Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004846.1 Hibiscus syriacus cultivar Beakdansim tig00010927_pilon, whole genome shotgun sequence
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: 1467214
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 6
Found at i:297972 original size:77 final size:80
Alignment explanation
Indices: 297882--298029 Score: 257
Period size: 77 Copynumber: 1.9 Consensus size: 80
297872 AGTTCCATTA
297882 AATTTAGTTTATTGTAAATCTTCCATT-AAAAATATAATATTTTTATA-TTTTAAAAACAAAATA
1 AATTTAGTTTATTGTAAATCTTCCATTAAAAAATATAATATTTTTATATTTTTAAAAACAAAATA
297945 -TAAATAAAAAATTT
66 TTAAATAAAAAATTT
* *
297959 AATTTATTTTATTGTAAATCTTCCATTAAAAAATATAATATTTTTATATTTTTAAAAATAAAATA
1 AATTTAGTTTATTGTAAATCTTCCATTAAAAAATATAATATTTTTATATTTTTAAAAACAAAATA
298024 TTAAAT
66 TTAAAT
298030 TTATTTTTAA
Statistics
Matches: 66, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
77 26 0.39
78 20 0.30
79 15 0.23
80 5 0.08
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.45
Consensus pattern (80 bp):
AATTTAGTTTATTGTAAATCTTCCATTAAAAAATATAATATTTTTATATTTTTAAAAACAAAATA
TTAAATAAAAAATTT
Found at i:298166 original size:16 final size:17
Alignment explanation
Indices: 298147--298181 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
298137 TTCTAGCTTC
298147 TAATTCTTA-TTTCTTT
1 TAATTCTTATTTTCTTT
*
298163 TAATTTTTATTTTCTTT
1 TAATTCTTATTTTCTTT
298180 TA
1 TA
298182 CACTTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.20, C:0.09, G:0.00, T:0.71
Consensus pattern (17 bp):
TAATTCTTATTTTCTTT
Found at i:306197 original size:47 final size:46
Alignment explanation
Indices: 306104--306228 Score: 177
Period size: 47 Copynumber: 2.8 Consensus size: 46
306094 GTAAGTATGC
*
306104 AAATAAGCTTACGAGCTTAT-GA-AT-AATGGCAAGTATATTGATA
1 AAATAAGCTTACGAGCTTATGGATATAAATGGTAAGTATATTGATA
* *
306147 AAATAAGCTTACGAGCTTATGGAATATAAATGGTAAGTATTTTGGTA
1 AAATAAGCTTACGAGCTTATGG-ATATAAATGGTAAGTATATTGATA
*
306194 AAATAAGTTTACGAGCTTATGG-TATAAATGGTAAG
1 AAATAAGCTTACGAGCTTATGGATATAAATGGTAAG
306229 AGATTTTATA
Statistics
Matches: 74, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
43 20 0.27
44 1 0.01
45 14 0.19
46 2 0.03
47 37 0.50
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (46 bp):
AAATAAGCTTACGAGCTTATGGATATAAATGGTAAGTATATTGATA
Found at i:306699 original size:13 final size:13
Alignment explanation
Indices: 306683--306709 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
306673 TGTTCACGGG
306683 TACTGTTCACTAT
1 TACTGTTCACTAT
306696 TACTGTTCACTAT
1 TACTGTTCACTAT
306709 T
1 T
306710 CACTATTTGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.07, T:0.48
Consensus pattern (13 bp):
TACTGTTCACTAT
Found at i:307125 original size:28 final size:27
Alignment explanation
Indices: 307071--307126 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 27
307061 AATGTAGTAA
* *
307071 AAATGAATAAAATAAAGAAAGTGAAAT
1 AAATGAATAAAATAAAGAAAATAAAAT
* *
307098 AAATGCAATAAAGTAGAGAAAATAAAAT
1 AAATG-AATAAAATAAAGAAAATAAAAT
307126 A
1 A
307127 GATAAAGAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
27 5 0.21
28 19 0.79
ACGTcount: A:0.66, C:0.02, G:0.14, T:0.18
Consensus pattern (27 bp):
AAATGAATAAAATAAAGAAAATAAAAT
Found at i:307267 original size:15 final size:15
Alignment explanation
Indices: 307247--307278 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
307237 ATACAAAAAT
*
307247 AAAAATAGAAGATAA
1 AAAAATAAAAGATAA
307262 AAAAATAAAAGATAA
1 AAAAATAAAAGATAA
307277 AA
1 AA
307279 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.12
Consensus pattern (15 bp):
AAAAATAAAAGATAA
Found at i:307290 original size:14 final size:14
Alignment explanation
Indices: 307273--307338 Score: 62
Period size: 14 Copynumber: 4.6 Consensus size: 14
307263 AAAATAAAAG
*
307273 ATAAAATGAAATAT
1 ATAAAATAAAATAT
307287 ATAAAATAAAATAT
1 ATAAAATAAAATAT
** *
307301 ATAGCATATAAT-T
1 ATAAAATAAAATAT
*
307314 ATAGTAATAAAATAT
1 ATA-AAATAAAATAT
307329 ATATAAATAA
1 ATA-AAATAA
307339 TGATATATGA
Statistics
Matches: 41, Mismatches: 9, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
13 4 0.10
14 28 0.68
15 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.05, T:0.32
Consensus pattern (14 bp):
ATAAAATAAAATAT
Found at i:307368 original size:2 final size:2
Alignment explanation
Indices: 307361--307417 Score: 114
Period size: 2 Copynumber: 28.5 Consensus size: 2
307351 AAGAATTAAA
307361 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
307403 AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT A
307418 CGATAGAATA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 55 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:310152 original size:19 final size:16
Alignment explanation
Indices: 310110--310140 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
310100 GAACCCACCT
310110 TATTTTTTGTTCTTTC
1 TATTTTTTGTTCTTTC
*
310126 TCTTTTTTGTTCTTT
1 TATTTTTTGTTCTTT
310141 TTTCTATTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.03, C:0.13, G:0.06, T:0.77
Consensus pattern (16 bp):
TATTTTTTGTTCTTTC
Found at i:320667 original size:32 final size:31
Alignment explanation
Indices: 320625--320701 Score: 86
Period size: 32 Copynumber: 2.4 Consensus size: 31
320615 AGGCACAAAA
*
320625 ACAAATATAAAAAAATATATATA-AATAA-AAT
1 ACAAAAATAAAAAAATA-ATA-ACAATAACAAT
*
320656 ACATAAAATAAAGAAGATAATAACAATAACAAT
1 ACA-AAAATAAA-AAAATAATAACAATAACAAT
320689 ACAAAAATAAAAA
1 ACAAAAATAAAAA
320702 TAGAAGATAA
Statistics
Matches: 40, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
31 6 0.15
32 23 0.57
33 11 0.28
ACGTcount: A:0.71, C:0.06, G:0.03, T:0.19
Consensus pattern (31 bp):
ACAAAAATAAAAAAATAATAACAATAACAAT
Found at i:320703 original size:20 final size:19
Alignment explanation
Indices: 320660--320744 Score: 59
Period size: 20 Copynumber: 4.4 Consensus size: 19
320650 TAAAATACAT
* *
320660 AAAATAAAGA-AGATAATA
1 AAAATAAAGATAAAAAATA
*
320678 ACAATAACA-ATACAAAAATA
1 AAAATAA-AGATA-AAAAATA
320698 AAAATAGAAGATAAAAAATA
1 AAAATA-AAGATAAAAAATA
* *
320718 AAAGATAAA-ATGAAATATA
1 AAA-ATAAAGATAAAAAATA
320737 TAAAATAA
1 -AAAATAA
320745 TAAATATATA
Statistics
Matches: 54, Mismatches: 6, Indels: 13
0.74 0.08 0.18
Matches are distributed among these distances:
18 7 0.13
19 14 0.26
20 26 0.48
21 7 0.13
ACGTcount: A:0.72, C:0.04, G:0.07, T:0.18
Consensus pattern (19 bp):
AAAATAAAGATAAAAAATA
Found at i:320714 original size:14 final size:14
Alignment explanation
Indices: 320697--320727 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
320687 ATACAAAAAT
*
320697 AAAAATAGAAGATA
1 AAAAATAAAAGATA
320711 AAAAATAAAAGATA
1 AAAAATAAAAGATA
320725 AAA
1 AAA
320728 TGAAATATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.77, C:0.00, G:0.10, T:0.13
Consensus pattern (14 bp):
AAAAATAAAAGATA
Found at i:320751 original size:16 final size:17
Alignment explanation
Indices: 320730--320795 Score: 79
Period size: 16 Copynumber: 4.1 Consensus size: 17
320720 AGATAAAATG
320730 AAATATATA-AAATAAT
1 AAATATATATAAATAAT
320746 AAATATATATAACAT-AT
1 AAATATATATAA-ATAAT
*
320763 AATTATA-AT-AATAA-
1 AAATATATATAAATAAT
320777 AAATATATATAAATAAT
1 AAATATATATAAATAAT
320794 AA
1 AA
320796 TGATATATGA
Statistics
Matches: 42, Mismatches: 2, Indels: 11
0.76 0.04 0.20
Matches are distributed among these distances:
14 8 0.19
15 4 0.10
16 16 0.38
17 12 0.29
18 2 0.05
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATATATATAAATAAT
Found at i:320781 original size:31 final size:31
Alignment explanation
Indices: 320735--320796 Score: 92
Period size: 31 Copynumber: 2.0 Consensus size: 31
320725 AAATGAAATA
320735 TATAAAATAATAAATATATATAACAT-ATAAT
1 TATAAAATAATAAATATATATAA-ATAATAAT
320766 TATAATAATAA-AAATATATATAAATAATAAT
1 TATAA-AATAATAAATATATATAAATAATAAT
320797 GATATATGAA
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
30 2 0.07
31 22 0.76
32 5 0.17
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (31 bp):
TATAAAATAATAAATATATATAAATAATAAT
Found at i:322520 original size:20 final size:20
Alignment explanation
Indices: 322479--322520 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
322469 GTTAAAATTA
*
322479 ATATTAATATTAATATATAC
1 ATATTAATATTAATATACAC
*
322499 ATATGTAATTTTAAT-TACAC
1 ATAT-TAATATTAATATACAC
322519 AT
1 AT
322521 TAAAATACCG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 10 0.53
21 9 0.47
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (20 bp):
ATATTAATATTAATATACAC
Found at i:329914 original size:34 final size:34
Alignment explanation
Indices: 329865--329947 Score: 123
Period size: 34 Copynumber: 2.4 Consensus size: 34
329855 CAATTTTTAC
*
329865 AGCCTGCAACAAACTTCCCTAACAACATCCTAACA
1 AGCCTGCAACTAACTTCCCTAACAACATCCTAA-A
* *
329900 A-CCTGCAACTAACTTCCCTAATAGCATCCTAAA
1 AGCCTGCAACTAACTTCCCTAACAACATCCTAAA
329933 AGCCTGCAACTAACT
1 AGCCTGCAACTAACT
329948 CACACTCTCT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
33 2 0.05
34 41 0.93
35 1 0.02
ACGTcount: A:0.37, C:0.35, G:0.07, T:0.20
Consensus pattern (34 bp):
AGCCTGCAACTAACTTCCCTAACAACATCCTAAA
Found at i:330161 original size:21 final size:20
Alignment explanation
Indices: 330135--330173 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
330125 ACCGACAAAC
*
330135 AGGAAAATAATCAGAAAATAT
1 AGGAAAAT-ATAAGAAAATAT
330156 AGGAAAATATAAGAAAAT
1 AGGAAAATATAAGAAAAT
330174 TATGCAGAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.64, C:0.03, G:0.15, T:0.18
Consensus pattern (20 bp):
AGGAAAATATAAGAAAATAT
Found at i:333314 original size:2 final size:2
Alignment explanation
Indices: 333307--333349 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
333297 CAATATAACA
*
333307 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
333349 A
1 A
333350 CACACACAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:334289 original size:22 final size:22
Alignment explanation
Indices: 334264--334318 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
334254 GACTGGTTTG
* *
334264 GACCGAGCCGATTGAGCTGACC
1 GACCGAGCCGATCGAGCCGACC
*
334286 GACCGAGCCGATCGAGCCGACT
1 GACCGAGCCGATCGAGCCGACC
334308 GACCGAGCCGA
1 GACCGAGCCGA
334319 ACCGACTGGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.24, C:0.35, G:0.33, T:0.09
Consensus pattern (22 bp):
GACCGAGCCGATCGAGCCGACC
Found at i:334293 original size:13 final size:14
Alignment explanation
Indices: 334277--334318 Score: 52
Period size: 13 Copynumber: 3.1 Consensus size: 14
334267 CGAGCCGATT
334277 GAGCTGACCGA-CC
1 GAGCTGACCGAGCC
* *
334290 GAGCCGATCGAGCC
1 GAGCTGACCGAGCC
334304 GA-CTGACCGAGCC
1 GAGCTGACCGAGCC
334317 GA
1 GA
334319 ACCGACTGGA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
13 20 0.83
14 4 0.17
ACGTcount: A:0.24, C:0.36, G:0.33, T:0.07
Consensus pattern (14 bp):
GAGCTGACCGAGCC
Found at i:336317 original size:24 final size:24
Alignment explanation
Indices: 336287--336376 Score: 112
Period size: 24 Copynumber: 3.8 Consensus size: 24
336277 TACCGACCTG
*
336287 GATTCTGTTCTGATTTCTGAACTA
1 GATTCTGTTCTGATTTCTGATCTA
336311 GATTCTGTTCTGATATT-TGATCTA
1 GATTCTGTTCTGAT-TTCTGATCTA
* *
336335 GATTCTGTTATGATATCTGATCT-
1 GATTCTGTTCTGATTTCTGATCTA
*
336358 GAATTCTGTTTTGATTTCT
1 G-ATTCTGTTCTGATTTCT
336377 AATATATCCG
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
23 2 0.03
24 54 0.93
25 2 0.03
ACGTcount: A:0.20, C:0.13, G:0.17, T:0.50
Consensus pattern (24 bp):
GATTCTGTTCTGATTTCTGATCTA
Found at i:337865 original size:21 final size:21
Alignment explanation
Indices: 337839--338003 Score: 105
Period size: 21 Copynumber: 7.7 Consensus size: 21
337829 CATATAAAAT
*
337839 TGTCCCGAAGGACTACATATA
1 TGTCCCGAAGGACCACATATA
* *
337860 TGTCCCGAAGGAGCACATAGAA
1 TGTCCCGAAGGACCACATA-TA
* * *
337882 TTGTCCTGAATGACCACATAGAA
1 -TGTCCCGAAGGACCACATA-TA
* *
337905 TTGCCCCTAAGGACCACATATA
1 -TGTCCCGAAGGACCACATATA
* * * * *
337927 TATTCCAAAGGACAAAATATA
1 TGTCCCGAAGGACCACATATA
* **
337948 TGTCCTGAAGGACCGTATATA
1 TGTCCCGAAGGACCACATATA
* * *
337969 TGTTCCAAAGGATCACATATA
1 TGTCCCGAAGGACCACATATA
* *
337990 TGTCTCAAAGGACC
1 TGTCCCGAAGGACC
338004 GCGTAGAACC
Statistics
Matches: 109, Mismatches: 33, Indels: 4
0.75 0.23 0.03
Matches are distributed among these distances:
21 72 0.66
22 2 0.02
23 35 0.32
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (21 bp):
TGTCCCGAAGGACCACATATA
Found at i:337899 original size:23 final size:23
Alignment explanation
Indices: 337867--337924 Score: 73
Period size: 23 Copynumber: 2.5 Consensus size: 23
337857 ATATGTCCCG
* *
337867 AAGGAGCACATAGAATTG-TCCT
1 AAGGACCACATAGAATTGCCCCT
*
337889 GAATGACCACATAGAATTGCCCCT
1 -AAGGACCACATAGAATTGCCCCT
337913 AAGGACCACATA
1 AAGGACCACATA
337925 TATATTCCAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
23 27 0.90
24 3 0.10
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.19
Consensus pattern (23 bp):
AAGGACCACATAGAATTGCCCCT
Found at i:342416 original size:32 final size:32
Alignment explanation
Indices: 342380--342580 Score: 339
Period size: 32 Copynumber: 6.3 Consensus size: 32
342370 AAATTGAGAG
* * *
342380 AATTCGACTTGTCTAATGTCTAAGATAACATA
1 AATTCCACTTGTCTAACGTCTAAGATAAGATA
* * *
342412 AATTCTACTTGTCTAACGTCGAAGATAAGAGA
1 AATTCCACTTGTCTAACGTCTAAGATAAGATA
*
342444 AATTCCACTTGTCTAACGTATAAGATAAGATA
1 AATTCCACTTGTCTAACGTCTAAGATAAGATA
342476 AATTCCACTTGTCTAACGTCTAAGATAAGATA
1 AATTCCACTTGTCTAACGTCTAAGATAAGATA
342508 AATTCCACTTGTCTAACGTCTAAGATAAGATA
1 AATTCCACTTGTCTAACGTCTAAGATAAGATA
342540 AATTCCACTTGTCTAACGTCTAAGATAAGATA
1 AATTCCACTTGTCTAACGTCTAAGATAAGATA
342572 AATTCCACT
1 AATTCCACT
342581 AGTTCATTCT
Statistics
Matches: 159, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 159 1.00
ACGTcount: A:0.38, C:0.18, G:0.13, T:0.31
Consensus pattern (32 bp):
AATTCCACTTGTCTAACGTCTAAGATAAGATA
Found at i:344378 original size:3 final size:3
Alignment explanation
Indices: 344370--344400 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
344360 ATCTCTATTT
*
344370 ATA ATA ATA ATA ATA ATA ATT ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
344401 AAGGGAAGAA
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:354965 original size:19 final size:19
Alignment explanation
Indices: 354943--355002 Score: 50
Period size: 19 Copynumber: 3.2 Consensus size: 19
354933 CAAGCGAGAC
354943 AAATCTTCTGTTTCGAGGG
1 AAATCTTCTGTTTCGAGGG
**** **
354962 AAAT-TATCTCAAGCGAGAC
1 AAATCT-TCTGTTTCGAGGG
354981 AAATCTTCTGTTTCGAGGG
1 AAATCTTCTGTTTCGAGGG
355000 AAA
1 AAA
355003 CTATCTCAAG
Statistics
Matches: 27, Mismatches: 12, Indels: 4
0.63 0.28 0.09
Matches are distributed among these distances:
18 1 0.04
19 25 0.93
20 1 0.04
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (19 bp):
AAATCTTCTGTTTCGAGGG
Found at i:355039 original size:39 final size:39
Alignment explanation
Indices: 354885--355572 Score: 929
Period size: 39 Copynumber: 17.7 Consensus size: 39
354875 GTTTTAAGAA
* ** * *
354885 AAACCATCTCAAGTAAGATAAAAT-TTATTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTT-CTGTTTCGAGGG
* *
354924 AAACTGTCTCAAGCGAGA-CAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
354962 AAATTATCTCAAGCGAGA-CAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
355000 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
355039 AAACTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
355078 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
355117 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
355156 AAAGTATCTCAAGTGAGATAAAATCTTCTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
355195 AAACTATCTCAAGCAAGATAAAATCTTCTGTCTCGAGAG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
355234 AAATTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
355273 AAACAATCTCAAGCAAGA-CAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
355311 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* ** **
355350 AAACTATCTCAACCGAGATAAAAAAATT-TGTTTATAGGG
1 AAACTATCTCAAGCGAGAT-AAAATCTTCTGTTTCGAGGG
* * *
355389 AAACTATCTGAAGCGAGATAAAGTCTTCGGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * *
355428 AAACTATCTCAAGCGAGATAAAATCTTATATTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
*
355467 AAACTATCTCAAGCGAGATAAAATCTTTTGTTTCGAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* * * *
355506 AAACTATCTCAAGCAAGAT-GAATCTTCCGTTTCAAGGG
1 AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
* *
355544 AAACTATCTCAAGAGAGATGAAATCTTCT
1 AAACTATCTCAAGCGAGATAAAATCTTCT
355573 TTAAAAACAA
Statistics
Matches: 574, Mismatches: 69, Indels: 12
0.88 0.11 0.02
Matches are distributed among these distances:
38 138 0.24
39 430 0.75
40 6 0.01
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.29
Consensus pattern (39 bp):
AAACTATCTCAAGCGAGATAAAATCTTCTGTTTCGAGGG
Found at i:360337 original size:64 final size:64
Alignment explanation
Indices: 360235--360357 Score: 178
Period size: 64 Copynumber: 1.9 Consensus size: 64
360225 AATGCATTTT
* * *
360235 ATGCATCGATGCACTCAGGTTTTATGAAAACATTGAATGCATTTTATGCATCGATGCACAGACC
1 ATGCATCGATACACTCAGGTTTTATGAAAACATCGAATGCATTTTATGCACCGATGCACAGACC
*
360299 ATGCATCGATACACTCTGGCTTGTT-T-AAAACATCGAATGCATTTTATGCACCGATGCAC
1 ATGCATCGATACACTCAGG-TT-TTATGAAAACATCGAATGCATTTTATGCACCGATGCAC
360358 TAAGGGTCCA
Statistics
Matches: 53, Mismatches: 4, Indels: 4
0.87 0.07 0.07
Matches are distributed among these distances:
64 48 0.91
65 3 0.06
66 2 0.04
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.30
Consensus pattern (64 bp):
ATGCATCGATACACTCAGGTTTTATGAAAACATCGAATGCATTTTATGCACCGATGCACAGACC
Found at i:366147 original size:21 final size:21
Alignment explanation
Indices: 366121--366177 Score: 60
Period size: 24 Copynumber: 2.6 Consensus size: 21
366111 TTGTGCATAA
366121 TGCATCGATACACTATGAAAG
1 TGCATCGATACACTATGAAAG
* * *
366142 TGCATCGATGCATCCCTTTGAATG
1 TGCATCGAT--A-CACTATGAAAG
366166 TGCATCGATACA
1 TGCATCGATACA
366178 TCATGAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 1 0.03
24 17 0.59
ACGTcount: A:0.30, C:0.23, G:0.19, T:0.28
Consensus pattern (21 bp):
TGCATCGATACACTATGAAAG
Found at i:366196 original size:45 final size:44
Alignment explanation
Indices: 366121--366218 Score: 137
Period size: 45 Copynumber: 2.2 Consensus size: 44
366111 TTGTGCATAA
*
366121 TGCATCGATACACTATGAAAGTGCATCGATGCATCCCTTTGAATG
1 TGCATCGATACACTATGAAAGTGCACCGATGCATCCC-TTGAATG
*
366166 TGCATCGATACA-TCATG-AAGTTGCACCGATGCATGCCTTGAATG
1 TGCATCGATACACT-ATGAAAG-TGCACCGATGCATCCCTTGAATG
366210 TGCATCGAT
1 TGCATCGAT
366219 GCACAAGGCC
Statistics
Matches: 49, Mismatches: 2, Indels: 5
0.88 0.04 0.09
Matches are distributed among these distances:
44 20 0.41
45 29 0.59
ACGTcount: A:0.28, C:0.22, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCATCGATACACTATGAAAGTGCACCGATGCATCCCTTGAATG
Found at i:373685 original size:57 final size:57
Alignment explanation
Indices: 373472--373892 Score: 473
Period size: 57 Copynumber: 7.5 Consensus size: 57
373462 AAATTCACCT
* * * * * * * *
373472 ACTTATTATGAATTTCAT-A-TGTTTGCACATATAGTTCCCATACAAAAATTCACAC
1 ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
* * * * * * *
373527 ACTCAGTATGAATTTCTT-A--GTTTGCACACATAGTGCCCATACGGAAATTCACAC
1 ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
* * * * *
373581 ACTTAGTT-TGAATTTCTT-A--GTTTGCACACATAGTGCCCATACAAAAATTAATAC
1 ACTTA-TTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
* * *
373635 ACTTAGTATGAATTTCTTATCTTTTCGCACACAAAGTGCCCATACGAAAATTCATAA
1 ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
* * *
373692 ACTAATTATGATTTTCTTAACTTTTTGCACACAAAGTGTCCATACGAAAATTCATAA
1 ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
* * *
373749 ACTTATTATGAATTTCTCAACTTTTTGCACACAAAGGGCCCATACGGAAATTCATAA
1 ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
* * *
373806 ACTAATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATATGGAAATTCATAA
1 ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
*
373863 ACTAATTATGAATTTCTTAACTTTTTGCAC
1 ACTTATTATGAATTTCTTAACTTTTTGCAC
373893 TATCAGTGCC
Statistics
Matches: 324, Mismatches: 37, Indels: 8
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.00
54 92 0.28
55 17 0.05
57 214 0.66
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (57 bp):
ACTTATTATGAATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAA
Found at i:380198 original size:54 final size:54
Alignment explanation
Indices: 380089--380263 Score: 226
Period size: 54 Copynumber: 3.2 Consensus size: 54
380079 CCACCACCAG
* * *
380089 TACGAAAATTCAC-CTACTTATTATGAATTTCTTATGTTTGCACATATAGTTCCCA
1 TACGGAAATTCACAC-ACTTAATATGAATTTCTTA-GTTTGCACACATAGTTCCCA
** * * * *
380144 TACGGAAATTTGCACACTTAGTACGAATTTTTTAGTTTGCACACATATTTCCCA
1 TACGGAAATTCACACACTTAATATGAATTTCTTAGTTTGCACACATAGTTCCCA
* *
380198 TACGAAAATTCACACACTTAATATGAATTTCTTAGTTTGCACACATAGTGCCCA
1 TACGGAAATTCACACACTTAATATGAATTTCTTAGTTTGCACACATAGTTCCCA
380252 TACGGAAATTCA
1 TACGGAAATTCA
380264 TAAACTAATT
Statistics
Matches: 102, Mismatches: 17, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
54 75 0.74
55 26 0.25
56 1 0.01
ACGTcount: A:0.33, C:0.21, G:0.11, T:0.35
Consensus pattern (54 bp):
TACGGAAATTCACACACTTAATATGAATTTCTTAGTTTGCACACATAGTTCCCA
Found at i:382442 original size:10 final size:10
Alignment explanation
Indices: 382427--382452 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
382417 ACAAGACAAA
382427 GAAATTCAAT
1 GAAATTCAAT
382437 GAAATTCAAT
1 GAAATTCAAT
382447 GAAATT
1 GAAATT
382453 TTTCGTAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.12, T:0.31
Consensus pattern (10 bp):
GAAATTCAAT
Found at i:386956 original size:21 final size:21
Alignment explanation
Indices: 386927--386966 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
386917 TCACTGTAGA
* *
386927 ATTTTATGGCCTCGACAAAAG
1 ATTTCATGGCCTCAACAAAAG
*
386948 ATTTCATGGCTTCAACAAA
1 ATTTCATGGCCTCAACAAA
386967 GACTTTGTTG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.35, C:0.20, G:0.15, T:0.30
Consensus pattern (21 bp):
ATTTCATGGCCTCAACAAAAG
Found at i:394292 original size:23 final size:22
Alignment explanation
Indices: 394253--394296 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
394243 CACAACTAGA
394253 TTAATAAGAAAGGAAATCAAAT
1 TTAATAAGAAAGGAAATCAAAT
394275 TTAA-AAGAATAGAGAAATCAAA
1 TTAATAAGAA-AG-GAAATCAAA
394297 CTCATCAATG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 5 0.25
22 6 0.30
23 9 0.45
ACGTcount: A:0.61, C:0.05, G:0.14, T:0.20
Consensus pattern (22 bp):
TTAATAAGAAAGGAAATCAAAT
Found at i:395460 original size:27 final size:27
Alignment explanation
Indices: 395430--395486 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
395420 GATGAAATAT
*
395430 TTGAGA-GTTAAGAAAATGGGTTTTTAA
1 TTGAGATGTT-AGAAAATGAGTTTTTAA
* * *
395457 TTGATATGTTAGAATATGAGTTTTTTA
1 TTGAGATGTTAGAAAATGAGTTTTTAA
395484 TTG
1 TTG
395487 GTGTTTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 22 0.88
28 3 0.12
ACGTcount: A:0.32, C:0.00, G:0.23, T:0.46
Consensus pattern (27 bp):
TTGAGATGTTAGAAAATGAGTTTTTAA
Found at i:396256 original size:12 final size:12
Alignment explanation
Indices: 396239--396264 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
396229 ATTTATTATG
396239 TACAGTAAGAGT
1 TACAGTAAGAGT
396251 TACAGTAAGAGT
1 TACAGTAAGAGT
396263 TA
1 TA
396265 TAAATGTGTG
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:0.42, C:0.08, G:0.23, T:0.27
Consensus pattern (12 bp):
TACAGTAAGAGT
Found at i:396382 original size:54 final size:54
Alignment explanation
Indices: 396320--397000 Score: 861
Period size: 54 Copynumber: 12.6 Consensus size: 54
396310 TATATGTACA
* *
396320 TTTGGCACTATGTGTGCAAACCACAGAATTCATCATAAGTTGCTGAACAACCAT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
* * *
396374 TTAGGCACTAAGTGTGTAACCCAC-GAAATTCATCATAAGTTGATGAACAACCAT
1 TTTGGCACTATGTGTGCAACCCACAG-AATTCATCATAAGTTGATGAACAACCAT
* * *
396428 TTTGGTACTATGTGTGGAACCCA-TGAAATTCATCATAAGTTGATGAACAACCAT
1 TTTGGCACTATGTGTGCAACCCACAG-AATTCATCATAAGTTGATGAACAACCAT
* * * *
396482 TTAGGCACTATGTGTCCAACCCACAAAATTCATCATAAGTTGATGAACAACCGT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
* * *
396536 TTTGGCACTATGTGTGCAACCCAC-GAAATTCATCATAAATTGATGAACAATCGT
1 TTTGGCACTATGTGTGCAACCCACAG-AATTCATCATAAGTTGATGAACAACCAT
*
396590 TTTGGCACTATGTGTGCAACCCAC-GAAATTCATCATAAGTTGATGAACAACCGT
1 TTTGGCACTATGTGTGCAACCCACAG-AATTCATCATAAGTTGATGAACAACCAT
* *
396644 TTTGGCA-TCATGTGTGCAACCCACAGAATTCATCATAAGTTAATGAACAATCAT
1 TTTGGCACT-ATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
* * *
396698 TTTGGCACTATATGTGCAACCCACGGAATTCATCATAAGTTGATGAACAACTAT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
*
396752 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCGT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
* * * * *
396806 TTTGGTACTATGTGTGCAACCCACGGAATCCATCATATGTTGATGAACAACCGT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
* * *
396860 TTTGGCACTATGTGTGCAGCCCACAGAATTCATCATATGTTGATGAACAACCGT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
* * * * * ** * *
396914 ATAGGCACTAAGTATGTAACCCA-AGGAATTCATCATATCTTGATGAACGACCGT
1 TTTGGCACTATGTGTGCAACCCACA-GAATTCATCATAAGTTGATGAACAACCAT
* * ** * *
396968 ATCGAAACTAAGTGTGCAACACACAGAATTCAT
1 TTTGGCACTATGTGTGCAACCCACAGAATTCAT
397001 AATGAGTTTA
Statistics
Matches: 561, Mismatches: 57, Indels: 18
0.88 0.09 0.03
Matches are distributed among these distances:
53 3 0.01
54 555 0.99
55 3 0.01
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.28
Consensus pattern (54 bp):
TTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCAT
Found at i:401921 original size:17 final size:17
Alignment explanation
Indices: 401895--401939 Score: 72
Period size: 17 Copynumber: 2.6 Consensus size: 17
401885 TAATGTAATT
*
401895 CGTATTGATACTGATGG
1 CGTATCGATACTGATGG
401912 CGTATCGATACTGATGG
1 CGTATCGATACTGATGG
*
401929 GGTATCGATAC
1 CGTATCGATAC
401940 CAAAAGGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (17 bp):
CGTATCGATACTGATGG
Found at i:402467 original size:54 final size:54
Alignment explanation
Indices: 402383--402899 Score: 621
Period size: 54 Copynumber: 9.6 Consensus size: 54
402373 CTATATGTAC
* * ** * *
402383 TTTTGGCACTATGCGTACAACCCATGGAATTCATCATAAGTTGATGAGCAACTG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* * *
402437 TTTTGGCACTAAGTGCGCAACCCACAGAATTCATCATAAGTTGATTAACAACCG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* **
402491 TTTTGGCA-T-TGTGTGCAACCCACAAAATTCATCATAAGTTGATGAACAACTA
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* * * *
402543 TTTTGGCGCTATGTGTGCAACCCACGGAATTCATTATAAGTTGATAAACAACCG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* * * *
402597 TTTTGGCACTATGTTTACAACCCACTGAATTCATCATAAGTTGATGAATAACCG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* *
402651 TTTTGGCACTATGTGTGCAACCCACGGAATTCATCATAAGTTGATGAACAA-CA
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* *
402704 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCACAAGTT-ATTGAACAACTG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGA-TGAACAACCG
** * *
402758 TTTTGGCACTATGTGTGCAACCCATGGAATTCAGCATATGTTGATGAACAACCG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* * * * * * * **
402812 TATAGGCACTAAGTGTACGACCCAAAGAATTCATCATATGTTGATGAATGACCG
1 TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
* * *
402866 TATCGGCACTAAGTGTGCAACCCAC-GAAATTCAT
1 TTTTGGCACTATGTGTGCAACCCACAG-AATTCAT
402900 AATGTGCTTA
Statistics
Matches: 399, Mismatches: 58, Indels: 12
0.85 0.12 0.03
Matches are distributed among these distances:
52 45 0.11
53 51 0.13
54 302 0.76
55 1 0.00
ACGTcount: A:0.32, C:0.21, G:0.18, T:0.29
Consensus pattern (54 bp):
TTTTGGCACTATGTGTGCAACCCACAGAATTCATCATAAGTTGATGAACAACCG
Found at i:402844 original size:215 final size:214
Alignment explanation
Indices: 402387--402899 Score: 688
Period size: 215 Copynumber: 2.4 Consensus size: 214
402377 ATGTACTTTT
* * ** ** *
402387 GGCACTATGCGTACAACCCATGGAATTCATCATAAGTTGATGAGCAACTGTTTTGGCACTAAGTG
1 GGCACTAAGTGTACAACCCAAAGAATTCATCATAAGTTGATGAATAACCGTTTTGGCACTAAGTG
* * * *
402452 CGCAACCCACAGAATTCATCATAAGTTGATTAACAACCGTTTTGGCATTGTGTGCAACCCACAAA
66 TGCAACCCACGGAATTCATCATAAGTTGATGAACAACCATTTTGGCATTGTGTGCAACCCACAAA
* * **
402517 ATTCATCATAAGTTGATGAACAACTATTTTGGCGCTATGTGTGCAACCCACGGAATTCATTATAA
131 ATTCATCACAAGTTGATGAACAACTATTTTGGCACTATGTGTGCAACCCACGGAATTCAGCATAA
* *
402582 GTTGATAAACAACCGTTTT
196 GTTGATAAACAACCGTATA
* * ** *
402601 GGCACTATGTTTACAACCCACTGAATTCATCATAAGTTGATGAATAACCGTTTTGGCACTATGTG
1 GGCACTAAGTGTACAACCCAAAGAATTCATCATAAGTTGATGAATAACCGTTTTGGCACTAAGTG
402666 TGCAACCCACGGAATTCATCATAAGTTGATGAACAA-CATTTTGGCACTATGTGTGCAACCCACA
66 TGCAACCCACGGAATTCATCATAAGTTGATGAACAACCATTTTGGCA-T-TGTGTGCAACCCACA
* * *
402730 GAATTCATCACAAGTT-ATTGAACAACTGTTTTGGCACTATGTGTGCAACCCATGGAATTCAGCA
129 AAATTCATCACAAGTTGA-TGAACAACTATTTTGGCACTATGTGTGCAACCCACGGAATTCAGCA
* *
402794 TATGTTGATGAACAACCGTATA
193 TAAGTTGATAAACAACCGTATA
* * * * *
402816 GGCACTAAGTGTACGACCCAAAGAATTCATCATATGTTGATGAATGACCGTATCGGCACTAAGTG
1 GGCACTAAGTGTACAACCCAAAGAATTCATCATAAGTTGATGAATAACCGTTTTGGCACTAAGTG
*
402881 TGCAACCCACGAAATTCAT
66 TGCAACCCACGGAATTCAT
402900 AATGTGCTTA
Statistics
Matches: 262, Mismatches: 34, Indels: 5
0.87 0.11 0.02
Matches are distributed among these distances:
213 9 0.03
214 92 0.35
215 161 0.61
ACGTcount: A:0.32, C:0.21, G:0.19, T:0.28
Consensus pattern (214 bp):
GGCACTAAGTGTACAACCCAAAGAATTCATCATAAGTTGATGAATAACCGTTTTGGCACTAAGTG
TGCAACCCACGGAATTCATCATAAGTTGATGAACAACCATTTTGGCATTGTGTGCAACCCACAAA
ATTCATCACAAGTTGATGAACAACTATTTTGGCACTATGTGTGCAACCCACGGAATTCAGCATAA
GTTGATAAACAACCGTATA
Found at i:402958 original size:54 final size:54
Alignment explanation
Indices: 402762--402943 Score: 154
Period size: 54 Copynumber: 3.4 Consensus size: 54
402752 CAACTGTTTT
* * * ** * * * *
402762 GGCACTATGTGTGCAACCCATGGAATTCAGCATATG-TTGATGAACAACCGTATA
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATGTGCTT-ATGAACGACCATATC
* * * * * * *
402816 GGCACTAAGTGTACGACCCA-AAGAATTCATCATATG-TTGATGAATGACCGTATC
1 GGCACTAAGTGTGCAACCCACGA-AATTCATAATGTGCTT-ATGAACGACCATATC
402870 GGCACTAAGTGTGCAACCCACGAAATTCATAATGTGCTTATGAACGACCATATC
1 GGCACTAAGTGTGCAACCCACGAAATTCATAATGTGCTTATGAACGACCATATC
* *
402924 GGCACTACGTGTGCACCCCA
1 GGCACTAAGTGTGCAACCCA
402944 GAGAACTTAT
Statistics
Matches: 107, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
54 104 0.97
55 3 0.03
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (54 bp):
GGCACTAAGTGTGCAACCCACGAAATTCATAATGTGCTTATGAACGACCATATC
Found at i:404421 original size:21 final size:21
Alignment explanation
Indices: 404393--404438 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
404383 ATTTTTGGCT
* *
404393 CAAA-GGATTGATCCCTTTGA
1 CAAATGGATCGATCCCCTTGA
404413 CAAATGGATCGATCCCCTTGA
1 CAAATGGATCGATCCCCTTGA
*
404434 AAAAT
1 CAAAT
404439 AATAGACCCC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (21 bp):
CAAATGGATCGATCCCCTTGA
Found at i:404545 original size:22 final size:22
Alignment explanation
Indices: 404504--404563 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
404494 ATCCCTCGAG
* *
404504 AAAAAGGATCAATCCC-TTCACC
1 AAAAA-GATCGATCCCTTTCAAC
404526 AAAAAGATCGATCCCTTTCAAC
1 AAAAAGATCGATCCCTTTCAAC
* *
404548 -AAATGATTGATCCCTT
1 AAAAAGATCGATCCCTT
404564 ATGAATTAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 23 0.70
22 10 0.30
ACGTcount: A:0.38, C:0.27, G:0.10, T:0.25
Consensus pattern (22 bp):
AAAAAGATCGATCCCTTTCAAC
Found at i:406470 original size:15 final size:16
Alignment explanation
Indices: 406443--406477 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
406433 GCTTTCAAAA
406443 TTGAAAAATGAAAATT
1 TTGAAAAATGAAAATT
406459 TTGAAAAA-GAAAATT
1 TTGAAAAATGAAAATT
406474 TTGA
1 TTGA
406478 TTTGAAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 11 0.58
16 8 0.42
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.31
Consensus pattern (16 bp):
TTGAAAAATGAAAATT
Found at i:410067 original size:22 final size:24
Alignment explanation
Indices: 410040--410091 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
410030 AAATCCAGCA
410040 AAGAAATCG-AAGCACTC-AAAAG
1 AAGAAATCGAAAGCACTCAAAAAG
*
410062 AAGAAATTGAAAGCACTCAAAAAG
1 AAGAAATCGAAAGCACTCAAAAAG
410086 AAGAAA
1 AAGAAA
410092 AAAAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
22 8 0.30
23 8 0.30
24 11 0.41
ACGTcount: A:0.60, C:0.13, G:0.17, T:0.10
Consensus pattern (24 bp):
AAGAAATCGAAAGCACTCAAAAAG
Found at i:414744 original size:21 final size:18
Alignment explanation
Indices: 414720--414765 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
414710 GTTTAAAAAA
414720 TATTATTATTGATT-TATT
1 TATTATTATT-ATTATATT
*
414738 TATTATTATTATTATCTT
1 TATTATTATTATTATATT
414756 TATTATTATT
1 TATTATTATT
414766 TTTGCAAGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
17 3 0.12
18 23 0.88
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (18 bp):
TATTATTATTATTATATT
Found at i:415585 original size:96 final size:96
Alignment explanation
Indices: 415421--415613 Score: 359
Period size: 96 Copynumber: 2.0 Consensus size: 96
415411 ACCGCGGGAA
* *
415421 GGATTTATGTTCCATTATCGAGAAAGACGAGGCCAATCTACGTGCGTTTCTCAACATCTCTGAAG
1 GGATTTATGTTCAATTATCGAGAAAGAAGAGGCCAATCTACGTGCGTTTCTCAACATCTCTGAAG
415486 ACTACGCCGTTTTGTTCCTCCAAGGTGGGGC
66 ACTACGCCGTTTTGTTCCTCCAAGGTGGGGC
*
415517 GGATTTATGTTCAATTATCGAGAAAGAAGAGGCCGATCTACGTGCGTTTCTCAACATCTCTGAAG
1 GGATTTATGTTCAATTATCGAGAAAGAAGAGGCCAATCTACGTGCGTTTCTCAACATCTCTGAAG
415582 ACTACGCCGTTTTGTTCCTCCAAGGTGGGGC
66 ACTACGCCGTTTTGTTCCTCCAAGGTGGGGC
415613 G
1 G
415614 ACAATCCAGT
Statistics
Matches: 94, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
96 94 1.00
ACGTcount: A:0.23, C:0.23, G:0.25, T:0.29
Consensus pattern (96 bp):
GGATTTATGTTCAATTATCGAGAAAGAAGAGGCCAATCTACGTGCGTTTCTCAACATCTCTGAAG
ACTACGCCGTTTTGTTCCTCCAAGGTGGGGC
Found at i:416414 original size:29 final size:30
Alignment explanation
Indices: 416355--416424 Score: 81
Period size: 30 Copynumber: 2.3 Consensus size: 30
416345 TTTATTACTC
*
416355 TTCTTTTTATTAAATTTTTTTATTTGATTTT
1 TTCTTTCT-TTAAATTTTTTTATTTGATTTT
* *
416386 ATT-TTTCTTTAACTTTTTTTATTT-CTTTT
1 -TTCTTTCTTTAAATTTTTTTATTTGATTTT
416415 TTCTTTCTTT
1 TTCTTTCTTT
416425 CTTTTCCTTC
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
28 2 0.06
29 11 0.32
30 15 0.44
31 4 0.12
32 2 0.06
ACGTcount: A:0.14, C:0.09, G:0.01, T:0.76
Consensus pattern (30 bp):
TTCTTTCTTTAAATTTTTTTATTTGATTTT
Found at i:416463 original size:16 final size:16
Alignment explanation
Indices: 416442--416476 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
416432 TTCCCTTTAA
416442 TTTATTATTTTT-ATTT
1 TTTATT-TTTTTAATTT
416458 TTTATTTTTTTAATTT
1 TTTATTTTTTTAATTT
416474 TTT
1 TTT
416477 TCTTTCATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.28
16 13 0.72
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTTTTAATTT
Found at i:416486 original size:22 final size:22
Alignment explanation
Indices: 416441--416493 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
416431 CTTCCCTTTA
*
416441 ATTTA-TT-ATTTTTATTTTTT
1 ATTTATTTAATTTTTATTTTTC
*
416461 ATTTTTTTAATTTTT-TTCTTTC
1 ATTTATTTAATTTTTATT-TTTC
416483 ATTTATTTAAT
1 ATTTATTTAAT
416494 ACTTATTTAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
20 4 0.15
21 4 0.15
22 19 0.70
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (22 bp):
ATTTATTTAATTTTTATTTTTC
Found at i:433533 original size:571 final size:569
Alignment explanation
Indices: 432436--433559 Score: 1792
Period size: 571 Copynumber: 2.0 Consensus size: 569
432426 AAAACTCATG
*
432436 CAATGAATGATATCATATGATAAGAATATCCCAAGAGGTAAATGCAAACATATGATAAAATATAG
1 CAATGAATGATATCATATGATAAGAATATCCCAAGAGGTAAATACAAACATATGATAAAATATAG
* *
432501 AGCATAAATGAGAAGGTATAGGATGAAGTAAGCCAGAATTTCCTTTGAATCAGCCTTGGTGAACT
66 AGCATAAATGAGAAGGTATAGGATGAAGTAAGCCAGAATCTCCTTTGAATCAACCTTGGTGAACT
* * *
432566 TCAATGATTTAATTAGATCAAGAAGAAAGTCAGGGTTGATTGGGATCACATCATTCCCTCCCTCT
131 TCAACGATTTAATTAGATCAAGAAGAAAGTCAGGGCTGATTGAGATCACATCATTCCCTCCCTCT
* *
432631 TTAATGTGATTTGTCCGCAAATCAACAATTGTATGAACGGAAACAATTTTGATTTTCTTTGGGCG
196 TTAATGTGATTTGTCCCCAAATCAACAATTGTATGAACGGAAACAATTTTGATTTTCTTTGGGCA
* * *
432696 GGGAACTTTACTTTTTAATTTACACAAAACTCATTCTCCGGGATCAAGATCTTCACGCTTGTAAA
261 GGGAACTTTACTTTTTAATTAACACAAAACCCATTCTCCAGGATCAAGATCTTCACGCTTGTAAA
432761 CCTTATTTTCATATGGCTCACTTGAATATAGACATGTCTTTTGGATCTCTCTTTTTGAAACATCA
326 CCTTATTTTCATATGGCTCACTTGAATATAGACATGTCTTTTGGATCTCTCTTTTTGAAACATCA
*
432826 TATTCTTTAGCAACTAGAGTTGTTTTTTGAACCTTGGCTTGATTCAAAACATCAGTTTCATTGAT
391 TATTCTTTAGCAACTAGAGTTGTCTTTTGAACCTTGGCTTGATTCAAAACATCAGTTTCATTGAT
* * * **
432891 GAAGGAACTTGTCCTTTGAATAATTCGTTGGTCTAAAAGGTTACGACTTTTGATTAAAGAATGTT
456 GAAGGAACTTGTCCTTTGAATAATTCCTTAGTCTAAAAGGTTACGAATTTTGATTAAAGAACATT
*
432956 TCTCTTCAAATCCTCTCATCTTTCGGTGTTGTTATTTAAAGCATTCACA
521 TCTCTTCAAATCCTCTAATCTTTCGGTGTTGTTATTTAAAGCATTCACA
*
433005 CAATGAATGATATCATATGATAAGCATATCCCAAGAGGTAAATACAAACATATGATAAAATATAG
1 CAATGAATGATATCATATGATAAGAATATCCCAAGAGGTAAATACAAACATATGATAAAATATAG
**
433070 AGCATAAATGAGCAA-GTATAGGATGAAGTAAGGTAGAA-CTCTCTTTGAATCAACCTTGGTGAA
66 AGCATAAATGAG-AAGGTATAGGATGAAGTAAGCCAGAATCTC-CTTTGAATCAACCTTGGTGAA
* *
433133 CTTCAACGATTTAATTAGATCAAGAAGAAAGTTAGGGCTGATTGATATCACATCATTCCCTCCCT
129 CTTCAACGATTTAATTAGATCAAGAAGAAAGTCAGGGCTGATTGAGATCACATCATTCCCTCCCT
* * *
433198 CTTTAATGTGATTTGTCCCCAAATCGACACTTGCTATGAAC-GAGAATAATTTTGA-TTTCTTTG
194 CTTTAATGTGATTTGTCCCCAAATCAACAATTG-TATGAACGGA-AACAATTTTGATTTTCTTTG
* * *
433261 GGCAGGGAACTTCTTTAC-TTTTGATTAACACAGAACCCATTCTCCAGGATCAATATCTTCACGC
257 GGCAGGGAA---CTTTACTTTTTAATTAACACAAAACCCATTCTCCAGGATCAAGATCTTCACGC
* *
433325 TTGTAAACCTTATTTTCATATGGTTCACTTGAATATATACATGTCTTTTGGATCTCTCTTTTTGA
319 TTGTAAACCTTATTTTCATATGGCTCACTTGAATATAGACATGTCTTTTGGATCTCTCTTTTTGA
* *
433390 AACATCATATTCTTTGGCAA-TGAGAGTTGTCTTTTGAACCTTGGCTTGATTCAAAACATCATTT
384 AACATCATATTCTTTAGCAACT-AGAGTTGTCTTTTGAACCTTGGCTTGATTCAAAACATCAGTT
* * * *
433454 TCATTGATTAAGGAACTTGTCCTTTGAATCATTCCTTAGTCTGAAAGGTTATGAATTTTGATTAA
448 TCATTGATGAAGGAACTTGTCCTTTGAATAATTCCTTAGTCTAAAAGGTTACGAATTTTGATTAA
*
433519 ATAACATTTCTCTTCAAATCCTCTAATCTTTCGGTGTTGTT
513 AGAACATTTCTCTTCAAATCCTCTAATCTTTCGGTGTTGTT
433560 CTCTTTCAAA
Statistics
Matches: 509, Mismatches: 38, Indels: 14
0.91 0.07 0.02
Matches are distributed among these distances:
568 2 0.00
569 224 0.44
570 20 0.04
571 257 0.50
572 6 0.01
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.35
Consensus pattern (569 bp):
CAATGAATGATATCATATGATAAGAATATCCCAAGAGGTAAATACAAACATATGATAAAATATAG
AGCATAAATGAGAAGGTATAGGATGAAGTAAGCCAGAATCTCCTTTGAATCAACCTTGGTGAACT
TCAACGATTTAATTAGATCAAGAAGAAAGTCAGGGCTGATTGAGATCACATCATTCCCTCCCTCT
TTAATGTGATTTGTCCCCAAATCAACAATTGTATGAACGGAAACAATTTTGATTTTCTTTGGGCA
GGGAACTTTACTTTTTAATTAACACAAAACCCATTCTCCAGGATCAAGATCTTCACGCTTGTAAA
CCTTATTTTCATATGGCTCACTTGAATATAGACATGTCTTTTGGATCTCTCTTTTTGAAACATCA
TATTCTTTAGCAACTAGAGTTGTCTTTTGAACCTTGGCTTGATTCAAAACATCAGTTTCATTGAT
GAAGGAACTTGTCCTTTGAATAATTCCTTAGTCTAAAAGGTTACGAATTTTGATTAAAGAACATT
TCTCTTCAAATCCTCTAATCTTTCGGTGTTGTTATTTAAAGCATTCACA
Found at i:434430 original size:21 final size:19
Alignment explanation
Indices: 434388--434449 Score: 67
Period size: 18 Copynumber: 3.3 Consensus size: 19
434378 AATGTGCTCA
434388 TTTTC-ACTCTCAA-TTCT
1 TTTTCAACTCTCAATTTCT
434405 CTTTTCAATGCTCTCAATTTCT
1 -TTTTCAA--CTCTCAATTTCT
*
434427 TTTTCAACTCTC-GTTTCT
1 TTTTCAACTCTCAATTTCT
434445 TTTTC
1 TTTTC
434450 TTTTTTGCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 15 0.38
19 6 0.15
21 14 0.36
22 4 0.10
ACGTcount: A:0.15, C:0.27, G:0.03, T:0.55
Consensus pattern (19 bp):
TTTTCAACTCTCAATTTCT
Found at i:438439 original size:21 final size:21
Alignment explanation
Indices: 438413--438452 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
438403 CTCATTTTCA
438413 CTCTCAAT-TCTCTTTTCAATG
1 CTCTCAATGTCT-TTTTCAATG
438434 CTCTCAATGTCTTTTTCAA
1 CTCTCAATGTCTTTTTCAA
438453 CTCTCGTTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 15 0.83
22 3 0.17
ACGTcount: A:0.20, C:0.28, G:0.05, T:0.47
Consensus pattern (21 bp):
CTCTCAATGTCTTTTTCAATG
Found at i:450929 original size:20 final size:19
Alignment explanation
Indices: 450891--450930 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
450881 AAGAACAATG
*
450891 AACCATAAGCATTAAATTA
1 AACCATAAACATTAAATTA
*
450910 AACCATTAAACATTACATTA
1 AACCA-TAAACATTAAATTA
450930 A
1 A
450931 GGAGATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.53, C:0.17, G:0.03, T:0.28
Consensus pattern (19 bp):
AACCATAAACATTAAATTA
Found at i:450980 original size:36 final size:37
Alignment explanation
Indices: 450910--450980 Score: 108
Period size: 36 Copynumber: 1.9 Consensus size: 37
450900 CATTAAATTA
*
450910 AACCATTAAACATTACATTAAGGAGATAAAAACAATG
1 AACCATTAAACATTACATTAAGAAGATAAAAACAATG
* *
450947 AACCATT-AACATTACATTAAGAATATAATAACAA
1 AACCATTAAACATTACATTAAGAAGATAAAAACAA
450981 CAAACTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 24 0.77
37 7 0.23
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (37 bp):
AACCATTAAACATTACATTAAGAAGATAAAAACAATG
Found at i:452077 original size:143 final size:140
Alignment explanation
Indices: 451689--452368 Score: 611
Period size: 143 Copynumber: 4.8 Consensus size: 140
451679 TGATATATCG
* * *
451689 CTGAAAAG-TTTGTCATTGTGCATTAAATGGTCAATGAGAAATGAATGTTTTTTTTTTTTTGAAA
1 CTGAAAAGTTTTGTCATTGTGCATTAAATGGCCTATGAGAAATGAA-G------TTTTTAT-AAA
* * * * *
451753 TGAAGTGATATATTCATTACTGAAAAG-TTTATGAAATAAAG-TGATATATCACTG-AATGTTTT
58 TGAAGTGATATA-TCACTACTGAAAAGTTTTCTGAAAT-GAGTTGATATATCACTGAAAAGTTTC
* *
451815 TTAA-ATGAAGTTATTGGGCA
121 TGAAGA-GAAGTTATTGGGAA
** * * *
451835 CTGAAATTTTTTGTCATTGTGTATTAAATGGTCAATGAGAAATGAATGTTTTCT-TAAATGAAGT
1 CTGAAAAGTTTTGTCATTGTGCATTAAATGGCCTATGAGAAATGAA-GTTTT-TATAAATGAAGT
* * *
451899 GATTTATCAATACT-AAAAGTTTTCTTAAATGAGTTGATATATCACTGAAAAGTTTCTGAAGAGA
64 GATATATCACTACTGAAAAGTTTTCTGAAATGAGTTGATATATCACTGAAAAGTTTCTGAAGAGA
*
451963 ATTTATTGGGAA
129 AGTTATTGGGAA
* * * *
451975 ATGAAAAGTTTCTGCCATTGTGCATTAAATGGCCTATGATAAATAGAAGTTTTTATAAAATGTAG
1 CTGAAAAGTTT-TGTCATTGTGCATTAAATGGCCTATGAGAAAT-GAAGTTTTTAT-AAATGAAG
* * *
452040 TGATACATCACTACTAAAAAGTTTTCTGAAATGAGTTGATATATCACTGAAAAGTTTCTGAAGAA
63 TGATATATCACTACTGAAAAGTTTTCTGAAATGAGTTGATATATCACTGAAAAGTTTCTGAAGAG
452105 AAGTTATT-GGACA
128 AAGTTATTGGGA-A
*
452118 CTGAAAAAAG-TTTGTCATTGTGCATTAAATGGCCTATGAGAAATGGACGTTTTTTTACTGAAAT
1 CTG--AAAAGTTTTGTCATTGTGCATTAAATGGCCTATGAGAAAT-GAAG--TTTTTA-T-AAAT
* *
452182 GAAGTGATATATCACTATTGAAAAGTTTTCTGAAATTG-GTTGATATATCACTGAAAAGTTTTTG
59 GAAGTGATATATCACTACTGAAAAGTTTTCTGAAA-TGAGTTGATATATCACTGAAAAGTTTCTG
*
452246 AAGATAAGTTATTGGGAA
123 AAGAGAAGTTATTGGGAA
* * ** * *
452264 CT-AAAA--------A----G---TAAATAGCCGATGAGAAATGGGCGTTTTAATGAAATAAAGT
1 CTGAAAAGTTTTGTCATTGTGCATTAAATGGCCTATGAGAAAT-GAAGTTTTTAT-AAATGAAGT
452313 GATATATCACTACTGAAAAGTTTTCTGAAATGAGTTGATATATCACTGAAAAGTTT
64 GATATATCACTACTGAAAAGTTTTCTGAAATGAGTTGATATATCACTGAAAAGTTT
452369 ATGTCGCCAA
Statistics
Matches: 468, Mismatches: 46, Indels: 60
0.82 0.08 0.10
Matches are distributed among these distances:
125 2 0.00
126 62 0.13
127 5 0.01
129 21 0.04
132 1 0.00
136 1 0.00
138 7 0.01
139 28 0.06
140 44 0.09
141 39 0.08
142 26 0.06
143 94 0.20
144 2 0.00
145 11 0.02
146 82 0.18
147 43 0.09
ACGTcount: A:0.37, C:0.08, G:0.19, T:0.36
Consensus pattern (140 bp):
CTGAAAAGTTTTGTCATTGTGCATTAAATGGCCTATGAGAAATGAAGTTTTTATAAATGAAGTGA
TATATCACTACTGAAAAGTTTTCTGAAATGAGTTGATATATCACTGAAAAGTTTCTGAAGAGAAG
TTATTGGGAA
Found at i:453610 original size:26 final size:26
Alignment explanation
Indices: 453574--453632 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
453564 CCTCAAAGGG
453574 TAATTCCATCATATTAGCAGGGAATT
1 TAATTCCATCATATTAGCAGGGAATT
*
453600 TAATTCCATCATATTAGCATGGAATT
1 TAATTCCATCATATTAGCAGGGAATT
453626 TAATTCC
1 TAATTCC
453633 CTAAATCATT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.37
Consensus pattern (26 bp):
TAATTCCATCATATTAGCAGGGAATT
Found at i:455823 original size:21 final size:21
Alignment explanation
Indices: 455799--455931 Score: 79
Period size: 21 Copynumber: 6.2 Consensus size: 21
455789 CTAAGAACCT
*
455799 CATATATATCCCGAAGGACCA
1 CATATATATCCCAAAGGACCA
*
455820 CATATA-ATTCTCCTTAAGGACCA
1 CATATATA-TC-CC-AAAGGACCA
* *
455843 CATATATATTCCAAATGACCA
1 CATATATATCCCAAAGGACCA
* * * *
455864 AATATGTGTCCCAAAGAACCAA
1 CATATATATCCCAAAGGACC-A
* * * * **
455886 AAAATATGTTCCAAAGGATTA
1 CATATATATCCCAAAGGACCA
* *
455907 CATATATGTCCCGAAGGACCA
1 CATATATATCCCAAAGGACCA
455928 CATA
1 CATA
455932 GAACCCTCGA
Statistics
Matches: 85, Mismatches: 22, Indels: 10
0.73 0.19 0.09
Matches are distributed among these distances:
20 1 0.01
21 49 0.58
22 19 0.22
23 15 0.18
24 1 0.01
ACGTcount: A:0.41, C:0.23, G:0.12, T:0.24
Consensus pattern (21 bp):
CATATATATCCCAAAGGACCA
Found at i:455863 original size:44 final size:44
Alignment explanation
Indices: 455781--455868 Score: 104
Period size: 44 Copynumber: 2.0 Consensus size: 44
455771 GGACATATAA
* * * *
455781 AATTGTCCCTAAGAACCTCATATATATCCCGAAGGACCACATAT
1 AATTCTCCCTAAGAACCACATATATATCCCAAAGGACCAAATAT
* * * *
455825 AATTCTCCTTAAGGACCACATATATATTCCAAATGACCAAATAT
1 AATTCTCCCTAAGAACCACATATATATCCCAAAGGACCAAATAT
455869 GTGTCCCAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.39, C:0.25, G:0.09, T:0.27
Consensus pattern (44 bp):
AATTCTCCCTAAGAACCACATATATATCCCAAAGGACCAAATAT
Found at i:459643 original size:15 final size:15
Alignment explanation
Indices: 459625--459661 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
459615 ATTTAATCCT
459625 AATTTTAATAATTTA
1 AATTTTAATAATTTA
* *
459640 AATTTTTATATTTTA
1 AATTTTAATAATTTA
459655 AATTTTA
1 AATTTTA
459662 CACTTAGAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
AATTTTAATAATTTA
Found at i:465680 original size:7 final size:7
Alignment explanation
Indices: 465668--465704 Score: 67
Period size: 7 Copynumber: 5.4 Consensus size: 7
465658 GTCAAAGAAA
465668 GTCAACG
1 GTCAACG
465675 GTCAACG
1 GTCAACG
465682 GTC-ACG
1 GTCAACG
465688 GTCAACG
1 GTCAACG
465695 GTCAACG
1 GTCAACG
465702 GTC
1 GTC
465705 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:465690 original size:13 final size:14
Alignment explanation
Indices: 465668--465704 Score: 67
Period size: 13 Copynumber: 2.7 Consensus size: 14
465658 GTCAAAGAAA
465668 GTCAACGGTCAACG
1 GTCAACGGTCAACG
465682 GTC-ACGGTCAACG
1 GTCAACGGTCAACG
465695 GTCAACGGTC
1 GTCAACGGTC
465705 GGGTCGGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 13 0.59
14 9 0.41
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (14 bp):
GTCAACGGTCAACG
Found at i:465716 original size:17 final size:17
Alignment explanation
Indices: 465694--465734 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
465684 CACGGTCAAC
*
465694 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
465711 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
465728 GGTCAAC
1 GGTCAAC
465735 CCGGTTCAGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:465752 original size:19 final size:20
Alignment explanation
Indices: 465728--465780 Score: 83
Period size: 19 Copynumber: 2.8 Consensus size: 20
465718 AGTCGGGTCG
*
465728 GGTCAACCCGGTTCAG-ACC
1 GGTCAAACCGGTTCAGAACC
465747 GGTCAAACCGGTTC-GAACC
1 GGTCAAACCGGTTCAGAACC
465766 GGTCAAACCGGTTCA
1 GGTCAAACCGGTTCA
465781 AAACTGGTGG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
18 1 0.03
19 30 0.97
ACGTcount: A:0.25, C:0.32, G:0.26, T:0.17
Consensus pattern (20 bp):
GGTCAAACCGGTTCAGAACC
Found at i:465765 original size:10 final size:10
Alignment explanation
Indices: 465730--465801 Score: 67
Period size: 10 Copynumber: 7.1 Consensus size: 10
465720 TCGGGTCGGG
*
465730 TCAACCCGGT
1 TCAAACCGGT
*
465740 TCAGACCGG-
1 TCAAACCGGT
465749 TCAAACCGGT
1 TCAAACCGGT
*
465759 TCGAACCGG-
1 TCAAACCGGT
465768 TCAAACCGGT
1 TCAAACCGGT
*
465778 TCAAAACTGGT
1 TC-AAACCGGT
465789 GGTCAAACCGGT
1 --TCAAACCGGT
465801 T
1 T
465802 TTCCAGCAGC
Statistics
Matches: 50, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
9 16 0.32
10 18 0.36
11 7 0.14
12 7 0.14
13 2 0.04
ACGTcount: A:0.26, C:0.29, G:0.25, T:0.19
Consensus pattern (10 bp):
TCAAACCGGT
Found at i:471457 original size:7 final size:7
Alignment explanation
Indices: 471445--471494 Score: 86
Period size: 7 Copynumber: 7.4 Consensus size: 7
471435 GTCAAAGAAA
471445 GTCAACG
1 GTCAACG
471452 GTCAACG
1 GTCAACG
471459 GTC-ACG
1 GTCAACG
471465 GTCAACG
1 GTCAACG
471472 GTC-ACG
1 GTCAACG
471478 GTCAACG
1 GTCAACG
471485 GTCAACG
1 GTCAACG
471492 GTC
1 GTC
471495 GGGTCGGGTC
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
6 12 0.29
7 29 0.71
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (7 bp):
GTCAACG
Found at i:471467 original size:13 final size:13
Alignment explanation
Indices: 471449--471494 Score: 83
Period size: 13 Copynumber: 3.5 Consensus size: 13
471439 AAGAAAGTCA
471449 ACGGTCAACGGTC
1 ACGGTCAACGGTC
471462 ACGGTCAACGGTC
1 ACGGTCAACGGTC
471475 ACGGTCAACGGTC
1 ACGGTCAACGGTC
471488 AACGGTC
1 -ACGGTC
471495 GGGTCGGGTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
13 26 0.81
14 6 0.19
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:471470 original size:20 final size:20
Alignment explanation
Indices: 471445--471494 Score: 84
Period size: 20 Copynumber: 2.5 Consensus size: 20
471435 GTCAAAGAAA
471445 GTCAACGGTCAACGGTC-ACG
1 GTCAACGGTC-ACGGTCAACG
471465 GTCAACGGTCACGGTCAACG
1 GTCAACGGTCACGGTCAACG
471485 GTCAACGGTC
1 GTCAACGGTC
471495 GGGTCGGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.24, C:0.30, G:0.30, T:0.16
Consensus pattern (20 bp):
GTCAACGGTCACGGTCAACG
Found at i:471506 original size:17 final size:17
Alignment explanation
Indices: 471484--471541 Score: 107
Period size: 17 Copynumber: 3.4 Consensus size: 17
471474 CACGGTCAAC
*
471484 GGTCAACGGTCGGGTCG
1 GGTCAACAGTCGGGTCG
471501 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
471518 GGTCAACAGTCGGGTCG
1 GGTCAACAGTCGGGTCG
471535 GGTCAAC
1 GGTCAAC
471542 CCGGTTCGAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
17 40 1.00
ACGTcount: A:0.17, C:0.24, G:0.41, T:0.17
Consensus pattern (17 bp):
GGTCAACAGTCGGGTCG
Found at i:472819 original size:22 final size:22
Alignment explanation
Indices: 472789--472834 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
472779 GAATTTAAAT
472789 ATAATTATAAAAATATATTATTA
1 ATAATTATAAAAATATATT-TTA
*
472812 ATAA-TATAAAATTATATTTTA
1 ATAATTATAAAAATATATTTTA
472833 AT
1 AT
472835 TATTTTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 13 0.59
23 4 0.18
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (22 bp):
ATAATTATAAAAATATATTTTA
Found at i:473249 original size:58 final size:57
Alignment explanation
Indices: 473159--473268 Score: 195
Period size: 58 Copynumber: 1.9 Consensus size: 57
473149 ATATTAAAAT
473159 GATATTAAAATGGTATATTATTTTTTTAAAAATTAACTTATATTATTGGTACATTATC
1 GATATTAAAATGGTATATTATTTTTTTAAAAA-TAACTTATATTATTGGTACATTATC
473217 GATATTAAAATGGTATATATATTTTTTT-AAAATAACTTATATTATTGGTACA
1 GATATTAAAATGGTATAT-TATTTTTTTAAAAATAACTTATATTATTGGTACA
473269 CTCATGAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 3
0.94 0.00 0.06
Matches are distributed among these distances:
57 20 0.39
58 22 0.43
59 9 0.18
ACGTcount: A:0.39, C:0.05, G:0.09, T:0.47
Consensus pattern (57 bp):
GATATTAAAATGGTATATTATTTTTTTAAAAATAACTTATATTATTGGTACATTATC
Found at i:475900 original size:17 final size:16
Alignment explanation
Indices: 475867--475910 Score: 52
Period size: 17 Copynumber: 2.7 Consensus size: 16
475857 GAAGCTCCAA
* *
475867 AAAAAAAAAGAAGAAG
1 AAAAAGAAAGAACAAG
*
475883 AAGAAGAGAAGAACAAG
1 AAAAAGA-AAGAACAAG
475900 AAAAAGAAAGA
1 AAAAAGAAAGA
475911 GGTGGGGATC
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
16 9 0.39
17 14 0.61
ACGTcount: A:0.75, C:0.02, G:0.23, T:0.00
Consensus pattern (16 bp):
AAAAAGAAAGAACAAG
Found at i:479761 original size:30 final size:31
Alignment explanation
Indices: 479692--479781 Score: 112
Period size: 32 Copynumber: 2.9 Consensus size: 31
479682 AGAGTGGAGG
**
479692 GTTACCTATGTCTCTCGGGACATATGGACAAA
1 GTTACCTATGTCTCTTAGGACATATGGAC-AA
* *
479724 ATTACCTATGTCTTTTAGGACATATGGAC-A
1 GTTACCTATGTCTCTTAGGACATATGGACAA
479754 GTTACCTATGT-TCTTAGGAACATATGGA
1 GTTACCTATGTCTCTTAGG-ACATATGGA
479782 TAGGTCCTTC
Statistics
Matches: 51, Mismatches: 6, Indels: 4
0.84 0.10 0.07
Matches are distributed among these distances:
29 6 0.12
30 20 0.39
32 25 0.49
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (31 bp):
GTTACCTATGTCTCTTAGGACATATGGACAA
Found at i:482402 original size:19 final size:18
Alignment explanation
Indices: 482361--482427 Score: 71
Period size: 18 Copynumber: 3.6 Consensus size: 18
482351 TTTTTTTCAA
***
482361 AAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAGCC
*
482379 AAAAAAAAAAAAAAACCGGC
1 AAAAAAAAAAAAAAA--GCC
482399 AAAAAAACAAAAAAAAGCC
1 AAAAAAA-AAAAAAAAGCC
482418 AAAAAAAAAA
1 AAAAAAAAAA
482428 GCCAAAATTT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
18 18 0.43
19 9 0.21
20 7 0.17
21 8 0.19
ACGTcount: A:0.87, C:0.09, G:0.04, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAAAAAAGCC
Found at i:482413 original size:1 final size:1
Alignment explanation
Indices: 482359--482393 Score: 70
Period size: 1 Copynumber: 35.0 Consensus size: 1
482349 ATTTTTTTTC
482359 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
482394 CCGGCAAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:482434 original size:12 final size:13
Alignment explanation
Indices: 482407--482434 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
482397 GCAAAAAAAC
482407 AAAAAAAAGCCAA
1 AAAAAAAAGCCAA
482420 AAAAAAAAGCCAA
1 AAAAAAAAGCCAA
482433 AA
1 AA
482435 TTTCAAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.79, C:0.14, G:0.07, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGCCAA
Found at i:506787 original size:59 final size:59
Alignment explanation
Indices: 506688--506809 Score: 154
Period size: 59 Copynumber: 2.1 Consensus size: 59
506678 CAGCAGGTTG
** * *
506688 CATATTCGGGAATACACTAAAGGATACCTAGTGTATATGGTGGGCACAACCTTATATGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATATGT
* ** * * *
506747 CATATTCGGGACTGTACTTAAGGATACCTAGTACAGATGGTGGACACGACCTTATGTGT
1 CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATATGT
506806 CATA
1 CATA
506810 CTCAAGATTG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (59 bp):
CATATTCGGGAATACACTAAAGGATACCTAGTACAGATGGTGGACACAACCTTATATGT
Found at i:507493 original size:13 final size:13
Alignment explanation
Indices: 507467--507506 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
507457 TGTTCACGGG
* *
507467 TACTGTTCATTGT
1 TACTGTTTACTGT
*
507480 TATTGTTTACTGT
1 TACTGTTTACTGT
507493 TACTGTTTACTGT
1 TACTGTTTACTGT
507506 T
1 T
507507 TTCACTATTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.12, G:0.15, T:0.57
Consensus pattern (13 bp):
TACTGTTTACTGT
Found at i:517087 original size:22 final size:21
Alignment explanation
Indices: 517046--517087 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 21
517036 GCATGAGTTA
*
517046 TTTTTTTATTTTATTCTTTAT
1 TTTTTTTATTTTATTATTTAT
517067 TTTTGTTTATTTT-TATATTTA
1 TTTT-TTTATTTTAT-TATTTA
517088 GGATACACGT
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTTATTTTATTATTTAT
Found at i:522366 original size:2 final size:2
Alignment explanation
Indices: 522359--522384 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
522349 CCTTCTACGC
522359 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
522385 TAATTGATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:534588 original size:34 final size:32
Alignment explanation
Indices: 534526--534595 Score: 95
Period size: 34 Copynumber: 2.1 Consensus size: 32
534516 CCTTACAAAC
* *
534526 TCCCTAGTTTTTCCGGGTTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
534558 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
534592 TCCC
1 TCCC
534596 CATTACAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 21 0.64
ACGTcount: A:0.21, C:0.30, G:0.16, T:0.33
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:534903 original size:21 final size:21
Alignment explanation
Indices: 534877--534918 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
534867 CCCAGAATGC
*
534877 GGGAATCGGTACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
534898 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
534919 ATATTCAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:535148 original size:29 final size:31
Alignment explanation
Indices: 535116--535175 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
535106 AAATTTTGAA
*
535116 TAAATTCAATT-AAGTCCAAATA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
535145 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
535176 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.35
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:540631 original size:27 final size:28
Alignment explanation
Indices: 540593--540645 Score: 90
Period size: 27 Copynumber: 1.9 Consensus size: 28
540583 CCATTCGAAT
*
540593 GAATGAAGAAATCTTGATTAG-TTTTCG
1 GAATAAAGAAATCTTGATTAGCTTTTCG
540620 GAATAAAGAAATCTTGATTAGCTTTT
1 GAATAAAGAAATCTTGATTAGCTTTT
540646 TAGTCTAGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
27 20 0.83
28 4 0.17
ACGTcount: A:0.36, C:0.08, G:0.19, T:0.38
Consensus pattern (28 bp):
GAATAAAGAAATCTTGATTAGCTTTTCG
Found at i:556499 original size:179 final size:176
Alignment explanation
Indices: 556050--556488 Score: 454
Period size: 179 Copynumber: 2.4 Consensus size: 176
556040 ACTATGACAG
* * * *
556050 AAAAAATTGTCACAACAAATAATGAGATTTAGATTTGTTGTGACAAATTTTGTTTGTAATTATAT
1 AAAAAATTGTCACAACAAATAATGAGATTAAG-TTT-TTGTGAAAAATTATGTTTGTAGTTATAT
* * *
556115 ATTTTAATTATAGTGAAAAAATGTATAGTCACAAATGATTATCTCCAATTTTTGGTACAAAAACA
64 ATTTTAATTATAGTGAAAAAATATATTGTCACAAATGATTATCTCCAATTTTTGGCACAAAAACA
** * * *
556180 AAATCATATAGTCACATGTTTTGTACTATAAGCTATAATTATTGTTAC
129 AAATCATATAGTCACAAATTTGGTACTATAAGCTATAATAATTATTAC
* * *
556228 AAAAAATTGTCACAACAAATAATGAGATTAAAGTTTTTAGTAAAAAATCAATGTTTGTCGTTATA
1 AAAAAATTGTCACAACAAATAATGAGATT-AAGTTTTT-GTGAAAAAT-TATGTTTGTAGTTATA
* * * * * *
556293 TGTTTTAATTATAGTGACAAAATATATTGTCACAAAT-ATTTCTCTCCATATTGTTTTGCGC-CA
63 TATTTTAATTATAGTGAAAAAATATATTGTCACAAATGA-TTATCTCCA-ATT-TTTGGCACAAA
* * * *
556356 AA-AAAGTCATATAGTGACAAATTTGGTTACTATAAG-TGTTAATAATTATTAT
125 AACAAAATCATATAGTCACAAATTTGG-TACTATAAGCT-ATAATAATTATTAC
* * * * * *
556408 AAAAACATTGTCACAAAAAATAATGATATTCACGTTTTTGTGATAAATTATATTTGTAGTTATAA
1 AAAAA-ATTGTCACAACAAATAATGAGATT-AAGTTTTTGTGAAAAATTATGTTTGTAGTTATAT
*
556473 ATTTTAAGTATAGTGA
64 ATTTTAATTATAGTGA
556489 TAGCATATAT
Statistics
Matches: 215, Mismatches: 37, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
177 2 0.01
178 40 0.19
179 102 0.47
180 37 0.17
181 34 0.16
ACGTcount: A:0.40, C:0.09, G:0.12, T:0.39
Consensus pattern (176 bp):
AAAAAATTGTCACAACAAATAATGAGATTAAGTTTTTGTGAAAAATTATGTTTGTAGTTATATAT
TTTAATTATAGTGAAAAAATATATTGTCACAAATGATTATCTCCAATTTTTGGCACAAAAACAAA
ATCATATAGTCACAAATTTGGTACTATAAGCTATAATAATTATTAC
Found at i:556766 original size:141 final size:139
Alignment explanation
Indices: 556605--556864 Score: 387
Period size: 141 Copynumber: 1.9 Consensus size: 139
556595 TCACATCAAA
556605 TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATG--AA
* *
556670 AAAATATACTATCAGAACCATTTCTCCCTATTTTTTAGTGTC-AAAAATGTTATATAATAAGAAA
64 AAAATATACTATCAGAAACAGTTCTCCCTATTTTTTAGTG-CAAAAAATGTTATATAATAAGAAA
556734 ATATATTGTTAT
128 ATATATTGTTAT
* * *
556746 TAATAAAATTTAAGTTTTTTGTAATTAATTATTTTTGTAGTTATATATTTTAATCATTATGAAAA
1 TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAA
** * * * *
556811 CTTATATTATTAGAAATAGTTCTCCCTATTTTTTGGTGCAAAAAATGTTATATA
66 AATATACTATCAGAAACAGTTCTCCCTATTTTTTAGTGCAAAAAATGTTATATA
556865 GTGACAAGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
138 1 0.01
139 48 0.45
141 58 0.54
ACGTcount: A:0.38, C:0.07, G:0.08, T:0.46
Consensus pattern (139 bp):
TAATAAAATTCAAGTTTTTTGTAATAAATTATTTTTGTACTTATATATTTTAATCATTATGAAAA
AATATACTATCAGAAACAGTTCTCCCTATTTTTTAGTGCAAAAAATGTTATATAATAAGAAAATA
TATTGTTAT
Found at i:557749 original size:18 final size:17
Alignment explanation
Indices: 557713--557752 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
557703 CTCTATTTTA
*
557713 TTTTAAAGGAAATTGAT
1 TTTTAAAGGAAACTGAT
*
557730 TTTTAAAGGGAGACTGAT
1 TTTTAAA-GGAAACTGAT
557748 TTTTA
1 TTTTA
557753 GAGAAATTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.35, C:0.03, G:0.20, T:0.42
Consensus pattern (17 bp):
TTTTAAAGGAAACTGAT
Found at i:562544 original size:41 final size:41
Alignment explanation
Indices: 562499--562590 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 41
562489 ATCCATAATT
*
562499 CAATTCAATCT-GATCATGAAAACATGCATTTATTCACAAAC
1 CAATTCAAT-TAGATCATGAAAACATGCATTAATTCACAAAC
** * *
562540 CAATTCAATTAGATCATGTTAACATGTATTAATTCACAATC
1 CAATTCAATTAGATCATGAAAACATGCATTAATTCACAAAC
562581 CAATTCAATT
1 CAATTCAATT
562591 TAATCGAGGC
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
40 1 0.02
41 44 0.98
ACGTcount: A:0.40, C:0.20, G:0.07, T:0.34
Consensus pattern (41 bp):
CAATTCAATTAGATCATGAAAACATGCATTAATTCACAAAC
Found at i:564469 original size:21 final size:22
Alignment explanation
Indices: 564414--564476 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 22
564404 TTCAAATAAT
*
564414 TTTAAAATTCAATTCAATTAGA
1 TTTAAATTTCAATTCAATTAGA
* *
564436 TCTT-TATTT-AATTCCATTA-A
1 T-TTAAATTTCAATTCAATTAGA
*
564456 TTTAAATTTCAATTTAATTAG
1 TTTAAATTTCAATTCAATTAG
564477 GTTTGGTTTT
Statistics
Matches: 31, Mismatches: 6, Indels: 8
0.69 0.13 0.18
Matches are distributed among these distances:
19 2 0.06
20 6 0.19
21 17 0.55
22 4 0.13
23 2 0.06
ACGTcount: A:0.38, C:0.10, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTAAATTTCAATTCAATTAGA
Found at i:570662 original size:31 final size:31
Alignment explanation
Indices: 570627--570717 Score: 83
Period size: 31 Copynumber: 3.2 Consensus size: 31
570617 AATTTGAATT
570627 TTTGGTCAAAGTCAATGGGTTTGACAGACGA
1 TTTGGTCAAAGTCAATGGGTTTGACAGACGA
* ***
570658 TTTGG--AGA-TTTTTGGGTTT----GA--A
1 TTTGGTCAAAGTCAATGGGTTTGACAGACGA
570680 TTTGGTCAAAGTCAATGGGTTTGACAGACGA
1 TTTGGTCAAAGTCAATGGGTTTGACAGACGA
570711 TTTGGTC
1 TTTGGTC
570718 GGTCAACGAC
Statistics
Matches: 43, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
22 6 0.14
24 4 0.09
25 8 0.19
28 8 0.19
29 4 0.09
31 13 0.30
ACGTcount: A:0.24, C:0.10, G:0.30, T:0.36
Consensus pattern (31 bp):
TTTGGTCAAAGTCAATGGGTTTGACAGACGA
Found at i:570831 original size:29 final size:29
Alignment explanation
Indices: 570768--570926 Score: 225
Period size: 28 Copynumber: 5.6 Consensus size: 29
570758 CAGAAATTAA
* *
570768 TTACAAAACTAACACCCTTTTAAAAA-AA
1 TTACAAAACTAACACCTTTTTAAAAATAT
* *
570796 TTACGAAACTAATACCTTTTTAAAAATAT
1 TTACAAAACTAACACCTTTTTAAAAATAT
*
570825 TTACGAAACTAACACCTTTTT-AAAATAT
1 TTACAAAACTAACACCTTTTTAAAAATAT
570853 TTACAAAACTAACACCCTTTTTAAAAATAT
1 TTACAAAACTAACA-CCTTTTTAAAAATAT
*
570883 TTACAAAACTAACACCCTTTT-AAAATAT
1 TTACAAAACTAACACCTTTTTAAAAATAT
*
570911 TTACGAAACTAACACC
1 TTACAAAACTAACACC
570927 CTAGTCAACG
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
28 65 0.54
29 34 0.28
30 21 0.17
ACGTcount: A:0.47, C:0.20, G:0.02, T:0.31
Consensus pattern (29 bp):
TTACAAAACTAACACCTTTTTAAAAATAT
Found at i:570894 original size:58 final size:58
Alignment explanation
Indices: 570768--570928 Score: 261
Period size: 58 Copynumber: 2.8 Consensus size: 58
570758 CAGAAATTAA
* * *
570768 TTACAAAACTAACACCCTTTTAAAAAAATTACGAAACTAATA-CCTTTTTAAAAATAT
1 TTACAAAACTAACACCCTTTTAAAATATTTACGAAACTAACACCCTTTTTAAAAATAT
* * *
570825 TTACGAAACTAACACCTTTTTAAAATATTTACAAAACTAACACCCTTTTTAAAAATAT
1 TTACAAAACTAACACCCTTTTAAAATATTTACGAAACTAACACCCTTTTTAAAAATAT
570883 TTACAAAACTAACACCCTTTTAAAATATTTACGAAACTAACACCCT
1 TTACAAAACTAACACCCTTTTAAAATATTTACGAAACTAACACCCT
570929 AGTCAACGGG
Statistics
Matches: 94, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
57 36 0.38
58 58 0.62
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.32
Consensus pattern (58 bp):
TTACAAAACTAACACCCTTTTAAAATATTTACGAAACTAACACCCTTTTTAAAAATAT
Found at i:570955 original size:20 final size:20
Alignment explanation
Indices: 570930--570972 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
570920 TAACACCCTA
* *
570930 GTCAACGGGTCGGGTTAACG
1 GTCAACGGATCGGGTCAACG
570950 GTCAACGGATCGGGTCAACG
1 GTCAACGGATCGGGTCAACG
570970 GTC
1 GTC
570973 GGGTTGGGTC
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:0.21, C:0.23, G:0.37, T:0.19
Consensus pattern (20 bp):
GTCAACGGATCGGGTCAACG
Found at i:577175 original size:22 final size:23
Alignment explanation
Indices: 577150--577198 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
577140 ATAGTGCAAA
*
577150 TGCACTTTTGAATCTGTGC-GAG
1 TGCACTTTTGAATCAGTGCTGAG
*
577172 TGCACTTTTGGATCAGTGCTGAG
1 TGCACTTTTGAATCAGTGCTGAG
577195 -GCAC
1 TGCAC
577199 ATTAGTAACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 21 0.88
23 3 0.12
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (23 bp):
TGCACTTTTGAATCAGTGCTGAG
Found at i:581789 original size:20 final size:20
Alignment explanation
Indices: 581745--581789 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
581735 GTTTAAGGCC
*
581745 CGTAAGAGCTAAGTACGATC
1 CGTAAGAGCTAAGTACGATA
*
581765 CGTAAGAGCTAAGTATGATA
1 CGTAAGAGCTAAGTACGATA
*
581785 TGTAA
1 CGTAA
581790 TAGTAAGACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.38, C:0.13, G:0.24, T:0.24
Consensus pattern (20 bp):
CGTAAGAGCTAAGTACGATA
Found at i:585211 original size:19 final size:20
Alignment explanation
Indices: 585172--585227 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
585162 GAAACCCCTT
*
585172 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATCTTTAA
*
585192 TGAAGATACATGA-CTTTAA
1 TGAAAATACATGATCTTTAA
*
585211 TGAAAATACATGCTCTT
1 TGAAAATACATGATCTT
585228 GGTCGAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.41, C:0.11, G:0.12, T:0.36
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:589356 original size:19 final size:20
Alignment explanation
Indices: 589317--589372 Score: 78
Period size: 19 Copynumber: 2.9 Consensus size: 20
589307 TGAAAGCCTT
*
589317 TGAAAATACATGATTTTTAA
1 TGAAAATACATGATCTTTAA
*
589337 TGAAAATACATTA-CTTTAA
1 TGAAAATACATGATCTTTAA
*
589356 TGAAAATACATGCTCTT
1 TGAAAATACATGATCTT
589373 GGCCGAATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
19 16 0.52
20 15 0.48
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (20 bp):
TGAAAATACATGATCTTTAA
Found at i:590298 original size:11 final size:11
Alignment explanation
Indices: 590278--590318 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
590268 TAAATAAACC
*
590278 TAAAACATAAG
1 TAAAAGATAAG
590289 TAAAAGATAA-
1 TAAAAGATAAG
590299 TATAAAGATAAG
1 TA-AAAGATAAG
590311 T-AAAGATA
1 TAAAAGATA
590319 TGGAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 9 0.33
11 17 0.63
12 1 0.04
ACGTcount: A:0.63, C:0.02, G:0.12, T:0.22
Consensus pattern (11 bp):
TAAAAGATAAG
Found at i:592357 original size:15 final size:16
Alignment explanation
Indices: 592328--592358 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
592318 CATCAAAATC
592328 ATATTTACACATGAAT
1 ATATTTACACATGAAT
592344 ATATTTAC-CATGAAT
1 ATATTTACACATGAAT
592359 CCTTAAATGA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 7 0.47
16 8 0.53
ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39
Consensus pattern (16 bp):
ATATTTACACATGAAT
Found at i:597144 original size:161 final size:161
Alignment explanation
Indices: 596856--597338 Score: 927
Period size: 161 Copynumber: 3.0 Consensus size: 161
596846 TCTATCATTT
596856 AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTCAAATTT
1 AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTCAAATTT
*
596921 GAAAGAAAATACATTGATAATAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGAGGGGGGGGG
66 GAAAGAAAATACATTGATACTAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGAGGGGGGGGG
596986 GGAAATCCAGGTGCTTTTTGCATAAAATTGC
131 GGAAATCCAGGTGCTTTTTGCATAAAATTGC
597017 AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTC-AATTT
1 AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTCAAATTT
597081 GAAAGAAAATACATTGATACTAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGAGGGGGGGGG
66 GAAAGAAAATACATTGATACTAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGA-GGGGGGGG
597146 GGGAAATCCAGGTGCTTTTTGCATAAAATTGC
130 GGGAAATCCAGGTGCTTTTTGCATAAAATTGC
597178 AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTCAAATTT
1 AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTCAAATTT
597243 GAAAGAAAATACATTGATACTAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGA--GGGGGGG
66 GAAAGAAAATACATTGATACTAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGAGGGGGGGGG
597306 GGAAATCCAGGTGCTTTTTGCATAAAATTGC
131 GGAAATCCAGGTGCTTTTTGCATAAAATTGC
597337 AA
1 AA
597339 AAAAAAAATA
Statistics
Matches: 319, Mismatches: 1, Indels: 6
0.98 0.00 0.02
Matches are distributed among these distances:
159 40 0.13
160 60 0.19
161 158 0.50
162 61 0.19
ACGTcount: A:0.33, C:0.15, G:0.19, T:0.32
Consensus pattern (161 bp):
AATCATTATGGAATTAAGATATATTGCTCAGCTCCTCTTTGTTTACCTCTTCTTCATTCAAATTT
GAAAGAAAATACATTGATACTAGTAAACTAAAGGGAGTCCAAAAATCTAACTTTGAGGGGGGGGG
GGAAATCCAGGTGCTTTTTGCATAAAATTGC
Found at i:605090 original size:7 final size:7
Alignment explanation
Indices: 605078--605112 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
605068 TACAAATTTC
605078 TTTATAT
1 TTTATAT
605085 TTTATAT
1 TTTATAT
605092 TTTATAT
1 TTTATAT
605099 TTT-TAT
1 TTTATAT
*
605105 TTTTTAT
1 TTTATAT
605112 T
1 T
605113 AATTATCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.22
7 21 0.78
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (7 bp):
TTTATAT
Found at i:605097 original size:14 final size:13
Alignment explanation
Indices: 605078--605112 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
605068 TACAAATTTC
605078 TTTATATTTTATAT
1 TTTATATTTT-TAT
605092 TTTATATTTTTAT
1 TTTATATTTTTAT
*
605105 TTTTTATT
1 TTTATATT
605113 AATTATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTATATTTTTAT
Found at i:605147 original size:24 final size:24
Alignment explanation
Indices: 605120--605173 Score: 56
Period size: 24 Copynumber: 2.2 Consensus size: 24
605110 ATTAATTATC
*
605120 TAATATCGCA-TCCTTAAAATTTTA
1 TAATATCGAATTCCTT-AAATTTTA
* * *
605144 TAATTTCGAATTTCTTAAATTTTT
1 TAATATCGAATTCCTTAAATTTTA
605168 TAATAT
1 TAATAT
605174 AACTTCTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.35, C:0.11, G:0.04, T:0.50
Consensus pattern (24 bp):
TAATATCGAATTCCTTAAATTTTA
Found at i:606630 original size:35 final size:36
Alignment explanation
Indices: 606517--606645 Score: 129
Period size: 35 Copynumber: 3.6 Consensus size: 36
606507 CCTTAGGTCC
*
606517 ATAAGGAATTACCAGC-TAATCGGTGCTGAACCTAT
1 ATAAGGAATTACCAGCTTGATCGGTGCTGAACCTAT
* * ** * *
606552 ATAAGAAATTACCAGCTTGATCAGAACTAAACTTGCA-
1 ATAAGGAATTACCAGCTTGATCGGTGCTGAACCT--AT
* *
606589 ATAAGGAATTATCAG-TTGATCGGTGTTGAACCTAT
1 ATAAGGAATTACCAGCTTGATCGGTGCTGAACCTAT
*
606624 ATAAGGAATTAACAGCTTGATC
1 ATAAGGAATTACCAGCTTGATC
606646 AGAATTGAAC
Statistics
Matches: 73, Mismatches: 16, Indels: 9
0.74 0.16 0.09
Matches are distributed among these distances:
34 1 0.01
35 29 0.40
36 29 0.40
37 13 0.18
38 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (36 bp):
ATAAGGAATTACCAGCTTGATCGGTGCTGAACCTAT
Found at i:606654 original size:36 final size:36
Alignment explanation
Indices: 606543--606658 Score: 119
Period size: 36 Copynumber: 3.2 Consensus size: 36
606533 TAATCGGTGC
* * *
606543 TGAACCTATATAAGAAATTACCAGCTTGATCAGAAC
1 TGAACCTATATAAGGAATTAACAGCTTGATCAGAAT
* * * * **
606579 TAAACTTGCA-ATAAGGAATTATCAG-TTGATCGGTGT
1 TGAACCT--ATATAAGGAATTAACAGCTTGATCAGAAT
606615 TGAACCTATATAAGGAATTAACAGCTTGATCAGAAT
1 TGAACCTATATAAGGAATTAACAGCTTGATCAGAAT
606651 TGAACCTA
1 TGAACCTA
606659 CAGATACTTC
Statistics
Matches: 62, Mismatches: 14, Indels: 8
0.74 0.17 0.10
Matches are distributed among these distances:
34 1 0.02
35 14 0.23
36 33 0.53
37 13 0.21
38 1 0.02
ACGTcount: A:0.39, C:0.16, G:0.17, T:0.28
Consensus pattern (36 bp):
TGAACCTATATAAGGAATTAACAGCTTGATCAGAAT
Found at i:612376 original size:6 final size:5
Alignment explanation
Indices: 612337--612394 Score: 50
Period size: 5 Copynumber: 11.4 Consensus size: 5
612327 TTAAAACAAC
*
612337 AAATA AAA-A ACAAT- AAA-A AATTA AAATA AAATA AACATA AATATAA
1 AAATA AAATA A-AATA AAATA AAATA AAATA AAATA AA-ATA AA-AT-A
612383 AAATA AAATA AA
1 AAATA AAATA AA
612395 CATGCATATG
Statistics
Matches: 44, Mismatches: 3, Indels: 12
0.75 0.05 0.20
Matches are distributed among these distances:
4 6 0.14
5 26 0.59
6 9 0.20
7 3 0.07
ACGTcount: A:0.78, C:0.03, G:0.00, T:0.19
Consensus pattern (5 bp):
AAATA
Found at i:613327 original size:2 final size:2
Alignment explanation
Indices: 613314--613355 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
613304 AAATAAACAT
* * *
613314 TA TA TT TA TA TA TA TA TA TA TA TA AA CA T- TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
613355 T
1 T
613356 TGTTTGTTTG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:613720 original size:3 final size:3
Alignment explanation
Indices: 613707--613767 Score: 88
Period size: 3 Copynumber: 20.7 Consensus size: 3
613697 TAGGGTTATG
* *
613707 TAA TAA T-A TAA TAA TAA TAA TAA TAA TAA TAA TAT TAA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
613754 TAA TAT TAA TAA TA
1 TAA TAA TAA TAA TA
613768 TGGATATAAG
Statistics
Matches: 51, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
2 2 0.04
3 49 0.96
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:615038 original size:15 final size:15
Alignment explanation
Indices: 615020--615049 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
615010 TTTATTATTA
615020 TTATTATTATATTTT
1 TTATTATTATATTTT
615035 TTATTATTATATTTT
1 TTATTATTATATTTT
615050 CTTTTTTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTATTATATTTT
Found at i:620332 original size:165 final size:164
Alignment explanation
Indices: 620030--621552 Score: 1484
Period size: 165 Copynumber: 9.2 Consensus size: 164
620020 TAAACAAACT
* * * * * ** * * * *
620030 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTATG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
* * *
620095 ATCAGCT-CAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGAC
65 CTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGAC
**
620158 CCCCGAGTTCGACTACGCTCAGCTTCGAGGGCACATC
129 CTTCGAGTTCGACTACGCTCAGC-TCGAGGGCACATC
* * * * * * *
620195 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAATACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
*
620260 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACC
65 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACC
* *
620324 TTCGAGTTCGATTACACTCAGCTCCGAGGGCACATC
130 TTCGAGTTCGACTACGCTCAGCT-CGAGGGCACATC
* ** *
620360 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
* *
620425 CTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTG-CCAAAGACA
65 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACC
* * *
620489 TTCGAATTCGATTACACTCAGCTCCGAGGGCACATC
130 TTCGAGTTCGACTACGCTCAGCT-CGAGGGCACATC
* ** * *
620525 ATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAATACCTTTGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG-TGACCAAAGACCTTCGAGTTCGACTACG
* * * *
620590 CTCAGCT-CAACGGCACATCATTTACAGTATAGCTTAGGTCGAGAAGGGCTATCT-ACCAAAGAC
65 CTCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGAC
** * *
620653 CCCCGAGTTCGATTACACTCAGCTTCGAGGGCACATC
129 CTTCGAGTTCGACTACGCTCAGC-TCGAGGGCACATC
* * * * * *
620690 ATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAGTTCGACTACG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACC-AAAGACCTTCGAGTTCGACTACG
* * * * * * * * *
620755 CTCGGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAG
65 CTCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAG
* * * * *
620820 ACCTTTGAGTTTGACTACGATCAGCTCAACGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTCGAGGGCACATC
* * * **
620858 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAAACCCCCGAGTTCGACTACGC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * *
620920 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAG
66 TCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC--TGACC-AAAG
* * *
620985 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTCGAGGGCACATC
* * *
621023 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* *
621085 TCAGCTCCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAG
66 TCAGCTCC-AAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG---ACCAAAG
* * *
621150 ACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTCGAGGGCACATC
* * *
621188 ATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCTTCGAGTTCGATTACAC
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
* * * * * * * *
621250 TCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACTAAAAG
66 TCAGCTCCAA-GGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATC--TGAC-CAAAG
* *
621315 ACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTCGAGGGCACATC
* * * * * *
621353 ATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATC--TG-CCAAAGACCCTCGAGATCAATTACTG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACCAAAGACCTTCGAGTTCGACTAC-G
** * * ** ** * * * *
621415 -TCAGCTTGGAGGGTACATCATTCACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAG
65 CTCAGC-TCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG--ACCAAAG
*
621479 ACCTTCGAGTTCGACTACGCTCAGCTCTCA-GGCACATC
127 ACCTTCGAGTTCGACTACGCTCAGCTC-GAGGGCACATC
* * * *
621517 ATTGGCAGTATAACTTAAGTCGAGAAGAGTTATCTG
1 ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTG
621553 CCAAAGACCC
Statistics
Matches: 1196, Mismatches: 130, Indels: 63
0.86 0.09 0.05
Matches are distributed among these distances:
163 4 0.00
164 109 0.09
165 1001 0.84
166 16 0.01
167 4 0.00
168 38 0.03
169 24 0.02
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (164 bp):
ATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGTGACCAAAGACCTTCGAGTTCGACTACGC
TCAGCTCCAAGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGCTATCTGACCAAAGACCT
TCGAGTTCGACTACGCTCAGCTCGAGGGCACATC
Found at i:621290 original size:579 final size:579
Alignment explanation
Indices: 620152--621392 Score: 1993
Period size: 579 Copynumber: 2.1 Consensus size: 579
620142 GCTATCTGCC
** * * * * *
620152 AAAGACCCCCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCATAACTTAAGTCT
** * * *
620217 AGAAGGGTTATCTGTGACCAAAATACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
65 AGAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGATCAGCTCCAAGGCACATCATT
* ** *
620282 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCT
130 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGACTACACTCAGCT
* * *
620347 CCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
195 CCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTT
620412 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
260 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
620477 CTGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTA
325 CTGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTA
*
620542 AGTCGAGAAGGGTTATCTGCCAACCAAATACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACA
390 AGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACA
* *
620607 TCATTTACAGTATAGCTTAGGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACT
455 TCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACT
* *
620672 CAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
520 CAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
* * * *
620732 AAAGATCTTCGAGTTCGACTACGCTCGGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCTA
* * *
620797 CAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACGATCAGCT-CAACGGCACATCATT
66 GAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGATCAGCTCCAA-GGCACATCATT
* *
620861 TGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGACTACGCTCAGCT
130 TGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGACTACACTCAGCT
* * **
620926 TCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTT
195 CCGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACC-AAAGACCTT
620990 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
259 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
* *
621055 TCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTT
324 TCTGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTT
621120 AAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCA
389 AAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCA
* * **
621184 CATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACA
453 CATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACA
*
621249 CTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACTA
518 CTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
* * *
621311 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCTA
*
621376 GAAGGGCTATCTGCCAA
66 GAAGGGTTATCTGCCAA
621393 AGACCCTCGA
Statistics
Matches: 604, Mismatches: 54, Indels: 7
0.91 0.08 0.01
Matches are distributed among these distances:
578 6 0.01
579 570 0.94
580 28 0.05
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (579 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCATAACTTAAGTCTA
GAAGGGTTATCTGCCAACAAAAGACCTTTGAGTTCGACTACGATCAGCTCCAAGGCACATCATTT
GCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGACTACACTCAGCTC
CGAGGGCACATCATTTACAGCATAACTCAAGGCGAGAAGGGTTATCTGCCAACCAAAGACCTTTG
AGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATC
TGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTAA
GTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACAT
CATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTC
AGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
Found at i:621456 original size:744 final size:743
Alignment explanation
Indices: 620030--621556 Score: 2635
Period size: 744 Copynumber: 2.1 Consensus size: 743
620020 TAAACAAACT
*
620030 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTATG
1 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACG
*
620095 ATCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCC
66 ATCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCC
620160 CCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 CCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
*
620225 TATCTGTGACCAAAATACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
196 TATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
620290 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGC
261 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGC
620355 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGA
326 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGA
620420 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
391 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
* * * * *
620485 GACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGA
456 GACATTCGAATTCGATTACACTCAGCTCCAAGGGCACATCATTTACAACATAACTCAAGGCGAGA
* * *
620550 AGGGTTATCTGCCAACCAAATACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTAC
521 AGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTAC
* * *
620615 AGTATAGCTTAGGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCAGCTTCG
586 AGTATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGATCAATTACACTCAGCTTCG
* * * *
620680 AGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCAAAAGATCTTCGAG
651 AGGGCACATCATTCACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACC-AAAGACCTTCGAG
* *
620745 TTCGACTACGCTCGGCTCTAAGGCATATC
715 TTCGACTACGCTCAGCTCTAAGGCACATC
620774 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACG
1 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACG
620839 ATCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCC
66 ATCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCC
620904 CCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
131 CCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
620969 TATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
196 TATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
621034 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGC
261 AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGC
621099 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGA
326 ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGA
621164 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
391 CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
* * * *
621229 GACCTTCGAGTTCGATTACACTCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGA
456 GACATTCGAATTCGATTACACTCAGCTCCAAGGGCACATCATTTACAACATAACTCAAGGCGAGA
**
621294 AGGGTTATCTG-TGACTAAAAGACCTTCGAGTTCGACTACGCTCAGCTCTAA-GGCACATCATTT
521 AGGGTTATCTGCCAAC-AAAAGACCTTCGAGTTCGACTACGCTCAGCTC-AACGGCACATCATTT
* * * **
621357 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCTCGAGATCAATTACTGTCAGCTT
584 ACAGTATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGATCAATTACACTCAGCTT
* * *
621422 GGAGGGTACATCATTCACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
649 CGAGGGCACATCATTCACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGA
*
621487 GTTCGACTACGCTCAGCTCTCAGGCACATC
714 GTTCGACTACGCTCAGCTCTAAGGCACATC
* * * * * * *
621517 ATTGGCAGTATAACTTAAGTCGAGAAGAGTTATCTGCCAA
1 ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAA
621557 AGACCCCCGA
Statistics
Matches: 739, Mismatches: 42, Indels: 5
0.94 0.05 0.01
Matches are distributed among these distances:
743 73 0.10
744 664 0.90
745 2 0.00
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (743 bp):
ATTTGCAGCACAACTTAAGTCTACAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACG
ATCAGCTCAACGGCACATCATTTGCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCC
CCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGT
TATCTGTGACCAAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCAT
AGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGC
ACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGA
CTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAA
GACATTCGAATTCGATTACACTCAGCTCCAAGGGCACATCATTTACAACATAACTCAAGGCGAGA
AGGGTTATCTGCCAACAAAAGACCTTCGAGTTCGACTACGCTCAGCTCAACGGCACATCATTTAC
AGTATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGATCAATTACACTCAGCTTCG
AGGGCACATCATTCACAACATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGT
TCGACTACGCTCAGCTCTAAGGCACATC
Found at i:621490 original size:579 final size:578
Alignment explanation
Indices: 620152--621556 Score: 1910
Period size: 579 Copynumber: 2.4 Consensus size: 578
620142 GCTATCTGCC
** * * * * * * *
620152 AAAGACCCCCGAGTTCGACTACGCTCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCT
1 AAAGACCTTCGAGTTCGACTACGCTCAGC-TCTAAGGCACATCATTTGCAGCACAACTTAAGTCG
* * ** * * * * * *
620217 AGAAGGGTTATCTGTGACCAAAATACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCACATCAT
65 ACAAGGGCTATCTGCCA-CAAAAGACCCTCGAGATCAACTACGATCAGCT-CAACGGCACATCAT
** ** * * * * *
620281 TTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACACTCAGC
128 TCACAATATAACTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGC
*
620346 TCCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTT
193 TTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTT
620411 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
258 TGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTA
620476 TCTGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTT
323 TCTGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTT
*
620541 AAGTCGAGAAGGGTTATCTGCCAACCAAATACCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
388 AAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCAC
* *
620606 ATCATTTACAGTATAGCTTAGGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACAC
453 ATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACAC
* *
620671 TCAGCTTCGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
518 TCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
* * * *
620732 AAAGATCTTCGAGTTCGACTACGCTCGGCTCTAAGGCATATCATTTGCAGCACAACTTAAGTCTA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCACAACTTAAGTCGA
* * * * * ** *
620797 CAAGGGTTGTCTGCCAACAAAAGACCTTTGAGTTTGACTACGATCAGCTCAACGGCACATCATTT
66 CAAGGGCTATCTGCC-ACAAAAGACCCTCGAGATCAACTACGATCAGCTCAACGGCACATCATTC
* * * * * * **
620862 GCAGTATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAAACCCCCGAGTTCGACTACGCTCAGCTT
130 ACAATATAACTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTT
* * * * **
620927 CGAGGGCACATCATTTACAGCATAACTCAAGGCTAGAAGGGTTATCTG-TGACCAAAAGACCTTT
195 CGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACC-AAAGACCTTT
620991 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
259 GAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTAT
* *
621056 CTGCCAAAGACCTTCGAGTTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTA
324 CTGCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTA
621121 AGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCCAA-GGCAC
389 AGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCT-CAACGGCAC
* * **
621185 ATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGATTACAC
453 ATCATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACAC
*
621250 TCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACTA
518 TCAGCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
* * *
621311 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGTATAGCTTAAGTCGA
1 AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCACAACTTAAGTCGA
* * ** * *
621376 GAAGGGCTATCTG-C-C-AAAGACCCTCGAGATCAATTACTG-TCAGCTTGGAGGGTACATCATT
66 CAAGGGCTATCTGCCACAAAAGACCCTCGAGATCAACTAC-GATCAGC-TCAACGGCACATCATT
* *
621437 CACAATATAACTCAAGGCTAGAAGGGTTATCTGTCACCAAAGACCTTCGAGTTCGACTACGCTCA
129 CACAATATAACTCAAGGCGAGAAGGGCTATCTG---CCAAAGACCTTCGAGTTCGACTACGCTCA
* * *
621502 GCTCTC-A-GGCACATCATTGGCAGTATAACTTAAGTCGAGAAGAGTTATCTGCCAA
191 GCT-TCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAA
621557 AGACCCCCGA
Statistics
Matches: 731, Mismatches: 83, Indels: 23
0.87 0.10 0.03
Matches are distributed among these distances:
575 21 0.03
576 39 0.05
578 44 0.06
579 596 0.82
580 31 0.04
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.24
Consensus pattern (578 bp):
AAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTGCAGCACAACTTAAGTCGA
CAAGGGCTATCTGCCACAAAAGACCCTCGAGATCAACTACGATCAGCTCAACGGCACATCATTCA
CAATATAACTCAAGGCGAGAAGGGCTATCTGCCAAAGACCTTCGAGTTCGACTACGCTCAGCTTC
GAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGA
GTTCGACTACGCTCAGCTCCAAGGCACATCATTTGCAGCATAGCTTAAGTCGAGAAGGGCTATCT
GCCAAAGACATTCGAATTCGATTACACTCAGCTCCGAGGGCACATCATTTGCAGCATAACTTAAG
TCGAGAAGGGTTATCTGCCAACCAAAGACCTTTGAGTTCGACTACGCTCAGCTCAACGGCACATC
ATTTACAGCATAGCTTAAGTCGAGAAGGGCTATCTACCAAAGACCCCCGAGTTCGATTACACTCA
GCTTCAAGGGCACATCATTTACAACATAACTCAAGGCTAGAAGGGTTATCTGTGACCA
Found at i:623416 original size:14 final size:15
Alignment explanation
Indices: 623399--623471 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 15
623389 TATTTTTTCG
623399 TATTATTTTTATT-T
1 TATTATTTTTATTAT
* * *
623413 TATTAACAATTTTCTTTT
1 TATT---ATTTTTATTAT
623431 TATTATATTATTATTAT
1 TATTAT-TT-TTATTAT
623448 TATATATTTTTATTAT
1 TAT-TATTTTTATTAT
623464 TA-TATTTT
1 TATTATTTT
623472 CCTTTTTTTG
Statistics
Matches: 47, Mismatches: 5, Indels: 14
0.71 0.08 0.21
Matches are distributed among these distances:
14 10 0.21
15 1 0.02
16 11 0.23
17 17 0.36
18 8 0.17
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (15 bp):
TATTATTTTTATTAT
Found at i:623455 original size:16 final size:16
Alignment explanation
Indices: 623434--623468 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
623424 TTCTTTTTAT
623434 TATATTATTATTATTA
1 TATATTATTATTATTA
*
623450 TATATTTTTATTATTA
1 TATATTATTATTATTA
623466 TAT
1 TAT
623469 TTTCCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATTATTATTATTA
Found at i:626347 original size:32 final size:32
Alignment explanation
Indices: 626258--626348 Score: 110
Period size: 32 Copynumber: 2.8 Consensus size: 32
626248 TGTCATATTA
*
626258 CATCATTTTGGATAATGTGACACATATTACAT
1 CATCATTTTGGATAATATGACACATATTACAT
* * * * *
626290 CATCATTTAGGTTAACATGATACATATTACGT
1 CATCATTTTGGATAATATGACACATATTACAT
* *
626322 CATCATTTTGAATGATATGACACATAT
1 CATCATTTTGGATAATATGACACATAT
626349 CATATTACTA
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
32 47 1.00
ACGTcount: A:0.35, C:0.15, G:0.12, T:0.37
Consensus pattern (32 bp):
CATCATTTTGGATAATATGACACATATTACAT
Found at i:627322 original size:15 final size:16
Alignment explanation
Indices: 627302--627339 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
627292 ACCAACCAGT
* *
627302 ACCGAAAGTAACC-GC
1 ACCGAAAGCAACCTGA
627317 ACCGAAAGCAACCTGA
1 ACCGAAAGCAACCTGA
627333 ACCGAAA
1 ACCGAAA
627340 ATCAATCTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.45, C:0.32, G:0.18, T:0.05
Consensus pattern (16 bp):
ACCGAAAGCAACCTGA
Found at i:628860 original size:41 final size:36
Alignment explanation
Indices: 628757--628856 Score: 191
Period size: 36 Copynumber: 2.8 Consensus size: 36
628747 AAAAATTGTA
*
628757 TTTCACGTTCTTAAATGAAGAATAGAATCAACGGTT
1 TTTCAAGTTCTTAAATGAAGAATAGAATCAACGGTT
628793 TTTCAAGTTCTTAAATGAAGAATAGAATCAACGGTT
1 TTTCAAGTTCTTAAATGAAGAATAGAATCAACGGTT
628829 TTTCAAGTTCTTAAATGAAGAATAGAAT
1 TTTCAAGTTCTTAAATGAAGAATAGAAT
628857 AGAAGGTTAT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
36 63 1.00
ACGTcount: A:0.39, C:0.11, G:0.16, T:0.34
Consensus pattern (36 bp):
TTTCAAGTTCTTAAATGAAGAATAGAATCAACGGTT
Found at i:631090 original size:25 final size:25
Alignment explanation
Indices: 631062--631116 Score: 83
Period size: 25 Copynumber: 2.2 Consensus size: 25
631052 CCTACGAGGT
**
631062 ACTTTCGAGTGCATTACTATGAGAC
1 ACTTTCGAGTGCAACACTATGAGAC
*
631087 ACTTTCGAGTGCAACCCTATGAGAC
1 ACTTTCGAGTGCAACACTATGAGAC
631112 ACTTT
1 ACTTT
631117 TAAGTACATA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (25 bp):
ACTTTCGAGTGCAACACTATGAGAC
Done.