18876340 original size:30 final size:27
Alignment explanation
Indices: 18876304--18876372 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 27
18876294 ACATTTTCAT
18876304 ATTGAATTGATTTTAAATTGATGGGAATTG
1 ATTGAATTGATTTTAAATTG-T--GAATTG
* *
18876334 ATTGAATTGA-TATATATTGTGAATTG
1 ATTGAATTGATTTTAAATTGTGAATTG
18876360 ATTG-ATTGATTTT
1 ATTGAATTGATTTT
18876373 TTTGAATTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
25 5 0.14
26 12 0.34
28 1 0.03
29 7 0.20
30 10 0.29
ACGTcount: A:0.32, C:0.00, G:0.20, T:0.48
Consensus pattern (27 bp):
ATTGAATTGATTTTAAATTGTGAATTG
Found at i:18881875 original size:8 final size:8
Alignment explanation
Indices: 18881862--18881887 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
18881852 TAAATGATAC
18881862 TTTATTAT
1 TTTATTAT
18881870 TTTATTAT
1 TTTATTAT
18881878 TTTATTAT
1 TTTATTAT
18881886 TT
1 TT
18881888 AGTATATATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTATTAT
Found at i:18886388 original size:41 final size:41
Alignment explanation
Indices: 18886262--18886396 Score: 173
Period size: 41 Copynumber: 3.3 Consensus size: 41
18886252 GCTTCATGCT
* *
18886262 GGTGATTTATATCAGGCTCTGTGCCTAGCAAGCCTCGTTTT
1 GGTGATTTATATCAGGCTCTGTGCCTAGCAAGCTTCGTTTC
* * **
18886303 GGTGATTTGTATCAGGCTCTGTGCCTAGTAAGCTTCGTGCC
1 GGTGATTTATATCAGGCTCTGTGCCTAGCAAGCTTCGTTTC
* * *
18886344 GGTGATTTATATCAGACTTTGTGCCTAGCAAGCTTTGTTTC
1 GGTGATTTATATCAGGCTCTGTGCCTAGCAAGCTTCGTTTC
18886385 GGTG-TGTTATAT
1 GGTGAT-TTATAT
18886397 AGGTAACTGG
Statistics
Matches: 80, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
40 1 0.01
41 79 0.99
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.39
Consensus pattern (41 bp):
GGTGATTTATATCAGGCTCTGTGCCTAGCAAGCTTCGTTTC
Found at i:18887259 original size:10 final size:10
Alignment explanation
Indices: 18887246--18887277 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
18887236 TTGGTATCAT
18887246 TTGATGCTAG
1 TTGATGCTAG
18887256 TTGATGCTAG
1 TTGATGCTAG
*
18887266 TTGATGTTAG
1 TTGATGCTAG
18887276 TT
1 TT
18887278 AGTTTATGAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.19, C:0.06, G:0.28, T:0.47
Consensus pattern (10 bp):
TTGATGCTAG
Found at i:18911498 original size:11 final size:11
Alignment explanation
Indices: 18911443--18911499 Score: 64
Period size: 11 Copynumber: 5.3 Consensus size: 11
18911433 TACCTAATTT
*
18911443 TTTTATTGTTA
1 TTTTATTATTA
*
18911454 -TTTATTATCA
1 TTTTATTATTA
*
18911464 TTTTGTTATTA
1 TTTTATTATTA
18911475 TATTT-TTATTA
1 T-TTTATTATTA
18911486 TTTTATTATTA
1 TTTTATTATTA
18911497 TTT
1 TTT
18911500 AGATATTGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
10 11 0.28
11 25 0.64
12 3 0.08
ACGTcount: A:0.23, C:0.02, G:0.04, T:0.72
Consensus pattern (11 bp):
TTTTATTATTA
Found at i:18921424 original size:23 final size:25
Alignment explanation
Indices: 18921383--18921433 Score: 63
Period size: 23 Copynumber: 2.1 Consensus size: 25
18921373 TTTTTCCTTA
*
18921383 TTTTCTCTCACTTTGTTTTTGA-ATT
1 TTTTATCTCACTTTGTTTTT-ATATT
18921408 TTTTATCT-ACTTT-TTTTTATATT
1 TTTTATCTCACTTTGTTTTTATATT
18921431 TTT
1 TTT
18921434 AGAATTTCTA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 1 0.04
23 11 0.46
24 5 0.21
25 7 0.29
ACGTcount: A:0.14, C:0.12, G:0.04, T:0.71
Consensus pattern (25 bp):
TTTTATCTCACTTTGTTTTTATATT
Found at i:18928347 original size:124 final size:124
Alignment explanation
Indices: 18928049--18928627 Score: 991
Period size: 124 Copynumber: 4.7 Consensus size: 124
18928039 GTTTCTGGTG
* * * * **
18928049 AAATAGTATAAAATCGCTTATACCATGATGCTATTTGAGAAGAAATTGTGAAATCACGCCCTCAT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
* * * *
18928114 GGACGCGATTTCGCTACAGTAGGTCATGTAAGAAAT-AA-TTTTTTGACGTTTCTGAGC
66 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
* *** * *
18928171 AAATAGTATAAAATCGCTTCTACCAAGATGCTATTTGAGAAGAAATTGTGAAATCGTGCCCTCGT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
18928236 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
66 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
18928295 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
18928360 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
66 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
18928419 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
18928484 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
66 GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
18928543 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
1 AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
*
18928608 GAACGTGATTTTGCTACAGT
66 GGACGTGATTTTGCTACAGT
18928628 AGCAAGTTTG
Statistics
Matches: 439, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
122 92 0.21
123 2 0.00
124 345 0.79
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (124 bp):
AAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGTGAAATCACACCTTTGT
GGACGTGATTTTGCTACAGTTGGTCGTGTAAGAAATAAATTTTTTTGACGTTTCTGAGC
Found at i:18929796 original size:10 final size:10
Alignment explanation
Indices: 18929781--18929828 Score: 51
Period size: 10 Copynumber: 4.6 Consensus size: 10
18929771 ATATAAAAAA
18929781 TTAAAATTAT
1 TTAAAATTAT
**
18929791 TTAAAAAAAAT
1 TT-AAAATTAT
*
18929802 ATAAAATTAT
1 TTAAAATTAT
18929812 TTAAAATTATT
1 TTAAAATTA-T
18929823 TTAAAA
1 TTAAAA
18929829 AATGAAATTG
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
10 16 0.53
11 14 0.47
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (10 bp):
TTAAAATTAT
Found at i:18929800 original size:20 final size:21
Alignment explanation
Indices: 18929775--18929817 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
18929765 ATGAAAATAT
18929775 AAAAAAT-TAAAATTATTTAA
1 AAAAAATATAAAATTATTTAA
18929795 AAAAAATATAAAATTATTTAA
1 AAAAAATATAAAATTATTTAA
18929816 AA
1 AA
18929818 TTATTTTAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAAAATATAAAATTATTTAA
Found at i:18929819 original size:31 final size:29
Alignment explanation
Indices: 18929768--18929830 Score: 90
Period size: 31 Copynumber: 2.1 Consensus size: 29
18929758 GCCATTGATG
18929768 AAAATATAAAAAATTAAAATTATTTAAAA
1 AAAATATAAAAAATTAAAATTATTTAAAA
* *
18929797 AAAATATAAAATTATTTAAAATTATTTTAAA
1 AAAATATAAAA--AATTAAAATTATTTAAAA
18929828 AAA
1 AAA
18929831 TGAAATTGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 11 0.37
31 19 0.63
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATATAAAAAATTAAAATTATTTAAAA
Found at i:18929900 original size:22 final size:23
Alignment explanation
Indices: 18929865--18929968 Score: 88
Period size: 22 Copynumber: 4.4 Consensus size: 23
18929855 AAATATGGAT
*
18929865 TTGAGA-GAAGTTTGGAAGGAAA
1 TTGAGAGGAATTTTGGAAGGAAA
* **
18929887 TTGAGAGGAA-TTTGAAATTAAA
1 TTGAGAGGAATTTTGGAAGGAAA
*
18929909 TATGGGTTTGAGAGAATTTTGGAAGGAAA
1 T-T--G--AGAG-GAATTTTGGAAGGAAA
18929938 TTGAGA-GAATTTTGGAAGGAAA
1 TTGAGAGGAATTTTGGAAGGAAA
18929960 TTGAGAGGA
1 TTGAGAGGA
18929969 TTAGAGAGGA
Statistics
Matches: 65, Mismatches: 8, Indels: 17
0.72 0.09 0.19
Matches are distributed among these distances:
22 38 0.58
23 6 0.09
24 2 0.03
25 1 0.02
26 1 0.02
27 3 0.05
28 4 0.06
29 10 0.15
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.28
Consensus pattern (23 bp):
TTGAGAGGAATTTTGGAAGGAAA
Found at i:18929908 original size:51 final size:51
Alignment explanation
Indices: 18929832--18929949 Score: 193
Period size: 51 Copynumber: 2.3 Consensus size: 51
18929822 TTTAAAAAAT
* *
18929832 GAAATTGAGGGGAAATTGAAATTAAATATGGATTTGAGAGAAGTTTGGAAG
1 GAAATTGAGAGGAATTTGAAATTAAATATGGATTTGAGAGAAGTTTGGAAG
* *
18929883 GAAATTGAGAGGAATTTGAAATTAAATATGGGTTTGAGAGAATTTTGGAAG
1 GAAATTGAGAGGAATTTGAAATTAAATATGGATTTGAGAGAAGTTTGGAAG
18929934 GAAATTGAGA-GAATTT
1 GAAATTGAGAGGAATTT
18929950 TGGAAGGAAA
Statistics
Matches: 63, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
50 6 0.10
51 57 0.90
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (51 bp):
GAAATTGAGAGGAATTTGAAATTAAATATGGATTTGAGAGAAGTTTGGAAG
Found at i:18933814 original size:172 final size:172
Alignment explanation
Indices: 18933522--18933855 Score: 560
Period size: 172 Copynumber: 1.9 Consensus size: 172
18933512 TAACTCGTGG
* *
18933522 TTTTTGATTCTTCTATATTTTTATCCCTTCAATTGTTTCTTTTAACCTTGTCAAGTTTCTTCTTC
1 TTTTTGATTCTTCTATATTTTTATCCCTTCAATTGTTTCTTTTAACCTTATAAAGTTTCTTCTTC
* *
18933587 AGTCTGATGTCTCTCTAGTCTTTACTATAATAGTTTGGAGTATTTTCCTAATGCTTTGTACTTCT
66 AGTCTGATGTCTCACTAGTCTTTACTATAATAGTTTGGAGTATTTTCCTAATGCTTTGTACATCT
* *
18933652 AGGGATTTGTGTTTACATTTGCCGAATTTCTTTACTATTATA
131 AGGAATTTGTGTTTACATTTGCCGAAGTTCTTTACTATTATA
* *
18933694 TTTTTTATTCTTCTATATTTTTATCCCTTCAATTGTTTCTTTTAACCTTATAAAGTTTCTTCTTT
1 TTTTTGATTCTTCTATATTTTTATCCCTTCAATTGTTTCTTTTAACCTTATAAAGTTTCTTCTTC
* * *
18933759 GGTCTGATGTCTCACTAGTCTTTACTATAATATTTTGGAGTATTTTGCTAATGCTTTGTACATCT
66 AGTCTGATGTCTCACTAGTCTTTACTATAATAGTTTGGAGTATTTTCCTAATGCTTTGTACATCT
*
18933824 AGGAATTTGTGTTTACATTTGCCTAAGTTCTT
131 AGGAATTTGTGTTTACATTTGCCGAAGTTCTT
18933856 GGGTGCTTTG
Statistics
Matches: 150, Mismatches: 12, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
172 150 1.00
ACGTcount: A:0.20, C:0.16, G:0.12, T:0.52
Consensus pattern (172 bp):
TTTTTGATTCTTCTATATTTTTATCCCTTCAATTGTTTCTTTTAACCTTATAAAGTTTCTTCTTC
AGTCTGATGTCTCACTAGTCTTTACTATAATAGTTTGGAGTATTTTCCTAATGCTTTGTACATCT
AGGAATTTGTGTTTACATTTGCCGAAGTTCTTTACTATTATA
Found at i:18942592 original size:18 final size:17
Alignment explanation
Indices: 18942569--18942603 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
18942559 GAATAGATTT
18942569 TTAATTAAATAAATTTAA
1 TTAATTAAA-AAATTTAA
18942587 TTAATTAAAAAATTTAA
1 TTAATTAAAAAATTTAA
18942604 ACCCTAAATC
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAATTAAAAAATTTAA
Found at i:18943956 original size:27 final size:27
Alignment explanation
Indices: 18943899--18943962 Score: 83
Period size: 27 Copynumber: 2.4 Consensus size: 27
18943889 GGTTTGTCAT
* * *
18943899 AGGCGGCACCAAAGGTGCCAGTGGCAG
1 AGGCGGCACCAAAGGTGCCACTGCCAC
* *
18943926 AGGCAGCACCAAAGGTGTCACTGCCAC
1 AGGCGGCACCAAAGGTGCCACTGCCAC
18943953 AGGCGGCACC
1 AGGCGGCACC
18943963 CCAGCCTTAT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.27, C:0.31, G:0.34, T:0.08
Consensus pattern (27 bp):
AGGCGGCACCAAAGGTGCCACTGCCAC
Found at i:18944034 original size:3 final size:3
Alignment explanation
Indices: 18944026--18944133 Score: 80
Period size: 3 Copynumber: 36.7 Consensus size: 3
18944016 AAAGGAAAGG
*
18944026 AGA AGA AGA AGA AGA AGA AG- AGA AGA AGA AG- AGA AGA AGA AGA AGG
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
* * * * * * * *
18944072 GGA AGG AGG CGC AGA AGGA AGA AAA AGGA A-A AGA AAA AG- AGA AGG
1 AGA AGA AGA AGA AGA A-GA AGA AGA A-GA AGA AGA AGA AGA AGA AGA
*
18944117 AGA AGA AGA AGA GGA AG
1 AGA AGA AGA AGA AGA AG
18944134 GGAAGGAAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
2 8 0.10
3 69 0.84
4 5 0.06
ACGTcount: A:0.59, C:0.02, G:0.39, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:18944051 original size:11 final size:11
Alignment explanation
Indices: 18944006--18944068 Score: 78
Period size: 11 Copynumber: 5.8 Consensus size: 11
18943996 TGCACGAAGG
18944006 AGAAGAA-AGA
1 AGAAGAAGAGA
*
18944016 A-AAGGAA-AGG
1 AGAA-GAAGAGA
18944026 AGAAGAAGAAGA
1 AGAAGAAG-AGA
18944038 AGAAGAAGAGA
1 AGAAGAAGAGA
18944049 AGAAGAAGAGA
1 AGAAGAAGAGA
18944060 AGAAGAAGA
1 AGAAGAAGA
18944069 AGGGGAAGGA
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
9 2 0.04
10 10 0.21
11 25 0.53
12 10 0.21
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (11 bp):
AGAAGAAGAGA
Found at i:18944051 original size:14 final size:14
Alignment explanation
Indices: 18944029--18944125 Score: 69
Period size: 14 Copynumber: 7.1 Consensus size: 14
18944019 GGAAAGGAGA
18944029 AGAAGAAGAAGAAG
1 AGAAGAAGAAGAAG
18944043 A-AGAGAAGAAGAAG
1 AGA-AGAAGAAGAAG
18944057 AGAAGAAGAAGAAG
1 AGAAGAAGAAGAAG
* * **
18944071 -G-GGAAGGAGGCG
1 AGAAGAAGAAGAAG
*
18944083 CAGAAGGAAGAAAAAG
1 -AGAA-GAAGAAGAAG
*
18944099 -GAA-AAGAAAAAG
1 AGAAGAAGAAGAAG
*
18944111 AGAAGGAGAAGAAG
1 AGAAGAAGAAGAAG
18944125 A
1 A
18944126 AGAGGAAGGG
Statistics
Matches: 64, Mismatches: 11, Indels: 16
0.70 0.12 0.18
Matches are distributed among these distances:
12 16 0.25
13 5 0.08
14 36 0.56
15 1 0.02
16 6 0.09
ACGTcount: A:0.60, C:0.02, G:0.38, T:0.00
Consensus pattern (14 bp):
AGAAGAAGAAGAAG
Found at i:18944063 original size:31 final size:30
Alignment explanation
Indices: 18944025--18944133 Score: 91
Period size: 31 Copynumber: 3.6 Consensus size: 30
18944015 AAAAGGAAAG
18944025 GAGAAGAAGAAGAAGAAGAAGAGAAGAAGAA
1 GAGAAGAAGAAGAAGAAGAAGAGAAG-AGAA
** **
18944056 GAGAAGAAGAAGAAGGGGAAGGAGGCGCAGAA
1 GAGAAGAAGAAGAAGAAGAA-GAGAAG-AGAA
*
18944088 G-GAAGAAAAAGGAA-AAGAA-A-AAGAGAA
1 GAGAAGAAGAA-GAAGAAGAAGAGAAGAGAA
*
18944115 GGAGAAGAAGAAGAGGAAG
1 -GAGAAGAAGAAGAAGAAG
18944134 GGAAGGAAAA
Statistics
Matches: 61, Mismatches: 12, Indels: 12
0.72 0.14 0.14
Matches are distributed among these distances:
27 4 0.07
28 4 0.07
29 12 0.20
31 29 0.48
32 12 0.20
ACGTcount: A:0.59, C:0.02, G:0.39, T:0.00
Consensus pattern (30 bp):
GAGAAGAAGAAGAAGAAGAAGAGAAGAGAA
Found at i:18944122 original size:17 final size:17
Alignment explanation
Indices: 18944096--18944151 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
18944086 AAGGAAGAAA
*
18944096 AAGGAAAAGAAAAAGAG
1 AAGGAGAAGAAAAAGAG
*
18944113 AAGGAGAAGAAGAAGAGG
1 AAGGAGAAGAAAAAGA-G
18944131 AAGG-GAAGGAAAAAGA-
1 AAGGAGAA-GAAAAAGAG
18944147 AAGGA
1 AAGGA
18944152 AAAAAAATAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
16 4 0.12
17 17 0.52
18 12 0.36
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (17 bp):
AAGGAGAAGAAAAAGAG
Found at i:18944395 original size:16 final size:16
Alignment explanation
Indices: 18944374--18944424 Score: 54
Period size: 16 Copynumber: 3.3 Consensus size: 16
18944364 TTTTAATTTT
18944374 TATGTTATGTACATTC
1 TATGTTATGTACATTC
*
18944390 TATGTT-T-TATTATT-
1 TATGTTATGTA-CATTC
*
18944404 TATGTTATGTACATAC
1 TATGTTATGTACATTC
18944420 TATGT
1 TATGT
18944425 CTTATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 8
0.72 0.08 0.21
Matches are distributed among these distances:
14 8 0.29
15 7 0.25
16 13 0.46
ACGTcount: A:0.25, C:0.08, G:0.12, T:0.55
Consensus pattern (16 bp):
TATGTTATGTACATTC
Found at i:18944398 original size:30 final size:31
Alignment explanation
Indices: 18944364--18944472 Score: 116
Period size: 30 Copynumber: 3.4 Consensus size: 31
18944354 CATAATTTAA
18944364 TTTTAATT-TTTATGTTATGTACATTCTATG
1 TTTTAATTATTTATGTTATGTACATTCTATG
*
18944394 TTTT-ATTATTTATGTTATGTACATACTATG
1 TTTTAATTATTTATGTTATGTACATTCTATG
*
18944424 TCTTATTATTTTATTATTTATGTTATATACATTCTATG
1 --TT-TTA----ATTATTTATGTTATGTACATTCTATG
18944462 TTTT-ATTATTT
1 TTTTAATTATTT
18944473 TATTTAATTT
Statistics
Matches: 67, Mismatches: 3, Indels: 18
0.76 0.03 0.20
Matches are distributed among these distances:
29 3 0.04
30 32 0.48
32 2 0.03
33 2 0.03
35 2 0.03
36 2 0.03
38 24 0.36
ACGTcount: A:0.25, C:0.06, G:0.07, T:0.61
Consensus pattern (31 bp):
TTTTAATTATTTATGTTATGTACATTCTATG
Found at i:18944437 original size:38 final size:38
Alignment explanation
Indices: 18944394--18944476 Score: 139
Period size: 38 Copynumber: 2.2 Consensus size: 38
18944384 ACATTCTATG
*
18944394 TTTTATTATTTATGTTATGTACATACTATGTCTTATTA
1 TTTTATTATTTATGTTATATACATACTATGTCTTATTA
* *
18944432 TTTTATTATTTATGTTATATACATTCTATGTTTTATTA
1 TTTTATTATTTATGTTATATACATACTATGTCTTATTA
18944470 TTTTATT
1 TTTTATT
18944477 TAATTTATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.63
Consensus pattern (38 bp):
TTTTATTATTTATGTTATATACATACTATGTCTTATTA
Found at i:18944686 original size:17 final size:17
Alignment explanation
Indices: 18944602--18944686 Score: 50
Period size: 17 Copynumber: 5.1 Consensus size: 17
18944592 TATGTTTATG
18944602 AAAAAAT-AAAATACGA
1 AAAAAATAAAAATACGA
*
18944618 AAAGAAATAAAAA-ATGA
1 AAA-AAATAAAAATACGA
* * * **
18944635 AAATAGTATATTTACTGA
1 AAAAAATAAAAATAC-GA
** *
18944653 AAGTAAT-AAAATCCGA
1 AAAAAATAAAAATACGA
18944669 AAAAAATAAAAATACGA
1 AAAAAATAAAAATACGA
18944686 A
1 A
18944687 CAAATGGCCA
Statistics
Matches: 48, Mismatches: 16, Indels: 9
0.66 0.22 0.12
Matches are distributed among these distances:
16 14 0.29
17 23 0.48
18 11 0.23
ACGTcount: A:0.66, C:0.06, G:0.09, T:0.19
Consensus pattern (17 bp):
AAAAAATAAAAATACGA
Found at i:18945026 original size:157 final size:157
Alignment explanation
Indices: 18944623--18945289 Score: 925
Period size: 156 Copynumber: 4.4 Consensus size: 157
18944613 TACGAAAAGA
* * ** * * *
18944623 AATAAAAAATGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAATAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
* * *
18944688 AAATGGCCAAAATAAGGGGTTTTTTTACTAAATTTATATAAAAATACACTAAAATAATACATTTC
66 AAAGGGCCAAAATAA-GGG-TTTTTTACTAAATTTATATAAAAAAACACTAAATTAATACATTTC
18944753 AAACATTATGTACTAAAATAATAT--AA-
129 AAACATTATGTACTAAAATAATATAAAAT
* *
18944779 AAT---A-A-GAAAATTGTATATTTTTTGAAAGTAATAAAATTTGAAAATAAGAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
*
18944839 AAATGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAATTAATACATTTCAA
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAATTAATACATTTCAA
18944904 ACATTATGTACTAAAATAATATAAAAT
131 ACATTATGTACTAAAATAATATAAAAT
* *
18944931 AATAAAATACGAAAATAGTATATTTTTTGTAAGTAATAAAATCTGAAAATAAGAAAAATCCGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
*
18944996 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAATACTAAATTAATACATTTCAA
66 AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAATTAATACATTTCAA
*
18945060 ACTTTATGTACTAAAATAATATAAAAT
131 ACATTATGTACTAAAATAATATAAAAT
* *
18945087 AATAAAATGCGAAAATAATATATTTTTTGAAAGTAATAAAAT-TCGAAAATAAGAAAAATACGAA
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCT-GAAAATAAGAAAAATACGAA
18945151 CAAAGGGCCAAAATAAGGG-TTTTTACTAAATTTATATAAAAAAAGACACT-AA--AATA-A--T
65 CAAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAA-ACACTAAATTAATACATTT
18945209 ---ACA-T-T-T-C-AAAATAATATAAAAT
128 CAAACATTATGTACTAAAATAATATAAAAT
* *
18945231 AAAAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAAT
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAAT
18945290 CTGAAAATCA
Statistics
Matches: 472, Mismatches: 26, Indels: 38
0.88 0.05 0.07
Matches are distributed among these distances:
144 69 0.15
145 1 0.00
146 1 0.00
147 1 0.00
148 1 0.00
149 69 0.15
150 3 0.01
151 65 0.14
152 5 0.01
153 1 0.00
154 1 0.00
155 24 0.05
156 133 0.28
157 94 0.20
158 4 0.01
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (157 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCTGAAAATAAGAAAAATACGAAC
AAAGGGCCAAAATAAGGGTTTTTTACTAAATTTATATAAAAAAACACTAAATTAATACATTTCAA
ACATTATGTACTAAAATAATATAAAAT
Found at i:18945170 original size:313 final size:295
Alignment explanation
Indices: 18944623--18945290 Score: 932
Period size: 313 Copynumber: 2.2 Consensus size: 295
18944613 TACGAAAAGA
* * ** * * *
18944623 AATAAAAAATGAAAATAGTATATTTACTGAAAGTAATAAAATCCGAAAAAAATAAAAATACGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATCCGAAC
*
18944688 AAATGGCCAAAATAAGGGGTTTTTTTACTAAATTTATATAAAAATACACTAAAATAATACATTTC
66 AAAGGGCCAAAATAAGGGGTTTTTTTACTAAATTTATATAAAAATACACTAAAATAATACATTTC
** *
18944753 AAACATTATGTACTAAAATAATATAAAATAAGAAAATTGTATATTTTTTGAAAGTAATAAAATTT
131 AAACATTATGTACTAAAATAATATAAAATAAGAAAATAATATATTTTTTGAAAGTAATAAAATTC
*
18944818 GAAAATAAGAAAAATACGAACAAATGGCCAAAATAAGGGTTTTTTACTAAATTTATAT-AAAAAA
196 GAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGG-TTTTTACTAAATTTATATAAAAAAA
18944882 -ACACTAAATTAATACATTTCAAACATTATGTACTAAAATAATATAAAAT
260 GACACT-AA--AATA-A--T---ACA-T-T-T-C-AAAATAATATAAAAT
* *
18944931 AATAAAATACGAAAATAGTATATTTTTTGTAAGTAATAAAATCTGAAAATAAGAAAAATCCGAAC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATCCGAAC
* *
18944996 AAAGGGCCAAAATAA-GGG-TTTTTTACTAAATTTATATAAAAA-ATACTAAATTAATACATTTC
66 AAAGGGCCAAAATAAGGGGTTTTTTTACTAAATTTATATAAAAATACACTAAAATAATACATTTC
*
18945058 AAACTTTATGTACTAAAATAATATAAAATAATAAAATGCGAAAATAATATATTTTTTGAAAGTAA
131 AAACATTATGTACTAAAATAATAT--AA-AAT--AA---GAAAATAATATATTTTTTGAAAGTAA
18945123 TAAAATTCGAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTACTAAATTTATAT
188 TAAAATTCGAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTACTAAATTTATAT
18945188 AAAAAAAGACACTAAAATAATACATTTCAAAATAATATAAAAT
253 AAAAAAAGACACTAAAATAATACATTTCAAAATAATATAAAAT
*
18945231 AAAAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATC
1 AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATC
18945291 TGAAAATCAG
Statistics
Matches: 330, Mismatches: 20, Indels: 28
0.87 0.05 0.07
Matches are distributed among these distances:
300 72 0.22
301 1 0.00
302 1 0.00
303 1 0.00
304 1 0.00
305 44 0.13
306 24 0.07
307 5 0.02
308 74 0.22
310 3 0.01
311 4 0.01
312 18 0.05
313 77 0.23
314 5 0.02
ACGTcount: A:0.54, C:0.08, G:0.09, T:0.29
Consensus pattern (295 bp):
AATAAAATACGAAAATAGTATATTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATCCGAAC
AAAGGGCCAAAATAAGGGGTTTTTTTACTAAATTTATATAAAAATACACTAAAATAATACATTTC
AAACATTATGTACTAAAATAATATAAAATAAGAAAATAATATATTTTTTGAAAGTAATAAAATTC
GAAAATAAGAAAAATACGAACAAAGGGCCAAAATAAGGGTTTTTACTAAATTTATATAAAAAAAG
ACACTAAAATAATACATTTCAAAATAATATAAAAT
Found at i:18945290 original size:17 final size:17
Alignment explanation
Indices: 18945268--18945303 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
18945258 TGAAAGTAAT
18945268 AAAATCCGAAAATAAGA
1 AAAATCCGAAAATAAGA
* *
18945285 AAAATCTGAAAATCAGA
1 AAAATCCGAAAATAAGA
18945302 AA
1 AA
18945304 TATACATTGA
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:0.64, C:0.11, G:0.11, T:0.14
Consensus pattern (17 bp):
AAAATCCGAAAATAAGA
Found at i:18947621 original size:23 final size:23
Alignment explanation
Indices: 18947576--18947622 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
18947566 TAAAAATAAT
*
18947576 AACTAACAATAATATAATGTAAA
1 AACTAACAATAATATAATCTAAA
*
18947599 AACTAACAATCATACTAA-CTAAA
1 AACTAACAATAATA-TAATCTAAA
18947622 A
1 A
18947623 TAATAATTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 18 0.86
24 3 0.14
ACGTcount: A:0.60, C:0.15, G:0.02, T:0.23
Consensus pattern (23 bp):
AACTAACAATAATATAATCTAAA
Found at i:18948880 original size:15 final size:17
Alignment explanation
Indices: 18948849--18948880 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
18948839 ATCAATAGAA
18948849 AATTATGACAGATTGAC
1 AATTATGACAGATTGAC
18948866 AATT-TGACA-ATTGAC
1 AATTATGACAGATTGAC
18948881 TTTATCACAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 6 0.40
16 5 0.33
17 4 0.27
ACGTcount: A:0.41, C:0.12, G:0.16, T:0.31
Consensus pattern (17 bp):
AATTATGACAGATTGAC
Found at i:18955672 original size:44 final size:45
Alignment explanation
Indices: 18955618--18955710 Score: 120
Period size: 44 Copynumber: 2.1 Consensus size: 45
18955608 ATTATAACAT
* *
18955618 CATTCTATTCAACCAAACACA-AGAA-TACTATTACAG-TTCTATTC
1 CATTCCATTCAACCAAACA-ATAGAATTACTATTAC-GCCTCTATTC
*
18955662 CATTCCATTCAACCAAACAATTGAATTACTATTACGCCTCTATTC
1 CATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTATTC
18955707 CATT
1 CATT
18955711 ACAGCTCTAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 1 0.02
44 22 0.51
45 20 0.47
ACGTcount: A:0.35, C:0.27, G:0.04, T:0.33
Consensus pattern (45 bp):
CATTCCATTCAACCAAACAATAGAATTACTATTACGCCTCTATTC
Found at i:18955718 original size:16 final size:16
Alignment explanation
Indices: 18955699--18955747 Score: 80
Period size: 16 Copynumber: 3.1 Consensus size: 16
18955689 ACTATTACGC
18955699 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
* *
18955715 CTCTATTCTATTACAC
1 CTCTATTCCATTACAG
18955731 CTCTATTCCATTACAG
1 CTCTATTCCATTACAG
18955747 C
1 C
18955748 GAACCAAATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 29 1.00
ACGTcount: A:0.24, C:0.33, G:0.04, T:0.39
Consensus pattern (16 bp):
CTCTATTCCATTACAG
Found at i:18958455 original size:10 final size:9
Alignment explanation
Indices: 18958412--18958585 Score: 55
Period size: 10 Copynumber: 17.9 Consensus size: 9
18958402 TTGTTTTGAA
*
18958412 TTTTATAAG
1 TTTTATAAT
*
18958421 GTTTATAAT
1 TTTTATAAT
*
18958430 TATTCAT-A-
1 T-TTTATAAT
18958438 TTTTATAAT
1 TTTTATAAT
18958447 TTATTATAAT
1 TT-TTATAAT
*
18958457 ATTTATAAGT
1 TTTTATAA-T
*
18958467 TTTTATGAGTT
1 TTTTAT-A-AT
*
18958478 TTATTATAAA
1 TT-TTATAAT
*
18958488 ATTTATAAT
1 TTTTATAAT
* *
18958497 TTTATAGAAA
1 TTT-TATAAT
* *
18958507 TTTCAAATAT
1 TTTTATA-AT
**
18958517 GTTTTATTTTT
1 -TTTTA-TAAT
18958528 TTTTATAAT
1 TTTTATAAT
* *
18958537 TCATTAGAATT
1 T-TTTATAA-T
18958548 TTTTATAAGT
1 TTTTATAA-T
18958558 TTTTATGAAT
1 TTTTAT-AAT
18958568 TTTTATAAGT
1 TTTTATAA-T
*
18958578 TTATATAA
1 TTTTATAA
18958586 ATTTGTAATG
Statistics
Matches: 119, Mismatches: 30, Indels: 31
0.66 0.17 0.17
Matches are distributed among these distances:
7 4 0.03
8 2 0.02
9 31 0.26
10 64 0.54
11 14 0.12
12 4 0.03
ACGTcount: A:0.35, C:0.02, G:0.06, T:0.57
Consensus pattern (9 bp):
TTTTATAAT
Found at i:18958570 original size:20 final size:20
Alignment explanation
Indices: 18958547--18958589 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
18958537 TCATTAGAAT
* *
18958547 TTTTTATAAGTTTTTATGAA
1 TTTTTATAAGTTTATATAAA
18958567 TTTTTATAAGTTTATATAAA
1 TTTTTATAAGTTTATATAAA
18958587 TTT
1 TTT
18958590 GTAATGTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTATAAGTTTATATAAA
Found at i:18959824 original size:29 final size:29
Alignment explanation
Indices: 18959781--18959839 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
18959771 AAAATATATT
18959781 AAAGTTAATCAAAATTGCATGGTAGACTA
1 AAAGTTAATCAAAATTGCATGGTAGACTA
*
18959810 AAAGTTAATCGAAATTGCATGGTAGACTA
1 AAAGTTAATCAAAATTGCATGGTAGACTA
18959839 A
1 A
18959840 GCTTTGAACC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.44, C:0.10, G:0.19, T:0.27
Consensus pattern (29 bp):
AAAGTTAATCAAAATTGCATGGTAGACTA
Found at i:18962483 original size:13 final size:13
Alignment explanation
Indices: 18962465--18962489 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
18962455 GACTTGAATA
18962465 ATGTTTTGATGAT
1 ATGTTTTGATGAT
18962478 ATGTTTTGATGA
1 ATGTTTTGATGA
18962490 CATAAATGTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (13 bp):
ATGTTTTGATGAT
Found at i:18967473 original size:20 final size:20
Alignment explanation
Indices: 18967430--18967476 Score: 58
Period size: 20 Copynumber: 2.3 Consensus size: 20
18967420 GTCGTTAAAA
* **
18967430 AATATATATAATTATTCATTT
1 AATAT-TATAACTATTCAAAT
18967451 AATATTATAACTATTCAAAT
1 AATATTATAACTATTCAAAT
18967471 AATATT
1 AATATT
18967477 GTTTGAATAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (20 bp):
AATATTATAACTATTCAAAT
Found at i:18968235 original size:2 final size:2
Alignment explanation
Indices: 18968228--18968261 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
18968218 AATAACAATG
* *
18968228 TA TA TA TA TA TA TC TA TA TG TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
18968262 CTAGGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:18972865 original size:22 final size:22
Alignment explanation
Indices: 18972818--18972862 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18972808 ATGCAATCTT
*
18972818 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
18972840 AGATATGATTTTCTAATATTAGA
1 AGATATGATATGC-AATATTAGA
18972863 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:18973186 original size:3 final size:3
Alignment explanation
Indices: 18973178--18973208 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18973168 TTGTTATTAA
*
18973178 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18973209 CTATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18973260 original size:28 final size:29
Alignment explanation
Indices: 18973206--18973265 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
18973196 ATTATTATTA
* * * *
18973206 TTACTATATATATACATACGTATATTTTT
1 TTACAATATATATACATACATACATTTGT
*
18973235 TTACAATA-ATATATATACATACATTTGT
1 TTACAATATATATACATACATACATTTGT
18973263 TTA
1 TTA
18973266 AAAAACTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.48
Consensus pattern (29 bp):
TTACAATATATATACATACATACATTTGT
Found at i:18977726 original size:22 final size:22
Alignment explanation
Indices: 18977679--18977723 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
18977669 ATGCAATCTT
*
18977679 AGATATGATATGCAATCTTAGA
1 AGATATGATATGCAATATTAGA
* *
18977701 AGATATGATTTTCTAATATTAGA
1 AGATATGATATGC-AATATTAGA
18977724 GATTTAATTT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 11 0.58
23 8 0.42
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.38
Consensus pattern (22 bp):
AGATATGATATGCAATATTAGA
Found at i:18978047 original size:3 final size:3
Alignment explanation
Indices: 18978039--18978069 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
18978029 TTGTTATTAA
*
18978039 ATT ATT ATT GTT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
18978070 CTATATATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:18978121 original size:28 final size:29
Alignment explanation
Indices: 18978067--18978126 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
18978057 ATTATTATTA
* * * *
18978067 TTACTATATATATACATACGTATATTTTT
1 TTACAATATATATACATACATACATTTGT
*
18978096 TTACAATA-ATATATATACATACATTTGT
1 TTACAATATATATACATACATACATTTGT
18978124 TTA
1 TTA
18978127 AAAAACTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 19 0.73
29 7 0.27
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.48
Consensus pattern (29 bp):
TTACAATATATATACATACATACATTTGT
Found at i:18981128 original size:26 final size:27
Alignment explanation
Indices: 18981068--18981129 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
18981058 AACTTTAATT
**
18981068 TTTCAAATAAGAAATGGAGAGACTAAA
1 TTTCAAATAAGAAATAAAGAGACTAAA
***
18981095 TCAGAAATAA-AAATAAAGAGACTAAA
1 TTTCAAATAAGAAATAAAGAGACTAAA
18981121 TTTCAAATA
1 TTTCAAATA
18981130 TTTCAAAAAG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
26 20 0.74
27 7 0.26
ACGTcount: A:0.56, C:0.08, G:0.13, T:0.23
Consensus pattern (27 bp):
TTTCAAATAAGAAATAAAGAGACTAAA
Found at i:18986160 original size:22 final size:22
Alignment explanation
Indices: 18986096--18986161 Score: 62
Period size: 22 Copynumber: 3.0 Consensus size: 22
18986086 CGGCCGAAAC
*
18986096 CAGTGGGCAACCTTCCAATCCCT
1 CAGTGAGCAACCTTCCAAT-CCT
* * * *
18986119 CATCTGAACAAGCTT-TAATCCT
1 CA-GTGAGCAACCTTCCAATCCT
18986141 CAGTGAGCAACCTTCCAATCC
1 CAGTGAGCAACCTTCCAATCC
18986162 CTCGGCTGAT
Statistics
Matches: 32, Mismatches: 9, Indels: 5
0.70 0.20 0.11
Matches are distributed among these distances:
21 9 0.28
22 10 0.31
23 5 0.16
24 8 0.25
ACGTcount: A:0.27, C:0.35, G:0.14, T:0.24
Consensus pattern (22 bp):
CAGTGAGCAACCTTCCAATCCT
Found at i:18987576 original size:22 final size:25
Alignment explanation
Indices: 18987533--18987577 Score: 60
Period size: 22 Copynumber: 1.9 Consensus size: 25
18987523 AATCTATATA
*
18987533 TTTTATCATAATTATATTTAAATTT
1 TTTTATCATAATTATATATAAATTT
18987558 TTTTAT-AT-ATT-TATATAAAT
1 TTTTATCATAATTATATATAAAT
18987578 ATTCAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 3 0.16
24 2 0.11
25 6 0.32
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (25 bp):
TTTTATCATAATTATATATAAATTT
Found at i:18989278 original size:21 final size:20
Alignment explanation
Indices: 18989250--18989288 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
18989240 TTCCAACTTT
* *
18989250 ATAACATTTAATCAATTCTA
1 ATAACATTCAACCAATTCTA
18989270 ATAATCATTCAACCAATTC
1 ATAA-CATTCAACCAATTC
18989289 ATATATTATA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.36
Consensus pattern (20 bp):
ATAACATTCAACCAATTCTA
Found at i:18989945 original size:10 final size:9
Alignment explanation
Indices: 18989914--18989960 Score: 62
Period size: 8 Copynumber: 5.3 Consensus size: 9
18989904 ATATATTTTA
18989914 TTAAAAT-T
1 TTAAAATGT
18989922 TTAAAATGT
1 TTAAAATGT
*
18989931 TTAAATATTT
1 TTAAA-ATGT
18989941 TTAAAATGT
1 TTAAAATGT
18989950 TT-AAATGT
1 TTAAAATGT
18989958 TTA
1 TTA
18989961 TTTTTTAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
8 15 0.44
9 11 0.32
10 8 0.24
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (9 bp):
TTAAAATGT
Found at i:18993446 original size:36 final size:36
Alignment explanation
Indices: 18993406--18993479 Score: 148
Period size: 36 Copynumber: 2.1 Consensus size: 36
18993396 GATTCGCCCC
18993406 GTCATACAAACGAAGATGCCTTGATTAGGAAAACAA
1 GTCATACAAACGAAGATGCCTTGATTAGGAAAACAA
18993442 GTCATACAAACGAAGATGCCTTGATTAGGAAAACAA
1 GTCATACAAACGAAGATGCCTTGATTAGGAAAACAA
18993478 GT
1 GT
18993480 GGTACTCGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.43, C:0.16, G:0.20, T:0.20
Consensus pattern (36 bp):
GTCATACAAACGAAGATGCCTTGATTAGGAAAACAA
Found at i:19011950 original size:9 final size:9
Alignment explanation
Indices: 19011929--19011958 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
19011919 TATTTTTATT
19011929 AAAAATTAGA
1 AAAAATTA-A
19011939 AAAAATTAA
1 AAAAATTAA
19011948 AAAAATTAA
1 AAAAATTAA
19011957 AA
1 AA
19011959 GTTATAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 12 0.60
10 8 0.40
ACGTcount: A:0.77, C:0.00, G:0.03, T:0.20
Consensus pattern (9 bp):
AAAAATTAA
Found at i:19012023 original size:9 final size:9
Alignment explanation
Indices: 19012011--19012100 Score: 51
Period size: 9 Copynumber: 9.7 Consensus size: 9
19012001 AAAAATTAGA
19012011 AAAAAATAT
1 AAAAAATAT
*
19012020 -AAAAATCGT
1 AAAAAAT-AT
19012029 AAAAAATAT
1 AAAAAATAT
19012038 AAAAAA-ATT
1 AAAAAATA-T
* * *
19012047 GTAAAATTTT
1 -AAAAAATAT
19012057 ATAAAAATCAT
1 A-AAAAAT-AT
19012068 -AAAAATAT
1 AAAAAATAT
*
19012076 ATAAAATAT
1 AAAAAATAT
*
19012085 ATAGAAATAT
1 A-AAAAATAT
19012095 AAAAAA
1 AAAAAA
19012101 ACTATAAAAT
Statistics
Matches: 60, Mismatches: 12, Indels: 18
0.67 0.13 0.20
Matches are distributed among these distances:
8 9 0.15
9 27 0.45
10 23 0.38
11 1 0.02
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (9 bp):
AAAAAATAT
Found at i:19012023 original size:18 final size:18
Alignment explanation
Indices: 19011994--19012042 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 18
19011984 AAAAAATTTC
19011994 AAATATTAAAAATTAGAAAA
1 AAATA-TAAAAA-TAGAAAA
* *
19012014 AAATATAAAAATCGTAAA
1 AAATATAAAAATAGAAAA
19012032 AAATATAAAAA
1 AAATATAAAAA
19012043 AATTGTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
18 16 0.59
19 6 0.22
20 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.04, T:0.22
Consensus pattern (18 bp):
AAATATAAAAATAGAAAA
Found at i:19012025 original size:28 final size:29
Alignment explanation
Indices: 19011994--19012156 Score: 99
Period size: 29 Copynumber: 5.7 Consensus size: 29
19011984 AAAAAATTTC
*
19011994 AAATAT-TAAAAATTAGAAAAAAATATAA
1 AAATATATAAAAATTATAAAAAAATATAA
* *
19012022 AAATCGTA-AAAAA-TATAAAAAAATTGTAA
1 AAAT-ATATAAAAATTATAAAAAAA-TATAA
* * * *
19012051 AATTTTATAAAAATCATAAAAATATAT-A
1 AAATATATAAAAATTATAAAAAAATATAA
*
19012079 AAATATATAGAAA-TATAAAAAAACTATAA
1 AAATATATAAAAATTATAAAAAAA-TATAA
* * * * *
19012108 AATTTTAT-AAAGTTGTAAGAAAATTATACA
1 AAATATATAAAAATTATAA-AAAAATATA-A
19012138 AAATATA-AAGAAA-TATAAA
1 AAATATATAA-AAATTATAAA
19012157 TTTCGTAAAA
Statistics
Matches: 100, Mismatches: 23, Indels: 23
0.68 0.16 0.16
Matches are distributed among these distances:
27 8 0.08
28 31 0.31
29 36 0.36
30 23 0.23
31 2 0.02
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.28
Consensus pattern (29 bp):
AAATATATAAAAATTATAAAAAAATATAA
Found at i:19012043 original size:19 final size:19
Alignment explanation
Indices: 19012011--19012081 Score: 65
Period size: 20 Copynumber: 3.7 Consensus size: 19
19012001 AAAAATTAGA
19012011 AAAAAATAT-AAAAATCGT
1 AAAAAATATAAAAAATCGT
*
19012029 AAAAAATATAAAAAAATTGT
1 AAAAAATAT-AAAAAATCGT
* * *
19012049 -AAAATTTTATAAAAATCAT
1 AAAAAATATA-AAAAATCGT
19012068 AAAAATATATAAAA
1 AAAAA-ATATAAAA
19012082 TATATAGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 8
0.73 0.12 0.14
Matches are distributed among these distances:
18 10 0.24
19 13 0.32
20 15 0.37
21 3 0.07
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (19 bp):
AAAAAATATAAAAAATCGT
Found at i:19012092 original size:19 final size:19
Alignment explanation
Indices: 19011994--19012100 Score: 85
Period size: 19 Copynumber: 5.7 Consensus size: 19
19011984 AAAAAATTTC
* *
19011994 AAATAT-TAAAAATTAGAA
1 AAATATATAAAAATCATAA
* *
19012012 AAAAATATAAAAATCGTAAA
1 AAATATATAAAAATCAT-AA
* **
19012032 AAATATAAAAAAATTGTAA
1 AAATATATAAAAATCATAA
* *
19012051 AATTTTATAAAAATCATAA
1 AAATATATAAAAATCATAA
*
19012070 AAATATATAAAATAT-ATAG
1 AAATATATAAAA-ATCATAA
19012089 AAATATA-AAAAA
1 AAATATATAAAAA
19012101 ACTATAAAAT
Statistics
Matches: 71, Mismatches: 15, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
17 1 0.01
18 9 0.13
19 43 0.61
20 18 0.25
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (19 bp):
AAATATATAAAAATCATAA
Found at i:19012106 original size:19 final size:18
Alignment explanation
Indices: 19011982--19012110 Score: 59
Period size: 19 Copynumber: 6.9 Consensus size: 18
19011972 TTAAATTTTA
* *
19011982 ATAAAAAATTTCAAATAT
1 ATAAAAAATATAAAATAT
* * *
19012000 -TAAAAATTAGAAAA-AA
1 ATAAAAAATATAAAATAT
* *
19012016 ATATAAAAATCGTAAAAAAT
1 ATA-AAAAAT-ATAAAATAT
*
19012036 ATAAAAAAATTGTAAAAT-T
1 AT-AAAAAA-TATAAAATAT
*
19012055 TTATAAAAATCATAAAAATAT
1 ATA-AAAAAT-AT-AAAATAT
*
19012076 ATAAAATATATAGAAATAT
1 ATAAAAAATATA-AAATAT
19012095 A-AAAAAACTATAAAAT
1 ATAAAAAA-TATAAAAT
19012111 TTTATAAAGT
Statistics
Matches: 84, Mismatches: 15, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
16 1 0.01
17 12 0.14
18 17 0.20
19 25 0.30
20 24 0.29
21 5 0.06
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (18 bp):
ATAAAAAATATAAAATAT
Found at i:19012144 original size:57 final size:58
Alignment explanation
Indices: 19012000--19012118 Score: 152
Period size: 57 Copynumber: 2.1 Consensus size: 58
19011990 TTTCAAATAT
* * * * * * *
19012000 TAAAAATTAGAAAAAAATATAAAA-ATCGTAAAAAATATAAAAAAATTGTAAAATTTTA
1 TAAAAATCATAAAAATATATAAAATAT-ATAAGAAATATAAAAAAACTATAAAATTTTA
19012058 TAAAAATCATAAAAATATATAAAATATAT-AGAAATATAAAAAAACTATAAAATTTTA
1 TAAAAATCATAAAAATATATAAAATATATAAGAAATATAAAAAAACTATAAAATTTTA
19012115 TAAA
1 TAAA
19012119 GTTGTAAGAA
Statistics
Matches: 53, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
57 29 0.55
58 22 0.42
59 2 0.04
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.29
Consensus pattern (58 bp):
TAAAAATCATAAAAATATATAAAATATATAAGAAATATAAAAAAACTATAAAATTTTA
Found at i:19012404 original size:22 final size:22
Alignment explanation
Indices: 19012356--19012404 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
19012346 TGTTAAAGGG
*
19012356 ATTTTTTGATGCATTTTATAAT
1 ATTTTTTGATGCATTTTATAAA
* *
19012378 CTTTTTTTATG-ATTTTTATAAA
1 ATTTTTTGATGCA-TTTTATAAA
19012400 ATTTT
1 ATTTT
19012405 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.27, C:0.04, G:0.06, T:0.63
Consensus pattern (22 bp):
ATTTTTTGATGCATTTTATAAA
Found at i:19012411 original size:19 final size:19
Alignment explanation
Indices: 19012389--19012438 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
19012379 TTTTTTTATG
19012389 ATTTTTATAAAATTTTACA
1 ATTTTTATAAAATTTTACA
* ***
19012408 ATTTTTTTACTTTTTTACA
1 ATTTTTATAAAATTTTACA
19012427 ATTTTTATAAAA
1 ATTTTTATAAAA
19012439 AAATTATAAT
Statistics
Matches: 23, Mismatches: 8, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (19 bp):
ATTTTTATAAAATTTTACA
Found at i:19012484 original size:26 final size:27
Alignment explanation
Indices: 19012436--19012498 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 27
19012426 AATTTTTATA
* *
19012436 AAAAAATTATAATTTTTAATAAATTTT
1 AAAAATTTATAATTTTTAATAAAATTT
* * *
19012463 GAAATTTTAT-ATTTTTATTAAAATTT
1 AAAAATTTATAATTTTTAATAAAATTT
19012489 AAAAATTTAT
1 AAAAATTTAT
19012499 CTAAAATTTA
Statistics
Matches: 29, Mismatches: 7, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (27 bp):
AAAAATTTATAATTTTTAATAAAATTT
Found at i:19012494 original size:27 final size:25
Alignment explanation
Indices: 19012437--19012496 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 25
19012427 ATTTTTATAA
*
19012437 AAAAATTATAATTTTTAATAAATTT
1 AAAAATTTTAATTTTTAATAAATTT
** *
19012462 TGAAATTTTATATTTTTATTAAAATTT
1 AAAAATTTTA-ATTTTTAAT-AAATTT
19012489 AAAAATTT
1 AAAAATTT
19012497 ATCTAAAATT
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
25 7 0.26
26 8 0.30
27 12 0.44
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
AAAAATTTTAATTTTTAATAAATTT
Found at i:19012534 original size:11 final size:10
Alignment explanation
Indices: 19012505--19012538 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
19012495 TTATCTAAAA
19012505 TTTATTTATT
1 TTTATTTATT
*
19012515 TATATTTATT
1 TTTATTTATT
19012525 TTTAATTTATT
1 TTT-ATTTATT
19012536 TTT
1 TTT
19012539 CTAATTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
10 11 0.52
11 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTATT
Found at i:19012729 original size:90 final size:93
Alignment explanation
Indices: 19012595--19012763 Score: 256
Period size: 90 Copynumber: 1.8 Consensus size: 93
19012585 TTGAGGGTAA
* *
19012595 TTTTGATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGTAAAAAAAA-A-A-AGGAACTTAATT
1 TTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAGAGAGAGGAACTTAATT
19012657 GCTTTTTTTTGAAGAAACTTGAGGGCCT
66 GCTTTTTTTTGAAGAAACTTGAGGGCCT
* *
19012685 TTTTAATGCATTTTGAAAGTTCAAGT-GCTCAATTGAGTGCAAAAAAAAGAGAGGAGGAGCTTAA
1 TTTTAATGCATTTTGAAAGTTCAAGTATC-CAATTGAGTGCAAAAAAAAGAGA-GAGGAACTTAA
19012749 TTGCTTTTTTTTGAA
64 TTGCTTTTTTTTGAA
19012764 AAAGTTTAAC
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
89 1 0.01
90 43 0.61
91 1 0.01
92 1 0.01
94 24 0.34
ACGTcount: A:0.35, C:0.09, G:0.20, T:0.36
Consensus pattern (93 bp):
TTTTAATGCATTTTGAAAGTTCAAGTATCCAATTGAGTGCAAAAAAAAGAGAGAGGAACTTAATT
GCTTTTTTTTGAAGAAACTTGAGGGCCT
Found at i:19013369 original size:18 final size:19
Alignment explanation
Indices: 19013330--19013370 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
19013320 AAAAATTAAA
*
19013330 AAAATTAAAAGTAATTTTT
1 AAAATTAAAAGTAATTTAT
19013349 AAAATTCAAAA-T-ATTTAT
1 AAAATT-AAAAGTAATTTAT
19013367 AAAA
1 AAAA
19013371 AATTCCATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 9 0.45
19 7 0.35
20 4 0.20
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATTAAAAGTAATTTAT
Found at i:19015677 original size:30 final size:30
Alignment explanation
Indices: 19015613--19015727 Score: 142
Period size: 30 Copynumber: 3.9 Consensus size: 30
19015603 AAAATCAAAA
* *
19015613 AAATTACATTTTGACCCATAAACTTT-TTG
1 AAATTACATTTTGACCCCTAAACTTTCTAG
19015642 AAATTACATTTTGACCCCTAAACTTTCTAG
1 AAATTACATTTTGACCCCTAAACTTTCTAG
* * *
19015672 AAATTACATTTTGATCCCTAAAATTCCTAG
1 AAATTACATTTTGACCCCTAAACTTTCTAG
* * * *
19015702 AAATTACGTTTCGGCCCCAAAACTTT
1 AAATTACATTTTGACCCCTAAACTTT
19015728 TCCTGAATTT
Statistics
Matches: 73, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 25 0.34
30 48 0.66
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.37
Consensus pattern (30 bp):
AAATTACATTTTGACCCCTAAACTTTCTAG
Found at i:19016070 original size:3 final size:3
Alignment explanation
Indices: 19016064--19016126 Score: 69
Period size: 3 Copynumber: 22.0 Consensus size: 3
19016054 TAGGGTTTGT
* *
19016064 GAA GAA GAA GAA GAA GGA GAA GAA GAA GGA GAA GAA GAA -AA -AA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
* *
19016110 AAA GAA AAA GAA -AA GAA
1 GAA GAA GAA GAA GAA GAA
19016127 AAAGGAAAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
2 6 0.12
3 44 0.88
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:19016114 original size:13 final size:13
Alignment explanation
Indices: 19016093--19016136 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
19016083 AAGAAGAAGG
*
19016093 AGAAGAAGAAAAA
1 AGAAAAAGAAAAA
19016106 AGAAAAAG-AAAA
1 AGAAAAAGAAAAA
19016118 AG-AAAAGAAAAA
1 AGAAAAAGAAAAA
*
19016130 GGAAAAA
1 AGAAAAA
19016137 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
11 5 0.19
12 11 0.41
13 11 0.41
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (13 bp):
AGAAAAAGAAAAA
Found at i:19016117 original size:12 final size:12
Alignment explanation
Indices: 19016102--19016136 Score: 54
Period size: 11 Copynumber: 2.9 Consensus size: 12
19016092 GAGAAGAAGA
19016102 AAAAAGAAAAAG
1 AAAAAGAAAAAG
19016114 AAAAAG-AAAAG
1 AAAAAGAAAAAG
19016125 AAAAAGGAAAAA
1 AAAAA-GAAAAA
19016137 AATAAAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 10 0.48
12 7 0.33
13 4 0.19
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAAGAAAAAG
Found at i:19016125 original size:17 final size:18
Alignment explanation
Indices: 19016103--19016136 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
19016093 AGAAGAAGAA
19016103 AAAAGAAAAA-GAAAAAG
1 AAAAGAAAAAGGAAAAAG
19016120 AAAAGAAAAAGGAAAAA
1 AAAAGAAAAAGGAAAAA
19016137 AATAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
AAAAGAAAAAGGAAAAAG
Found at i:19016129 original size:6 final size:6
Alignment explanation
Indices: 19016102--19016136 Score: 54
Period size: 6 Copynumber: 5.8 Consensus size: 6
19016092 GAGAAGAAGA
19016102 AAAAAG AAAAAG AAAAAG -AAAAG AAAAAGG AAAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAA-G AAAAA
19016137 AATAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
5 5 0.19
6 16 0.59
7 6 0.22
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:19016200 original size:18 final size:18
Alignment explanation
Indices: 19016174--19016221 Score: 69
Period size: 18 Copynumber: 2.7 Consensus size: 18
19016164 CGGGTCAAAC
19016174 CGACCCGACCCGATCCGG
1 CGACCCGACCCGATCCGG
* *
19016192 CGACACGACTCGATCCGG
1 CGACCCGACCCGATCCGG
*
19016210 TGACCCGACCCG
1 CGACCCGACCCG
19016222 CAACCCAAAC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.19, C:0.46, G:0.27, T:0.08
Consensus pattern (18 bp):
CGACCCGACCCGATCCGG
Found at i:19016506 original size:7 final size:7
Alignment explanation
Indices: 19016496--19016591 Score: 79
Period size: 7 Copynumber: 13.1 Consensus size: 7
19016486 GAAAAAGAAG
19016496 GAAAAAA
1 GAAAAAA
*
19016503 GAAAAGA
1 GAAAAAA
19016510 GAAAAAA
1 GAAAAAA
19016517 GAAAAAA
1 GAAAAAA
*
19016524 GAAAAGA
1 GAAAAAA
19016531 GAACAAAA
1 GAA-AAAA
19016539 -AAGAAAGA
1 GAA-AAA-A
19016547 GAACAAAA
1 GAA-AAAA
*
19016555 AATAAAAA
1 GA-AAAAA
*
19016563 GGGAAAAA
1 -GAAAAAA
*
19016571 G-GAAAA
1 GAAAAAA
19016577 GAAAAAA
1 GAAAAAA
19016584 GAAAAAA
1 GAAAAAA
19016591 G
1 G
19016592 GAAGGCTCGA
Statistics
Matches: 72, Mismatches: 11, Indels: 12
0.76 0.12 0.13
Matches are distributed among these distances:
6 5 0.07
7 46 0.64
8 15 0.21
9 6 0.08
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (7 bp):
GAAAAAA
Found at i:19016522 original size:21 final size:21
Alignment explanation
Indices: 19016496--19016591 Score: 88
Period size: 21 Copynumber: 4.4 Consensus size: 21
19016486 GAAAAAGAAG
19016496 GAAAAAAGAAAAGAGAAAAAA
1 GAAAAAAGAAAAGAGAAAAAA
19016517 GAAAAAAGAAAAGAGAACAAAA
1 GAAAAAAGAAAAGAGAA-AAAA
* *
19016539 -AAGAAAGAGAACAAAAAATAAAAA
1 GAA-AAA-AGAA-AAGAGA-AAAAA
* *
19016563 GGGAAAAAGGAAA-AGAAAAAA
1 -GAAAAAAGAAAAGAGAAAAAA
19016584 GAAAAAAG
1 GAAAAAAG
19016592 GAAGGCTCGA
Statistics
Matches: 62, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
20 7 0.11
21 24 0.39
22 9 0.15
23 6 0.10
24 11 0.18
25 4 0.06
26 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (21 bp):
GAAAAAAGAAAAGAGAAAAAA
Found at i:19016540 original size:17 final size:17
Alignment explanation
Indices: 19016518--19016561 Score: 72
Period size: 16 Copynumber: 2.6 Consensus size: 17
19016508 GAGAAAAAAG
19016518 AAAAAAGAAAAGAGAAC
1 AAAAAAGAAAAGAGAAC
19016535 AAAAAAG-AAAGAGAAC
1 AAAAAAGAAAAGAGAAC
*
19016551 AAAAAATAAAA
1 AAAAAAGAAAA
19016562 AGGGAAAAAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 15 0.60
17 10 0.40
ACGTcount: A:0.80, C:0.05, G:0.14, T:0.02
Consensus pattern (17 bp):
AAAAAAGAAAAGAGAAC
Found at i:19016581 original size:20 final size:20
Alignment explanation
Indices: 19016496--19016594 Score: 69
Period size: 20 Copynumber: 4.9 Consensus size: 20
19016486 GAAAAAGAAG
* *
19016496 GAAAAAAGAAAAGAGAAAAAA
1 GAAAAAAGAAAAAAG-GAAAA
*
19016517 GAAAAAAGAAAAGA-GAACAA
1 GAAAAAAGAAAAAAGGAA-AA
* *
19016537 AAAAGAAAGAGAACAA--AAAA
1 GAAA-AAAGA-AAAAAGGAAAA
* * *
19016557 TAAAAAGGGAAAAAGGAAAA
1 GAAAAAAGAAAAAAGGAAAA
19016577 GAAAAAAGAAAAAAGGAA
1 GAAAAAAGAAAAAAGGAA
19016595 GGCTCGAGTC
Statistics
Matches: 62, Mismatches: 11, Indels: 11
0.74 0.13 0.13
Matches are distributed among these distances:
18 4 0.06
19 5 0.08
20 29 0.47
21 21 0.34
22 3 0.05
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.01
Consensus pattern (20 bp):
GAAAAAAGAAAAAAGGAAAA
Found at i:19017109 original size:39 final size:37
Alignment explanation
Indices: 19017065--19017157 Score: 141
Period size: 39 Copynumber: 2.4 Consensus size: 37
19017055 TTAAAAAAAA
*
19017065 TCGTGTTTCAAAAATTTTCGTGTTTTTTAAAAAAAATTC
1 TCGTGTTTCAAAAATTTCCGTGTTTTTT--AAAAAATTC
*
19017104 TCGTGTTTCAAAAATTTCCGTGTTTTTTAAAAAATTT
1 TCGTGTTTCAAAAATTTCCGTGTTTTTTAAAAAATTC
19017141 TCGTGTTTTCAAAAATT
1 TCGTG-TTTCAAAAATT
19017158 CTCACGTTTC
Statistics
Matches: 51, Mismatches: 2, Indels: 3
0.91 0.04 0.05
Matches are distributed among these distances:
37 13 0.25
38 11 0.22
39 27 0.53
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.47
Consensus pattern (37 bp):
TCGTGTTTCAAAAATTTCCGTGTTTTTTAAAAAATTC
Found at i:19017116 original size:20 final size:21
Alignment explanation
Indices: 19017074--19017155 Score: 66
Period size: 22 Copynumber: 4.1 Consensus size: 21
19017064 ATCGTGTTTC
* *
19017074 AAAAATTTTCGTGTTTTTTAAA
1 AAAAATTCTCGTG-TTTTCAAA
19017096 AAAAATTCTCGTG-TTTC--A
1 AAAAATTCTCGTGTTTTCAAA
* **
19017114 AAAATTTC-CGTGTTTT-TTA
1 AAAAATTCTCGTGTTTTCAAA
*
19017133 AAAAATTTTCGTGTTTTCAAA
1 AAAAATTCTCGTGTTTTCAAA
19017154 AA
1 AA
19017156 TTCTCACGTT
Statistics
Matches: 48, Mismatches: 7, Indels: 11
0.73 0.11 0.17
Matches are distributed among these distances:
17 4 0.08
18 11 0.23
19 7 0.15
20 11 0.23
21 3 0.06
22 12 0.25
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (21 bp):
AAAAATTCTCGTGTTTTCAAA
Found at i:19017154 original size:18 final size:18
Alignment explanation
Indices: 19017065--19017370 Score: 106
Period size: 17 Copynumber: 16.8 Consensus size: 18
19017055 TTAAAAAAAA
19017065 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
19017082 TCGTGTTTTTTAAAAAAAATTC
1 TCGTG--TTTT--CAAAAATTT
19017104 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
* *
19017121 CCGTGTTTTTTAAAAAATTT
1 TCGTG--TTTTCAAAAATTT
*
19017141 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
**
19017159 TCACG-TTTCAAAAATCTT
1 TCGTGTTTTCAAAAAT-TT
19017177 T-GTGTTTTC-AAAA-TT
1 TCGTGTTTTCAAAAATTT
* *
19017192 CCAATG-TTTCAAAAATTTT
1 TC-GTGTTTTCAAAAA-TTT
19017211 TC-TGTTTT-AAAAA---
1 TCGTGTTTTCAAAAATTT
** *
19017224 AAGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTT
* * *
19017242 CCGTATTTT-GAAAATTT
1 TCGTGTTTTCAAAAATTT
*
19017259 TCTTGTTTTCAAAAAAAAAAATTT
1 TCGTGTTTTC------AAAAATTT
* * *
19017283 CCATGTTTTACAAAAAAATTC
1 TCGTGTTTT-C--AAAAATTT
*
19017304 TCGT-CTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTT
*
19017321 TCGTGTTTTCAAAAAATTGA
1 TCGTGTTTTC-AAAAATT-T
* *
19017341 CCGTG--TTCATAAATTT
1 TCGTGTTTTCAAAAATTT
19017357 TCGTGTTTT-AAAAA
1 TCGTGTTTTCAAAAA
19017371 AAAATCCTCG
Statistics
Matches: 213, Mismatches: 42, Indels: 68
0.66 0.13 0.21
Matches are distributed among these distances:
14 6 0.03
15 7 0.03
16 8 0.04
17 77 0.36
18 38 0.18
19 14 0.07
20 25 0.12
21 11 0.05
22 12 0.06
24 14 0.07
25 1 0.00
ACGTcount: A:0.34, C:0.13, G:0.09, T:0.44
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTT
Found at i:19017283 original size:23 final size:25
Alignment explanation
Indices: 19017252--19017300 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
19017242 CCGTATTTTG
* *
19017252 AAAATTTTCTTGTTTT-CAAAAAAA
1 AAAATTTCCATGTTTTACAAAAAAA
19017276 AAAATTTCCATGTTTTACAAAAAAA
1 AAAATTTCCATGTTTTACAAAAAAA
19017301 TTCTCGTCTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 14 0.64
25 8 0.36
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (25 bp):
AAAATTTCCATGTTTTACAAAAAAA
Found at i:19017383 original size:37 final size:37
Alignment explanation
Indices: 19017275--19017384 Score: 116
Period size: 37 Copynumber: 3.0 Consensus size: 37
19017265 TTTCAAAAAA
* * * *
19017275 AAAAATTTCCATGTTTTACAAAAAAATTCTCGTCTTTC
1 AAAAATTTTCGTGTTTTACAAAAAAATACTCGT-GTTC
*
19017313 AAAAATTTTCGTGTTTT-CAAAAAATTGAC-CGTGTTC
1 AAAAATTTTCGTGTTTTACAAAAAAAT-ACTCGTGTTC
* * *
19017349 ATAAATTTTCGTGTTTTAAAAAAAAATCCTCGTGTT
1 AAAAATTTTCGTGTTTTACAAAAAAATACTCGTGTT
19017385 TCATTTTTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
36 20 0.33
37 24 0.40
38 16 0.27
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (37 bp):
AAAAATTTTCGTGTTTTACAAAAAAATACTCGTGTTC
Found at i:19017441 original size:16 final size:16
Alignment explanation
Indices: 19017420--19017454 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
19017410 TTTCAAAAAC
19017420 AAATTTT-GTGTTTTAA
1 AAATTTTCGTG-TTTAA
19017436 AAATTTTCGTGTTTAA
1 AAATTTTCGTGTTTAA
19017452 AAA
1 AAA
19017455 AAGAAAATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 15 0.83
17 3 0.17
ACGTcount: A:0.37, C:0.03, G:0.11, T:0.49
Consensus pattern (16 bp):
AAATTTTCGTGTTTAA
Found at i:19017449 original size:38 final size:38
Alignment explanation
Indices: 19017397--19017476 Score: 88
Period size: 38 Copynumber: 2.1 Consensus size: 38
19017387 ATTTTTTATC
* ** * * *
19017397 AAAATTTTTATGTTTTCAAAAACAAATTTTGTGTTTTA
1 AAAATTTTCATGTTTAAAAAAACAAAATTCGTGTTTCA
* *
19017435 AAAATTTTCGTGTTTAAAAAAAGAAAATTCGTGTTTCA
1 AAAATTTTCATGTTTAAAAAAACAAAATTCGTGTTTCA
19017473 AAAA
1 AAAA
19017477 AAAAATCTCG
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.42, C:0.06, G:0.10, T:0.41
Consensus pattern (38 bp):
AAAATTTTCATGTTTAAAAAAACAAAATTCGTGTTTCA
Found at i:19017455 original size:17 final size:16
Alignment explanation
Indices: 19017420--19017455 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
19017410 TTTCAAAAAC
*
19017420 AAATTTTGTGTTTTAA
1 AAATTTTGTGTTTAAA
19017436 AAATTTTCGTGTTTAAA
1 AAATTTT-GTGTTTAAA
19017453 AAA
1 AAA
19017456 AGAAAATTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.39, C:0.03, G:0.11, T:0.47
Consensus pattern (16 bp):
AAATTTTGTGTTTAAA
Found at i:19017467 original size:21 final size:20
Alignment explanation
Indices: 19017441--19017496 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 20
19017431 TTTAAAAATT
*
19017441 TTCGTGTTTAAAAAAAGAAAA
1 TTCGTGTTTCAAAAAA-AAAA
19017462 TTCGTGTTTCAAAAAAAAAA
1 TTCGTGTTTCAAAAAAAAAA
19017482 TCTCGTGTTTCAAAA
1 T-TCGTGTTTCAAAA
19017497 TTTTCGTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
20 5 0.15
21 28 0.85
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.32
Consensus pattern (20 bp):
TTCGTGTTTCAAAAAAAAAA
Found at i:19023235 original size:12 final size:12
Alignment explanation
Indices: 19023218--19023261 Score: 52
Period size: 12 Copynumber: 3.5 Consensus size: 12
19023208 TTAAAAAAAC
*
19023218 AAAAAAATAGAA
1 AAAAAAAAAGAA
*
19023230 AAAAAAACAGACA
1 AAAAAAAAAGA-A
19023243 AAACAAAAAAGAA
1 AAA-AAAAAAGAA
19023256 AAAAAA
1 AAAAAA
19023262 TAAATATGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
12 13 0.46
13 8 0.29
14 7 0.25
ACGTcount: A:0.84, C:0.07, G:0.07, T:0.02
Consensus pattern (12 bp):
AAAAAAAAAGAA
Found at i:19024693 original size:45 final size:48
Alignment explanation
Indices: 19024644--19024795 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 48
19024634 CTGTAACCTC
* * *
19024644 AGGGAGATAAGATT-CA-C-TATCTTT-AGTTTGCTCTACCGCAACTTT
1 AGGGAGATAAGATTACAGCTTAT-TTTCAATCTGCTCCACCGCAACTTT
* *
19024689 AGGGAGATAAGACTTATAGCTTATTTTCAATCTGCTCCACTGCAACTTT
1 AGGGAGATAAGA-TTACAGCTTATTTTCAATCTGCTCCACCGCAACTTT
*** * * *
19024738 AGGGAGATAAGATT--AG--TGGCTTCAATCTACTTCACTGCAACTTT
1 AGGGAGATAAGATTACAGCTTATTTTCAATCTGCTCCACCGCAACTTT
19024782 AGGGAGATAAGATT
1 AGGGAGATAAGATT
19024796 CGCCATGATA
Statistics
Matches: 92, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
44 37 0.40
45 12 0.13
46 4 0.04
47 1 0.01
48 6 0.07
49 32 0.35
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.33
Consensus pattern (48 bp):
AGGGAGATAAGATTACAGCTTATTTTCAATCTGCTCCACCGCAACTTT
Found at i:19024736 original size:49 final size:44
Alignment explanation
Indices: 19024572--19025403 Score: 178
Period size: 45 Copynumber: 18.0 Consensus size: 44
19024562 GATACGAATC
* * * * * * * *
19024572 GTAGCTTCAACCTACTCCGCTACAACTTCAAGGAGATGAGATTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
** * * *
19024616 GT-GTCTTCAA-CTGCTCTGCTGTAACCTCAGGGAGATAAGATTCA
1 GTAG-CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-A
* * * * * * *
19024660 CTATCTTTAGTTTGCTCTACCGCAACTTTAGGGAGATAAGACTTA
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTA
19024705 -TAGCTTATTTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
1 GTAGC-----TTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
* * *
19024753 GTGGCTTCAATCTACTTCACTGCAACTTTAGGGAGATAAGATTCGCCA
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT----A
* ** * ** * * * * *
19024801 TGATAACTTTGATCCGAC-CCACTTTAGCTTCAAAGGTATAAAATTTGCTATCTA
1 -G-TAGCTTCAATCTG-CTCCACTGCAACTT--TAGGGAGATAA---G--AT-TA
* * * * *
19024855 -TAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAGGATTC
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
* * * *
19024898 GCTATCTTCAGTCTGTTCCACTACAA-TTTCAGGGAGATAAGACCTGCAATTTA
1 G-TAGCTTCAATCTGCTCCACTGCAACTTT-AGGGAGAT-A-A---G--A-TTA
* * * * * * * *
19024951 -TAGTTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
* ** * * * *
19024994 GCTATCTTCAGGCTGTTCCACTACACCTTCAGGGAGATAAGACTT-
1 G-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA-TTA
** * * *
19025039 GTAATTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATG-TTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAA-GATTA
* ** *
19025083 GCTATGATCTTCAATC--CATCCCACTGCAACTTCAGGG-GTATGGGATTT
1 G-TA-G--CTTCAATCTGC-T-CCACTGCAACTTTAGGGAG-ATAAGATTA
* * * * *
19025131 GTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTT
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
** * * * * *
19025175 GTTATTTTTAACCTGCTCCACTGCAATTTTAGGGAGATAAGGTTT
1 G-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
* * * * *
19025220 GTGGCTTCAATCTACTTCACTGCAAATTCAGGGAGATAAGATTCA
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT-A
* * * * * *
19025265 CTATCTTCAGTCTGCTCTACTGCAACTTCAGAGAGATAAGATGTATAA
1 GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGA--T-T-A
* * * ** * *
19025313 TTTATAGCTTTAATCTGGTCCACTATAA-TTTCAGGGAAATAAGATTC
1 ---GTAGCTTCAATCTGCTCCACTGCAACTTT-AGGGAGATAAGATTA
* * * *
19025360 GCTATCTTCAGTTTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 G-TAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATT
19025404 TGCCATGATG
Statistics
Matches: 577, Mismatches: 145, Indels: 131
0.68 0.17 0.15
Matches are distributed among these distances:
43 31 0.05
44 154 0.27
45 187 0.32
46 11 0.02
47 6 0.01
48 36 0.06
49 43 0.07
50 19 0.03
51 73 0.13
52 10 0.02
53 2 0.00
54 1 0.00
55 1 0.00
57 2 0.00
58 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (44 bp):
GTAGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTA
Found at i:19024932 original size:45 final size:45
Alignment explanation
Indices: 19024864--19025403 Score: 187
Period size: 45 Copynumber: 11.7 Consensus size: 45
19024854 ATAGCTTTAA
* * *
19024864 TCTGTTCCACTGCAACTTTAGGGAAATAGGATTCGCTATCTTCAG
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * * * *
19024909 TCTGTTCCACTACAATTTCAGGGAGATAAGA-CCTGCAATTTATAGTTTTAA
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTC-GC----TAT--CTTCAG
* *
19024960 TATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAG
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * *
19025005 GCTGTTCCACTACACCTTCAGGGAGATAAGACTT-G-TAAT-TTCAA
1 TCTGTTCCACTACAACTTCAGGGAAATAAGA-TTCGCT-ATCTTCAG
* * * * * *
19025049 CCTGCTCCACTGCAACTTCAGGGAGATAATG-TTTGCTATGATCTTCAA
1 TCTGTTCCACTACAACTTCAGGGAAATAA-GATTCGC--T-ATCTTCAG
** * * ** ** * * *
19025097 TCCATCCCACTGCAACTTCAGGGGTATGGGATTTG-TAACTTCAA
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
** * * * * * *
19025141 TCTACTCCACTACAACTTCAGGGAGATAAGATTTGTTATTTTTAA
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * * * * * * ** *
19025186 CCTGCTCCACTGCAATTTTAGGGAGATAAGGTTTG-TGGCTTCAA
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * * *
19025230 TCTACTT-CACTGCAAATTCAGGGAGATAAGATTCACTATCTTCAG
1 TCT-GTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * * * *** * *
19025275 TCTGCTCTACTGCAACTTCAGAGAGATAAGATGTATAATTTATAGCTTTAA
1 TCTGTTCCACTACAACTTCAGGGAAATAAGA--T-T-CGCTAT--CTTCAG
* * *
19025326 TCTGGTCCACTATAATTTCAGGGAAATAAGATTCGCTATCTTCAG
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
* * * *
19025371 TTTGCTCCACTGCAACTTCAGGGAGATAAGATT
1 TCTGTTCCACTACAACTTCAGGGAAATAAGATT
19025404 TGCCATGATG
Statistics
Matches: 371, Mismatches: 97, Indels: 54
0.71 0.19 0.10
Matches are distributed among these distances:
43 2 0.01
44 97 0.26
45 160 0.43
46 2 0.01
47 11 0.03
48 31 0.08
49 7 0.02
51 61 0.16
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.33
Consensus pattern (45 bp):
TCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAG
Found at i:19024969 original size:96 final size:96
Alignment explanation
Indices: 19024853--19025443 Score: 287
Period size: 96 Copynumber: 6.4 Consensus size: 96
19024843 ATTTGCTATC
* * * * *
19024853 TATAGCTTTAATCTGTTCCACTGCAACTTTAGGGAAATAGGATTCGCTATCTTCAGTCTGTTCCA
1 TATAGCTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
*
19024918 CTACAATTTCAGGGAGATAAGACCTGCAATT
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* *
19024949 TATAGTTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGGCTGTTCCA
1 TATAGCTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* * *
19025014 CTACACCTTCAGGGAGATAAGACTTGTAA-T
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
** * * * * ** **
19025044 T-T--C---AACCTGCTCCACTGCAACTTCAGGGAGATAATG-TTTGCTATGATCTTCAATCCAT
1 TATAGCTTTAATATGTTCCACTACAACTTCAGGGAAATAA-GATTCGC--T-ATCTTCAGGCTGT
* * **
19025102 CCCACTGCAACTTCAGGG-G-T---A--TGGGATT
62 TCCACTACAACTTCAGGGAGATAAGACCTGCAATT
* * * * ** * * * * * ** *
19025130 TGTAACTTCAATCTACTCCACTACAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCA
1 TATAGCTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* * *
19025195 CTGCAATTTTAGGGAGATAAG----G---TT
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* * * * * * * * * * * *
19025219 TGTGGCTTCAATCTACTT-CACTGCAAATTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCT
1 TATAGCTTTAATAT-GTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCC
* * ** **
19025283 ACTGCAACTTCAGAGAGATAAGATGTATAATT
65 ACTACAACTTCAGGGAGATAAGACCTGCAATT
* * * * ** *
19025315 TATAGCTTTAATCTGGTCCACTATAATTTCAGGGAAATAAGATTCGCTATCTTCAGTTTGCTCCA
1 TATAGCTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
* ** *
19025380 CTGCAACTTCAGGGAGATAAGATTTGCCA-T
66 CTACAACTTCAGGGAGATAAGACCTGCAATT
* * *
19025410 GAT-GACTTTAATCTGTCCCACTACAACTTCAGGG
1 TATAG-CTTTAATATGTTCCACTACAACTTCAGGG
19025444 GTATAGGATC
Statistics
Matches: 389, Mismatches: 79, Indels: 55
0.74 0.15 0.11
Matches are distributed among these distances:
85 3 0.01
86 2 0.01
87 2 0.01
89 123 0.32
90 5 0.01
91 4 0.01
92 57 0.15
94 2 0.01
95 31 0.08
96 160 0.41
ACGTcount: A:0.28, C:0.21, G:0.18, T:0.33
Consensus pattern (96 bp):
TATAGCTTTAATATGTTCCACTACAACTTCAGGGAAATAAGATTCGCTATCTTCAGGCTGTTCCA
CTACAACTTCAGGGAGATAAGACCTGCAATT
Found at i:19025280 original size:89 final size:89
Alignment explanation
Indices: 19024965--19025405 Score: 325
Period size: 89 Copynumber: 4.8 Consensus size: 89
19024955 TTTAATATGT
* * * * * * *
19024965 TCCACTACAACTTCAGGGAAATAAGATTTGCTATCTTCAGGCTGTTCCACTACACCTTCAGGGAG
1 TCCACTACAAATTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
** ** * *
19025030 ATAAGACTTGTAATTTCAACCTGC
66 ATAAGGTTTGTAGCTTCAATCTAC
* * * *
19025054 TCCACTGCAACTTCAGGGAGATAATG-TTTGCTATGATCTTCAATC--CATCCCACTGCAACTTC
1 TCCACTACAAATTCAGGGAGATAA-GATTCGC--T-ATCTTCAGTCTGC-T-CCACTGCAACTTC
* *
19025116 AGGG-G-TATGGGATTTGTAACTTCAATCTAC
60 AGGGAGATA-AGG-TTTGTAGCTTCAATCTAC
* * * * * ** * *
19025146 TCCACTACAACTTCAGGGAGATAAGATTTGTTATTTTTAACCTGCTCCACTGCAATTTTAGGGAG
1 TCCACTACAAATTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
*
19025211 ATAAGGTTTGTGGCTTCAATCTAC
66 ATAAGGTTTGTAGCTTCAATCTAC
* * * * *
19025235 TTCACTGCAAATTCAGGGAGATAAGATTCACTATCTTCAGTCTGCTCTACTGCAACTTCAGAGAG
1 TCCACTACAAATTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
* * **
19025300 ATAAGATGTATAATTTATAGCTTTAATCTGG
66 ATAAG--G-----TTTGTAGCTTCAATCTAC
* * * *
19025331 TCCACTATAATTTCAGGGAAATAAGATTCGCTATCTTCAGTTTGCTCCACTGCAACTTCAGGGAG
1 TCCACTACAAATTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
*
19025396 ATAAGATTTG
66 ATAAGGTTTG
19025406 CCATGATGAC
Statistics
Matches: 279, Mismatches: 53, Indels: 40
0.75 0.14 0.11
Matches are distributed among these distances:
89 124 0.44
90 8 0.03
91 9 0.03
92 64 0.23
96 74 0.27
ACGTcount: A:0.29, C:0.21, G:0.18, T:0.32
Consensus pattern (89 bp):
TCCACTACAAATTCAGGGAGATAAGATTCGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGGAG
ATAAGGTTTGTAGCTTCAATCTAC
Found at i:19026349 original size:18 final size:17
Alignment explanation
Indices: 19026298--19026348 Score: 66
Period size: 17 Copynumber: 2.9 Consensus size: 17
19026288 CATGTTTCTT
*
19026298 TTTTTCTTTCCTTTTTCC
1 TTTTTCTTT-CTTTTTTC
*
19026316 TTTTTGTTTCTTTTTTC
1 TTTTTCTTTCTTTTTTC
*
19026333 TTTTTCTCTCTTTTTT
1 TTTTTCTTTCTTTTTT
19026349 TAAAAAAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
17 21 0.72
18 8 0.28
ACGTcount: A:0.00, C:0.20, G:0.02, T:0.78
Consensus pattern (17 bp):
TTTTTCTTTCTTTTTTC
Found at i:19030948 original size:18 final size:18
Alignment explanation
Indices: 19030895--19030948 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
19030885 GCAATAAGAA
19030895 AATGTTTT-GAAATTGAAT
1 AATGTTTTGGAAA-TGAAT
* * *
19030913 AACGATTTGTAAATGAAT
1 AATGTTTTGGAAATGAAT
*
19030931 AATGTTTTGGAAACGAAT
1 AATGTTTTGGAAATGAAT
19030949 GGCACGATTT
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
18 25 0.89
19 3 0.11
ACGTcount: A:0.41, C:0.04, G:0.19, T:0.37
Consensus pattern (18 bp):
AATGTTTTGGAAATGAAT
Found at i:19034184 original size:18 final size:18
Alignment explanation
Indices: 19034143--19034189 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
19034133 CCAATATGTA
*
19034143 TAATAAAAATAATAATTG
1 TAATAATAATAATAATTG
* * *
19034161 TGATAATAATAATACTTT
1 TAATAATAATAATAATTG
19034179 TAATAATAATA
1 TAATAATAATA
19034190 TCTAAATTTT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.55, C:0.02, G:0.04, T:0.38
Consensus pattern (18 bp):
TAATAATAATAATAATTG
Found at i:19034235 original size:12 final size:12
Alignment explanation
Indices: 19034218--19034266 Score: 64
Period size: 12 Copynumber: 3.9 Consensus size: 12
19034208 GAAAGTAGCA
19034218 AATAAATAAAAG
1 AATAAATAAAAG
19034230 AATAAATAAAAG
1 AATAAATAAAAG
19034242 AA-ACAATAAAAG
1 AATA-AATAAAAG
19034254 AAAATAAATAAAA
1 --AATAAATAAAA
19034267 AGAAGCCGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
11 1 0.03
12 22 0.67
14 9 0.27
15 1 0.03
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (12 bp):
AATAAATAAAAG
Found at i:19034542 original size:51 final size:50
Alignment explanation
Indices: 19034487--19034582 Score: 120
Period size: 50 Copynumber: 1.9 Consensus size: 50
19034477 AAAACGAAAT
* * * * *
19034487 AGATAAAATGTATACATAATGTCAATTTTAACTATTTTAAGAGTAAAAAAA
1 AGATAAAAT-AATACATAATATCAAATTTAAATATTTTAAAAGTAAAAAAA
* *
19034538 AGATAAAATAATACCTAATATTAAATTTAAATATTTTAAAAGTAA
1 AGATAAAATAATACATAATATCAAATTTAAATATTTTAAAAGTAA
19034583 GAGAATGATA
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
50 29 0.76
51 9 0.24
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.34
Consensus pattern (50 bp):
AGATAAAATAATACATAATATCAAATTTAAATATTTTAAAAGTAAAAAAA
Found at i:19042364 original size:27 final size:27
Alignment explanation
Indices: 19042308--19042364 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
19042298 CTAGTAGAAC
**
19042308 TCTGAGCTACTCCGACGATCATCAGTT
1 TCTGAGCTACTCCGACGATCATCAAAT
* *
19042335 TCTGAGCTACAT-CGATGGTCATCAAAT
1 TCTGAGCTAC-TCCGACGATCATCAAAT
19042362 TCT
1 TCT
19042365 ACCAAAGAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 24 0.96
28 1 0.04
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (27 bp):
TCTGAGCTACTCCGACGATCATCAAAT
Found at i:19046078 original size:109 final size:109
Alignment explanation
Indices: 19045922--19046206 Score: 500
Period size: 109 Copynumber: 2.6 Consensus size: 109
19045912 AGAAATTGAA
* * * * *
19045922 ACCCAACACATTAGGGCACGTTCT-TCAAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
19045986 TTTAAAAGGATATTAAGCCATTTGGTTGAACGATAAAAATCGAC
66 TTTAAAAGGATATTAAGCCATTTGGTTGAACGATAAAAATCGAC
19046030 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
19046095 TTTAAAAGGATATTAAGCCATTTGGTTGAACGATAAAAATCGAC
66 TTTAAAAGGATATTAAGCCATTTGGTTGAACGATAAAAATCGAC
* *
19046139 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTTCAAACGCAAAACATTGCCTTATTTTGAAATT
1 ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
19046204 TTT
66 TTT
19046207 TCTTTTTGAA
Statistics
Matches: 169, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
108 20 0.12
109 149 0.88
ACGTcount: A:0.34, C:0.19, G:0.14, T:0.33
Consensus pattern (109 bp):
ACCCAGCACCTTAGGGCATGTTTTCTCGAATTTCCAAACGCAAAATATTGCCTTATTTTGAAATT
TTTAAAAGGATATTAAGCCATTTGGTTGAACGATAAAAATCGAC
Done.