Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397258.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_4.1, 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: 11097736
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 71999 characters in sequence are not A, C, G, or T
File 7 of 22
Found at i:3398308 original size:20 final size:20
Alignment explanation
Indices: 3398283--3398328 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3398273 GATCACTTAT
3398283 TCTCTCTC-TC-CCTCTCTC
1 TCTCTCTCTTCACCTCTCTC
* *
3398301 TCTCTCTCTTCACCTCTTTG
1 TCTCTCTCTTCACCTCTCTC
3398321 TCTCTCTC
1 TCTCTCTC
3398329 AGATGAGCGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 2 0.08
20 14 0.58
ACGTcount: A:0.02, C:0.48, G:0.02, T:0.48
Consensus pattern (20 bp):
TCTCTCTCTTCACCTCTCTC
Found at i:3401750 original size:2 final size:2
Alignment explanation
Indices: 3401745--3401773 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3401735 ATCCCGAGAG
3401745 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3401774 GAGAGAGAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3401822 original size:2 final size:2
Alignment explanation
Indices: 3401773--3401806 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3401763 ATATATATAT
3401773 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
3401807 TGGAGCAGGG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3411504 original size:22 final size:23
Alignment explanation
Indices: 3411474--3411516 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
3411464 GATAATGAAT
*
3411474 AAATTAAATTTAAATA-TTTATC
1 AAATCAAATTTAAATAGTTTATC
3411496 AAATCAAATTTAAATAGTTTA
1 AAATCAAATTTAAATAGTTTA
3411517 CGTATAAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (23 bp):
AAATCAAATTTAAATAGTTTATC
Found at i:3414477 original size:2 final size:2
Alignment explanation
Indices: 3414470--3414503 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
3414460 AGCATAATGG
3414470 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
3414504 CGAGGGGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3427863 original size:20 final size:20
Alignment explanation
Indices: 3427827--3427864 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
3427817 AAAAATATAA
*
3427827 AAATAATAAAATTTAAATTT
1 AAATAATAAAATATAAATTT
3427847 AAATAATCAAAA-ATAAAT
1 AAATAAT-AAAATATAAAT
3427865 ATCTCAAACA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (20 bp):
AAATAATAAAATATAAATTT
Found at i:3428267 original size:332 final size:338
Alignment explanation
Indices: 3427874--3428886 Score: 1112
Period size: 336 Copynumber: 3.0 Consensus size: 338
3427864 TATCTCAAAC
*
3427874 ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACATAAAATAAAAAGTAAATATGTT
1 ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAAAAAGTAAATATGTT
* *
3427939 TATATTTAGTGTATATATATTAAAAATATTTTAATATATATATATAATAGTAATTAT-TTGTCTT
66 TATATTTAGTATATATATATTAAAAATATTTTAATATATATATATAATAATAATTATATT-TCTT
* * *
3428003 ATAAATATACTCAATGTATATAAAGTATATATATTAAAAGATATTACAAGTCAATTAATAATCAT
130 ATAAATATACTCAAT-TATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATTAT
* * * *
3428068 AATTTTATTAGTGAATTTAATTAACGATATAGATTTGTCCTTAATTACATGAAATTAAAAAAA-A
194 AATTTTATGAATTAATTTAATTAACTATAT-GATTTGTCCTTAATTACATGAAATTAAAAAAATA
* * *
3428132 ACT-GGATTTC-AA-A-TC-T-T-ACGACTT-TCTTTTAGATTTATATATTATAAATTTATATAA
258 ACTAAG-TTTCAAACATTCATCTCACAACTTCTCTTTAAG-TTTATATATTATAAATTTATATAA
*
3428189 ATAAAGGTATATATAT-T
321 ATAAAAGTATATATATAT
* *
3428206 GTAATTAATAATTTTATAAGTTATAATTTTTATAATATTAACACAAAATAGAAAA-TAAATATGT
1 ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATA-AAAAGTAAATATGT
** * * * * ** * * *
3428270 TTATATTTAAAATACATATATATATATATACTAAACATATTTTAATATATAACACTAATTATATT
65 TTATATTTAGTATATATATAT-TAAAAATATTTTA-ATA-TAT-ATATATAATAATAATTATATT
* * * * *
3428335 CCTTATGAATGA-A-TCTAATATATATAAAGTGTATTTATTAAAAGACATTATAAGTTAATTAAT
126 TCTTATAAAT-ATACTC-AAT-TATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAAT
* * *
3428398 AATTATAATTTTATGAATTAATTTAATTAATTATATGGGTTTGATCTTAATTAATTACATGAAAT
188 AATTATAATTTTATGAATTAATTTAATTAACTATAT-GATTTG-TC---CTTAATTACATGAAAT
3428463 TAAAAAAAATAACTAAGTTTCAAAACTATTCTAATCTCACAACTTCTCTTTAAGTTTATATATTA
248 T-AAAAAAATAACTAAGTTTC-AAAC-ATTC--ATCTCACAACTTCTCTTTAAGTTTATATATTA
*
3428528 TAAGTTTATATAAATAAAAGTATATATATAGT
308 TAAATTTATATAAATAAAAGTATATATATA-T
* *
3428560 ATAATTAATAATTTTATAAGTTATCATTTTTATAGTGTTAACACAAAATAAAAAGTAAATATGTT
1 ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAAAAAGTAAATATGTT
* * *
3428625 TATATTTAAAGTATTTATATAGTAAAAATATTTT-A-GTATATATATAATAATAATTATATTTC-
66 TATATTT--AGTATATATATATTAAAAATATTTTAATATATATATATAATAATAATTATATTTCT
* *
3428687 TATAAAT-TAACACAA-TATATAAACTATATATATTAAAAGACATTACAAGTTAATTAATAATTA
129 TATAAATAT-ACTCAATTATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATTA
* * * *
3428750 TAGTTTCATGAATTAATTTAATTAACTATATGAATTTATCCTTAATTTCATGAAATTAAAAAAAT
193 TAATTTTATGAATTAATTTAATTAACTATATG-ATTTGTCCTTAATTACATGAAATTAAAAAAAT
* * * * **
3428815 AATTAAGTTCCAAAACTATTCTAATATCAAAAGC-TCTCTTTAAGTACATATATTATAAATTTAT
257 AACTAAGTTTC-AAAC-ATTC--ATCTCACAA-CTTCTCTTTAAGTTTATATATTATAAATTTAT
3428879 ATAAATAA
317 ATAAATAA
3428887 TGGTGTCTAT
Statistics
Matches: 569, Mismatches: 76, Indels: 62
0.80 0.11 0.09
Matches are distributed among these distances:
332 73 0.13
333 12 0.02
334 3 0.01
335 4 0.01
336 101 0.18
337 5 0.01
340 16 0.03
341 7 0.01
342 79 0.14
343 17 0.03
344 2 0.00
346 4 0.01
347 77 0.14
349 9 0.02
350 22 0.04
351 3 0.01
352 44 0.08
353 12 0.02
354 64 0.11
355 7 0.01
356 8 0.01
ACGTcount: A:0.46, C:0.06, G:0.06, T:0.42
Consensus pattern (338 bp):
ATAATTAATAATTTTATAAGTTATAATTTTTATAATGTTAACACAAAATAAAAAGTAAATATGTT
TATATTTAGTATATATATATTAAAAATATTTTAATATATATATATAATAATAATTATATTTCTTA
TAAATATACTCAATTATATAAAGTATATATATTAAAAGACATTACAAGTTAATTAATAATTATAA
TTTTATGAATTAATTTAATTAACTATATGATTTGTCCTTAATTACATGAAATTAAAAAAATAACT
AAGTTTCAAACATTCATCTCACAACTTCTCTTTAAGTTTATATATTATAAATTTATATAAATAAA
AGTATATATATAT
Found at i:3428295 original size:21 final size:21
Alignment explanation
Indices: 3428257--3428296 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
3428247 CACAAAATAG
* *
3428257 AAAATAAATATGTTTATATTT
1 AAAATAAATATATATATATTT
*
3428278 AAAATACATATATATATAT
1 AAAATAAATATATATATAT
3428297 ATACTAAACA
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:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (21 bp):
AAAATAAATATATATATATTT
Found at i:3441435 original size:22 final size:23
Alignment explanation
Indices: 3441388--3441437 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
3441378 TTCTTCCTAA
* * *
3441388 AAATTTGCTATAAAGCTACAAAC
1 AAATTTGCTACAAAACTAAAAAC
3441411 AAATTTGCTACAAAAC-AAAAAC
1 AAATTTGCTACAAAACTAAAAAC
3441433 AAATT
1 AAATT
3441438 ATTGAAAGCA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.54, C:0.16, G:0.06, T:0.24
Consensus pattern (23 bp):
AAATTTGCTACAAAACTAAAAAC
Found at i:3444296 original size:14 final size:15
Alignment explanation
Indices: 3444277--3444306 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
3444267 ACTTTTATAT
3444277 TAAGTTT-ATGAATA
1 TAAGTTTGATGAATA
3444291 TAAGTTTGATGAATA
1 TAAGTTTGATGAATA
3444306 T
1 T
3444307 TAATATTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (15 bp):
TAAGTTTGATGAATA
Found at i:3444587 original size:74 final size:74
Alignment explanation
Indices: 3444464--3444605 Score: 212
Period size: 74 Copynumber: 1.9 Consensus size: 74
3444454 ATAAATTGCA
* ** *
3444464 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATGATCATTATTTGATGAATACACATTTA
1 TAAATCTTACTAAGAATTATAATAAAAAATATTTCAACAATCATCATTTGATGAATACACATTTA
3444529 TAATAAGTT
66 TAATAAGTT
** * *
3444538 TAAATCTTACTAAGAATTATAATAAAAAATATTTCAACAATTGTCATTTGATGAATATATATTTA
1 TAAATCTTACTAAGAATTATAATAAAAAATATTTCAACAATCATCATTTGATGAATACACATTTA
3444603 TAA
66 TAA
3444606 GTATAGGTTT
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 60 1.00
ACGTcount: A:0.46, C:0.08, G:0.06, T:0.40
Consensus pattern (74 bp):
TAAATCTTACTAAGAATTATAATAAAAAATATTTCAACAATCATCATTTGATGAATACACATTTA
TAATAAGTT
Found at i:3445214 original size:3 final size:3
Alignment explanation
Indices: 3445201--3445239 Score: 51
Period size: 3 Copynumber: 13.0 Consensus size: 3
3445191 AACTCAAGTT
* * *
3445201 TAA TGA TAA TAA TAA TGA TAA TAA CAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
3445240 ATTTGTTATC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:3445218 original size:12 final size:12
Alignment explanation
Indices: 3445201--3445239 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
3445191 AACTCAAGTT
3445201 TAATGATAATAA
1 TAATGATAATAA
3445213 TAATGATAATAA
1 TAATGATAATAA
* *
3445225 CAATAATAATAA
1 TAATGATAATAA
3445237 TAA
1 TAA
3445240 ATTTGTTATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.31
Consensus pattern (12 bp):
TAATGATAATAA
Found at i:3450540 original size:47 final size:47
Alignment explanation
Indices: 3450476--3450620 Score: 281
Period size: 47 Copynumber: 3.1 Consensus size: 47
3450466 GACCAATTTT
3450476 ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAC
1 ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAC
3450523 ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAC
1 ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAC
*
3450570 ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAG
1 ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAC
3450617 ACAA
1 ACAA
3450621 TAGAAAAAAG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 97 1.00
ACGTcount: A:0.39, C:0.25, G:0.11, T:0.25
Consensus pattern (47 bp):
ACAAACCTTCTGCTCCAACAACAAGAGATCATTACATGATAGTTTAC
Found at i:3452306 original size:36 final size:34
Alignment explanation
Indices: 3452266--3452340 Score: 80
Period size: 36 Copynumber: 2.1 Consensus size: 34
3452256 TGAAGTCATC
3452266 TTTCTCAGAA-AATATATATTTTTATTTTTTTTAACA
1 TTTCTCA-AACAATATA-ATTTTTA-TTTTTTTAACA
* *
3452302 TTTCTTAAACCCAATGTAATTTTTATTTTTTTAACA
1 TTTCTCAAA--CAATATAATTTTTATTTTTTTAACA
3452338 TTT
1 TTT
3452341 TTTAAATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
35 2 0.06
36 20 0.59
37 7 0.21
38 5 0.15
ACGTcount: A:0.31, C:0.11, G:0.03, T:0.56
Consensus pattern (34 bp):
TTTCTCAAACAATATAATTTTTATTTTTTTAACA
Found at i:3457516 original size:27 final size:27
Alignment explanation
Indices: 3457486--3457557 Score: 126
Period size: 27 Copynumber: 2.7 Consensus size: 27
3457476 GCTCAGAAGC
*
3457486 ATTCCAAGCGTAGAAGCATTCAAGGGT
1 ATTCCAAGCTTAGAAGCATTCAAGGGT
3457513 ATTCCAAGCTTAGAAGCATTCAAGGGT
1 ATTCCAAGCTTAGAAGCATTCAAGGGT
*
3457540 ATTCCAAGCTTATAAGCA
1 ATTCCAAGCTTAGAAGCA
3457558 CCCAAAGAGC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (27 bp):
ATTCCAAGCTTAGAAGCATTCAAGGGT
Found at i:3461988 original size:47 final size:47
Alignment explanation
Indices: 3461937--3462043 Score: 187
Period size: 47 Copynumber: 2.3 Consensus size: 47
3461927 CAGAAATGGA
* *
3461937 AGGCATGGCATGACAGAATTCAGAGATCCTCTATAGTCAGTGGTAGT
1 AGGCATGGCATGACAGAATCCAGAGATCCTCTATAGTCAATGGTAGT
3461984 AGGCATGGCATGACAGAATCCAGAGATCCTCTATAGTCAATGGTAGT
1 AGGCATGGCATGACAGAATCCAGAGATCCTCTATAGTCAATGGTAGT
*
3462031 AGGCATGACATGA
1 AGGCATGGCATGA
3462044 TAATTTGATA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 57 1.00
ACGTcount: A:0.32, C:0.18, G:0.27, T:0.23
Consensus pattern (47 bp):
AGGCATGGCATGACAGAATCCAGAGATCCTCTATAGTCAATGGTAGT
Found at i:3466392 original size:2 final size:2
Alignment explanation
Indices: 3466387--3466411 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
3466377 ACAAACTTGT
3466387 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
3466412 TTTTTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:3501301 original size:132 final size:132
Alignment explanation
Indices: 3501064--3501327 Score: 465
Period size: 132 Copynumber: 2.0 Consensus size: 132
3501054 ACCCCACTTA
*
3501064 ACAGAAATATCAGAATTCTCTTGGTGATATGCAGGATAATGGATCATAGCTAGCTACAACGTATA
1 ACAGAAATATCAGAATTCTCTTGGTGATATGCAGGATAATGGATCATAGCTAGCTACAACGTAAA
** * * *
3501129 TGTGAGTACTAGCTGATTTCTGCTAGTTGTAGCAAGTTGAAATTCGTACTATGCTATGTGGTTTC
66 TGTGAGTACTAGCTGATTAATGCAAGTTGTAGCAAGTTGAAATTCGTACTATACCATGTGGTTTC
3501194 TG
131 TG
*
3501196 ACAGAAATATCAGAATTCTCTTGGTGATATGTAGGATAATGGATCATAGCTAGCTACAACGTAAA
1 ACAGAAATATCAGAATTCTCTTGGTGATATGCAGGATAATGGATCATAGCTAGCTACAACGTAAA
3501261 TGTGAGTACTAGCTGATTAATGCAAGTTGTAGCAAGTTGAAATTCGTACTATACCATGTGGTTTC
66 TGTGAGTACTAGCTGATTAATGCAAGTTGTAGCAAGTTGAAATTCGTACTATACCATGTGGTTTC
3501326 TG
131 TG
3501328 TTCAAAGTCC
Statistics
Matches: 125, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
132 125 1.00
ACGTcount: A:0.31, C:0.14, G:0.22, T:0.33
Consensus pattern (132 bp):
ACAGAAATATCAGAATTCTCTTGGTGATATGCAGGATAATGGATCATAGCTAGCTACAACGTAAA
TGTGAGTACTAGCTGATTAATGCAAGTTGTAGCAAGTTGAAATTCGTACTATACCATGTGGTTTC
TG
Found at i:3505173 original size:42 final size:42
Alignment explanation
Indices: 3505127--3505231 Score: 183
Period size: 42 Copynumber: 2.5 Consensus size: 42
3505117 AATTGCGTCA
*
3505127 GTGCCATCTTCTCCAGCCAAGCCGGTCGCGACTACTGCTTCT
1 GTGCCAACTTCTCCAGCCAAGCCGGTCGCGACTACTGCTTCT
* *
3505169 GTGCCAACTTCTCCAGCCAAGCCGGTCGTGACTATTGCTTCT
1 GTGCCAACTTCTCCAGCCAAGCCGGTCGCGACTACTGCTTCT
3505211 GTGCCAACTTCTCCAGCCAAG
1 GTGCCAACTTCTCCAGCCAAG
3505232 ACAGCCCAAC
Statistics
Matches: 60, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 60 1.00
ACGTcount: A:0.17, C:0.36, G:0.21, T:0.26
Consensus pattern (42 bp):
GTGCCAACTTCTCCAGCCAAGCCGGTCGCGACTACTGCTTCT
Found at i:3514864 original size:2 final size:2
Alignment explanation
Indices: 3514851--3514886 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
3514841 GTCCTACTTC
*
3514851 AT AT AA 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
3514887 CTTCTTTTCA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:3519592 original size:82 final size:81
Alignment explanation
Indices: 3519506--3519669 Score: 183
Period size: 82 Copynumber: 2.0 Consensus size: 81
3519496 ATACTTTATG
** * *
3519506 ATTTTTAATATGA-AATATTAATTTTTTTATAATTTA-TTAGAAGTAT-TAATAAATTT-TATTT
1 ATTTTTAATATGACAATATTAA-TAATTTATAACTTATTTA-AAGT-TCT-A-AAATTTATAATT
*
3519567 AAAACTTTAATTTTATTATTT
61 AAAACTTTAATTTGATTATTT
* *
3519588 ATTTTTATTTTGACAATATTAATAATTTATAACTTATTTAAAGTTCTAAAATTTATAATTAAAAC
1 ATTTTTAATATGACAATATTAATAATTTATAACTTATTTAAAGTTCTAAAATTTATAATTAAAAC
*
3519653 TTTAATTTGATTTTTT
66 TTTAATTTGATTATTT
3519669 A
1 A
3519670 ATTTGAAATT
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
80 6 0.09
81 26 0.37
82 27 0.39
83 11 0.16
ACGTcount: A:0.39, C:0.03, G:0.04, T:0.54
Consensus pattern (81 bp):
ATTTTTAATATGACAATATTAATAATTTATAACTTATTTAAAGTTCTAAAATTTATAATTAAAAC
TTTAATTTGATTATTT
Found at i:3519669 original size:13 final size:13
Alignment explanation
Indices: 3519653--3519686 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
3519643 TAATTAAAAC
**
3519653 TTTAATTTGATTT
1 TTTAATTTGAAAT
3519666 TTTAATTTGAAAT
1 TTTAATTTGAAAT
3519679 TTTAATTT
1 TTTAATTT
3519687 TTTATAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (13 bp):
TTTAATTTGAAAT
Found at i:3519782 original size:27 final size:27
Alignment explanation
Indices: 3519752--3519814 Score: 76
Period size: 27 Copynumber: 2.3 Consensus size: 27
3519742 TTTCTATAAC
*
3519752 TTTTTAATTTATAACTAAAATATTCATT-
1 TTTTTAATTTAT--CTAAAATATTAATTA
3519780 TTTTATAATTTATCTAAAATATTAA-TA
1 TTTT-TAATTTATCTAAAATATTAATTA
3519807 TTTTTAAT
1 TTTTTAAT
3519815 AATTAAATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
26 5 0.16
27 15 0.47
28 4 0.12
29 8 0.25
ACGTcount: A:0.40, C:0.05, G:0.00, T:0.56
Consensus pattern (27 bp):
TTTTTAATTTATCTAAAATATTAATTA
Found at i:3519791 original size:29 final size:28
Alignment explanation
Indices: 3519752--3519818 Score: 84
Period size: 29 Copynumber: 2.4 Consensus size: 28
3519742 TTTCTATAAC
*
3519752 TTTT-TAATTTATAACTAAAATATTCAT-T
1 TTTTATAATTTAT--CTAAAATATTAATAT
3519780 TTTTATAATTTATCTAAAATATTAATAT
1 TTTTATAATTTATCTAAAATATTAATAT
3519808 TTTTAATAATT
1 TTTT-ATAATT
3519819 AAATAATATT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
27 12 0.34
28 9 0.26
29 14 0.40
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.55
Consensus pattern (28 bp):
TTTTATAATTTATCTAAAATATTAATAT
Found at i:3519839 original size:14 final size:14
Alignment explanation
Indices: 3519813--3519856 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
3519803 AATATTTTTA
3519813 ATAATTAAATAATATT
1 ATAATT-AATAAT-TT
3519829 AT-ATTAATAATTT
1 ATAATTAATAATTT
*
3519842 ATAATTAATATTTT
1 ATAATTAATAATTT
3519856 A
1 A
3519857 ATATTTTAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
13 4 0.15
14 17 0.65
15 3 0.12
16 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
ATAATTAATAATTT
Found at i:3519850 original size:25 final size:21
Alignment explanation
Indices: 3519800--3519876 Score: 72
Period size: 22 Copynumber: 3.7 Consensus size: 21
3519790 TATCTAAAAT
3519800 ATTAATATTTTTAATAATTAA
1 ATTAATATTTTTAATAATTAA
3519821 A-TAATATTATATTAATAATTTATA
1 ATTAATATT-T-TTAATAA-TTA-A
* *
3519845 ATTAATA-TTTTAATATTTTA
1 ATTAATATTTTTAATAATTAA
3519865 A-TAA-ATTTTTAA
1 ATTAATATTTTTAA
3519877 ATTTTAGTAA
Statistics
Matches: 48, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
18 1 0.02
19 9 0.19
20 9 0.19
21 4 0.08
22 13 0.27
23 4 0.08
24 3 0.06
25 5 0.10
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (21 bp):
ATTAATATTTTTAATAATTAA
Found at i:3519895 original size:19 final size:19
Alignment explanation
Indices: 3519802--3519908 Score: 74
Period size: 20 Copynumber: 5.3 Consensus size: 19
3519792 TCTAAAATAT
* *
3519802 TAATATTTTTAATAATTAAA
1 TAATA-TTTTAATATTTTAA
3519822 TAATATTATATTAATAATTTATAA
1 TAATA-T-T-TTAAT-ATTT-TAA
3519846 TTAATATTTTAATATTTTAA
1 -TAATATTTTAATATTTTAA
*
3519866 TAA-ATTTTTAA-ATTTTAG
1 TAATA-TTTTAATATTTTAA
* *
3519884 TAATATTGTTAATAATTTAT
1 TAATATT-TTAATATTTTAA
3519904 TAATA
1 TAATA
3519909 ATGGTTTTTA
Statistics
Matches: 73, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
18 12 0.16
19 14 0.19
20 20 0.27
21 5 0.07
22 10 0.14
23 4 0.05
24 3 0.04
25 5 0.07
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TAATATTTTAATATTTTAA
Found at i:3561310 original size:1 final size:1
Alignment explanation
Indices: 3561304--3561334 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
3561294 ACCCAAACCA
*
3561304 CCCCCCCCCCCCCCCCCCCCCCCCCCGCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
3561335 TTTTTTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (1 bp):
C
Found at i:3569197 original size:15 final size:15
Alignment explanation
Indices: 3569160--3569205 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
3569150 GGAGATTCTT
3569160 TTTC-TTTCTTTT-G
1 TTTCTTTTCTTTTCG
* *
3569173 -TTCCTTTCTTTTCT
1 TTTCTTTTCTTTTCG
3569187 TTTCTTTTCTTTTCG
1 TTTCTTTTCTTTTCG
3569202 TTTC
1 TTTC
3569206 AATGCTAAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
12 3 0.11
13 8 0.30
15 16 0.59
ACGTcount: A:0.00, C:0.22, G:0.04, T:0.74
Consensus pattern (15 bp):
TTTCTTTTCTTTTCG
Found at i:3598892 original size:15 final size:15
Alignment explanation
Indices: 3598869--3598914 Score: 60
Period size: 14 Copynumber: 3.2 Consensus size: 15
3598859 AAAATATATT
*
3598869 AATATTTAATTTTAA
1 AATAATTAATTTTAA
3598884 AATAATTAA-TTTAA
1 AATAATTAATTTTAA
*
3598898 AAT-ATTAATTTTTA
1 AATAATTAATTTTAA
3598912 AAT
1 AAT
3598915 TATGCAACAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
13 5 0.18
14 15 0.54
15 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATTAATTTTAA
Found at i:3598898 original size:14 final size:14
Alignment explanation
Indices: 3598869--3598908 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
3598859 AAAATATATT
*
3598869 AATATTTAATTTTAA
1 AATAATTAA-TTTAA
3598884 AATAATTAATTTAA
1 AATAATTAATTTAA
3598898 AAT-ATTAATTT
1 AATAATTAATTT
3598909 TTAAATTATG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 8 0.33
14 8 0.33
15 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
AATAATTAATTTAA
Found at i:3599073 original size:74 final size:74
Alignment explanation
Indices: 3598995--3599135 Score: 237
Period size: 74 Copynumber: 1.9 Consensus size: 74
3598985 ATAAATGAAA
* * *
3598995 TAAATCTTATTAATAATTATAATAAAAAATATTTCAATGATCATTATTTGATGAATACATATTTA
1 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATTATTTAATGAATACATATTTA
3599060 TAATAAGTT
66 TAATAAGTT
* *
3599069 TAAATCTTACTAATGATTATAATAAAAAATATTTCAATAATTATTATTTAATGAATACATATTTA
1 TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATTATTTAATGAATACATATTTA
3599134 TA
66 TA
3599136 TGTATAGGTT
Statistics
Matches: 62, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
74 62 1.00
ACGTcount: A:0.47, C:0.06, G:0.04, T:0.43
Consensus pattern (74 bp):
TAAATCTTACTAATAATTATAATAAAAAATATTTCAATAATCATTATTTAATGAATACATATTTA
TAATAAGTT
Found at i:3607762 original size:17 final size:18
Alignment explanation
Indices: 3607730--3607765 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
3607720 ATACTTTCTG
*
3607730 TATTTTATATTTTTTTCA
1 TATTTTATAATTTTTTCA
3607748 TATTTT-TAATTTTTTCA
1 TATTTTATAATTTTTTCA
3607765 T
1 T
3607766 CAAAAAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (18 bp):
TATTTTATAATTTTTTCA
Found at i:3623187 original size:17 final size:18
Alignment explanation
Indices: 3623165--3623199 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3623155 TTGTAATAAG
3623165 TTAA-TTAAATAAAAAAT
1 TTAATTTAAATAAAAAAT
*
3623182 TTAATTTTAATAAAAAAT
1 TTAATTTAAATAAAAAAT
3623200 AAATATTTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TTAATTTAAATAAAAAAT
Found at i:3623748 original size:239 final size:235
Alignment explanation
Indices: 3623143--3623777 Score: 719
Period size: 237 Copynumber: 2.7 Consensus size: 235
3623133 CTATCTCATT
* *
3623143 AATGTGTGAGAGTT---GTAATAAGTTAATTAAAT-AAAAAATTTAATTTTAATAAAAAATAAAT
1 AATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTAAAAAAATTTAATTTTAATGAAAAATAAA-
3623204 ATTTATATTTATATTATCAGACTAAAAGTATATAATGATATATAAATTTTAATTTTTAAATAAAA
65 ATTTATATTTATATTATC-GACTAAAAGTATATAATGATATATAAATTTTAATTTTTAAAT-AAA
* * * * *
3623269 ATAATTATAGTTTAAAAT--TGATA-TAAATAAGTTTTAATATAAAACTGTAAGAATTGACGTAA
128 ATAATAATAGATAAAAATAATTATAGTAAATAAGTTATAATATAAAACTGTAAGAATTGACGTAA
* *
3623331 AAACTTATAAAAGTAGATTAATTAAATTTTAAATTTTAATGTA
193 AAACTTATAAAAGTAGAATAATTAAATTTTAAATTTTAACGTA
* * * * *
3623374 AATGTGTGAGAGTTAACATAATAAATCAATTATGTAAAAAAAAATTTAATTTTAGTGAAAAATAA
1 AATGTGTGAGAGTTAACGTAATAAGTTAATTAAGT--AAAAAAATTTAATTTTAATGAAAAATAA
* * * *
3623439 AATTT-TCAATATATATTTTCAAACTAAAAGTATTTAATGATATATAAATTTTAATTTTTAAAT-
64 AATTTAT--ATTTATATTATC-GACTAAAAGTATATAATGATATATAAATTTTAATTTTTAAATA
* * *
3623502 AAATAATAATA-ATAAAAATAATTATAGCTCAA-AA-TTAGTATATATAAAAGTTGTAATAATTG
126 AAATAATAATAGATAAAAATAATTATAG-TAAATAAGTTA-TA-ATATAAAA-CTGTAAGAATTG
* * *
3623564 ATGTAAAAATTTATAAAAGTAGAATAATTAAATTTTAAATTTTTACGTA
187 ACGTAAAAACTTATAAAAGTAGAATAATTAAATTTTAAATTTTAACGTA
*
3623613 AATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTAAAAAAATTTAATTTTAATGAAAAATAAGC
1 AATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTAAAAAAATTTAATTTTAATGAAAAATAA-A
* * *
3623678 ATTTATATTTATATTATCGCGCTAAAAGTATGTAATAATAT-TCAAATATTT-A-TTTTAAATAA
65 ATTTATATTTATATTATCG-ACTAAAAGTATATAATGATATAT-AAAT-TTTAATTTTTAAATAA
* *
3623740 GGAATAATAA-AGATAAAGATAATTATAGTTAA-AAGTTA
127 --AATAATAATAGATAAAAATAATTATAGTAAATAAGTTA
3623778 CTATTGAAAA
Statistics
Matches: 341, Mismatches: 38, Indels: 42
0.81 0.09 0.10
Matches are distributed among these distances:
231 14 0.04
234 19 0.06
235 11 0.03
236 19 0.06
237 142 0.42
238 24 0.07
239 112 0.33
ACGTcount: A:0.49, C:0.03, G:0.09, T:0.38
Consensus pattern (235 bp):
AATGTGTGAGAGTTAACGTAATAAGTTAATTAAGTAAAAAAATTTAATTTTAATGAAAAATAAAA
TTTATATTTATATTATCGACTAAAAGTATATAATGATATATAAATTTTAATTTTTAAATAAAATA
ATAATAGATAAAAATAATTATAGTAAATAAGTTATAATATAAAACTGTAAGAATTGACGTAAAAA
CTTATAAAAGTAGAATAATTAAATTTTAAATTTTAACGTA
Found at i:3624092 original size:8 final size:8
Alignment explanation
Indices: 3624079--3624108 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
3624069 TTATATATAT
3624079 TGTTAACC
1 TGTTAACC
3624087 TGTTAACC
1 TGTTAACC
3624095 TGTTAACC
1 TGTTAACC
3624103 TGTTAA
1 TGTTAA
3624109 ACAGGTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.27, C:0.20, G:0.13, T:0.40
Consensus pattern (8 bp):
TGTTAACC
Found at i:3637047 original size:17 final size:17
Alignment explanation
Indices: 3637024--3637071 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
3637014 TAATTTTTTA
3637024 AAATTTTTTAAAAAAAGT
1 AAATTTTTTAAAAAAA-T
*
3637042 -AATTTTTTTAAAAAAT
1 AAATTTTTTAAAAAAAT
*
3637058 AAAATTTTTAAAAA
1 AAATTTTTTAAAAA
3637072 CAAAACTTAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
16 1 0.04
17 25 0.96
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (17 bp):
AAATTTTTTAAAAAAAT
Found at i:3637063 original size:18 final size:18
Alignment explanation
Indices: 3637022--3637066 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
3637012 TATAATTTTT
3637022 TAAAA-TTTTTTAAAAAA
1 TAAAATTTTTTTAAAAAA
*
3637039 -AGTAATTTTTTTAAAAAA
1 TA-AAATTTTTTTAAAAAA
3637057 TAAAATTTTT
1 TAAAATTTTT
3637067 AAAAACAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
16 1 0.04
17 2 0.09
18 19 0.83
19 1 0.04
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TAAAATTTTTTTAAAAAA
Found at i:3638404 original size:20 final size:20
Alignment explanation
Indices: 3638381--3638418 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3638371 TTACAAGTTA
* *
3638381 TATATTTTAATTATATAACT
1 TATATGTTAATAATATAACT
3638401 TATATGTTAATAATATAA
1 TATATGTTAATAATATAA
3638419 TATATTATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (20 bp):
TATATGTTAATAATATAACT
Found at i:3638751 original size:214 final size:215
Alignment explanation
Indices: 3638520--3638962 Score: 581
Period size: 214 Copynumber: 2.0 Consensus size: 215
3638510 CTGTATAAAC
* *
3638520 ATTATATATATATATATTTAATTTATACATAAATATTACTATAACTTATTATA-AACTTTACTTA
1 ATTATATATACATATATTTAATTTATACATAAATATTACTATAACTTATAATAGAA-TTTACTTA
* * * * *
3638584 TATAATTACACTTAATAACCTTATTAATTATCATTTTAGTTTTTATAACATATTGTTTATAATTA
65 TATAATTACACCTAATAACCTTATTAATTATCACTTTAATTTTTATAACATATTATTTATAATCA
* *
3638649 GTTATTATTTATACAAACTTTAATATAAAACATTATAACA-TA-AAAAT-TAA-GTCATTAATTT
130 GTTATTATTTATACAAACTTTAATATAAAA-ATTAAAACATTATAAAATATAATGTCACTAATTT
3638710 CACATATACATAATAAAGTAATAT
194 --CATATACATAATAAAGTAATAT
* * * *
3638734 ATTATATATACATATATTTAATTTATATATAAGTATTACTGTAACTTATAATAGAATTTATTTAT
1 ATTATATATACATATATTTAATTTATACATAAATATTACTATAACTTATAATAGAATTTACTTAT
* ** **
3638799 ATTATTACACCTAATAATTTTATTAATTATTGCTTTAATTTTTATAACATATTATTTATAATCAG
66 ATAATTACACCTAATAACCTTATTAATTATCACTTTAATTTTTATAACATATTATTTATAATCAG
* * *
3638864 TTATTATTTATACAAATTTTAATATAAAAATTAAAATATTATAACATATAAGTTGTGTCACTAAT
131 TTATTATTTATACAAACTTTAATATAAAAATTAAAACATTATAAAATATAA----TGTCACTAAT
*
3638929 TTCATATATATAATAAAGTAATAT
192 TTCATATACATAATAAAGTAATAT
3638953 ATTATATATA
1 ATTATATATA
3638963 TACATATACA
Statistics
Matches: 198, Mismatches: 22, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
213 7 0.04
214 141 0.71
215 6 0.03
216 3 0.02
219 31 0.16
221 10 0.05
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.46
Consensus pattern (215 bp):
ATTATATATACATATATTTAATTTATACATAAATATTACTATAACTTATAATAGAATTTACTTAT
ATAATTACACCTAATAACCTTATTAATTATCACTTTAATTTTTATAACATATTATTTATAATCAG
TTATTATTTATACAAACTTTAATATAAAAATTAAAACATTATAAAATATAATGTCACTAATTTCA
TATACATAATAAAGTAATAT
Found at i:3638858 original size:14 final size:16
Alignment explanation
Indices: 3638839--3638875 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
3638829 TGCTTTAATT
3638839 TTTATAA-CA-TATTA
1 TTTATAATCAGTATTA
3638853 TTTATAATCAGTTATTA
1 TTTATAATCAG-TATTA
3638870 TTTATA
1 TTTATA
3638876 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
14 7 0.35
15 2 0.10
17 11 0.55
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.54
Consensus pattern (16 bp):
TTTATAATCAGTATTA
Found at i:3646668 original size:17 final size:17
Alignment explanation
Indices: 3646648--3646689 Score: 84
Period size: 17 Copynumber: 2.5 Consensus size: 17
3646638 TGAGAGGGTG
3646648 AGGTATTTGGGTTCTGC
1 AGGTATTTGGGTTCTGC
3646665 AGGTATTTGGGTTCTGC
1 AGGTATTTGGGTTCTGC
3646682 AGGTATTT
1 AGGTATTT
3646690 ATCTATCGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.14, C:0.10, G:0.33, T:0.43
Consensus pattern (17 bp):
AGGTATTTGGGTTCTGC
Found at i:3657825 original size:143 final size:143
Alignment explanation
Indices: 3657598--3657881 Score: 541
Period size: 143 Copynumber: 2.0 Consensus size: 143
3657588 TATCTTTTAG
*
3657598 GTCAAAGTTTAAAAGCATATGTTAGTGATTGAATCATCAATCTTACATTAGTAAGAGATGGGGTG
1 GTCAAAGTTTAAAAGCATATGTTAGTGATTGAATCATCAATCCTACATTAGTAAGAGATGGGGTG
* *
3657663 GGTTTTGAATATATAAACATGTATCTTTCGTTACTCATGAGATATGTTTTTTGGATTAAGATCGT
66 GGTTTTGAATATATAAACATGTATCTTTCGTCACTCATGAGATATGTTTTTTGGATTAAGATCAT
3657728 GGTCTATGATTAA
131 GGTCTATGATTAA
3657741 GTCAAAGTTTAAAAGCATATGTTAGTGATTGAATCATCAATCCTACATTAGTAAGAGATGGGGTG
1 GTCAAAGTTTAAAAGCATATGTTAGTGATTGAATCATCAATCCTACATTAGTAAGAGATGGGGTG
3657806 GGTTTTGAATATATAAACATGTATCTTTCGTCACTCATGAGATATGTTTTTTGGATTAAGATCAT
66 GGTTTTGAATATATAAACATGTATCTTTCGTCACTCATGAGATATGTTTTTTGGATTAAGATCAT
3657871 GGTCTATGATT
131 GGTCTATGATT
3657882 TAAAGGTTTA
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
143 138 1.00
ACGTcount: A:0.31, C:0.10, G:0.21, T:0.38
Consensus pattern (143 bp):
GTCAAAGTTTAAAAGCATATGTTAGTGATTGAATCATCAATCCTACATTAGTAAGAGATGGGGTG
GGTTTTGAATATATAAACATGTATCTTTCGTCACTCATGAGATATGTTTTTTGGATTAAGATCAT
GGTCTATGATTAA
Found at i:3658523 original size:29 final size:26
Alignment explanation
Indices: 3658471--3658523 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 26
3658461 TTAATCAAAC
3658471 TTTTATATTTTTTGAATCAAATAAGT
1 TTTTATATTTTTTGAATCAAATAAGT
*
3658497 TTTTATATGTTTATTTAAGTCAAATAA
1 TTTTATAT-TTT-TTGAA-TCAAATAA
3658524 ACTTTTATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 3 0.13
28 4 0.17
29 8 0.35
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.53
Consensus pattern (26 bp):
TTTTATATTTTTTGAATCAAATAAGT
Found at i:3658529 original size:29 final size:26
Alignment explanation
Indices: 3658467--3658531 Score: 76
Period size: 29 Copynumber: 2.4 Consensus size: 26
3658457 ACGTTTAATC
3658467 AAACTTTTATATTTTTTGAATCAAAT
1 AAACTTTTATATTTTTTGAATCAAAT
** *
3658493 AAGTTTTTATATGTTTATTTAAGTCAAAT
1 AAACTTTTATAT-TTT-TTGAA-TCAAAT
3658522 AAACTTTTAT
1 AAACTTTTAT
3658532 GACTAAAGAT
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.32
27 3 0.10
28 4 0.13
29 14 0.45
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.51
Consensus pattern (26 bp):
AAACTTTTATATTTTTTGAATCAAAT
Found at i:3658819 original size:30 final size:29
Alignment explanation
Indices: 3658785--3658862 Score: 97
Period size: 30 Copynumber: 2.7 Consensus size: 29
3658775 ATCAATCATT
* *
3658785 AATTATATAAATTTATTTAATTTAAAATAA
1 AATTATAAAAATTTATTTAA-ATAAAATAA
* *
3658815 AATTATAAAAATTTAATTAAATATAATAA
1 AATTATAAAAATTTATTTAAATAAAATAA
3658844 AA--ATAAAAATTTATTTAAA
1 AATTATAAAAATTTATTTAAA
3658863 ATTTTTAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
27 16 0.37
29 9 0.21
30 18 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (29 bp):
AATTATAAAAATTTATTTAAATAAAATAA
Found at i:3658827 original size:21 final size:21
Alignment explanation
Indices: 3658803--3658847 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
3658793 AAATTTATTT
*
3658803 AATTTAAAATAAA-ATTATAAA
1 AATTT-AAATAAATATAATAAA
*
3658824 AATTTAATTAAATATAATAAA
1 AATTTAAATAAATATAATAAA
3658845 AAT
1 AAT
3658848 AAAAATTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
AATTTAAATAAATATAATAAA
Found at i:3658830 original size:26 final size:27
Alignment explanation
Indices: 3658799--3658864 Score: 84
Period size: 27 Copynumber: 2.5 Consensus size: 27
3658789 ATATAAATTT
**
3658799 ATTTAATTTAAAATAA-AATTATAAAA
1 ATTTAATTTAAAATAATAAAAATAAAA
3658825 ATTTAA-TTAAATATAATAAAAATAAAA
1 ATTTAATTTAAA-ATAATAAAAATAAAA
3658852 ATTT-ATTTAAAAT
1 ATTTAATTTAAAAT
3658865 TTTTAAATAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
25 5 0.14
26 13 0.37
27 17 0.49
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (27 bp):
ATTTAATTTAAAATAATAAAAATAAAA
Found at i:3665702 original size:2 final size:2
Alignment explanation
Indices: 3665695--3665729 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
3665685 TTAGAAAGGT
3665695 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3665730 TGATAAGTTC
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3670170 original size:15 final size:15
Alignment explanation
Indices: 3670150--3670202 Score: 97
Period size: 15 Copynumber: 3.5 Consensus size: 15
3670140 TTTACAATGC
3670150 AATGTGATTGCAAGT
1 AATGTGATTGCAAGT
3670165 AATGTGATTGCAAGT
1 AATGTGATTGCAAGT
*
3670180 AATGTGATTGCAAAT
1 AATGTGATTGCAAGT
3670195 AATGTGAT
1 AATGTGAT
3670203 AGATAGCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 37 1.00
ACGTcount: A:0.36, C:0.06, G:0.25, T:0.34
Consensus pattern (15 bp):
AATGTGATTGCAAGT
Found at i:3670640 original size:28 final size:28
Alignment explanation
Indices: 3670565--3670657 Score: 105
Period size: 28 Copynumber: 3.1 Consensus size: 28
3670555 TAAATATAAA
*
3670565 TTTAATATCATATATTTTTATTTTATTTCTT
1 TTTAATATTATATA-TTTTATTTTA-TT-TT
* *
3670596 ATTATAATCTTGTATATTTTATTTTATTTT
1 -TT-TAATATTATATATTTTATTTTATTTT
3670626 TTTAATATTATATATTTTATTTTAATTTT
1 TTTAATATTATATATTTTATTTT-ATTTT
3670655 TTT
1 TTT
3670658 CTTTTAAAAG
Statistics
Matches: 54, Mismatches: 5, Indels: 7
0.82 0.08 0.11
Matches are distributed among these distances:
28 19 0.35
29 10 0.19
30 2 0.04
31 2 0.04
32 12 0.22
33 9 0.17
ACGTcount: A:0.27, C:0.03, G:0.01, T:0.69
Consensus pattern (28 bp):
TTTAATATTATATATTTTATTTTATTTT
Found at i:3670987 original size:2 final size:2
Alignment explanation
Indices: 3670980--3671011 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
3670970 AATACTACCA
3670980 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
3671012 TAAAATTGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3681365 original size:16 final size:15
Alignment explanation
Indices: 3681344--3681374 Score: 53
Period size: 15 Copynumber: 2.0 Consensus size: 15
3681334 TCTTTTTGTG
3681344 AAAATTGAAAGAAAAA
1 AAAATTG-AAGAAAAA
3681360 AAAATTGAAGAAAAA
1 AAAATTGAAGAAAAA
3681375 GTGTTGAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.74, C:0.00, G:0.13, T:0.13
Consensus pattern (15 bp):
AAAATTGAAGAAAAA
Found at i:3687013 original size:14 final size:14
Alignment explanation
Indices: 3686994--3687040 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
3686984 AATTTTGTTA
3686994 TTTTAAAAAATATT
1 TTTTAAAAAATATT
*
3687008 TTTTAAAAAA-GTT
1 TTTTAAAAAATATT
* *
3687021 TTTCACAAAATATT
1 TTTTAAAAAATATT
*
3687035 GTTTAA
1 TTTTAA
3687041 TTTAATTTCT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
13 10 0.40
14 15 0.60
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (14 bp):
TTTTAAAAAATATT
Found at i:3687081 original size:15 final size:17
Alignment explanation
Indices: 3687055--3687086 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
3687045 ATTTCTATTT
3687055 TTAAAAAGTAAA-TAAG
1 TTAAAAAGTAAACTAAG
3687071 TTAAAAA-TAAACTAAG
1 TTAAAAAGTAAACTAAG
3687087 CTACACAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.62, C:0.03, G:0.09, T:0.25
Consensus pattern (17 bp):
TTAAAAAGTAAACTAAG
Found at i:3688463 original size:12 final size:12
Alignment explanation
Indices: 3688429--3688467 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
3688419 TTACTTTTAA
3688429 AATATAATATATGT
1 AATATAATA-AT-T
*
3688443 AAGATAATAATT
1 AATATAATAATT
3688455 AATATAATAATT
1 AATATAATAATT
3688467 A
1 A
3688468 TCTAACAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 13 0.57
13 2 0.09
14 8 0.35
ACGTcount: A:0.56, C:0.00, G:0.05, T:0.38
Consensus pattern (12 bp):
AATATAATAATT
Found at i:3689811 original size:17 final size:18
Alignment explanation
Indices: 3689791--3689829 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
3689781 ATAATTAAAA
3689791 TTAAAAAAATATTAT-TT
1 TTAAAAAAATATTATCTT
* *
3689808 TTAAAAATATGTTATCTT
1 TTAAAAAAATATTATCTT
3689826 TTAA
1 TTAA
3689830 GAGTTAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 13 0.68
18 6 0.32
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (18 bp):
TTAAAAAAATATTATCTT
Found at i:3704811 original size:32 final size:32
Alignment explanation
Indices: 3704775--3704835 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
3704765 ACTCTGTCTC
*
3704775 TCATCCCTTTTCTTCAAAACTCATATTCCAAT
1 TCATCCCTTTTCTTCAAAACTCAAATTCCAAT
*
3704807 TCATCCTTTTTCTTCAAAACTCAAATTCC
1 TCATCCCTTTTCTTCAAAACTCAAATTCC
3704836 CAAATTGGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.28, C:0.31, G:0.00, T:0.41
Consensus pattern (32 bp):
TCATCCCTTTTCTTCAAAACTCAAATTCCAAT
Found at i:3704849 original size:25 final size:25
Alignment explanation
Indices: 3704820--3704867 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
3704810 TCCTTTTTCT
3704820 TCAAAACTCAAATTCCCAAATTGGG
1 TCAAAACTCAAATTCCCAAATTGGG
3704845 TCAAAACTCAAATTCCCAAATTG
1 TCAAAACTCAAATTCCCAAATTG
3704868 CAATGGCTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (25 bp):
TCAAAACTCAAATTCCCAAATTGGG
Found at i:3710992 original size:7 final size:7
Alignment explanation
Indices: 3710977--3711026 Score: 63
Period size: 7 Copynumber: 7.6 Consensus size: 7
3710967 CCAGAGTAAA
3710977 AAAAT-T
1 AAAATAT
3710983 AAAATAT
1 AAAATAT
3710990 AAAATAT
1 AAAATAT
3710997 AAAATAT
1 AAAATAT
3711004 AAAATA-
1 AAAATAT
3711010 ATAAATA-
1 A-AAATAT
3711017 AAAA-AT
1 AAAATAT
3711023 AAAA
1 AAAA
3711027 CAATAAAAGG
Statistics
Matches: 41, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
5 1 0.02
6 13 0.32
7 27 0.66
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (7 bp):
AAAATAT
Found at i:3711006 original size:21 final size:20
Alignment explanation
Indices: 3710976--3711033 Score: 68
Period size: 19 Copynumber: 3.0 Consensus size: 20
3710966 CCCAGAGTAA
3710976 AAAAAT-TAAAAT-ATAAAAT
1 AAAAATATAAAATAAT-AAAT
3710995 ATAAAATATAAAATAATAAAT
1 A-AAAATATAAAATAATAAAT
*
3711016 AAAAA-ATAAAACAATAAA
1 AAAAATATAAAATAATAAA
3711034 AGGAAGACCA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 13 0.37
20 9 0.26
21 11 0.31
22 2 0.06
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (20 bp):
AAAAATATAAAATAATAAAT
Found at i:3711031 original size:8 final size:7
Alignment explanation
Indices: 3710983--3711034 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
3710973 TAAAAAAATT
*
3710983 AAAATAT
1 AAAATAA
*
3710990 AAAATAT
1 AAAATAA
*
3710997 AAAATAT
1 AAAATAA
3711004 AAAATAA
1 AAAATAA
*
3711011 TAAATAA
1 AAAATAA
3711018 AAAATAA
1 AAAATAA
3711025 AACAATAA
1 AA-AATAA
3711033 AA
1 AA
3711035 GGAAGACCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
7 34 0.83
8 7 0.17
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (7 bp):
AAAATAA
Found at i:3718617 original size:19 final size:18
Alignment explanation
Indices: 3718593--3718636 Score: 61
Period size: 19 Copynumber: 2.4 Consensus size: 18
3718583 GAAAAAAGGT
3718593 GAAAAAAAAAAAGAAAAA
1 GAAAAAAAAAAAGAAAAA
* *
3718611 GGAAAAAAAGAGAGAAAAA
1 -GAAAAAAAAAAAGAAAAA
3718630 GAAAAAA
1 GAAAAAA
3718637 TAATAAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 7 0.30
19 16 0.70
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (18 bp):
GAAAAAAAAAAAGAAAAA
Found at i:3719013 original size:24 final size:24
Alignment explanation
Indices: 3718924--3719013 Score: 67
Period size: 24 Copynumber: 3.8 Consensus size: 24
3718914 GAGTAAAATA
*
3718924 TTTATAAATTAATTAAATTTTATG
1 TTTATAAATTAATTAAATTTAATG
* ** *
3718948 TTTATAAAATAATTTTATTTATTG
1 TTTATAAATTAATTAAATTTAATG
** ** *
3718972 AGTA-AAA-TAAAAATAATTGAATG
1 TTTATAAATTAATTA-AATTTAATG
3718995 TTTATAAATTAATTAAATT
1 TTTATAAATTAATTAAATT
3719014 AACTAATTAA
Statistics
Matches: 46, Mismatches: 17, Indels: 6
0.67 0.25 0.09
Matches are distributed among these distances:
22 3 0.07
23 11 0.24
24 28 0.61
25 4 0.09
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.48
Consensus pattern (24 bp):
TTTATAAATTAATTAAATTTAATG
Found at i:3727487 original size:3 final size:3
Alignment explanation
Indices: 3727479--3727519 Score: 73
Period size: 3 Copynumber: 13.7 Consensus size: 3
3727469 TTATTAAAGA
*
3727479 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT GTT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
3727520 GGGTAGTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:3740220 original size:44 final size:41
Alignment explanation
Indices: 3740142--3740222 Score: 99
Period size: 44 Copynumber: 1.9 Consensus size: 41
3740132 TCCCGCGCCG
* **
3740142 GGGGCGGGGCGCGGGGGCGCGCGGGGCGGCCCGGGCGAGGC
1 GGGGCGGGGCGCGGCGGCGCGCGGCCCGGCCCGGGCGAGGC
*
3740183 GGGGCGGCGGCGCGGCGGCGGTCGCGGCCCGGGCCGGGCG
1 GGGGCGG-GGCGCGGCGGC-G-CGCGGCCCGGCCCGGGCG
3740223 CCGCGGTCGG
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
41 7 0.21
42 10 0.30
43 1 0.03
44 15 0.45
ACGTcount: A:0.01, C:0.32, G:0.65, T:0.01
Consensus pattern (41 bp):
GGGGCGGGGCGCGGCGGCGCGCGGCCCGGCCCGGGCGAGGC
Found at i:3740245 original size:39 final size:39
Alignment explanation
Indices: 3740167--3740246 Score: 101
Period size: 39 Copynumber: 2.1 Consensus size: 39
3740157 GGCGCGCGGG
**
3740167 GCGGCCCGGGCGAGGCGGGGCGGCGGCGCGGCGGCGGTC
1 GCGGCCCGGGCGAGGCGCCGCGGCGGCGCGGCGGCGGTC
*
3740206 GCGGCCCGGGCCG-GGCGCCGCGGTCGGCGCGG-GGGGGTC
1 GCGGCCCGGG-CGAGGCGCCGCGG-CGGCGCGGCGGCGGTC
3740245 GC
1 GC
3740247 TGCGGCGGTT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
39 26 0.72
40 10 0.28
ACGTcount: A:0.01, C:0.35, G:0.60, T:0.04
Consensus pattern (39 bp):
GCGGCCCGGGCGAGGCGCCGCGGCGGCGCGGCGGCGGTC
Found at i:3762931 original size:35 final size:35
Alignment explanation
Indices: 3762880--3762950 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
3762870 CCCTTACAAA
*
3762880 TGAAACACTACTTCATATAGAACAATTAAAATAAG
1 TGAAACACTACTTCATATAGAACAAGTAAAATAAG
* * *
3762915 TGAAGCACTATTTCATATGGAACAAGTAAAATAAG
1 TGAAACACTACTTCATATAGAACAAGTAAAATAAG
3762950 T
1 T
3762951 AGAATGCTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.48, C:0.13, G:0.13, T:0.27
Consensus pattern (35 bp):
TGAAACACTACTTCATATAGAACAAGTAAAATAAG
Found at i:3763997 original size:2 final size:2
Alignment explanation
Indices: 3763992--3764028 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
3763982 TCTCTCTCTT
*
3763992 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
3764029 TATCAGTACA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:3770646 original size:18 final size:18
Alignment explanation
Indices: 3770619--3770654 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3770609 GCCATAGCCA
*
3770619 TGGTGATCACGGTCATGG
1 TGGTGATCACAGTCATGG
*
3770637 TGGTGGTCACAGTCATGG
1 TGGTGATCACAGTCATGG
3770655 AGTGAGCATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.17, C:0.17, G:0.39, T:0.28
Consensus pattern (18 bp):
TGGTGATCACAGTCATGG
Found at i:3771583 original size:19 final size:19
Alignment explanation
Indices: 3771559--3771597 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
3771549 TTTTCATCAT
3771559 ACCGTGAAAGAAAATTAGC
1 ACCGTGAAAGAAAATTAGC
3771578 ACCGTGAAAGAAAATTAGC
1 ACCGTGAAAGAAAATTAGC
3771597 A
1 A
3771598 ATCTTTACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.49, C:0.15, G:0.21, T:0.15
Consensus pattern (19 bp):
ACCGTGAAAGAAAATTAGC
Found at i:3776107 original size:22 final size:22
Alignment explanation
Indices: 3776081--3776125 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3776071 TTTCTAAACG
*
3776081 TTTGTCTTGTTTTTTTGTTGGT
1 TTTGTCTTGTTTTTTTGTGGGT
*
3776103 TTTGTTTTGTTTTTTTGTGGGT
1 TTTGTCTTGTTTTTTTGTGGGT
3776125 T
1 T
3776126 GTGTTGGGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.00, C:0.02, G:0.24, T:0.73
Consensus pattern (22 bp):
TTTGTCTTGTTTTTTTGTGGGT
Found at i:3776130 original size:22 final size:22
Alignment explanation
Indices: 3776087--3776130 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
3776077 AACGTTTGTC
* *
3776087 TTGTTTTTTTGTTGGTTTTGTT
1 TTGTTTTTTTGTGGGTTGTGTT
3776109 TTGTTTTTTTGTGGGTTGTGTT
1 TTGTTTTTTTGTGGGTTGTGTT
3776131 GGGAATGGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (22 bp):
TTGTTTTTTTGTGGGTTGTGTT
Found at i:3790177 original size:36 final size:34
Alignment explanation
Indices: 3790137--3790208 Score: 90
Period size: 36 Copynumber: 2.1 Consensus size: 34
3790127 GTAAAGTTAT
**
3790137 AGTTTAATATTCTTATAAAGGAGAAAAAAATAAAAG
1 AGTTTAATAGACTTATAAAGGA-AAAAAAA-AAAAG
* *
3790173 AGTTTAGTAGACTTATAAAGGAAATAAAAAAAAG
1 AGTTTAATAGACTTATAAAGGAAAAAAAAAAAAG
3790207 AG
1 AG
3790209 AAAATAAAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
34 7 0.22
35 6 0.19
36 19 0.59
ACGTcount: A:0.56, C:0.03, G:0.17, T:0.25
Consensus pattern (34 bp):
AGTTTAATAGACTTATAAAGGAAAAAAAAAAAAG
Found at i:3795074 original size:2 final size:2
Alignment explanation
Indices: 3795067--3795097 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3795057 GCTCCCTTTA
*
3795067 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3795098 ACACACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:3807064 original size:2 final size:2
Alignment explanation
Indices: 3807052--3807107 Score: 60
Period size: 2 Copynumber: 28.5 Consensus size: 2
3807042 AGACTTGGAG
* * * *
3807052 TA TA TA T- TA TA TA TG TA TA TA TA TT TA TA TA TT TA TA TA TT
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
*
3807093 TA TA TA TT TA TA TA T
1 TA TA TA TA TA TA TA T
3807108 TGGCTTTAGA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (2 bp):
TA
Found at i:3807123 original size:8 final size:8
Alignment explanation
Indices: 3807052--3807108 Score: 89
Period size: 8 Copynumber: 7.0 Consensus size: 8
3807042 AGACTTGGAG
3807052 TATATA-T
1 TATATATT
3807059 TATATATGT
1 TATATAT-T
3807068 ATATATATT
1 -TATATATT
3807077 TATATATT
1 TATATATT
3807085 TATATATT
1 TATATATT
3807093 TATATATT
1 TATATATT
3807101 TATATATT
1 TATATATT
3807109 GGCTTTAGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
7 6 0.13
8 32 0.68
9 2 0.04
10 7 0.15
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.60
Consensus pattern (8 bp):
TATATATT
Found at i:3807136 original size:16 final size:16
Alignment explanation
Indices: 3807075--3807136 Score: 52
Period size: 16 Copynumber: 3.6 Consensus size: 16
3807065 TGTATATATA
* *
3807075 TTTATATATTTATATA
1 TTTATATATTTAAATT
3807091 TTTATATATTTATATATT
1 TTTATATATTTA-A-ATT
*
3807109 GGCTTTAGATATTTAAATT
1 ---TTTATATATTTAAATT
3807128 TTTATATAT
1 TTTATATAT
3807137 AATTTTTGCC
Statistics
Matches: 37, Mismatches: 4, Indels: 10
0.73 0.08 0.20
Matches are distributed among these distances:
16 20 0.54
18 2 0.05
19 3 0.08
20 1 0.03
21 11 0.30
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.60
Consensus pattern (16 bp):
TTTATATATTTAAATT
Found at i:3808892 original size:30 final size:30
Alignment explanation
Indices: 3808857--3808921 Score: 85
Period size: 30 Copynumber: 2.2 Consensus size: 30
3808847 AATCAAGCTC
** *
3808857 TTATATTTTTATGTTATGCTAAATAAATTT
1 TTATATTTTTATGTTAAACTAAATAAATAT
* *
3808887 TTATATTTTTATTTTAAATTAAATAAATAT
1 TTATATTTTTATGTTAAACTAAATAAATAT
3808917 TTATA
1 TTATA
3808922 ATTAATAATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.02, G:0.03, T:0.57
Consensus pattern (30 bp):
TTATATTTTTATGTTAAACTAAATAAATAT
Found at i:3827978 original size:15 final size:15
Alignment explanation
Indices: 3827958--3827989 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
3827948 CCTTGGTTCT
*
3827958 CTATCTCTCCGATCC
1 CTATCTCTCCCATCC
3827973 CTATCTCTCCCATCC
1 CTATCTCTCCCATCC
3827988 CT
1 CT
3827990 CCTACTACTA
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:0.12, C:0.50, G:0.03, T:0.34
Consensus pattern (15 bp):
CTATCTCTCCCATCC
Found at i:3837215 original size:37 final size:37
Alignment explanation
Indices: 3837132--3837207 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
3837122 CTCCCAGGTT
3837132 ATACAAAAATAAAATATTTTTAAGGGATCAAACAATC
1 ATACAAAAATAAAATATTTTTAAGGGATCAAACAATC
3837169 ATACAAAAATAAAATATTTTTAAGGGATCAAACAATC
1 ATACAAAAATAAAATATTTTTAAGGGATCAAACAATC
3837206 AT
1 AT
3837208 TTTAAAATGG
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.28
Consensus pattern (37 bp):
ATACAAAAATAAAATATTTTTAAGGGATCAAACAATC
Found at i:3842493 original size:2 final size:2
Alignment explanation
Indices: 3842486--3842512 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3842476 CTGTGAAGAT
3842486 GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA G
3842513 GAAAGGGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:3842897 original size:2 final size:2
Alignment explanation
Indices: 3842876--3842914 Score: 51
Period size: 2 Copynumber: 19.0 Consensus size: 2
3842866 AAATGATGAA
* *
3842876 AG AG AG AA AG ACG AG GG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG A-G AG AG AG AG AG AG AG AG AG AG AG AG AG
3842915 GTCCCCAATA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 30 0.94
3 2 0.06
ACGTcount: A:0.49, C:0.03, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:3852621 original size:2 final size:2
Alignment explanation
Indices: 3852614--3852639 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
3852604 GAGGTGGAGA
3852614 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
3852640 TAGCTCATCG
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:3854244 original size:2 final size:2
Alignment explanation
Indices: 3854237--3854263 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
3854227 TTTCATGCAA
3854237 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
3854264 TGGTGATAGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:3858993 original size:41 final size:41
Alignment explanation
Indices: 3858936--3859023 Score: 142
Period size: 41 Copynumber: 2.1 Consensus size: 41
3858926 GAAATTTCCA
3858936 AATTGGGAACTCAGAGGTAGCACTAGGAAGA-GATTAGAGAC
1 AATTGGGAACTCAGAGGTAGCACTAGGAA-ACGATTAGAGAC
*
3858977 AATTGGGAGCTCAGAGGTAGCACTAGGAAACGATTAGAGAC
1 AATTGGGAACTCAGAGGTAGCACTAGGAAACGATTAGAGAC
*
3859018 AGTTGG
1 AATTGG
3859024 CTACAATGTA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.36, C:0.12, G:0.33, T:0.18
Consensus pattern (41 bp):
AATTGGGAACTCAGAGGTAGCACTAGGAAACGATTAGAGAC
Found at i:3876364 original size:144 final size:145
Alignment explanation
Indices: 3876102--3876434 Score: 472
Period size: 144 Copynumber: 2.3 Consensus size: 145
3876092 ATATTTTTCC
* *
3876102 AAAACTCATCATCTTGTTCATTGGTGCTAGATTGATTTTGAA-CTTCATGAAAGTTATCATTAAA
1 AAAACTCATCATCTTGTTCATTGGTGCTAGATTGATTTTGAACCTTCACGAAAGTTACCATTAAA
* ** * * *
3876166 ACTACAAAAATTTGTGGAATTATCATAAGAAGGCACATACTCTTCGCATATCTGTGACTGTCGTG
66 ACCACAAAAATTTGTAAAATCATCATAAAAAGGCACATACTCCTCGCATATCTGTGACTGTCGTG
* *
3876231 TAGGAGAAACACGAT
131 TAGAAGAAACAAGAT
* *
3876246 AGAACTCATCATCTTGTTCATTGGTGCTAGATTGATTTTGAACCTT-ACGAAAGTTACCATTAGA
1 AAAACTCATCATCTTGTTCATTGGTGCTAGATTGATTTTGAACCTTCACGAAAGTTACCATTAAA
* * ** * *
3876310 ACCACAAAAATTTGTAAAATCATTATAAAAAGGCACATGCTCCTCGTGTATCTGTGATTGTTGTG
66 ACCACAAAAATTTGTAAAATCATCATAAAAAGGCACATACTCCTCGCATATCTGTGACTGTCGTG
3876375 TAGAAGAAACAAGAT
131 TAGAAGAAACAAGAT
* *
3876390 AAAACTCATCATCCTGTTCATTGGTGTTAGATTGATTTTGAACCT
1 AAAACTCATCATCTTGTTCATTGGTGCTAGATTGATTTTGAACCT
3876435 CATCAAAATC
Statistics
Matches: 167, Mismatches: 21, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
144 164 0.98
145 3 0.02
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Consensus pattern (145 bp):
AAAACTCATCATCTTGTTCATTGGTGCTAGATTGATTTTGAACCTTCACGAAAGTTACCATTAAA
ACCACAAAAATTTGTAAAATCATCATAAAAAGGCACATACTCCTCGCATATCTGTGACTGTCGTG
TAGAAGAAACAAGAT
Found at i:3881290 original size:2 final size:2
Alignment explanation
Indices: 3881283--3881318 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
3881273 CCATTCTTCA
3881283 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
3881319 GGAAATGGAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3889615 original size:13 final size:13
Alignment explanation
Indices: 3889597--3889634 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
3889587 ATATGTATTT
3889597 AATTATGAATGAA
1 AATTATGAATGAA
* *
3889610 AATTATGGATAAA
1 AATTATGAATGAA
3889623 AATTATGAATGA
1 AATTATGAATGA
3889635 TTTTAGATAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.16, T:0.32
Consensus pattern (13 bp):
AATTATGAATGAA
Found at i:3890734 original size:29 final size:31
Alignment explanation
Indices: 3890677--3890750 Score: 91
Period size: 29 Copynumber: 2.5 Consensus size: 31
3890667 CATTCAATCG
* *
3890677 AAAT-TTTATATATTTTTATTTTTAGTTAAAT
1 AAATCTTTATA-ATTTTTATTTTGAATTAAAT
3890708 AAATCTTTA-AATTTTT-TTTTGAATTAAAT
1 AAATCTTTATAATTTTTATTTTGAATTAAAT
*
3890737 AAATTTTTATAATT
1 AAATCTTTATAATT
3890751 AAGAGTTAAC
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
29 19 0.50
30 10 0.26
31 5 0.13
32 4 0.11
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (31 bp):
AAATCTTTATAATTTTTATTTTGAATTAAAT
Found at i:3890935 original size:22 final size:25
Alignment explanation
Indices: 3890910--3890958 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 25
3890900 ATGAGTATGA
3890910 AATGATAAATAG-T-ATT-TTAATT
1 AATGATAAATAGTTAATTATTAATT
*
3890932 AATGATAATTAGTTAATTATTAATT
1 AATGATAAATAGTTAATTATTAATT
3890957 AA
1 AA
3890959 AAATATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
22 11 0.48
23 1 0.04
24 3 0.13
25 8 0.35
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (25 bp):
AATGATAAATAGTTAATTATTAATT
Found at i:3901573 original size:2 final size:2
Alignment explanation
Indices: 3901566--3901600 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
3901556 AGCAATTCGG
*
3901566 CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
3901601 CGCAATGCCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
CT
Found at i:3906116 original size:29 final size:29
Alignment explanation
Indices: 3906047--3906119 Score: 73
Period size: 29 Copynumber: 2.5 Consensus size: 29
3906037 TTTGATTCAA
*
3906047 AATAAAAATAT-AAAGATTTATTCGACTT
1 AATAAAAATATAAAAGATTTATTCGAATT
3906075 AA-AACAAAGTATAAAAG-TTTGATT-GAATAT
1 AATAA-AAA-TATAAAAGATTT-ATTCGAAT-T
3906105 AATAAAAATATAAAA
1 AATAAAAATATAAAA
3906120 TTTTATTTAA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
27 2 0.05
28 5 0.13
29 16 0.42
30 13 0.34
31 2 0.05
ACGTcount: A:0.58, C:0.04, G:0.08, T:0.30
Consensus pattern (29 bp):
AATAAAAATATAAAAGATTTATTCGAATT
Found at i:3907224 original size:252 final size:250
Alignment explanation
Indices: 3906863--3907481 Score: 678
Period size: 252 Copynumber: 2.5 Consensus size: 250
3906853 TGATTTTAAC
* * * *
3906863 TATAAATATATTTATCTTTATTATTATTCATTTATAAATTAAAATTTATAAATCCTTAAATACTT
1 TATAATTATTTTTATCTTTACTA-TATTCATTTATATATTAAAATTTATAAA-CCTTAAATAC-T
* * *
3906928 GTTAACTT-GATAATAAAAATTTCAAA-GTTTAATTTTTT-AAAAATTATATTTATTTTAACT-T
63 -TTAAATTCAAGAATAAAAATTT-AAATGTTTAATTTTTTAAAAAATTATATTTA-TTTAA-TAT
* * ** *
3906989 AATTGACTTATTACATTAAATCTAACATAGTTATGTCAATATTTTGACAAT-ATATATTTCACCT
124 AATTAACTTATTACATTAAATCTAACATAGTTACGTCAATATTTCAACAATCAT-TATTTCACAT
** * * *
3907053 TTATAA-TTTTTATGTTAATTCTTATAACTTTATATCAAGGTTTTTTAACTACTAATTTTCAT
188 TTATAATTTTTTACATTAATTCTTATAACTTTATATCAAAGTTTATCAACTACTAATTTTCAT
3907115 TATAATTATTTTTATCTTTACTACTATTCATTTATATATTAAAATTTATAAACCGTTAAATACTT
1 TATAATTATTTTTATCTTTACTA-TATTCATTTATATATTAAAATTTATAAACC-TTAAATACTT
* * *
3907180 TAAATTCTAGAATAAAAATTTAAATGTTTAATTTTTTAAAAAATTATGTTTATTTGATATAATTA
64 TAAATTCAAGAATAAAAATTTAAATGTTTAATTTTTTAAAAAATTATATTTATTTAATATAATTA
* * * * * * * *
3907245 ACTTGTTACGTTAAATCTTATATATTTACGTCAATGTTTCAACAATCCTTGTTTCACATTTATAA
129 ACTTATTACATTAAATCTAACATAGTTACGTCAATATTTCAACAATCATTATTTCACATTTATAA
* * * *
3907310 TTTTTTACATTAATTCTTATGATTTTATGTCAAAGTTTATCAATTACTAATTTTCAT
194 TTTTTTACATTAATTCTTATAACTTTATATCAAAGTTTATCAACTACTAATTTTCAT
* * * * * **
3907367 TATAATTAATTTTATCCTTACCATCATTCATTCATATATTAAAATTTGT-AACCTATTAAATAAA
1 TATAATTATTTTTATCTTTACTAT-ATTCATTTATATATTAAAATTTATAAACC--TTAAATACT
* * *
3907431 TTCAACTCAAGAATAAAAATTTAAATGCTTAA-TTTTTATAAAAATTATATT
63 TTAAATTCAAGAATAAAAATTTAAATGTTTAATTTTTTA-AAAAATTATATT
3907482 CAACTCAAGT
Statistics
Matches: 312, Mismatches: 45, Indels: 20
0.83 0.12 0.05
Matches are distributed among these distances:
250 10 0.03
251 98 0.31
252 204 0.65
ACGTcount: A:0.38, C:0.10, G:0.04, T:0.48
Consensus pattern (250 bp):
TATAATTATTTTTATCTTTACTATATTCATTTATATATTAAAATTTATAAACCTTAAATACTTTA
AATTCAAGAATAAAAATTTAAATGTTTAATTTTTTAAAAAATTATATTTATTTAATATAATTAAC
TTATTACATTAAATCTAACATAGTTACGTCAATATTTCAACAATCATTATTTCACATTTATAATT
TTTTACATTAATTCTTATAACTTTATATCAAAGTTTATCAACTACTAATTTTCAT
Found at i:3907667 original size:211 final size:211
Alignment explanation
Indices: 3907303--3907689 Score: 557
Period size: 211 Copynumber: 1.8 Consensus size: 211
3907293 TTGTTTCACA
* * *
3907303 TTTATAATTTTTTACATTAATTCTTATGATTTTATGTCAAAGTTTATCAATTACTAATTTTCATT
1 TTTATAATTTCTTACATTAATTCTTATGATTTTATGTCAAAGTTTATCAACTACTAATTTTCACT
* * *
3907368 ATAATTAATTTTATCCTTACCATCATTCATTCATATATTAAAATTTGTAACCTATTAAATAAATT
66 ATAATTAATTTTATACTTACCATCATTCATTCATAAATTAAAATTTGTAACCTATAAAATAAATT
* *
3907433 CAACTCAAGAATAAAAATTTAAATGCTTAATTTTT-ATAAAAATTATATTCAACTCAAGTTTAAA
131 AAACTCAAGAATAAAAATTTAAATACTTAATTTTTCA-AAAAATTATATTCAACTCAAGTTTAAA
3907497 ATTACATTTACTTTACT
195 ATTACATTTACTTTACT
* *
3907514 TTTATAATTTCTTACATTAATTCTTACTG-TTTTATGTTAAAGTTTTTCAACTACTAATTTTCAC
1 TTTATAATTTCTTACATTAATTCTTA-TGATTTTATGTCAAAGTTTATCAACTACTAATTTTCAC
* * * * **
3907578 TATAATTATTTTTATACTTACTATTATTCATTCATAAATTAAAATTTGTAA-GTCATAAAATATT
65 TATAATTAATTTTATACTTACCATCATTCATTCATAAATTAAAATTTGTAACCT-ATAAAATAAA
*
3907642 TTAAACTCGAA-AATAAAAATTTAAATATTTAATTTTTCAAAAAATTAT
129 TTAAACTC-AAGAATAAAAATTTAAATACTTAATTTTTCAAAAAATTAT
3907690 GTTTATTTGA
Statistics
Matches: 155, Mismatches: 17, Indels: 8
0.86 0.09 0.04
Matches are distributed among these distances:
210 1 0.01
211 149 0.96
212 5 0.03
ACGTcount: A:0.39, C:0.11, G:0.03, T:0.47
Consensus pattern (211 bp):
TTTATAATTTCTTACATTAATTCTTATGATTTTATGTCAAAGTTTATCAACTACTAATTTTCACT
ATAATTAATTTTATACTTACCATCATTCATTCATAAATTAAAATTTGTAACCTATAAAATAAATT
AAACTCAAGAATAAAAATTTAAATACTTAATTTTTCAAAAAATTATATTCAACTCAAGTTTAAAA
TTACATTTACTTTACT
Found at i:3910767 original size:16 final size:15
Alignment explanation
Indices: 3910748--3910790 Score: 50
Period size: 17 Copynumber: 2.7 Consensus size: 15
3910738 TTATTTATTT
3910748 TTAATTATTTTTATAA
1 TTAATTATTTTTA-AA
*
3910764 TTAATTTATTTTTAAG
1 TTAA-TTATTTTTAAA
*
3910780 TGAATTATTTT
1 TTAATTATTTT
3910791 AATTTTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
15 7 0.29
16 8 0.33
17 9 0.38
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.63
Consensus pattern (15 bp):
TTAATTATTTTTAAA
Found at i:3910811 original size:19 final size:19
Alignment explanation
Indices: 3910787--3910834 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
3910777 AAGTGAATTA
3910787 TTTTAATTTTA-TGTTATTT
1 TTTTAATTTTATTGTTA-TT
*
3910806 TTTTAATTTAATTGTTATT
1 TTTTAATTTTATTGTTATT
*
3910825 TATTAATTTT
1 TTTTAATTTT
3910835 TATTTTTTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 20 0.80
20 5 0.20
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (19 bp):
TTTTAATTTTATTGTTATT
Found at i:3926646 original size:29 final size:31
Alignment explanation
Indices: 3926614--3926681 Score: 81
Period size: 29 Copynumber: 2.3 Consensus size: 31
3926604 TTTAAAAATT
3926614 TTCAAATAAGTTTTTAT-TTTTT-TATTAAA
1 TTCAAATAAGTTTTTATATTTTTATATTAAA
* *
3926643 TTC-AATCAATTTTTTATATTTTTATTTTAAA
1 TTCAAAT-AAGTTTTTATATTTTTATATTAAA
3926674 -TCAAATAA
1 TTCAAATAA
3926682 TCTCTCATAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
28 3 0.09
29 12 0.36
30 9 0.27
31 9 0.27
ACGTcount: A:0.37, C:0.06, G:0.01, T:0.56
Consensus pattern (31 bp):
TTCAAATAAGTTTTTATATTTTTATATTAAA
Found at i:3926987 original size:30 final size:30
Alignment explanation
Indices: 3926953--3927014 Score: 97
Period size: 30 Copynumber: 2.1 Consensus size: 30
3926943 TATAAAAAAT
*
3926953 TTATTTGATTTAAAATAAAAGTACAATAGC
1 TTATTTGATTTAAAATAAAAGTACAAAAGC
* *
3926983 TTATTTGGTTTAAAATAAAAGTATAAAAGC
1 TTATTTGATTTAAAATAAAAGTACAAAAGC
3927013 TT
1 TT
3927015 GATTGAACAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.45, C:0.05, G:0.11, T:0.39
Consensus pattern (30 bp):
TTATTTGATTTAAAATAAAAGTACAAAAGC
Found at i:3939643 original size:25 final size:25
Alignment explanation
Indices: 3939609--3939660 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
3939599 TTGTAGAATC
*
3939609 GTGTGTTTCTC-TGTAGGTTACAGTT
1 GTGTGCTTCTCATGT-GGTTACAGTT
3939634 GTGTGCTTCTCTATGTGGTTACAGTT
1 GTGTGCTTCTC-ATGTGGTTACAGTT
3939660 G
1 G
3939661 ATTGTACATT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 10 0.42
26 11 0.46
27 3 0.12
ACGTcount: A:0.12, C:0.13, G:0.29, T:0.46
Consensus pattern (25 bp):
GTGTGCTTCTCATGTGGTTACAGTT
Found at i:3943664 original size:65 final size:65
Alignment explanation
Indices: 3943578--3943707 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 65
3943568 ATAAAAACTT
* * * * **
3943578 CTAATATCACATCTAATCCTTATAAAGCATACATTATAAGATGATATGATGTCAGATCAAATTGA
1 CTAAAATCACATCAAAGCCTTACAAAGCATACATTATAAGATGATATGAAATCAGATCAAATTGA
*
3943643 CTAAAATCACATCAAAGCCTTACAAAGCATGCATTATAAGATGATATGAAATCAGATCAAATTGA
1 CTAAAATCACATCAAAGCCTTACAAAGCATACATTATAAGATGATATGAAATCAGATCAAATTGA
3943708 TTTTTCTTTT
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
65 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (65 bp):
CTAAAATCACATCAAAGCCTTACAAAGCATACATTATAAGATGATATGAAATCAGATCAAATTGA
Found at i:3945737 original size:3 final size:3
Alignment explanation
Indices: 3945729--3945758 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
3945719 TTCCTGGTTT
3945729 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
3945759 CTCCTTTTCA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:3952732 original size:29 final size:28
Alignment explanation
Indices: 3952681--3952750 Score: 74
Period size: 29 Copynumber: 2.5 Consensus size: 28
3952671 CAACAAATTA
*
3952681 AATT-ATTTTT-TATTTTTTATTAAGATT
1 AATTAATTTTTATATTTTTTATTAAG-TC
3952708 AATTAATTTTTATATTTTATT-TTAAGTC
1 AATTAATTTTTATATTTT-TTATTAAGTC
*
3952736 AAATAAGTTTTTATA
1 AATTAA-TTTTTATA
3952751 ACTAATAATT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
27 4 0.11
28 12 0.32
29 19 0.51
30 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.04, T:0.60
Consensus pattern (28 bp):
AATTAATTTTTATATTTTTTATTAAGTC
Found at i:3960396 original size:25 final size:26
Alignment explanation
Indices: 3960368--3960425 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
3960358 TTTAAAATAT
*
3960368 ATTTTTAT-TTCT-TAAAAAGTTTATA
1 ATTTTTATCTT-TATAAAAAGTTTAAA
*
3960393 A-TTTTATCTTTATAAAAATTTTAAA
1 ATTTTTATCTTTATAAAAAGTTTAAA
3960418 ATTTTTAT
1 ATTTTTAT
3960426 AATATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
24 7 0.25
25 15 0.54
26 6 0.21
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (26 bp):
ATTTTTATCTTTATAAAAAGTTTAAA
Found at i:3960434 original size:63 final size:63
Alignment explanation
Indices: 3960343--3960478 Score: 209
Period size: 63 Copynumber: 2.2 Consensus size: 63
3960333 GTAATCTTTC
*
3960343 AAAAATTTTAAAAATTTTAAAATATATTTTTATTTCTTAAAAAGTTTATAATTTTATCTTTAT
1 AAAAATTTTAAAAATTTTAAAATATATTTTTATTTCTTAAAAAGTTTAAAATTTTATCTTTAT
* * * * *
3960406 AAAAATTTTAAAATTTTTATAATATATTTTTATTTTTTAAAAATTTTAAAATTTTATTTTTAT
1 AAAAATTTTAAAAATTTTAAAATATATTTTTATTTCTTAAAAAGTTTAAAATTTTATCTTTAT
*
3960469 AATAATTTTA
1 AAAAATTTTA
3960479 TAACAAGTCA
Statistics
Matches: 66, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
63 66 1.00
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (63 bp):
AAAAATTTTAAAAATTTTAAAATATATTTTTATTTCTTAAAAAGTTTAAAATTTTATCTTTAT
Found at i:3996464 original size:28 final size:29
Alignment explanation
Indices: 3996424--3996478 Score: 87
Period size: 28 Copynumber: 1.9 Consensus size: 29
3996414 ATTTAAAGAT
3996424 TTTTAAATAAATTTTTAT-TTTTTATTAA
1 TTTTAAATAAATTTTTATATTTTTATTAA
3996452 TTTT-AATCAAATTTTTATATTTTTATT
1 TTTTAAAT-AAATTTTTATATTTTTATT
3996479 TTAAATTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
27 3 0.12
28 14 0.56
29 8 0.32
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (29 bp):
TTTTAAATAAATTTTTATATTTTTATTAA
Found at i:4010472 original size:9 final size:9
Alignment explanation
Indices: 4010453--4010499 Score: 58
Period size: 9 Copynumber: 4.9 Consensus size: 9
4010443 GTAAAAACTA
4010453 AAAAGAAAAG
1 AAAA-AAAAG
4010463 AAAAAAAAG
1 AAAAAAAAG
*
4010472 AAAAAAAATTA
1 AAAAAAAA--G
4010483 AAAAAAAAG
1 AAAAAAAAG
4010492 AAAAAAAA
1 AAAAAAAA
4010500 AACCTCTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
9 21 0.64
10 4 0.12
11 8 0.24
ACGTcount: A:0.87, C:0.00, G:0.09, T:0.04
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:4010476 original size:10 final size:10
Alignment explanation
Indices: 4010452--4010500 Score: 64
Period size: 10 Copynumber: 4.9 Consensus size: 10
4010442 GGTAAAAACT
4010452 AAAAAGAAAAG
1 AAAAA-AAAAG
4010463 -AAAAAAAAG
1 AAAAAAAAAG
**
4010472 AAAAAAAATT
1 AAAAAAAAAG
4010482 AAAAAAAAAG
1 AAAAAAAAAG
4010492 AAAAAAAAA
1 AAAAAAAAA
4010501 ACCTCTAATT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
9 5 0.15
10 28 0.85
ACGTcount: A:0.88, C:0.00, G:0.08, T:0.04
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:4011584 original size:16 final size:16
Alignment explanation
Indices: 4011563--4011595 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
4011553 AAAAAAAAAC
4011563 AGAAAATTATTACGAA
1 AGAAAATTATTACGAA
*
4011579 AGAAAATTATTATGAA
1 AGAAAATTATTACGAA
4011595 A
1 A
4011596 TAAATCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.58, C:0.03, G:0.12, T:0.27
Consensus pattern (16 bp):
AGAAAATTATTACGAA
Found at i:4019233 original size:55 final size:56
Alignment explanation
Indices: 4019167--4019273 Score: 139
Period size: 55 Copynumber: 1.9 Consensus size: 56
4019157 TAAACTAAAA
*
4019167 TATATAATATA-GAAATCAGAAATTAAAACAAAACA-A-AATATAAGAAATTAAAATT
1 TATATAATATAGGAAA--AGAAATTAAAACAAAACATATAATATAAAAAATTAAAATT
* *
4019222 TATATAATATAGGGAAAAGAAATTAAAATAAAATATATAATATAAAAAATTA
1 TATATAATATA-GGAAAAGAAATTAAAACAAAACATATAATATAAAAAATTA
4019274 TATTAAATAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
55 27 0.60
56 1 0.02
57 17 0.38
ACGTcount: A:0.64, C:0.03, G:0.07, T:0.27
Consensus pattern (56 bp):
TATATAATATAGGAAAAGAAATTAAAACAAAACATATAATATAAAAAATTAAAATT
Found at i:4019283 original size:17 final size:16
Alignment explanation
Indices: 4019251--4019341 Score: 53
Period size: 16 Copynumber: 5.6 Consensus size: 16
4019241 AAATTAAAAT
4019251 AAAATATATAATATAA
1 AAAATATATAATATAA
4019267 AAAATTATATTAA-ATAA
1 AAAA-TATA-TAATATAA
* *
4019284 ATAAA-ATAAAAAATAA
1 A-AAATATATAATATAA
* * *
4019300 AAATAAAAATAA-AAAA
1 AAA-ATATATAATATAA
* *
4019316 TAAAATATATGATATTA
1 -AAAATATATAATATAA
4019333 AAAATATAT
1 AAAATATAT
4019342 CTAAGAGATG
Statistics
Matches: 58, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
15 4 0.07
16 30 0.52
17 18 0.31
18 6 0.10
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (16 bp):
AAAATATATAATATAA
Found at i:4019298 original size:7 final size:7
Alignment explanation
Indices: 4019286--4019320 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
4019276 TTAAATAAAT
4019286 AAAATAA
1 AAAATAA
4019293 AAAAT-A
1 AAAATAA
4019299 AAAAT-A
1 AAAATAA
4019305 AAAATAA
1 AAAATAA
4019312 AAAATAA
1 AAAATAA
4019319 AA
1 AA
4019321 TATATGATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.44
7 15 0.56
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (7 bp):
AAAATAA
Found at i:4019301 original size:6 final size:6
Alignment explanation
Indices: 4019282--4019320 Score: 53
Period size: 6 Copynumber: 6.3 Consensus size: 6
4019272 TATATTAAAT
4019282 AAAT-A AAATAAA AAATAA AAATAA AAATAAA AAATAA AA
1 AAATAA AAAT-AA AAATAA AAATAA AAAT-AA AAATAA AA
4019321 TATATGATAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
5 4 0.13
6 16 0.52
7 11 0.35
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:4019306 original size:26 final size:26
Alignment explanation
Indices: 4019241--4019320 Score: 81
Period size: 26 Copynumber: 3.0 Consensus size: 26
4019231 TAGGGAAAAG
* *
4019241 AAATTAAAATAAAATATATAATATAAA
1 AAATTAAAAT-AAATAAATAAAATAAA
* *
4019268 AAATTATATTAAATAAATAAAATAAA
1 AAATTAAAATAAATAAATAAAATAAA
* *
4019294 AAATAAAAATAAA-AATAAAAAATAAA
1 AAATTAAAATAAATAA-ATAAAATAAA
4019320 A
1 A
4019321 TATATGATAT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
25 2 0.05
26 34 0.77
27 8 0.18
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (26 bp):
AAATTAAAATAAATAAATAAAATAAA
Found at i:4020666 original size:12 final size:11
Alignment explanation
Indices: 4020649--4020723 Score: 63
Period size: 11 Copynumber: 7.0 Consensus size: 11
4020639 TAGAGATTTA
4020649 AAATATATAAAT
1 AAATATA-AAAT
4020661 AAATATAATAA-
1 AAATATAA-AAT
4020672 AAATATAAAAT
1 AAATATAAAAT
4020683 AAA-ATAATAAT
1 AAATATAA-AAT
*
4020694 ATAA-ATTAAA-
1 A-AATATAAAAT
4020704 AAATATAAAA-
1 AAATATAAAAT
4020714 AAAT-TAAAAT
1 AAATATAAAAT
4020724 TGAATCAAGC
Statistics
Matches: 55, Mismatches: 2, Indels: 14
0.77 0.03 0.20
Matches are distributed among these distances:
9 7 0.13
10 16 0.29
11 18 0.33
12 14 0.25
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
AAATATAAAAT
Found at i:4020671 original size:13 final size:13
Alignment explanation
Indices: 4020649--4020708 Score: 53
Period size: 12 Copynumber: 5.1 Consensus size: 13
4020639 TAGAGATTTA
4020649 AAATAT-ATAAAT
1 AAATATAATAAAT
4020661 AAATATAAT-AA-
1 AAATATAATAAAT
4020672 AAATAT-A-AAAT
1 AAATATAATAAAT
4020683 AAA-ATAATAATAT
1 AAATATAATAA-AT
*
4020696 AAAT-TAAAAAAT
1 AAATATAATAAAT
4020708 A
1 A
4020709 TAAAAAAATT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
10 5 0.12
11 10 0.25
12 13 0.32
13 12 0.30
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATATAATAAAT
Found at i:4020681 original size:30 final size:32
Alignment explanation
Indices: 4020647--4020713 Score: 91
Period size: 35 Copynumber: 2.0 Consensus size: 32
4020637 TGTAGAGATT
4020647 TAAAATATATAA-ATAAATATAATAAAAATATAAAA
1 TAAAATA-ATAATATAAAT-T-A-AAAAATATAAAA
4020682 TAAAATAATAATATAAATTAAAAAATATAAAA
1 TAAAATAATAATATAAATTAAAAAATATAAAA
4020714 AAATTAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
32 12 0.39
33 1 0.03
34 5 0.16
35 13 0.42
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (32 bp):
TAAAATAATAATATAAATTAAAAAATATAAAA
Found at i:4020688 original size:18 final size:18
Alignment explanation
Indices: 4020661--4020704 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
4020651 ATATATAAAT
*
4020661 AAATATAATAAAAATATA
1 AAATAAAATAAAAATATA
*
4020679 AAATAAAATAATAATATA
1 AAATAAAATAAAAATATA
*
4020697 AATTAAAA
1 AAATAAAA
4020705 AATATAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (18 bp):
AAATAAAATAAAAATATA
Found at i:4020773 original size:16 final size:15
Alignment explanation
Indices: 4020741--4020775 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 15
4020731 AGCATATAAA
*
4020741 ATTATTTTATTATTT
1 ATTATTTTATTAATT
4020756 ATTATTTGTATTAATT
1 ATTATTT-TATTAATT
4020772 ATTA
1 ATTA
4020776 AATAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 7 0.39
16 11 0.61
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (15 bp):
ATTATTTTATTAATT
Done.