Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008310.1 Hibiscus syriacus cultivar Beakdansim tig00111000_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: 3887810
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 8 of 15
Found at i:1575458 original size:357 final size:344
Alignment explanation
Indices: 1574791--1575501 Score: 1099
Period size: 357 Copynumber: 2.0 Consensus size: 344
1574781 ATAAATCGGT
1574791 ATAC-TTATACGGTTAGATTGAAAAATTACCTATACATACTTATGGGTTTCGATGTTTCTGGGAT
1 ATACATTATACGGTTAGATTGAAAAATTACCTATACATACTTATGGGTTTCGATGTTTCTGGGAT
*
1574855 CGACACCTTTTATATGGATCGAACTTTATGGTTGCACCTGTTTTCCATTCATTCTGGACAATAGT
66 CGACACCTTTTATATGGATCGAACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACAATAGT
1574920 ATCGACACAAAATTAAAAAGTGTCGATACATATATTACACTATTCTATAAATCGGTATAACTTAT
131 ATCGACACAAAATTAAAAAGTGTCGATACA-ATATTACACTATTCTATAAATCGGTATAACTTAT
*
1574985 ACGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGAGTTTATGGGATCGACACC
195 ACGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGAGTTTATGAGATCGACACC
1575050 TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGACCAATAGTA
260 TTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGACCAATAGTA
1575115 T-CAAAATTAAAAAAGTGTCG
325 TACAAAATT-AAAAAGTGTCG
*
1575135 ATACATTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTT
1 ATACATTATA-CGGTTAGATTGAAAAATTACCTA-TAC---ATACTTATGGGTTTCGATGTTTCT
**
1575200 GGGATCGACGTCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
61 GGGATCGACACCTTTTATATGGATCGA-ACTTTATGGTTGCA-CCTGTTTGCCATTCATTCTGGA
* *
1575265 CCAATAGTATTGACACAAAATTAAAAAGTGTCGATAC-ATATTACACCTATTCTCTCATAAATTT
124 -CAATAGTATCGACACAAAATTAAAAAGTGTCGATACAATATTACA-CTA-T-TCT-ATAAA-TC
*
1575329 GGTAT-ACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATAGTTATGGGTTTCGATGTT
183 GGTATAACTTATA-CGGTTAGATTG-AAAATTACCTATTACATTATACTTATGGGTTTCGA-GTT
* *
1575393 TCTGAGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCTTG-TTTGCCATTCAT
245 TATGAGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCAT
1575457 TCTGGACCAATAGTATCGACACAAAATTAAAAAGTGTCG
310 TCTGGACCAATAGTAT----ACAAAATTAAAAAGTGTCG
1575496 ATACAT
1 ATACAT
1575502 ATATTATACC
Statistics
Matches: 335, Mismatches: 10, Indels: 27
0.90 0.03 0.07
Matches are distributed among these distances:
344 4 0.01
345 5 0.01
346 23 0.07
347 3 0.01
350 48 0.14
351 22 0.07
352 24 0.07
353 36 0.11
354 3 0.01
355 12 0.04
356 17 0.05
357 62 0.19
358 52 0.16
361 17 0.05
362 7 0.02
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (344 bp):
ATACATTATACGGTTAGATTGAAAAATTACCTATACATACTTATGGGTTTCGATGTTTCTGGGAT
CGACACCTTTTATATGGATCGAACTTTATGGTTGCACCTGTTTGCCATTCATTCTGGACAATAGT
ATCGACACAAAATTAAAAAGTGTCGATACAATATTACACTATTCTATAAATCGGTATAACTTATA
CGGTTAGATTGAAAATTACCTATTACATTATACTTATGGGTTTCGAGTTTATGAGATCGACACCT
TTTATATATGGATCGACACTTTATGGTTGCACCCTGTTTTGCCATTCATTCTGGACCAATAGTAT
ACAAAATTAAAAAGTGTCG
Found at i:1575487 original size:198 final size:197
Alignment explanation
Indices: 1575135--1575589 Score: 768
Period size: 198 Copynumber: 2.3 Consensus size: 197
1575125 AAAAGTGTCG
*
1575135 ATACATTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTTT
1 ATAC-TTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCT
* **
1575200 GGGATCGACGTCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
65 GAGATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGA
* **
1575265 CCAATAGTATTGACACAAAATTAAAAAGTGTCGATAC-ATATTACACCTATTCTCTCATAAATTT
130 CCAATAGTATCGACACAAAATTAAAAAGTGTCGATACAATATTACACCTATTCTCTCATAAATCC
1575329 GGT
195 GGT
*
1575332 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATAGTTATGGGTTTCGATGTTTCTG
1 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
*
1575397 AGATCGACACCTTTTATATATGGATCGACACTTTATGGTTGCACCTTGTTTGCCATTCATTCTGG
66 AGATCGACACC-TTT-TATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGG
*
1575462 ACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACATATATTATACCTATTCTCTCATAAAT
129 ACCAATAGTATCGACACAAAATTAAAAAGTGTCGATACA-ATATTACACCTATTCTCTCATAAAT
1575527 CCGGT
193 CCGGT
*
1575532 ATACGTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGAT
1 ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGAT
1575590 CATACAAAAT
Statistics
Matches: 242, Mismatches: 12, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
196 67 0.28
197 7 0.03
198 85 0.35
200 83 0.34
ACGTcount: A:0.30, C:0.17, G:0.15, T:0.37
Consensus pattern (197 bp):
ATACTTATACCGGTTAGATTGAAAAATTACCTATTACATTATACTTATGGGTTTCGATGTTTCTG
AGATCGACACCTTTTATATGGATCGACACTTTATGGTTGCACCCTGTTTGCCATTCATTCTGGAC
CAATAGTATCGACACAAAATTAAAAAGTGTCGATACAATATTACACCTATTCTCTCATAAATCCG
GT
Found at i:1575635 original size:19 final size:19
Alignment explanation
Indices: 1575591--1575639 Score: 64
Period size: 19 Copynumber: 2.6 Consensus size: 19
1575581 GGTTTCGATC
*
1575591 ATACAAAATTATAAATTGT
1 ATACAAAATTATAAATTGA
1575610 ATACAAAATTATAAATCT-A
1 ATACAAAATTATAAAT-TGA
*
1575629 ATGCAAAATTA
1 ATACAAAATTA
1575640 ACCCTACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 26 0.96
20 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.33
Consensus pattern (19 bp):
ATACAAAATTATAAATTGA
Found at i:1576430 original size:447 final size:446
Alignment explanation
Indices: 1575599--1576492 Score: 1702
Period size: 447 Copynumber: 2.0 Consensus size: 446
1575589 TCATACAAAA
1575599 TTATAAATTGTATACAAAATTATAAATCTAATGCAAAATTAACCCTACATTTACATCATTGCATC
1 TTATAAATTGTATACAAAATTATAAATCTAATGCAAAATTAACCCTACATTTACATCATTGCATC
* *
1575664 TTTTTGTTTTTCTTATGTCTCATGGCAGCTTTTGTTATCTCCTATCTTCGTTGATTTTGATTGTG
66 CTGTTGTTTTTCTTATGTCTCATGGCAGCTTTTGTTATCTCCTATCTTCGTTGATTTTGATTGTG
*
1575729 GCTTACGAGATCGTTTAATATTCGTGATCGATCCCACTCCCAACAACCTATATTCAATTGTCAGA
131 GCTTACGAGATCGTTTAATATTCGCGATCGATCCCACTCCCAACAACCTATATTCAATTGTCAGA
1575794 ACGTTAAGTATTGTAACTACAGCATTCAATCTACGACATTTAACAATTTTACCACAAACAAATTT
196 ACGTTAAGTATTGTAACTACAGCATTCAATCTACGACATTTAACAATTTTACCACAAACAAATTT
1575859 TTTCTTTCCACTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCCACATCATCA
261 TTTCTTTCCACTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCCACATCATCA
1575924 CATACATGCCGCAATCATGTCTGTTACAAAATTTGAAAACCAGACATGTTAATTATGATGAATCC
326 CATACATGCCGCAATCATGTCTGTTACAAAATTTGAAAACCAGACATGTTAATTATGATGAATCC
1575989 TGCATAAATTAAGCTTTCTATTTA-GAT-ACATCTCATACCCATTCAATTGCTTAT
391 TGCATAAATTAAGCTTTCTATTTATGATAACATCTCATACCCATTCAATTGCTTAT
1576043 TTATAAATTGTATACAAAATTATAAATCTAATGCAAAATTAACCCTACATTTACATCATTGCATC
1 TTATAAATTGTATACAAAATTATAAATCTAATGCAAAATTAACCCTACATTTACATCATTGCATC
*
1576108 CTGTTGTTTTTCTTATGTCTCATGGCAGCTTTTGTTATCTCCTGTCTTCGTTGATTTTGATTGTG
66 CTGTTGTTTTTCTTATGTCTCATGGCAGCTTTTGTTATCTCCTATCTTCGTTGATTTTGATTGTG
1576173 GCTTACGAGATCGTTTAATATTCGCGATCGATCCCACTCTCCAACAACCTATATTCAAATTGTCA
131 GCTTACGAGATCGTTTAATATTCGCGATCGATCCCACTC-CCAACAACCTATATTC-AATTGTCA
1576238 GAACGTTAAGTATTGTAAACTACAGCATTCAATCTACGACATTTAACAATTTTACCACAAACAAA
194 GAACGTTAAGTATTGT-AACTACAGCATTCAATCTACGACATTTAACAATTTTACCACAAACAAA
1576303 TTTTTTCTTTCCACTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCCACATCA
258 TTTTTTCTTTCCACTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCCACATCA
*
1576368 TCACGTACATGCCGCAATCATGTCTGTTACAAAATTTGAAAACCAGACATGTTAATTATGATGAA
323 TCACATACATGCCGCAATCATGTCTGTTACAAAATTTGAAAACCAGACATGTTAATTATGATGAA
1576433 TCCTGCATAAATTAAGCTTTCTATTTATGATAACATCTCATACCCATTCAATTGCTTAT
388 TCCTGCATAAATTAAGCTTTCTATTTATGATAACATCTCATACCCATTCAATTGCTTAT
1576492 T
1 T
1576493 CTTCTTATGT
Statistics
Matches: 440, Mismatches: 5, Indels: 5
0.98 0.01 0.01
Matches are distributed among these distances:
444 165 0.38
445 16 0.04
446 24 0.05
447 204 0.46
448 3 0.01
449 28 0.06
ACGTcount: A:0.31, C:0.22, G:0.11, T:0.36
Consensus pattern (446 bp):
TTATAAATTGTATACAAAATTATAAATCTAATGCAAAATTAACCCTACATTTACATCATTGCATC
CTGTTGTTTTTCTTATGTCTCATGGCAGCTTTTGTTATCTCCTATCTTCGTTGATTTTGATTGTG
GCTTACGAGATCGTTTAATATTCGCGATCGATCCCACTCCCAACAACCTATATTCAATTGTCAGA
ACGTTAAGTATTGTAACTACAGCATTCAATCTACGACATTTAACAATTTTACCACAAACAAATTT
TTTCTTTCCACTTACAAAATCACCAGTTGCCCCTGTAGAACCGATCGATTCCATCCACATCATCA
CATACATGCCGCAATCATGTCTGTTACAAAATTTGAAAACCAGACATGTTAATTATGATGAATCC
TGCATAAATTAAGCTTTCTATTTATGATAACATCTCATACCCATTCAATTGCTTAT
Found at i:1577838 original size:181 final size:180
Alignment explanation
Indices: 1577479--1577951 Score: 669
Period size: 181 Copynumber: 2.6 Consensus size: 180
1577469 GATCCAAATT
* * * * **
1577479 AAAAATGTATCGATCCACAACGATATAACAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * *
1577544 AAACCGGTAAAGCAGTACCGAATATATTTAAAGGGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAAC-GTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
1577609 GTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
130 GTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTAGATACTTT-A
* * * * *
1577661 AAAAATATATCGATCAACACCGATATAACAGGTAAAAATATGATAAAACTGGTATCCAAATGATG
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * *
1577726 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACG-TACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
1577790 GTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTAGATACTTTA
130 GTGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTAGATACTTTA
*
1577841 AAAAATGTATCGATCAAACAATGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGAT
* *
1577906 AAAACCGGTAAAATGATACCTGATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACG-TACCGGATATATTAAAAGTGTCGATACTTT
1577952 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 31, Indels: 5
0.88 0.11 0.02
Matches are distributed among these distances:
180 15 0.06
181 151 0.59
182 92 0.36
ACGTcount: A:0.43, C:0.14, G:0.17, T:0.26
Consensus pattern (180 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGTACCGGATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTCG
TGAATTTAAAAGAGAAGCAGTTTTAGAGCCTATAAAGTGTAGATACTTTA
Found at i:1577886 original size:20 final size:19
Alignment explanation
Indices: 1577860--1577918 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
1577850 TCGATCAAAC
* *
1577860 AATGATATAACAGGTAAAA
1 AATGATAAAACCGGTAAAA
*
1577879 ATATGATAAAACCGGTATCAA
1 A-ATGATAAAACCGGTA-AAA
1577900 AATGATAAAACCGGTAAAA
1 AATGATAAAACCGGTAAAA
1577919 TGATACCTGA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.54, C:0.10, G:0.15, T:0.20
Consensus pattern (19 bp):
AATGATAAAACCGGTAAAA
Found at i:1577920 original size:17 final size:19
Alignment explanation
Indices: 1577881--1577923 Score: 63
Period size: 20 Copynumber: 2.3 Consensus size: 19
1577871 AGGTAAAAAT
1577881 ATGATAAAACCGGTATCAAA
1 ATGATAAAACCGG-ATCAAA
1577901 ATGATAAAACCGG-T-AAA
1 ATGATAAAACCGGATCAAA
1577918 ATGATA
1 ATGATA
1577924 CCTGATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 9 0.39
18 1 0.04
20 13 0.57
ACGTcount: A:0.51, C:0.12, G:0.16, T:0.21
Consensus pattern (19 bp):
ATGATAAAACCGGATCAAA
Found at i:1579450 original size:182 final size:182
Alignment explanation
Indices: 1579065--1579538 Score: 698
Period size: 182 Copynumber: 2.6 Consensus size: 182
1579055 GATCCAAATT
* * * * **
1579065 AAAAATGTATCGATCCACAACGATATAATAGGTAAAACTATGACAAAACCAGTATTGAAATGATA
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * *
1579130 AAACCGGTAAAGCGGTACCGAATATATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* * *
1579195 GTTAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAAAGTGTCGATACTTTCA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTATAAAGTGTCGATACTTTAA
* * ** * *
1579247 AAAAATATATCGATCAACAACGACATAACAGGTAAAAATATGATAAAACTGGTATCCAAATGATG
1 AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
* * * * *
1579312 AAACCGGTAAAACGCTACCGGATATATTGAAAGTGTCGAAACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
1579376 GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTATAAAGTGTCGATACTTTAA
131 GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTATAAAGTGTCGATACTTTAA
1579428 AAAAATGTATCGATCAAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGAT
1 AAAAATGTATCGATC-AACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGAT
* *
1579493 AAAACCGGTAAAATGATATCGAATATATTAAAAGTGTCGATACTTT
65 AAAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTT
1579539 CGTAAGTACG
Statistics
Matches: 258, Mismatches: 33, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
181 81 0.31
182 177 0.69
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCAACAACGATATAACAGGTAAAAATATGATAAAACCAGTATCAAAATGATA
AAACCGGTAAAACGATACCGAATATATTAAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAGAGAAGCAGTTTTAGCACCTATAAAGTGTCGATACTTTAA
Found at i:1584778 original size:353 final size:354
Alignment explanation
Indices: 1584124--1585284 Score: 1650
Period size: 353 Copynumber: 3.3 Consensus size: 354
1584114 TTTTACCTTT
* * *
1584124 TTAAAAGAGAAG-AGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT-
1 TTAATAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
1584187 --AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACA-GTAAAGCGCTACC
66 ACAATATAACAGGT--AAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACC
* * *
1584249 GATTATGTTGAAAGTGTCGAT-ATTTA-T-TACGTATCGACACTTTTGGAATTTAAAAGAGAAG-
129 GGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTT-GAAATTAAAAGAGAAGA
1584310 AGTTATAGCGCCAATAAAGTGTCGATACTTTAT-AAAATGTATCGATCCATAACAATATAACATG
192 AGTTATAGCGCCAAT-AAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATG
1584374 TAAAAATATGACAAAACCGGTCTCGAAATGA-AAACAGGTAAAGCGCTACCGGTTATGTTGAAAG
256 TAAAAATATGACAAAACCGGTCTCGAAATGACAAACAGGTAAAGCGCTACCGGTTATGTTGAAAG
1584438 TGTCGATAA-TTATAT-AGTATCGACTTTTGGAA
321 TGTCGATAATTTATATAAGTATCGACTTTTGGAA
* * **
1584470 TTAATA-AGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATAAATCCATA
1 TTAATAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
* * *
1584534 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAGAAAACAGGTAAAGTGCTACC
66 ACAATATAACAGGT--AAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACC
1584599 GGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTGAAATTAATAAGAGAAGAA
129 GGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGAAATTAA-AAGAGAAGAA
*
1584663 GTTATAGCGTCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT
193 GTTATAGCGCCAATAA-GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGT
*
1584728 AAAAATATGACAAAACCGGTCTCGAAATGACAAA-AGGTAAAGCACTACCGGTTATGTTGAAAGT
257 AAAAATATGACAAAACCGGTCTCGAAATGACAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGT
*
1584792 GTCGATAATTTATATAAGTATCGATACTTTTGAAA
322 GTCGATAATTTATATAAGTATCG--ACTTTTGGAA
*
1584827 TTTAA-AGAGAAGAAG-T-TAGCGCCAAT-AA--GTCGATATTTTATAAAAATGTATCGATCCAT
1 -TTAATAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1584886 AAC-A-ATAACAGGT-AATATGACAAAACTGGTCTCGAAATGACAAAACAGGTAAA-CGCTACCG
65 AACAATATAACAGGTAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCG
1584947 GTTATGTTGAAAGTGTCG-TAATTTATTATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAA
130 GTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGA-ACTTTTGAAA-TTAAAAGAGAAGAA
* * *
1585011 GTTGTAGCGCCAATAAGTGTCGATACTTTATAAAAATGTATCGATCCAT-ATAATATAACAGGT-
193 GTTATAGCGCCAATAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTA
*
1585074 AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGT
258 AAAATATGACAAAACCGGTCTCGAAATGAC-AAACAGGTAAAGCGCTACCGGTTATGTTGAAAGT
*
1585139 GTCGATAATTTATTATAAGTATCAACACTTTTGGAA
322 GTCGATAATTTA-TATAAGTATC--GACTTTTGGAA
* *
1585175 TTAATAAGAGAAGAAGTTA-AGCGCCAATAAAATGTCGATACTTTAT-AAAATGTATCGATCTAT
1 TTAAT-AGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * * *
1585238 AATAATATAACATGTAAATATGATAAAACCGATCAT--AAATGACAAAA
65 AACAATATAACAGGTAAATATGACAAAACCGGTC-TCGAAATGACAAAA
1585285 GGTGAACACA
Statistics
Matches: 738, Mismatches: 39, Indels: 68
0.87 0.05 0.08
Matches are distributed among these distances:
345 35 0.05
346 85 0.12
347 102 0.14
348 91 0.12
349 61 0.08
350 49 0.07
351 31 0.04
352 49 0.07
353 151 0.20
354 28 0.04
355 23 0.03
356 10 0.01
357 11 0.01
358 12 0.02
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (354 bp):
TTAATAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
ACAATATAACAGGTAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGG
TTATGTTGAAAGTGTCGATAATTTATTATAAGTATCGAACTTTTGAAATTAAAAGAGAAGAAGTT
ATAGCGCCAATAAGTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACATGTAAAA
ATATGACAAAACCGGTCTCGAAATGACAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCG
ATAATTTATATAAGTATCGACTTTTGGAA
Found at i:1584787 original size:178 final size:178
Alignment explanation
Indices: 1584124--1585268 Score: 1631
Period size: 178 Copynumber: 6.5 Consensus size: 178
1584114 TTTTACCTTT
* *
1584124 TTAAAAGAGAAG-AGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT-
1 TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
*
1584187 --AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACA-GTAAAGCGCTACC
66 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAC-AAACAGGTAAAGCGCTACC
* * *
1584249 GATTATGTTGAAAGTGTCGAT-ATTTAT-TACGTATCGACACTTTTGGAAT
130 GGTTATGTTGAAAGTGTCGATAATTTATATAAGTATCGA-ACTTTT-GAAA
1584298 TTAAAAGAGAAG-AGTTATAGCGCCAATAAAGTGTCGATACTTTAT-AAAATGTATCGATCCATA
1 TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
1584361 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGA-AAACAGGTAAAGCGCTACCG
66 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAACAGGTAAAGCGCTACCG
*
1584425 GTTATGTTGAAAGTGTCGATAA-TTATAT-AGTATCG-ACTTTTGGAA
131 GTTATGTTGAAAGTGTCGATAATTTATATAAGTATCGAACTTTTGAAA
* * * **
1584470 TTAATA-AGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTATAAAAATGTATAAATCCATA
1 TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
* *
1584534 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAGAAAACAGGTAAAGTGCTACC
66 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGA-CAAACAGGTAAAGCGCTACC
1584599 GGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATCG-ACTTTTGAAA
130 GGTTATGTTGAAAGTGTCGATAATTTA-TATAAGTATCGAACTTTTGAAA
* *
1584648 TTAATAAGAGAAGAAGTTATAGCGTCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
*
1584713 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAA-AGGTAAAGCACTACC
65 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAACAGGTAAAGCGCTACC
1584777 GGTTATGTTGAAAGTGTCGATAATTTATATAAGTATCGATACTTTTGAAA
130 GGTTATGTTGAAAGTGTCGATAATTTATATAAGTATCGA-ACTTTTGAAA
* *
1584827 TTTAAAGAGAAGAAG-T-TAGCGCCAAT-AA--GTCGATATTTTATAAAAATGTATCGATCCATA
1 TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
* *
1584887 AC-A-ATAACAGGT---AATATGACAAAACTGGTCTCGAAATGACAAAACAGGTAAA-CGCTACC
66 ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAC-AAACAGGTAAAGCGCTACC
1584946 GGTTATGTTGAAAGTGTCG-TAATTTATTATAAGTATCGACACTTTTGAAA
130 GGTTATGTTGAAAGTGTCGATAATTTA-TATAAGTATCGA-ACTTTTGAAA
*
1584996 TTTAAAAGAGAAGAAGTTGTAGCGCCAAT-AAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 -TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1585060 -ATAATATAACAGGT-AAAATATGACAAAACCGGTCTCGAAATGACAAAACAGGTAAAGCGCTAC
65 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGAC-AAACAGGTAAAGCGCTAC
* * *
1585123 CGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCAACACTTTTGGAA
129 CGGTTATGTTGAAAGTGTCGATAATTTA-TATAAGTATCGA-ACTTTTGAAA
* *
1585175 TTAATAAGAGAAGAAGTTA-AGCGCCAATAAAATGTCGATACTTTAT-AAAATGTATCGATCTAT
1 TTAA-AAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1585238 AATAATATAACATGT--AAATATGATAAAACCG
65 AACAATATAACATGTAAAAATATGACAAAACCG
1585269 ATCATAAATG
Statistics
Matches: 895, Mismatches: 42, Indels: 64
0.89 0.04 0.06
Matches are distributed among these distances:
168 34 0.04
169 50 0.06
170 21 0.02
171 14 0.02
172 51 0.06
173 117 0.13
174 79 0.09
175 94 0.11
176 55 0.06
177 54 0.06
178 140 0.16
179 88 0.10
180 98 0.11
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (178 bp):
TTAAAAGAGAAGAAGTTATAGCGCCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCATA
ACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAACAGGTAAAGCGCTACCG
GTTATGTTGAAAGTGTCGATAATTTATATAAGTATCGAACTTTTGAAA
Found at i:1585142 original size:525 final size:525
Alignment explanation
Indices: 1584124--1585287 Score: 1701
Period size: 525 Copynumber: 2.2 Consensus size: 525
1584114 TTTTACCTTT
*
1584124 TTAA-AAGAGAAG-AGTTATATCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* * *
1584187 --AATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAACAGTAAAGCGCTACCG
66 AAAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAA-GGTAAAGCACTACCG
* *
1584250 ATTATGTTGAAAGTGTCGATATTTATTACGTATCGACACTTTTGGAATTTAAAAGAGAAGAGTTA
130 ATTATGTTGAAAGTGTCGATATTTATTAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAGTTA
*
1584315 TAGCGCCAATAAAGTGTCGATACTTTATAAAATGTATCGATCCATAACAATATAACATGTAAAAA
195 TAGCGCCAATAAAG-GTCGATACTTTATAAAATGTATCGATCCATAACAATATAACAGGT--AAA
1584380 TATGACAAAACCGGTCTCGAAATGAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGAT
257 TATGACAAAACCGGTCTCGAAATGAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGAT
* *
1584445 AATTATATAGTATCGACTTTTGGAATTAATAAGAAGAAGTTATAACGCCAATAACGTGTCGATAC
322 AATTATATAGTATCGACTTTTGAAATTAAAAAGAAGAAGTTATAACGCCAATAACGTGTCGATAC
*
1584510 TTTATAAAAATGTATAAATCCATAACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAA
387 TTTATAAAAATGTATAAATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAA
* * * *
1584575 TGAGAAAACAGGTAAAGTGCTACCGGTTATGTTGAAAGTGTCGATAATTTATTATAAGTATC-GA
452 TGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCACA
1584639 CTTTTGAAA
517 CTTTTGAAA
*
1584648 TTAATAAGAGAAGAAGTTATAGCGTCAATAACGTGTCGATACTTTATAAAAATGTATCGATCCAT
1 TTAATAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
1584713 AACAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAAGGTAAAGCACTACCG
66 AA-AATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAAGGTAAAGCACTACCG
* *
1584778 GTTATGTTGAAAGTGTCGATAATTTATATAAGTATCGATACTTTTGAAATTT-AAAGAGAAGAAG
130 ATTATGTTGAAAGTGTCGAT-ATTTAT-TAAGTATCGACACTTTTGAAATTTAAAAGAGAAG-AG
*
1584842 -T-TAGCGCCAAT-AA-GTCGATATTTTATAAAAATGTATCGATCCATAAC-A-ATAACAGGT-A
192 TTATAGCGCCAATAAAGGTCGATACTTTAT-AAAATGTATCGATCCATAACAATATAACAGGTAA
*
1584900 ATATGACAAAACTGGTCTCGAAATGACAAAACAGGTAAA-CGCTACCGGTTATGTTGAAAGTGTC
256 ATATGACAAAACCGGTCTCGAAATG--AAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTC
* *
1584964 G-TAATTTATTATAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAAGTTGTAGCGCCAATAA-
319 GATAA-TTA-TAT-AGTATCG--ACTTTTGAAA-TTAAAA-AGAAGAAGTTATAACGCCAATAAC
** *
1585027 GTGTCGATACTTTATAAAAATGTATCGATCCAT-ATAATATAACAGGT-AAAATATGACAAAACC
377 GTGTCGATACTTTATAAAAATGTATAAATCCATAACAATATAACAGGTAAAAATATGACAAAACC
1585090 GGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTAT
442 GGTCTCGAAATGACAAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTAT
*
1585155 AAGTATCAACACTTTTGGAA
507 AAGTATC-ACACTTTTGAAA
* * *
1585175 TTAATAAGAGAAGAAGTTA-AGCGCCAATAAAATGTCGATACTTTAT-AAAATGTATCGATCTAT
1 TTAATAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
* *
1585238 AATAATATAACATGT--AAATATGATAAAACCGATCAT--AAATGACAAAAGGT
66 AA-AATATAACATGTAAAAATATGACAAAACCGGTC-TCGAAATGACAAAAGGT
1585288 GAACACATAT
Statistics
Matches: 587, Mismatches: 32, Indels: 44
0.89 0.05 0.07
Matches are distributed among these distances:
521 28 0.05
522 43 0.07
523 32 0.05
524 20 0.03
525 136 0.23
526 114 0.19
527 66 0.11
528 63 0.11
529 62 0.11
530 23 0.04
ACGTcount: A:0.42, C:0.13, G:0.17, T:0.28
Consensus pattern (525 bp):
TTAATAAGAGAAGAAGTTATAGCGTCAATAAAGTGTCGATACTTTATAAAAATGTATCGATCCAT
AAAATATAACATGTAAAAATATGACAAAACCGGTCTCGAAATGACAAAAGGTAAAGCACTACCGA
TTATGTTGAAAGTGTCGATATTTATTAAGTATCGACACTTTTGAAATTTAAAAGAGAAGAGTTAT
AGCGCCAATAAAGGTCGATACTTTATAAAATGTATCGATCCATAACAATATAACAGGTAAATATG
ACAAAACCGGTCTCGAAATGAAAACAGGTAAAGCGCTACCGGTTATGTTGAAAGTGTCGATAATT
ATATAGTATCGACTTTTGAAATTAAAAAGAAGAAGTTATAACGCCAATAACGTGTCGATACTTTA
TAAAAATGTATAAATCCATAACAATATAACAGGTAAAAATATGACAAAACCGGTCTCGAAATGAC
AAAACAGGTAAAGCGCTACCGGATATGTTGAAAGTGTCGATAATTTATTATAAGTATCACACTTT
TGAAA
Found at i:1585796 original size:175 final size:177
Alignment explanation
Indices: 1585394--1586187 Score: 1100
Period size: 175 Copynumber: 4.6 Consensus size: 177
1585384 TGTTATTTAT
* *
1585394 AGACCGGTTTTATCATATTTTTACATGTTATATATTATGGATCGATACATTTTTATAAATTATCG
1 AGACCGGTTTTGTCATATTTTTACATG-T-TATATTATGGATCGATACATTTTTATAAAGTATCG
*
1585459 ACACTTTATTGGCGCTATAACTTC-TCT-TATT-AATTCCAAAAGTG-CGATACTT-ATAATAAT
64 ACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAAT-A-AAT
* *
1585519 TATCGACACTTTTAACATATCCGGTAGCGCTTTACCTGTTTTGTCATTTCG
127 TATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* *
1585570 AGACCGGTTTTGTCA-AATTTTACCTGTTATATTGTTATGGATCGATACATTTTTAT-AAGTATC
1 AGACCGGTTTTGTCATATTTTTACATGTTATA---TTATGGATCGATACATTTTTATAAAGTATC
1585633 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAATAAATT
63 GACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAATAAATT
*
1585698 ATCGACACTTTCAACATAACCGCTAGCGCTTTA-CTGTTTTGTCATTTCG
128 ATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
1585747 AGACCGGTTTTGTCATATTTTTACATGTTATATTATGGATCGATACATTTTTATAAAGTATCGAC
1 AGACCGGTTTTGTCATATTTTTACATGTTATATTATGGATCGATACATTTTTATAAAGTATCGAC
* *
1585812 ACGTTATTGGCGCTATAAC-TCTTCTCTTATT-AATTCCAAAA--ATCGATACTTATAATAAATT
66 ACTTTATTGGCGCTATAACTTCTTCTCTT-TTAAATTCCAAAAGTGTCGATAC-T-TAATAAATT
* *
1585873 ATCGACACTTCCAACA-AACTGGTAGCGCTTTACCTGTTTTGTCATTTCG
128 ATCGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
*
1585922 AGACCGGTTTTGTCATATTTTTACATG-TATTGTTATGGATCGATACATTTTTATAAAGTATCGA
1 AGACCGGTTTTGTCATATTTTTACATGTTA-TATTATGGATCGATACATTTTTATAAAGTATCGA
*
1585986 CAGTTTATTGGCGCTATAAC-TCTTCTCTTTTAAATT--AAAAGTGTC-ATA--TAATAAATTAT
65 CACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAATAAATTAT
* *
1586045 CGACACTTTCAACATAACTGGTAGCGATTTACCTGTTTTGTCATTTCG
130 CGACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
* *
1586093 AGACCGGTTTTGTCATA-TTTTACCTGTTATTTGTTATGGATCGATACA-TTTTATAAAGTAT--
1 AGACCGGTTTTGTCATATTTTTACATGTTA--TATTATGGATCGATACATTTTTATAAAGTATCG
* * *
1586154 AGAC-TTATTGACGATAT-ACTTCTTCTCTTTTAAA
64 ACACTTTATTGGCGCTATAACTTCTTCTCTTTTAAA
1586188 AAAGTAAAAT
Statistics
Matches: 570, Mismatches: 26, Indels: 52
0.88 0.04 0.08
Matches are distributed among these distances:
167 2 0.00
168 25 0.04
169 2 0.00
170 32 0.06
171 64 0.11
172 18 0.03
173 15 0.03
174 23 0.04
175 214 0.38
176 69 0.12
177 34 0.06
178 61 0.11
179 9 0.02
180 2 0.00
ACGTcount: A:0.28, C:0.17, G:0.13, T:0.41
Consensus pattern (177 bp):
AGACCGGTTTTGTCATATTTTTACATGTTATATTATGGATCGATACATTTTTATAAAGTATCGAC
ACTTTATTGGCGCTATAACTTCTTCTCTTTTAAATTCCAAAAGTGTCGATACTTAATAAATTATC
GACACTTTCAACATAACCGGTAGCGCTTTACCTGTTTTGTCATTTCG
Found at i:1587122 original size:173 final size:176
Alignment explanation
Indices: 1586805--1587262 Score: 593
Period size: 173 Copynumber: 2.6 Consensus size: 176
1586795 CGTACTTACG
* *
1586805 AAAGTATCGACACTTTTAATATATCCGGTATCATTTTACCGGTTTTATCATTTTGATA-TCGGTT
1 AAAGTATCGACACTTTTAATATATCCGGTAGCA-TTTACCGGTTTTATCATTTCGATACT-GGTT
* *
1586869 TTATCATATTTTTACCTATTATATCGTTGTTTGATCGATACATTTTTTAAAGTATCGACACTTTA
64 TTATCATATTTTTACCTGTTATATC---GTTTGATCGAT--ATTTTTGAAAGTATCGACACTTTA
*
1586934 TAGACGCTAAAACTGCTTCTCTTTTAAATTCACAAAGTGTCGATCCTTATA-T
124 TAGACGCTAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * *
1586986 AAAGTTTCGACACTTTTAATATATCCGGTAGCATTTACCGG-TTCATCATTTGGATACTAG-TTT
1 AAAGTATCGACACTTTTAATATATCCGGTAGCATTTACCGGTTTTATCATTTCGATACTGGTTTT
* *
1587049 ATCATATTTTTATCTGTTATATCGTTTGATCGATATTTTTGAAAGTATCGACACTTTATAGGCGC
66 ATCATATTTTTACCTGTTATATCGTTTGATCGATATTTTTGAAAGTATCGACACTTTATAGACGC
* *
1587114 TTAAACTGCTTCTCTTTTAAATTAACGAAGTGTCGATCCTTATATT
131 TAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
* * * * *
1587160 AAAGTACCGACACTTTAAATATATTCGGCACCGC-TTTACCGGTTTTATCATTTCAATACTGGTT
1 AAAGTATCGACACTTTTAATATATCCGGTA--GCATTTACCGGTTTTATCATTTCGATACTGGTT
* * *
1587224 TTGTTATAGTTTTACCTGTTATATCGTTGTGGATCGATA
64 TTATCATATTTTTACCTGTTATATCGTT-T-GATCGATA
1587263 CATTTTTAAT
Statistics
Matches: 244, Mismatches: 25, Indels: 18
0.85 0.09 0.06
Matches are distributed among these distances:
173 70 0.29
174 26 0.11
175 19 0.08
176 17 0.07
177 25 0.10
178 25 0.10
179 22 0.09
180 9 0.04
181 31 0.13
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.43
Consensus pattern (176 bp):
AAAGTATCGACACTTTTAATATATCCGGTAGCATTTACCGGTTTTATCATTTCGATACTGGTTTT
ATCATATTTTTACCTGTTATATCGTTTGATCGATATTTTTGAAAGTATCGACACTTTATAGACGC
TAAAACTGCTTCTCTTTTAAATTAACAAAGTGTCGATCCTTATATT
Found at i:1587638 original size:41 final size:41
Alignment explanation
Indices: 1587581--1587667 Score: 149
Period size: 41 Copynumber: 2.1 Consensus size: 41
1587571 AAAGCAGGAA
1587581 AACGGCCATAAAAACGAGATTATAGTGGGACCA-ACCAGATC
1 AACGGCCATAAAAACGAGATTATAGTGGGACCACA-CAGATC
*
1587622 AACGGCCATAAAAACGAGATTATAGTGGGACCACATAGATC
1 AACGGCCATAAAAACGAGATTATAGTGGGACCACACAGATC
1587663 AACGG
1 AACGG
1587668 ACCGATCTGT
Statistics
Matches: 44, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
41 43 0.98
42 1 0.02
ACGTcount: A:0.41, C:0.21, G:0.23, T:0.15
Consensus pattern (41 bp):
AACGGCCATAAAAACGAGATTATAGTGGGACCACACAGATC
Found at i:1594355 original size:36 final size:37
Alignment explanation
Indices: 1594308--1594573 Score: 232
Period size: 38 Copynumber: 7.2 Consensus size: 37
1594298 GTTTTTGTAG
1594308 ATATAGTATAGTTTTTGAAAATACATTTTTGAAAACAT
1 ATATA-TATAGTTTTTGAAAATACATTTTTGAAAACAT
* *
1594346 A-ATATATAG----T-AAAAAACGGTTTTTGAAAACAT
1 ATATATATAGTTTTTGAAAATAC-ATTTTTGAAAACAT
* ** **
1594378 ATTTAATATAGTTTTTGAAAGCATGTTTTTGAAAACAT
1 ATAT-ATATAGTTTTTGAAAATACATTTTTGAAAACAT
*
1594416 ATAATATATAGTTTTT--AAA-ACGATTTTTAAAAACAT
1 AT-ATATATAGTTTTTGAAAATAC-ATTTTTGAAAACAT
* *
1594452 ATATAATATAGTTTTTGAAAATATATTTTTGAAAACGT
1 ATAT-ATATAGTTTTTGAAAATACATTTTTGAAAACAT
***
1594490 ATAATATATAGTTTTT-AAAATGGTTTTTTGAAAACAT
1 AT-ATATATAGTTTTTGAAAATACATTTTTGAAAACAT
1594527 ATATAATATAG-TTTTGAAAA-ACATATTTTTTGAAAACAT
1 ATAT-ATATAGTTTTTGAAAATAC--A-TTTTTGAAAACAT
1594566 ATATATAT
1 ATATATAT
1594574 TGTAACACCC
Statistics
Matches: 187, Mismatches: 21, Indels: 40
0.75 0.08 0.16
Matches are distributed among these distances:
31 6 0.03
32 15 0.08
33 1 0.01
34 6 0.03
35 3 0.02
36 38 0.20
37 32 0.17
38 61 0.33
39 25 0.13
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (37 bp):
ATATATATAGTTTTTGAAAATACATTTTTGAAAACAT
Found at i:1594462 original size:74 final size:74
Alignment explanation
Indices: 1594308--1594573 Score: 337
Period size: 74 Copynumber: 3.6 Consensus size: 74
1594298 GTTTTTGTAG
* * * ** *
1594308 ATATAGTATAGTTTTTGAAAATACATTTTTGAAAAC--ATAATATATAG--TAAAAAACGGTTTT
1 ATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTTAAAACGATTTT
1594369 TGAAAACAT
66 TGAAAACAT
* * *
1594378 ATTTAATATAGTTTTTGAAAGCATGTTTTTGAAAACATATAATATATAGTTTTTAAAACGATTTT
1 ATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTTAAAACGATTTT
*
1594443 TAAAAACAT
66 TGAAAACAT
* * * *
1594452 ATATAATATAGTTTTTGAAAATATATTTTTGAAAACGTATAATATATAGTTTTTAAAATGGTTTT
1 ATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTTAAAA-CGATTT
1594517 TTGAAAACAT
65 TTGAAAACAT
1594527 ATATAATATAG-TTTTGAAAAACATATTTTTTGAAAACATAT-ATATAT
1 ATATAATATAGTTTTTG-AAAACATA-TTTTTGAAAACATATAATATAT
1594574 TGTAACACCC
Statistics
Matches: 169, Mismatches: 20, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
70 30 0.18
72 11 0.07
74 77 0.46
75 37 0.22
76 14 0.08
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.42
Consensus pattern (74 bp):
ATATAATATAGTTTTTGAAAACATATTTTTGAAAACATATAATATATAGTTTTTAAAACGATTTT
TGAAAACAT
Found at i:1594482 original size:14 final size:15
Alignment explanation
Indices: 1594456--1594486 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
1594446 AAACATATAT
1594456 AATATAGTTTTTGAA
1 AATATAGTTTTTGAA
1594471 AATATA-TTTTTGAA
1 AATATAGTTTTTGAA
1594485 AA
1 AA
1594487 CGTATAATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 10 0.62
15 6 0.38
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (15 bp):
AATATAGTTTTTGAA
Found at i:1594562 original size:15 final size:16
Alignment explanation
Indices: 1594538--1594567 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1594528 TATAATATAG
1594538 TTTTGAAAAACATATT
1 TTTTGAAAAACATATT
1594554 TTTTG-AAAACATAT
1 TTTTGAAAAACATAT
1594568 ATATATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.43, C:0.07, G:0.07, T:0.43
Consensus pattern (16 bp):
TTTTGAAAAACATATT
Found at i:1596110 original size:29 final size:30
Alignment explanation
Indices: 1596046--1596110 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 30
1596036 ACAACACATC
* * * *
1596046 AATTTTATAAAATTTTTGAATTGGTCCTTA
1 AATTTTAAAAAATTATAGAATTGGTCCTAA
*
1596076 ACTTTTAAAAAATTATAGAA-TGGTCCTAA
1 AATTTTAAAAAATTATAGAATTGGTCCTAA
1596105 AATTTT
1 AATTTT
1596111 TTCTAAGGCC
Statistics
Matches: 29, Mismatches: 6, Indels: 1
0.81 0.17 0.03
Matches are distributed among these distances:
29 13 0.45
30 16 0.55
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (30 bp):
AATTTTAAAAAATTATAGAATTGGTCCTAA
Found at i:1598600 original size:16 final size:16
Alignment explanation
Indices: 1598571--1598650 Score: 58
Period size: 16 Copynumber: 4.9 Consensus size: 16
1598561 TTTTTCCTGT
* *
1598571 TTTCTTCTTCTTCTTC
1 TTTCTTTTTTTTCTTC
**
1598587 TTTCTTTTTTTTCTAA
1 TTTCTTTTTTTTCTTC
*
1598603 TTTGTTTTCTTTTC--C
1 TTTCTTTT-TTTTCTTC
1598618 TTTCTTTTCCTTTTCTT-
1 TTTCTTTT--TTTTCTTC
1598635 TTTCTTTCTTTTTCTT
1 TTTCTTT-TTTTTCTT
1598651 GTTTTTTTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 10
0.75 0.10 0.14
Matches are distributed among these distances:
15 7 0.13
16 32 0.62
17 12 0.23
18 1 0.02
ACGTcount: A:0.03, C:0.21, G:0.01, T:0.75
Consensus pattern (16 bp):
TTTCTTTTTTTTCTTC
Found at i:1598631 original size:21 final size:21
Alignment explanation
Indices: 1598607--1598646 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1598597 TTCTAATTTG
1598607 TTTTCTTTTCCTTTCTTTTCC
1 TTTTCTTTTCCTTTCTTTTCC
*
1598628 TTTTCTTTTTCTTTCTTTT
1 TTTTCTTTTCCTTTCTTTT
1598647 TCTTGTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTCTTTTCCTTTCTTTTCC
Found at i:1598639 original size:6 final size:6
Alignment explanation
Indices: 1598542--1598650 Score: 50
Period size: 6 Copynumber: 18.3 Consensus size: 6
1598532 CTTATCTTAT
* * * * *
1598542 TTTTTC TTTTTT TTTTGTT TTTTTCC TGTTTTC TTCTTC TTCTTC TTTCTTT
1 TTTTTC TTTTTC TTTT-TC TTTTT-C T-TTTTC TTTTTC TTTTTC TTT-TTC
* * * *
1598594 TTTTTC TAATTT- GTTTTC -TTTTC -CTTTC -TTTTC CTTTTC TTTTTC
1 TTTTTC T-TTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC TTTTTC
1598639 --TTTC TTTTTC TT
1 TTTTTC TTTTTC TT
1598651 GTTTTTTTAG
Statistics
Matches: 82, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
4 4 0.05
5 16 0.20
6 41 0.50
7 17 0.21
8 4 0.05
ACGTcount: A:0.02, C:0.18, G:0.03, T:0.77
Consensus pattern (6 bp):
TTTTTC
Found at i:1598657 original size:10 final size:10
Alignment explanation
Indices: 1598531--1598650 Score: 70
Period size: 10 Copynumber: 11.4 Consensus size: 10
1598521 TTTAAGCATC
1598531 TCTTATCTTATT
1 TCTT-TCTT-TT
1598543 T-TTTCTTTT
1 TCTTTCTTTT
1598552 T-TTT-TTGTT
1 TCTTTCTT-TT
*
1598561 TTTTTCCTGTTT
1 TCTTT-CT-TTT
*
1598573 TCTTCTTCTTCT
1 TC-T-TTCTTTT
1598585 TCTTTCTTTT
1 TCTTTCTTTT
1598595 T-TTTCTAATTT
1 TCTTTCT--TTT
1598606 GT-TTTCTTTT
1 -TCTTTCTTTT
*
1598616 CCTTTCTTTT
1 TCTTTCTTTT
*
1598626 CCTTTTCTTTT
1 TC-TTTCTTTT
1598637 TCTTTCTTTT
1 TCTTTCTTTT
1598647 TCTT
1 TCTT
1598651 GTTTTTTTAG
Statistics
Matches: 91, Mismatches: 5, Indels: 26
0.75 0.04 0.21
Matches are distributed among these distances:
8 2 0.02
9 14 0.15
10 39 0.43
11 15 0.16
12 15 0.16
13 4 0.04
14 2 0.02
ACGTcount: A:0.03, C:0.18, G:0.03, T:0.76
Consensus pattern (10 bp):
TCTTTCTTTT
Found at i:1604143 original size:4 final size:4
Alignment explanation
Indices: 1604129--1604177 Score: 71
Period size: 4 Copynumber: 11.8 Consensus size: 4
1604119 TATATTTCTT
*
1604129 TTTA TTTTA TTTA TTTA TTTA TTGA TTTTA TTTA TTTA TTTA TTTA TTT
1 TTTA -TTTA TTTA TTTA TTTA TTTA -TTTA TTTA TTTA TTTA TTTA TTT
1604178 TCATTTTGGT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
4 34 0.83
5 7 0.17
ACGTcount: A:0.22, C:0.00, G:0.02, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:1604156 original size:21 final size:21
Alignment explanation
Indices: 1604132--1604183 Score: 86
Period size: 21 Copynumber: 2.4 Consensus size: 21
1604122 ATTTCTTTTT
1604132 ATTTTATTTATTTATTTATTG
1 ATTTTATTTATTTATTTATTG
*
1604153 ATTTTATTTATTTATTTATTT
1 ATTTTATTTATTTATTTATTG
1604174 ATTTTCATTT
1 ATTTT-ATTT
1604184 TGGTTTAGGT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 25 0.86
22 4 0.14
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (21 bp):
ATTTTATTTATTTATTTATTG
Found at i:1605447 original size:15 final size:16
Alignment explanation
Indices: 1605410--1605448 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
1605400 TTGATCATTT
*
1605410 TTTAAATTCGTTATAA
1 TTTAAATTTGTTATAA
1605426 TTT-AATTTGTT-TAA
1 TTTAAATTTGTTATAA
1605440 TTTAAATTT
1 TTTAAATTT
1605449 TCTTTTTTAG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 6 0.29
15 12 0.57
16 3 0.14
ACGTcount: A:0.33, C:0.03, G:0.05, T:0.59
Consensus pattern (16 bp):
TTTAAATTTGTTATAA
Found at i:1620509 original size:16 final size:17
Alignment explanation
Indices: 1620477--1620509 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1620467 GCAGTTGTTT
*
1620477 TTATTGTTTGGCTTGCA
1 TTATTGTTTGACTTGCA
1620494 TTATTGTTT-ACTTGCA
1 TTATTGTTTGACTTGCA
1620510 GTGTACAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.15, C:0.12, G:0.18, T:0.55
Consensus pattern (17 bp):
TTATTGTTTGACTTGCA
Found at i:1624261 original size:17 final size:17
Alignment explanation
Indices: 1624231--1624268 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
1624221 ATCTCTATCC
*
1624231 TTTCTTTATTTTTATTCA
1 TTTCTTTATCTTTATT-A
1624249 TTTC-TTATCTTTATTA
1 TTTCTTTATCTTTATTA
1624265 TTTC
1 TTTC
1624269 ACTTATTCTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 5 0.26
17 10 0.53
18 4 0.21
ACGTcount: A:0.16, C:0.13, G:0.00, T:0.71
Consensus pattern (17 bp):
TTTCTTTATCTTTATTA
Found at i:1624542 original size:19 final size:18
Alignment explanation
Indices: 1624520--1624571 Score: 70
Period size: 19 Copynumber: 2.8 Consensus size: 18
1624510 AATTGGAGTG
1624520 CAAAAAGAA-AAGAAAAAT
1 CAAAAAGAAGAA-AAAAAT
1624538 ACAAAAAGAAGAAAAAAAT
1 -CAAAAAGAAGAAAAAAAT
1624557 CAGAAAAGAAGAAAA
1 CA-AAAAGAAGAAAA
1624572 GAAAAGAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
18 2 0.06
19 27 0.87
20 2 0.06
ACGTcount: A:0.77, C:0.06, G:0.13, T:0.04
Consensus pattern (18 bp):
CAAAAAGAAGAAAAAAAT
Found at i:1629670 original size:13 final size:13
Alignment explanation
Indices: 1629652--1629696 Score: 56
Period size: 13 Copynumber: 3.5 Consensus size: 13
1629642 CATTGCCATT
*
1629652 TCATCATCATCCA
1 TCATCAACATCCA
*
1629665 TCATCAACATCCT
1 TCATCAACATCCA
*
1629678 TCATCAAGA-CCA
1 TCATCAACATCCA
1629690 TCATCAA
1 TCATCAA
1629697 TTCCATAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
12 9 0.32
13 19 0.68
ACGTcount: A:0.36, C:0.36, G:0.02, T:0.27
Consensus pattern (13 bp):
TCATCAACATCCA
Found at i:1629740 original size:17 final size:16
Alignment explanation
Indices: 1629715--1629762 Score: 51
Period size: 17 Copynumber: 2.9 Consensus size: 16
1629705 TTCCGCAACC
*
1629715 ATCTCTATTCTTTCTTT
1 ATCTTTATTCTTTC-TT
*
1629732 ATTTTTATTCATTTCTT
1 ATCTTTATTC-TTTCTT
*
1629749 ATCTTTATTATTTC
1 ATCTTTATTCTTTC
1629763 ACTTATTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 4 0.15
17 18 0.69
18 4 0.15
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (16 bp):
ATCTTTATTCTTTCTT
Found at i:1631790 original size:17 final size:17
Alignment explanation
Indices: 1631747--1631790 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 17
1631737 GATTTAGGTA
1631747 AGATATTATATGATTTT
1 AGATATTATATGATTTT
* *
1631764 ACATATTATATTATTTT
1 AGATATTATATGATTTT
*
1631781 AGATACTATA
1 AGATATTATA
1631791 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.39, C:0.05, G:0.07, T:0.50
Consensus pattern (17 bp):
AGATATTATATGATTTT
Found at i:1642919 original size:18 final size:18
Alignment explanation
Indices: 1642896--1642931 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1642886 TCGTTGTTCC
1642896 AACATCTTACTACTCAAG
1 AACATCTTACTACTCAAG
1642914 AACATCTTACTACTCAAG
1 AACATCTTACTACTCAAG
1642932 TACTTGCAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.28, G:0.06, T:0.28
Consensus pattern (18 bp):
AACATCTTACTACTCAAG
Found at i:1654948 original size:23 final size:23
Alignment explanation
Indices: 1654901--1654948 Score: 55
Period size: 23 Copynumber: 2.1 Consensus size: 23
1654891 TGGCAATTGT
*
1654901 TTTGAATTTCAAGAGGTACATTC
1 TTTGAATGTCAAGAGGTACATTC
1654924 TTTGAAATGTCAA-AGG-ACATGTC
1 TTTG-AATGTCAAGAGGTACAT-TC
1654947 TT
1 TT
1654949 GTGGATCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
22 4 0.18
23 11 0.50
24 7 0.32
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (23 bp):
TTTGAATGTCAAGAGGTACATTC
Found at i:1662134 original size:17 final size:17
Alignment explanation
Indices: 1662098--1662154 Score: 71
Period size: 16 Copynumber: 3.2 Consensus size: 17
1662088 TTTTTTGAAA
*
1662098 TTTTGGCTTTTTTGGCTTT
1 TTTTGCCTTTTTT-G-TTT
1662117 TTTTGCCTTTTTTG-TT
1 TTTTGCCTTTTTTGTTT
1662133 TTTTGCCTTTTCTTGTTT
1 TTTTGCCTTTT-TTGTTT
1662151 TTTT
1 TTTT
1662155 TTGTTTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
16 13 0.37
17 3 0.09
18 7 0.20
19 12 0.34
ACGTcount: A:0.00, C:0.12, G:0.14, T:0.74
Consensus pattern (17 bp):
TTTTGCCTTTTTTGTTT
Found at i:1662134 original size:26 final size:27
Alignment explanation
Indices: 1662105--1662163 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
1662095 AAATTTTGGC
* *
1662105 TTTTTTGGCTTTTTTTG-CCTTTTTTG
1 TTTTTTGCCTTTTCTTGTCCTTTTTTG
**
1662131 TTTTTTGCCTTTTCTTGTTTTTTTTTG
1 TTTTTTGCCTTTTCTTGTCCTTTTTTG
1662158 TTTTTT
1 TTTTTT
1662164 TTGAAAAAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 15 0.54
27 13 0.46
ACGTcount: A:0.00, C:0.10, G:0.12, T:0.78
Consensus pattern (27 bp):
TTTTTTGCCTTTTCTTGTCCTTTTTTG
Found at i:1662164 original size:9 final size:9
Alignment explanation
Indices: 1662098--1662166 Score: 52
Period size: 9 Copynumber: 7.7 Consensus size: 9
1662088 TTTTTTGAAA
*
1662098 TTTTGGCTT
1 TTTTTGCTT
*
1662107 TTTTGGCTT
1 TTTTTGCTT
*
1662116 TTTTTGCCT
1 TTTTTGCTT
1662125 TTTTTG--T
1 TTTTTGCTT
1662132 TTTTTGCCTT
1 TTTTTG-CTT
* *
1662142 TTCTTGTTTT
1 TTTTTG-CTT
*
1662152 TTTTTGTTT
1 TTTTTGCTT
1662161 TTTTTG
1 TTTTTG
1662167 AAAAAATAGC
Statistics
Matches: 51, Mismatches: 6, Indels: 6
0.81 0.10 0.10
Matches are distributed among these distances:
7 7 0.14
9 31 0.61
10 13 0.25
ACGTcount: A:0.00, C:0.10, G:0.14, T:0.75
Consensus pattern (9 bp):
TTTTTGCTT
Found at i:1663836 original size:22 final size:23
Alignment explanation
Indices: 1663811--1663864 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
1663801 GCTGCGGAAG
*
1663811 TGTTGTTGAATT-GTCCTTCAAA
1 TGTTGTTGAATTCGGCCTTCAAA
*
1663833 TGTTGATGAATTCGGCCTTCAAA
1 TGTTGTTGAATTCGGCCTTCAAA
*
1663856 TGATGTTGA
1 TGTTGTTGA
1663865 TGGACGTATG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.24, C:0.13, G:0.22, T:0.41
Consensus pattern (23 bp):
TGTTGTTGAATTCGGCCTTCAAA
Found at i:1663855 original size:23 final size:22
Alignment explanation
Indices: 1663811--1663857 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
1663801 GCTGCGGAAG
* *
1663811 TGTTGTTGAATTGTCCTTCAAA
1 TGTTGATGAATTGGCCTTCAAA
1663833 TGTTGATGAATTCGGCCTTCAAA
1 TGTTGATGAATT-GGCCTTCAAA
1663856 TG
1 TG
1663858 ATGTTGATGG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.23, C:0.15, G:0.21, T:0.40
Consensus pattern (22 bp):
TGTTGATGAATTGGCCTTCAAA
Found at i:1664336 original size:20 final size:21
Alignment explanation
Indices: 1664294--1664337 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
1664284 ATTCGGCTAG
** *
1664294 ATACATGTCTTTTTAATGGAA
1 ATACATGTCTTTAAAATGAAA
1664315 ATACATGTC-TTAAAATGAAA
1 ATACATGTCTTTAAAATGAAA
1664335 ATA
1 ATA
1664338 GATGATACTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.36
Consensus pattern (21 bp):
ATACATGTCTTTAAAATGAAA
Found at i:1677917 original size:2 final size:2
Alignment explanation
Indices: 1677899--1677940 Score: 59
Period size: 2 Copynumber: 21.0 Consensus size: 2
1677889 AATTACTCAC
*
1677899 AT AT TT AT AT AT CAT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1677941 TAAATACACA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
1 1 0.03
2 33 0.92
3 2 0.06
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1683401 original size:2 final size:2
Alignment explanation
Indices: 1683394--1683431 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
1683384 TTACACGTGC
1683394 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
1683432 TAATATTAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1685265 original size:18 final size:18
Alignment explanation
Indices: 1685244--1685281 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
1685234 AAGAAAAAAT
*
1685244 AAGGAAAAAAATAAGAAA
1 AAGGAAAAAAAAAAGAAA
1685262 AAGGAAAAAAAAAAGAAA
1 AAGGAAAAAAAAAAGAAA
1685280 AA
1 AA
1685282 AAGAAAAAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.03
Consensus pattern (18 bp):
AAGGAAAAAAAAAAGAAA
Found at i:1685280 original size:8 final size:9
Alignment explanation
Indices: 1685228--1685293 Score: 50
Period size: 9 Copynumber: 7.4 Consensus size: 9
1685218 TATTACGCTT
1685228 GAAG-AAAA
1 GAAGAAAAA
*
1685236 GAAAAAATAA
1 GAAGAAA-AA
1685246 GGAA-AAAAA
1 -GAAGAAAAA
*
1685255 TAAGAAAAA
1 GAAGAAAAA
1685264 GGAA-AAAAA
1 -GAAGAAAAA
*
1685273 AAAGAAAAA
1 GAAGAAAAA
1685282 -AAGAAAAA
1 GAAGAAAAA
1685290 GAAG
1 GAAG
1685294 GTTCAAGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 13
0.73 0.06 0.20
Matches are distributed among these distances:
8 15 0.32
9 22 0.47
10 7 0.15
11 3 0.06
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (9 bp):
GAAGAAAAA
Found at i:1685288 original size:18 final size:18
Alignment explanation
Indices: 1685232--1685289 Score: 55
Period size: 19 Copynumber: 3.0 Consensus size: 18
1685222 ACGCTTGAAG
1685232 AAAAGAAAAAATAAGGAAAAA
1 AAAAG-AAAAA-AA-GAAAAA
*
1685253 AATAAG-AAAAAGGAAAAAA
1 AA-AAGAAAAAAAG-AAAAA
1685272 AAAAGAAAAAAAGAAAAA
1 AAAAGAAAAAAAGAAAAA
1685290 GAAGGTTCAA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 9 0.28
19 14 0.44
20 4 0.12
21 2 0.06
22 3 0.09
ACGTcount: A:0.83, C:0.00, G:0.14, T:0.03
Consensus pattern (18 bp):
AAAAGAAAAAAAGAAAAA
Found at i:1685917 original size:14 final size:15
Alignment explanation
Indices: 1685887--1685925 Score: 53
Period size: 14 Copynumber: 2.6 Consensus size: 15
1685877 TGTTGGAAAG
1685887 AAAAGAAAAATTAAAT
1 AAAAG-AAAATTAAAT
*
1685903 AAAATAAAA-TAAAT
1 AAAAGAAAATTAAAT
1685917 AAAAGAAAA
1 AAAAGAAAA
1685926 GAAAAAAGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 13 0.62
15 4 0.19
16 4 0.19
ACGTcount: A:0.79, C:0.00, G:0.05, T:0.15
Consensus pattern (15 bp):
AAAAGAAAATTAAAT
Found at i:1701248 original size:10 final size:11
Alignment explanation
Indices: 1701225--1701278 Score: 54
Period size: 11 Copynumber: 4.7 Consensus size: 11
1701215 TTTGAATTTC
1701225 TTCTTTTTCTT
1 TTCTTTTTCTT
*
1701236 TTTTTTTTCTT
1 TTCTTTTTCTT
**
1701247 TTCTGATTCTT
1 TTCTTTTTCTT
*
1701258 TTCTTCTTTTTT
1 TTCTT-TTTCTT
1701270 CTTCTTTTT
1 -TTCTTTTT
1701279 GTACTCCAAT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
11 22 0.65
12 7 0.21
13 5 0.15
ACGTcount: A:0.02, C:0.17, G:0.02, T:0.80
Consensus pattern (11 bp):
TTCTTTTTCTT
Found at i:1703461 original size:5 final size:5
Alignment explanation
Indices: 1703453--1703501 Score: 64
Period size: 5 Copynumber: 10.0 Consensus size: 5
1703443 AAAATTACAA
* * *
1703453 AAAAA AAAAG AAAA- AGAAG AAAAG AAAAG AAAAG AAAAG AAAAT AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG
1703502 TTTTTGATTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
4 3 0.08
5 35 0.92
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (5 bp):
AAAAG
Found at i:1703466 original size:20 final size:18
Alignment explanation
Indices: 1703423--1703466 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 18
1703413 AAAAAATTCC
*
1703423 AAAAAATTAAAAAAAAAT
1 AAAAAATTAAAAAAAAAA
*
1703441 CAAAAATTACAAAAAAAAA
1 AAAAAATTA-AAAAAAAAA
1703460 AAGAAAA
1 AA-AAAA
1703467 AGAAGAAAAG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.82, C:0.05, G:0.02, T:0.11
Consensus pattern (18 bp):
AAAAAATTAAAAAAAAAA
Found at i:1703466 original size:28 final size:28
Alignment explanation
Indices: 1703414--1703467 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
1703404 AAAGTACCTA
* *
1703414 AAAAATTCCAAAAAATTAAAAAAAAATC
1 AAAAATTACAAAAAATAAAAAAAAAATC
1703442 AAAAATTACAAAAAA-AAAAAGAAAAA
1 AAAAATTACAAAAAATAAAAA-AAAAA
1703468 GAAGAAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.78, C:0.07, G:0.02, T:0.13
Consensus pattern (28 bp):
AAAAATTACAAAAAATAAAAAAAAAATC
Found at i:1704031 original size:2 final size:2
Alignment explanation
Indices: 1704024--1704076 Score: 90
Period size: 2 Copynumber: 27.0 Consensus size: 2
1704014 AGTTACTTTC
*
1704024 AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT 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
1704065 AT AT AT AT AT AT
1 AT AT AT AT AT AT
1704077 TTATTCATTA
Statistics
Matches: 48, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:1705075 original size:18 final size:18
Alignment explanation
Indices: 1705033--1705067 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1705023 TTGAGAGGCT
*
1705033 TGCCATCATTTGTAATCA
1 TGCCATCATTTATAATCA
1705051 TGCCATCATTTATAATC
1 TGCCATCATTTATAATC
1705068 TTCTCATCTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.40
Consensus pattern (18 bp):
TGCCATCATTTATAATCA
Found at i:1705696 original size:18 final size:17
Alignment explanation
Indices: 1705669--1705726 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 17
1705659 AAAATTGGAG
1705669 TTCAAAAAGAAGAAAAA
1 TTCAAAAAGAAGAAAAA
1705686 TTCAGAAAAGAAG-AAAA
1 TTCA-AAAAGAAGAAAAA
*
1705703 --GAAAAAGAAG--AAA
1 TTCAAAAAGAAGAAAAA
1705716 TTCAAAAAGAA
1 TTCAAAAAGAA
1705727 AGTAAAGCAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
13 3 0.08
14 8 0.22
15 9 0.25
17 8 0.22
18 8 0.22
ACGTcount: A:0.69, C:0.05, G:0.16, T:0.10
Consensus pattern (17 bp):
TTCAAAAAGAAGAAAAA
Found at i:1708577 original size:2 final size:2
Alignment explanation
Indices: 1708570--1708605 Score: 56
Period size: 2 Copynumber: 18.5 Consensus size: 2
1708560 AGTTATTTTC
*
1708570 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT CT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1708606 GTTATTATGA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1709891 original size:22 final size:21
Alignment explanation
Indices: 1709854--1709895 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1709844 CCATCTCTAT
1709854 TTCATCATCAACACCATCAAC
1 TTCATCATCAACACCATCAAC
*
1709875 TTCATCCATCAAGACCATCAA
1 TTCAT-CATCAACACCATCAA
1709896 TTTTGCAGCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.36, G:0.02, T:0.24
Consensus pattern (21 bp):
TTCATCATCAACACCATCAAC
Found at i:1710153 original size:23 final size:23
Alignment explanation
Indices: 1710127--1710179 Score: 106
Period size: 23 Copynumber: 2.3 Consensus size: 23
1710117 CAATTCTGAT
1710127 TTCTTTGGAGTGAAATTGTGAGA
1 TTCTTTGGAGTGAAATTGTGAGA
1710150 TTCTTTGGAGTGAAATTGTGAGA
1 TTCTTTGGAGTGAAATTGTGAGA
1710173 TTCTTTG
1 TTCTTTG
1710180 TGTGTGTGCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.23, C:0.06, G:0.28, T:0.43
Consensus pattern (23 bp):
TTCTTTGGAGTGAAATTGTGAGA
Found at i:1710578 original size:12 final size:12
Alignment explanation
Indices: 1710561--1710585 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
1710551 GTATCGATGC
1710561 ACTGCTACAGTA
1 ACTGCTACAGTA
1710573 ACTGCTACAGTA
1 ACTGCTACAGTA
1710585 A
1 A
1710586 TTTTTCGAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (12 bp):
ACTGCTACAGTA
Found at i:1710894 original size:44 final size:44
Alignment explanation
Indices: 1710823--1710929 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
1710813 GTGCAATATT
* *
1710823 TTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATAC
1 TTACCATTT-AT-CCATAAGCTAGTAAGCTTATTTTACCAATACAC
*
1710869 TTACCATTTATCCATAAGCTAGTAAGCTTATTTTACTAATACAC
1 TTACCATTTATCCATAAGCTAGTAAGCTTATTTTACCAATACAC
*
1710913 TTGCCA-TTATTCCATAA
1 TTACCATTTA-TCCATAA
1710930 CCATACACCA
Statistics
Matches: 56, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
43 3 0.05
44 42 0.75
45 2 0.04
46 9 0.16
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (44 bp):
TTACCATTTATCCATAAGCTAGTAAGCTTATTTTACCAATACAC
Found at i:1711102 original size:59 final size:59
Alignment explanation
Indices: 1711010--1711138 Score: 177
Period size: 59 Copynumber: 2.2 Consensus size: 59
1711000 TGTAGTGCAA
* * * **
1711010 TCCCGAGTATGACACATAAGGTCGTGTCCACCATCTGTACTAGGTATCCTTAAGTACAG
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
* ** *
1711069 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTTAGTGTAT
1 TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
1711128 TCCCGAATATG
1 TCCCGAATATG
1711139 CAGCCTGCTG
Statistics
Matches: 61, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (59 bp):
TCCCGAATATGACACATAAGGTCGTGCCCACCATATACACTAGGTATCCTTAAGTACAG
Found at i:1712618 original size:23 final size:23
Alignment explanation
Indices: 1712592--1712635 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
1712582 TCAATCCAAT
* * *
1712592 ATGAATTTCCATTTTTACCATTA
1 ATGAATCTCCATATTCACCATTA
1712615 ATGAATCTCCATATTCACCAT
1 ATGAATCTCCATATTCACCAT
1712636 AAAACCAAGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.23, G:0.05, T:0.41
Consensus pattern (23 bp):
ATGAATCTCCATATTCACCATTA
Found at i:1714562 original size:11 final size:11
Alignment explanation
Indices: 1714542--1714573 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
1714532 GGATGTTTTT
1714542 ATGGTGATGGA
1 ATGGTGATGGA
*
1714553 ATGGTAATGGA
1 ATGGTGATGGA
1714564 ATGGTGATGG
1 ATGGTGATGG
1714574 TGTTGGCATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.28, C:0.00, G:0.44, T:0.28
Consensus pattern (11 bp):
ATGGTGATGGA
Found at i:1716498 original size:26 final size:26
Alignment explanation
Indices: 1716412--1716490 Score: 149
Period size: 26 Copynumber: 3.0 Consensus size: 26
1716402 TTTTATGATG
1716412 GCTCTCAACAACGTTGATAACACTCT
1 GCTCTCAACAACGTTGATAACACTCT
*
1716438 GCTCTCAACAATGTTGATAACACTCT
1 GCTCTCAACAACGTTGATAACACTCT
1716464 GCTCTCAACAACGTTGATAACACTCT
1 GCTCTCAACAACGTTGATAACACTCT
1716490 G
1 G
1716491 TTGACAACCT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 51 1.00
ACGTcount: A:0.30, C:0.29, G:0.13, T:0.28
Consensus pattern (26 bp):
GCTCTCAACAACGTTGATAACACTCT
Found at i:1733463 original size:90 final size:91
Alignment explanation
Indices: 1733310--1733491 Score: 258
Period size: 90 Copynumber: 2.0 Consensus size: 91
1733300 GAGAAATGAT
** * *
1733310 GCTTGGCTGAATAGGGAGAGAGCTCTTTATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCAAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
1733374 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * * *
1733400 GCTTGGCCAAATATGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCAAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* *
1733465 GGGGCTGGTCATATGCAAAGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
1733491 G
1 G
1733492 GTGTTCTAGG
Statistics
Matches: 80, Mismatches: 11, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
90 56 0.70
91 24 0.30
ACGTcount: A:0.29, C:0.23, G:0.26, T:0.23
Consensus pattern (91 bp):
GCTTGGCCAAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:1754418 original size:33 final size:33
Alignment explanation
Indices: 1754376--1754444 Score: 86
Period size: 33 Copynumber: 2.1 Consensus size: 33
1754366 GTTGATGAAT
*
1754376 GAAGGATGAT-TTAATGGTGATGAAATGGTAATG
1 GAAGGATGATGTTAATGGCG-TGAAATGGTAATG
* * *
1754409 GAAGGATGATGTTATTGGCGTGATATGGTGATG
1 GAAGGATGATGTTAATGGCGTGAAATGGTAATG
1754442 GAA
1 GAA
1754445 TATGGTGATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 24 0.77
34 7 0.23
ACGTcount: A:0.32, C:0.01, G:0.36, T:0.30
Consensus pattern (33 bp):
GAAGGATGATGTTAATGGCGTGAAATGGTAATG
Found at i:1756374 original size:13 final size:13
Alignment explanation
Indices: 1756356--1756388 Score: 66
Period size: 13 Copynumber: 2.5 Consensus size: 13
1756346 CATAGCTGGA
1756356 TTGAGCTGAAGAT
1 TTGAGCTGAAGAT
1756369 TTGAGCTGAAGAT
1 TTGAGCTGAAGAT
1756382 TTGAGCT
1 TTGAGCT
1756389 ACAAGATGAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.27, C:0.09, G:0.30, T:0.33
Consensus pattern (13 bp):
TTGAGCTGAAGAT
Found at i:1765541 original size:15 final size:16
Alignment explanation
Indices: 1765513--1765543 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
1765503 CACTCAAAAG
1765513 AAGAAAAAACAAAGAA
1 AAGAAAAAACAAAGAA
1765529 AAGAAAAAA-AAAGAA
1 AAGAAAAAACAAAGAA
1765544 GTTGAAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (16 bp):
AAGAAAAAACAAAGAA
Found at i:1769387 original size:22 final size:23
Alignment explanation
Indices: 1769362--1769411 Score: 75
Period size: 22 Copynumber: 2.2 Consensus size: 23
1769352 AAGGGAAGGA
* *
1769362 TGATGTTATTGGCGTGAT-ATGG
1 TGATGATATAGGCGTGATAATGG
1769384 TGATGATATAGGCGTGATAATGG
1 TGATGATATAGGCGTGATAATGG
1769407 TGATG
1 TGATG
1769412 GACTATGGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 16 0.64
23 9 0.36
ACGTcount: A:0.24, C:0.04, G:0.36, T:0.36
Consensus pattern (23 bp):
TGATGATATAGGCGTGATAATGG
Found at i:1769392 original size:11 final size:11
Alignment explanation
Indices: 1769376--1769447 Score: 58
Period size: 11 Copynumber: 6.2 Consensus size: 11
1769366 GTTATTGGCG
1769376 TGATATGGTGA
1 TGATATGGTGA
*
1769387 TGATATAGGCG-
1 TGATAT-GGTGA
1769398 TGATAATGGTGA
1 TGAT-ATGGTGA
1769410 TGGACTATGGTGA
1 T-GA-TATGGTGA
*
1769423 TGATATAGGCG-
1 TGATAT-GGTGA
1769434 TGATAATGGTGA
1 TGAT-ATGGTGA
1769446 TG
1 TG
1769448 GACAGATTGT
Statistics
Matches: 49, Mismatches: 4, Indels: 15
0.72 0.06 0.22
Matches are distributed among these distances:
11 23 0.47
12 15 0.31
13 10 0.20
14 1 0.02
ACGTcount: A:0.28, C:0.04, G:0.36, T:0.32
Consensus pattern (11 bp):
TGATATGGTGA
Found at i:1769426 original size:36 final size:36
Alignment explanation
Indices: 1769379--1769450 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
1769369 ATTGGCGTGA
1769379 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1769415 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1 TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
1769451 AGATTGTATC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.28, C:0.06, G:0.36, T:0.31
Consensus pattern (36 bp):
TATGGTGATGATATAGGCGTGATAATGGTGATGGAC
Found at i:1773324 original size:20 final size:19
Alignment explanation
Indices: 1773279--1773329 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 19
1773269 CGTCCAAGAG
* *
1773279 CATGTATCTTCATTAAAGT
1 CATGTATTTTCATTAAAAT
*
1773298 TATGTATTTTCATTAAAAAT
1 CATGTATTTTCATT-AAAAT
1773318 CATGTATTTTCA
1 CATGTATTTTCA
1773330 AAGGGGTTTC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.33, C:0.12, G:0.08, T:0.47
Consensus pattern (19 bp):
CATGTATTTTCATTAAAAT
Found at i:1774441 original size:22 final size:22
Alignment explanation
Indices: 1774416--1774457 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1774406 ACATTAAAAT
* *
1774416 GGCGGCAATATGAACAAGCATG
1 GGCGGAAAAATGAACAAGCATG
*
1774438 GGCGGAAAAATGAACCAGCA
1 GGCGGAAAAATGAACAAGCA
1774458 CCTACCTATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.19, G:0.31, T:0.10
Consensus pattern (22 bp):
GGCGGAAAAATGAACAAGCATG
Found at i:1778137 original size:23 final size:21
Alignment explanation
Indices: 1778081--1778137 Score: 51
Period size: 26 Copynumber: 2.4 Consensus size: 21
1778071 GAAAAAAATC
*
1778081 AGAAAAGAAGCACTCAAAAAGA
1 AGAAAA-AAACACTCAAAAAGA
1778103 AGAAATTGAAAACACTCAAAAGAAGA
1 AGAAA---AAAACACTC-AAA-AAGA
1778129 AGAAAAAAA
1 AGAAAAAAA
1778138 TAAAGAAAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
22 5 0.17
23 4 0.14
24 7 0.24
25 4 0.14
26 9 0.31
ACGTcount: A:0.67, C:0.11, G:0.16, T:0.07
Consensus pattern (21 bp):
AGAAAAAAACACTCAAAAAGA
Found at i:1785042 original size:19 final size:19
Alignment explanation
Indices: 1785006--1785054 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
1784996 ATTGGAGTGT
1785006 AAAAAAAAGAAAAGAAAAG
1 AAAAAAAAGAAAAGAAAAG
* * *
1785025 AAAAAGAAGAATAAAAAAAC
1 AAAAAAAAGAA-AAGAAAAG
1785045 AAAGAAAAAG
1 AAA-AAAAAG
1785055 TGAAGCAAAG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 10 0.42
20 9 0.38
21 5 0.21
ACGTcount: A:0.82, C:0.02, G:0.14, T:0.02
Consensus pattern (19 bp):
AAAAAAAAGAAAAGAAAAG
Found at i:1788399 original size:13 final size:13
Alignment explanation
Indices: 1788377--1788406 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
1788367 ATTAAACACC
1788377 TTTC-ACATACCT
1 TTTCAACATACCT
1788389 TTTCAACATACCT
1 TTTCAACATACCT
1788402 TTTCA
1 TTTCA
1788407 TCTTTGGCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 4 0.24
13 13 0.76
ACGTcount: A:0.27, C:0.30, G:0.00, T:0.43
Consensus pattern (13 bp):
TTTCAACATACCT
Found at i:1803140 original size:14 final size:15
Alignment explanation
Indices: 1803117--1803151 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
1803107 TCTTCTTTTG
1803117 CTTTTGATTTTC-TT
1 CTTTTGATTTTCTTT
*
1803131 CTTTTTATTTTCTTT
1 CTTTTGATTTTCTTT
1803146 CTTTTG
1 CTTTTG
1803152 CACTCCAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 11 0.61
15 7 0.39
ACGTcount: A:0.06, C:0.14, G:0.06, T:0.74
Consensus pattern (15 bp):
CTTTTGATTTTCTTT
Found at i:1813418 original size:36 final size:36
Alignment explanation
Indices: 1813377--1813525 Score: 192
Period size: 36 Copynumber: 4.1 Consensus size: 36
1813367 ATTTATAAGT
* * *
1813377 TGGTGATAATAT-GGACGTGATAATGGTGGTGGAATA
1 TGGTGATGATATAGG-CGTGATAATGGAGATGGAATA
* *
1813413 TGGTGACGATATAGGCGTGATAATGGAGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* ** *
1813449 TGGTGATGATAAAGGCGTGATAATGTTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
*
1813485 TGGTGATGATATAGGCGTGATAATGGAGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
1813521 TGGTG
1 TGGTG
1813526 TTGGACAGAT
Statistics
Matches: 98, Mismatches: 14, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
36 96 0.98
37 2 0.02
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
Found at i:1813454 original size:72 final size:72
Alignment explanation
Indices: 1813377--1813517 Score: 212
Period size: 72 Copynumber: 2.0 Consensus size: 72
1813367 ATTTATAAGT
* *
1813377 TGGTGATAAT-ATGGACGTGATAATGGTGGTGGAATATGGTGACGATATAGGCGTGATAATGGAG
1 TGGTGATAATAAAGG-CGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAG
1813441 ATGGACTA
65 ATGGACTA
* * * *
1813449 TGGTGATGATAAAGGCGTGATAATGTTGATGGACTATGGTGATGATATAGGCGTGATAATGGAGA
1 TGGTGATAATAAAGGCGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGA
1813514 TGGA
66 TGGA
1813518 AGATGGTGTT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
72 59 0.95
73 3 0.05
ACGTcount: A:0.30, C:0.05, G:0.36, T:0.28
Consensus pattern (72 bp):
TGGTGATAATAAAGGCGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGA
TGGACTA
Found at i:1813524 original size:72 final size:72
Alignment explanation
Indices: 1813392--1813525 Score: 214
Period size: 72 Copynumber: 1.9 Consensus size: 72
1813382 ATAATATGGA
* **
1813392 CGTGATAATGGTGGTGGAATATGGTGACGATATAGGCGTGATAATGGAGATGGACTATGGTGATG
1 CGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGATGGAAGATGGTGATG
1813457 ATAAAGG
66 ATAAAGG
* * *
1813464 CGTGATAATGTTGATGGACTATGGTGATGATATAGGCGTGATAATGGAGATGGAAGATGGTG
1 CGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGATGGAAGATGGTG
1813526 TTGGACAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 56 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (72 bp):
CGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGATGGAAGATGGTGATG
ATAAAGG
Found at i:1815370 original size:24 final size:24
Alignment explanation
Indices: 1815324--1815370 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1815314 CTTTTAATGA
* *
1815324 TCATGTCCCTTGGCATCCTAAAAG
1 TCATGTCCATTGGCATCATAAAAG
1815348 TCATGTCCATTGG-ATCATGAAAA
1 TCATGTCCATTGGCATCAT-AAAA
1815371 TTCACGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 16 0.80
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (24 bp):
TCATGTCCATTGGCATCATAAAAG
Found at i:1817223 original size:36 final size:36
Alignment explanation
Indices: 1817182--1817330 Score: 208
Period size: 36 Copynumber: 4.1 Consensus size: 36
1817172 ATTTATAAGT
* * *
1817182 TGGTGATAATATAGGCGTGATAATGGTGGTGGAATA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* *
1817218 TGGTGACGATATAGGCGTGATAATGGAGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
* * * *
1817254 TGTTGATGATAAAGGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
*
1817290 TGGTGATGATATAGGCGTGATAATGGAGATGGAAGA
1 TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
1817326 TGGTG
1 TGGTG
1817331 TTGGATAGAT
Statistics
Matches: 99, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
36 99 1.00
ACGTcount: A:0.30, C:0.05, G:0.37, T:0.28
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGAGATGGAATA
Found at i:1817311 original size:72 final size:72
Alignment explanation
Indices: 1817185--1817322 Score: 231
Period size: 72 Copynumber: 1.9 Consensus size: 72
1817175 TATAAGTTGG
* *
1817185 TGATAATATAGGCGTGATAATGGTGGTGGAATATGGTGACGATATAGGCGTGATAATGGAGATGG
1 TGATAATAAAGGCGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGATGG
1817250 ACTATGT
66 ACTATGT
* * *
1817257 TGATGATAAAGGCGTGATAATGGTGATGGACTATGGTGATGATATAGGCGTGATAATGGAGATGG
1 TGATAATAAAGGCGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGATGG
1817322 A
66 A
1817323 AGATGGTGTT
Statistics
Matches: 61, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
72 61 1.00
ACGTcount: A:0.31, C:0.05, G:0.36, T:0.28
Consensus pattern (72 bp):
TGATAATAAAGGCGTGATAATGGTGATGGAATATGGTGACGATATAGGCGTGATAATGGAGATGG
ACTATGT
Found at i:1817724 original size:19 final size:20
Alignment explanation
Indices: 1817677--1817726 Score: 66
Period size: 19 Copynumber: 2.5 Consensus size: 20
1817667 GAAATCCCTT
**
1817677 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
1817697 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
1817716 TGAAGATACAT
1 TGAAAATACAT
1817727 ACTCTTGGCT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:1819647 original size:19 final size:19
Alignment explanation
Indices: 1819625--1819679 Score: 58
Period size: 21 Copynumber: 2.7 Consensus size: 19
1819615 TTAGAGTGCC
1819625 AAAAGAAAAGAAAA-AGACA
1 AAAAGAAAAGAAAACAGA-A
*
1819644 AAAAGAAGAAAAAAATCAGAA
1 AAAAGAA-AAGAAAA-CAGAA
1819665 AAGAAGAAAAGAAAA
1 AA-AAGAAAAGAAAA
1819680 GAAATTCAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
19 7 0.23
20 6 0.20
21 9 0.30
22 8 0.27
ACGTcount: A:0.78, C:0.04, G:0.16, T:0.02
Consensus pattern (19 bp):
AAAAGAAAAGAAAACAGAA
Found at i:1822256 original size:24 final size:25
Alignment explanation
Indices: 1822229--1822280 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
1822219 AAGAAAAATC
* *
1822229 AGAAAAG-AAAGTGAAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
*
1822253 AG-AAAGAAAAATCCAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
1822277 AGAA
1 AGAA
1822281 GAAAAAGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.78
25 1 0.04
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (25 bp):
AGAAAAGAAAAATCAAGCACTCAAA
Found at i:1823489 original size:24 final size:24
Alignment explanation
Indices: 1823457--1823504 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1823447 CTTCAAGTTT
* *
1823457 AAGATTCAAGAAACATGTCTTTTG
1 AAGAATCAAGAAACATGACTTTTG
* *
1823481 AAGAATCAATAAACGTGACTTTTG
1 AAGAATCAAGAAACATGACTTTTG
1823505 GTGATCCACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (24 bp):
AAGAATCAAGAAACATGACTTTTG
Found at i:1831179 original size:24 final size:25
Alignment explanation
Indices: 1831152--1831203 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 25
1831142 AAGAAAAATC
* *
1831152 AGAAAAG-AAAGTGAAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
*
1831176 AG-AAAGAAAAATCCAGCACTCAAA
1 AGAAAAGAAAAATCAAGCACTCAAA
1831200 AGAA
1 AGAA
1831204 GAAAAAGCAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
23 4 0.17
24 18 0.78
25 1 0.04
ACGTcount: A:0.60, C:0.15, G:0.17, T:0.08
Consensus pattern (25 bp):
AGAAAAGAAAAATCAAGCACTCAAA
Found at i:1832385 original size:24 final size:24
Alignment explanation
Indices: 1832353--1832400 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
1832343 CTTCAAGTTT
* *
1832353 AAGATTCAAGAAACATGTCTTTTG
1 AAGAATCAAGAAACATGACTTTTG
* *
1832377 AAGAATCAATAAACGTGACTTTTG
1 AAGAATCAAGAAACATGACTTTTG
1832401 GTGATCCACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.40, C:0.12, G:0.17, T:0.31
Consensus pattern (24 bp):
AAGAATCAAGAAACATGACTTTTG
Found at i:1837874 original size:35 final size:35
Alignment explanation
Indices: 1837771--1837904 Score: 161
Period size: 35 Copynumber: 3.9 Consensus size: 35
1837761 ATTTATAAGT
* * *
1837771 TGGTGATAATATGGGCGTGAT-ATG-G-TGGAATA
1 TGGTGATGATATAGGCGTGATAATGAGATGGACTA
*
1837803 T-G-GACGATATAGGCGTGATAATGGAGATGGACTA
1 TGGTGATGATATAGGCGTGATAAT-GAGATGGACTA
* *
1837837 TGGTGATGATAAAGGCGTGATAATGTGATGGACTA
1 TGGTGATGATATAGGCGTGATAATGAGATGGACTA
1837872 TGGTGATGATATAGGCGTGATAATGGAGATGGA
1 TGGTGATGATATAGGCGTGATAAT-GAGATGGA
1837905 AGATGGTGTT
Statistics
Matches: 86, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
30 14 0.16
31 3 0.03
32 2 0.02
33 1 0.01
34 7 0.08
35 34 0.40
36 25 0.29
ACGTcount: A:0.31, C:0.05, G:0.37, T:0.28
Consensus pattern (35 bp):
TGGTGATGATATAGGCGTGATAATGAGATGGACTA
Found at i:1837912 original size:36 final size:36
Alignment explanation
Indices: 1837808--1837904 Score: 169
Period size: 35 Copynumber: 2.7 Consensus size: 36
1837798 GAATATGGAC
1837808 GATATAGGCGTGATAATGGAGATGGACTATGGTGAT
1 GATATAGGCGTGATAATGGAGATGGACTATGGTGAT
* *
1837844 GATAAAGGCGTGATAAT-GTGATGGACTATGGTGAT
1 GATATAGGCGTGATAATGGAGATGGACTATGGTGAT
1837879 GATATAGGCGTGATAATGGAGATGGA
1 GATATAGGCGTGATAATGGAGATGGA
1837905 AGATGGTGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
35 33 0.59
36 23 0.41
ACGTcount: A:0.32, C:0.05, G:0.36, T:0.27
Consensus pattern (36 bp):
GATATAGGCGTGATAATGGAGATGGACTATGGTGAT
Found at i:1841475 original size:22 final size:20
Alignment explanation
Indices: 1841432--1841476 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
1841422 TGTAGGAGTC
* *
1841432 TTTTTCTTTTCTTTTTGTTT
1 TTTTTCTTTTCTTGTTGCTT
1841452 TTTTTCTTCTTTCTTGTTGCTT
1 TTTTTC-T-TTTCTTGTTGCTT
1841474 TTT
1 TTT
1841477 GTTGTAGCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
22 14 0.67
ACGTcount: A:0.00, C:0.13, G:0.07, T:0.80
Consensus pattern (20 bp):
TTTTTCTTTTCTTGTTGCTT
Found at i:1841894 original size:13 final size:13
Alignment explanation
Indices: 1841876--1841936 Score: 51
Period size: 13 Copynumber: 4.8 Consensus size: 13
1841866 TATAGGCGTG
1841876 ATATGGTGATGGA
1 ATATGGTGATGGA
1841889 ATATGGTGAT-GA
1 ATATGGTGATGGA
1841901 TATATTGCGTGAT---
1 -ATA-TG-GTGATGGA
1841914 A-ATGGTGATGGA
1 ATATGGTGATGGA
*
1841926 CTATGGTGATG
1 ATATGGTGATG
1841937 ATATAGGCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 14
0.73 0.02 0.25
Matches are distributed among these distances:
9 5 0.12
10 2 0.05
11 1 0.03
12 3 0.08
13 22 0.55
14 2 0.05
15 5 0.12
ACGTcount: A:0.28, C:0.03, G:0.34, T:0.34
Consensus pattern (13 bp):
ATATGGTGATGGA
Found at i:1841957 original size:36 final size:36
Alignment explanation
Indices: 1841857--1841962 Score: 160
Period size: 36 Copynumber: 2.9 Consensus size: 36
1841847 ATTTATAAGT
* *
1841857 TGGTGATAATATAGGCGTGAT-ATGGTGATGGAATA
1 TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
*
1841892 TGGTGATGATATATTGCGTGATAATGGTGATGGACTA
1 TGGTGATGATATA-GGCGTGATAATGGTGATGGACTA
*
1841929 TGGTGATGATATAGGCATGATAATGGTGATGGAC
1 TGGTGATGATATAGGCGTGATAATGGTGATGGAC
1841963 AGATTGTATC
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
35 12 0.19
36 26 0.41
37 26 0.41
ACGTcount: A:0.29, C:0.05, G:0.34, T:0.32
Consensus pattern (36 bp):
TGGTGATGATATAGGCGTGATAATGGTGATGGACTA
Found at i:1843666 original size:19 final size:20
Alignment explanation
Indices: 1843642--1843692 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
1843632 CGGCCAAGAG
* *
1843642 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
1843661 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
1843681 CATGTATTTTCA
1 CATGTATTTTCA
1843693 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:1845467 original size:10 final size:10
Alignment explanation
Indices: 1845452--1845485 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1845442 CTCTTTTGAA
1845452 TTTCTTTTTT
1 TTTCTTTTTT
1845462 TTTC--TTTT
1 TTTCTTTTTT
1845470 TTTCTTTTTT
1 TTTCTTTTTT
1845480 TTTCTT
1 TTTCTT
1845486 CTTTCTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
8 8 0.36
10 14 0.64
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTCTTTTTT
Found at i:1845477 original size:17 final size:17
Alignment explanation
Indices: 1845452--1845495 Score: 70
Period size: 18 Copynumber: 2.5 Consensus size: 17
1845442 CTCTTTTGAA
*
1845452 TTTCTTTTTTTTTCTTTT
1 TTTCTTTTTTTTTC-TTC
1845470 TTTCTTTTTTTTTCTTC
1 TTTCTTTTTTTTTCTTC
1845487 TTTCTTTTT
1 TTTCTTTTT
1845496 GCACTCCAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTCTTTTTTTTTCTTC
Found at i:1847463 original size:12 final size:12
Alignment explanation
Indices: 1847424--1847459 Score: 56
Period size: 12 Copynumber: 3.0 Consensus size: 12
1847414 TAACATCTCT
1847424 ATTTCTTCATTTC
1 ATTTCTTCA-TTC
1847437 ATTTCTTCATTC
1 ATTTCTTCATTC
1847449 ATTTCTT-ATTC
1 ATTTCTTCATTC
1847460 CATTAATCAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
11 4 0.17
12 10 0.43
13 9 0.39
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (12 bp):
ATTTCTTCATTC
Found at i:1847725 original size:14 final size:14
Alignment explanation
Indices: 1847701--1847747 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
1847691 GGAGTGCAAA
1847701 AAAAAGAAAGAAAAG
1 AAAAAG-AAGAAAAG
**
1847716 AAAAAGAAGAAATTC
1 AAAAAGAAGAAA-AG
1847731 AAAAA-AAGAAAAG
1 AAAAAGAAGAAAAG
1847744 AAAA
1 AAAA
1847748 GTGAACCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
13 4 0.15
14 12 0.44
15 11 0.41
ACGTcount: A:0.79, C:0.02, G:0.15, T:0.04
Consensus pattern (14 bp):
AAAAAGAAGAAAAG
Found at i:1862618 original size:12 final size:12
Alignment explanation
Indices: 1862601--1862631 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
1862591 ATTTATCTTA
1862601 ATTATTCCATTT
1 ATTATTCCATTT
1862613 ATTATTCCATTT
1 ATTATTCCATTT
*
1862625 ATAATTC
1 ATTATTC
1862632 AAGGACATCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.29, C:0.16, G:0.00, T:0.55
Consensus pattern (12 bp):
ATTATTCCATTT
Found at i:1866873 original size:35 final size:36
Alignment explanation
Indices: 1866826--1866893 Score: 111
Period size: 35 Copynumber: 1.9 Consensus size: 36
1866816 ATTTAGAAGT
*
1866826 TGGTGATAATATATGCGTGAT-ATGGTGATGGAATA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGAATA
*
1866861 TGGTGATGATATAGGCGTGATAATGGTGATGGA
1 TGGTGATAATATAGGCGTGATAATGGTGATGGA
1866894 CAGATTGTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 19 0.63
36 11 0.37
ACGTcount: A:0.29, C:0.03, G:0.35, T:0.32
Consensus pattern (36 bp):
TGGTGATAATATAGGCGTGATAATGGTGATGGAATA
Found at i:1871854 original size:13 final size:11
Alignment explanation
Indices: 1871813--1871897 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1871803 ACAATCTGTC
1871813 CATCACCATTAT
1 CATCACCA-TAT
*
1871825 CA-CGCCTATAT
1 CATCACC-ATAT
1871836 CATCACCATAGT
1 CATCACCATA-T
1871848 CCATCACCATTAT
1 -CATCACCA-TAT
*
1871861 CA-CGCCTATAT
1 CATCACC-ATAT
1871872 CATCACCATATT
1 CATCACCATA-T
1871884 CCATCACCATAT
1 -CATCACCATAT
1871896 CA
1 CA
1871898 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1871857 original size:36 final size:36
Alignment explanation
Indices: 1871810--1871914 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
1871800 GATACAATCT
1871810 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1871846 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
1871882 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
1871915 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1872387 original size:14 final size:15
Alignment explanation
Indices: 1872353--1872399 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1872343 AATTTGGAGT
1872353 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
1872368 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
1872382 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
1872399 G
1 G
1872400 TGAAGCAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:1876331 original size:13 final size:11
Alignment explanation
Indices: 1876290--1876374 Score: 66
Period size: 11 Copynumber: 7.2 Consensus size: 11
1876280 ACAATCTGTC
1876290 CATCACCATTAT
1 CATCACCA-TAT
*
1876302 CA-CGCCTATAT
1 CATCACC-ATAT
1876313 CATCACCATAGT
1 CATCACCATA-T
1876325 CCATCACCATTAT
1 -CATCACCA-TAT
*
1876338 CA-CGCCTATAT
1 CATCACC-ATAT
1876349 CATCACCATATT
1 CATCACCATA-T
1876361 CCATCACCATAT
1 -CATCACCATAT
1876373 CA
1 CA
1876375 CGCCTATATT
Statistics
Matches: 60, Mismatches: 4, Indels: 19
0.72 0.05 0.23
Matches are distributed among these distances:
11 24 0.40
12 15 0.25
13 19 0.32
14 2 0.03
ACGTcount: A:0.32, C:0.36, G:0.04, T:0.28
Consensus pattern (11 bp):
CATCACCATAT
Found at i:1876334 original size:36 final size:36
Alignment explanation
Indices: 1876287--1876391 Score: 185
Period size: 36 Copynumber: 2.9 Consensus size: 36
1876277 GATACAATCT
1876287 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
1876323 GTCCATCACCATTATCACGCCTATATCATCACCATA
1 GTCCATCACCATTATCACGCCTATATCATCACCATA
* *
1876359 TTCCATCACCA-TATCACGCCTATATTATCACCA
1 GTCCATCACCATTATCACGCCTATATCATCACCA
1876392 ACTTATAAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
35 21 0.31
36 46 0.69
ACGTcount: A:0.30, C:0.36, G:0.05, T:0.29
Consensus pattern (36 bp):
GTCCATCACCATTATCACGCCTATATCATCACCATA
Found at i:1882245 original size:16 final size:15
Alignment explanation
Indices: 1882224--1882255 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
1882214 TGCAAAGATG
1882224 CTTGTCTCCACTTAGC
1 CTTGTCTCCAC-TAGC
1882240 CTTGTCTCCACTAGC
1 CTTGTCTCCACTAGC
1882255 C
1 C
1882256 ATCACTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.12, C:0.41, G:0.12, T:0.34
Consensus pattern (15 bp):
CTTGTCTCCACTAGC
Found at i:1890819 original size:22 final size:20
Alignment explanation
Indices: 1890794--1890833 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1890784 ATGTTTGTTT
1890794 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
1890816 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
1890834 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:1893714 original size:11 final size:11
Alignment explanation
Indices: 1893698--1893722 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1893688 TTTTTTTTCT
1893698 TTCACTTGCAC
1 TTCACTTGCAC
1893709 TTCACTTGCAC
1 TTCACTTGCAC
1893720 TTC
1 TTC
1893723 TTTTGGTGTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.36, G:0.08, T:0.40
Consensus pattern (11 bp):
TTCACTTGCAC
Found at i:1895038 original size:22 final size:20
Alignment explanation
Indices: 1895013--1895052 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
1895003 ATATTTGTTT
1895013 ATGGTAATGGGAGCTAAGTATG
1 ATGGTAAT--GAGCTAAGTATG
*
1895035 ATGGTCATGAGCTAAGTA
1 ATGGTAATGAGCTAAGTA
1895053 CATCATCTCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 10 0.59
22 7 0.41
ACGTcount: A:0.33, C:0.07, G:0.33, T:0.28
Consensus pattern (20 bp):
ATGGTAATGAGCTAAGTATG
Found at i:1895286 original size:15 final size:14
Alignment explanation
Indices: 1895259--1895293 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
1895249 AACTATATTC
1895259 TTATAATAAATATA
1 TTATAATAAATATA
*
1895273 TTATAATAGCATATA
1 TTATAATA-AATATA
1895288 TTATAA
1 TTATAA
1895294 AGCTAATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.43
Consensus pattern (14 bp):
TTATAATAAATATA
Found at i:1897630 original size:69 final size:68
Alignment explanation
Indices: 1897518--1897650 Score: 203
Period size: 69 Copynumber: 1.9 Consensus size: 68
1897508 ACTGTTTGTG
**
1897518 AGCTGTATATGTCTTCCAAATGCTCCACCAAGTTGTCCAAACGTGTGTCATGCTCCAATGTACCT
1 AGCTGTATATGTCTTCCAAATGCTCCACCAAGTCATCCAAACGTGTGTCATGCT-CAATGTACCT
1897583 TAAC
65 TAAC
* ** *
1897587 AGCTGTATATGTCTTCTAAATGCTCCATTAAGTCATCCCAACGTGTGTCATGCTCAATGTACCT
1 AGCTGTATATGTCTTCCAAATGCTCCACCAAGTCATCCAAACGTGTGTCATGCTCAATGTACCT
1897651 ATATGTGCAA
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
68 10 0.17
69 48 0.83
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (68 bp):
AGCTGTATATGTCTTCCAAATGCTCCACCAAGTCATCCAAACGTGTGTCATGCTCAATGTACCTT
AAC
Found at i:1902880 original size:22 final size:22
Alignment explanation
Indices: 1902848--1902891 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1902838 CATCTTCCAT
*
1902848 TATCACGCCTATACCATCACCA
1 TATCACACCTATACCATCACCA
*
1902870 TATCACACCTATATCATCACCA
1 TATCACACCTATACCATCACCA
1902892 AATTCTCAAA
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:0.34, C:0.39, G:0.02, T:0.25
Consensus pattern (22 bp):
TATCACACCTATACCATCACCA
Found at i:1907169 original size:19 final size:20
Alignment explanation
Indices: 1907145--1907186 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
1907135 GCAATTATCA
1907145 TCATT-AAAATCATGTATTT
1 TCATTAAAAATCATGTATTT
1907164 TCATTAAAAATCATGTATTT
1 TCATTAAAAATCATGTATTT
1907184 TCA
1 TCA
1907187 AAGGGGTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 5 0.23
20 17 0.77
ACGTcount: A:0.38, C:0.12, G:0.05, T:0.45
Consensus pattern (20 bp):
TCATTAAAAATCATGTATTT
Found at i:1908761 original size:17 final size:17
Alignment explanation
Indices: 1908721--1908762 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
1908711 AAGTATGTTC
*
1908721 TTCATTAAAGCATGCAT
1 TTCATTTAAGCATGCAT
*
1908738 TTCATTTAAGCATGTAT
1 TTCATTTAAGCATGCAT
1908755 TTCATTTA
1 TTCATTTA
1908763 GGGAAGTAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (17 bp):
TTCATTTAAGCATGCAT
Found at i:1909296 original size:29 final size:29
Alignment explanation
Indices: 1909257--1909315 Score: 109
Period size: 29 Copynumber: 2.0 Consensus size: 29
1909247 TCTTAATGCT
*
1909257 TCTATTCAAAGCAATTCAAGGATGAATTC
1 TCTATTCAAAGCAATTAAAGGATGAATTC
1909286 TCTATTCAAAGCAATTAAAGGATGAATTC
1 TCTATTCAAAGCAATTAAAGGATGAATTC
1909315 T
1 T
1909316 TTTCATCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.39, C:0.15, G:0.14, T:0.32
Consensus pattern (29 bp):
TCTATTCAAAGCAATTAAAGGATGAATTC
Found at i:1910772 original size:6 final size:6
Alignment explanation
Indices: 1910763--1910833 Score: 106
Period size: 6 Copynumber: 11.5 Consensus size: 6
1910753 GTAATGGAAA
* *
1910763 GGTGAT GGTGTT GGTGTGAA GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT
1 GGTGAT GGTGAT -G-GTGAT GGTGAT GGTGAT GGTGAT GGTGAT GGTGAT
1910813 GGTGAT GGTGAT GGTGAT GGT
1 GGTGAT GGTGAT GGTGAT GGT
1910834 TAAGGATAAT
Statistics
Matches: 59, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
6 54 0.92
7 2 0.03
8 3 0.05
ACGTcount: A:0.15, C:0.00, G:0.51, T:0.34
Consensus pattern (6 bp):
GGTGAT
Found at i:1912820 original size:90 final size:91
Alignment explanation
Indices: 1912704--1912885 Score: 285
Period size: 90 Copynumber: 2.0 Consensus size: 91
1912694 AGGAAATGAT
*
1912704 GCTTGGCCGAATAGGGAGAGAGCTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACAT-
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
*
1912768 GGGGCTGTTCACATGCAAAACACATG
66 GGGGCTGGTCACATGCAAAACACATG
* * *
1912794 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATGATCCTCATGCAAGGCACATG
1 GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
* **
1912859 GGGGCTGGTCATATGCAAGGCACATG
66 GGGGCTGGTCACATGCAAAACACATG
1912885 G
1 G
1912886 GGGCTGGTCA
Statistics
Matches: 83, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
90 60 0.72
91 23 0.28
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.21
Consensus pattern (91 bp):
GCTTGGCCGAATAGGGAGAGAACTCTTCATCTTGGCGCCTAAATAAACCACATGCAAGGCACATG
GGGGCTGGTCACATGCAAAACACATG
Found at i:1912877 original size:26 final size:26
Alignment explanation
Indices: 1912845--1912912 Score: 136
Period size: 26 Copynumber: 2.6 Consensus size: 26
1912835 AATGATCCTC
1912845 ATGCAAGGCACATGGGGGCTGGTCAT
1 ATGCAAGGCACATGGGGGCTGGTCAT
1912871 ATGCAAGGCACATGGGGGCTGGTCAT
1 ATGCAAGGCACATGGGGGCTGGTCAT
1912897 ATGCAAGGCACATGGG
1 ATGCAAGGCACATGGG
1912913 TGTTCTAGGA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 42 1.00
ACGTcount: A:0.25, C:0.19, G:0.38, T:0.18
Consensus pattern (26 bp):
ATGCAAGGCACATGGGGGCTGGTCAT
Found at i:1915014 original size:14 final size:15
Alignment explanation
Indices: 1914980--1915026 Score: 51
Period size: 14 Copynumber: 3.1 Consensus size: 15
1914970 AATTTGGAGT
1914980 GCAAAAGAAAGAAAA
1 GCAAAAGAAAGAAAA
*
1914995 GAAAAAG-AAGAAAA
1 GCAAAAGAAAGAAAA
*
1915009 TCAAAAGCAAAAGAAAA
1 GCAAAAG--AAAGAAAA
1915026 G
1 G
1915027 TGAAACAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
14 12 0.48
15 6 0.24
17 7 0.28
ACGTcount: A:0.72, C:0.06, G:0.19, T:0.02
Consensus pattern (15 bp):
GCAAAAGAAAGAAAA
Found at i:1915193 original size:15 final size:15
Alignment explanation
Indices: 1915171--1915209 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
1915161 ATTTTCTTAC
1915171 TATTTCATTTTTTTT
1 TATTTCATTTTTTTT
* *
1915186 TCTTTCATCTTTTTT
1 TATTTCATTTTTTTT
1915201 TATTTCATT
1 TATTTCATT
1915210 ACTTTATCTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.13, C:0.13, G:0.00, T:0.74
Consensus pattern (15 bp):
TATTTCATTTTTTTT
Found at i:1918858 original size:13 final size:13
Alignment explanation
Indices: 1918840--1918901 Score: 51
Period size: 13 Copynumber: 4.9 Consensus size: 13
1918830 AGATACTATT
1918840 TCCATCACCATAA
1 TCCATCACCATAA
* *
1918853 TCCATCTTCCATTA
1 TCCATC-ACCATAA
1918867 T-CA-CACC-TATA
1 TCCATCACCATA-A
*
1918878 T-CATCACCATAG
1 TCCATCACCATAA
1918890 TCCATCACCATA
1 TCCATCACCATA
1918902 TCACACCTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.15
12 6 0.15
13 20 0.51
14 6 0.15
ACGTcount: A:0.32, C:0.37, G:0.02, T:0.29
Consensus pattern (13 bp):
TCCATCACCATAA
Done.