Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.04
Sequence: scaffold1267
Parameters: 2 7 7 80 10 50 500
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 500
Length: 1050379
ACGTcount: A:0.28, C:0.15, G:0.14, T:0.28
Warning! 150710 characters in sequence are not A, C, G, or T
File 5 of 4
Found at i:854044 original size:23 final size:24
Alignment explanation
Indices: 854018--856177 Score: 409
Period size: 23 Copynumber: 94.0 Consensus size: 24
854008 CATTTTTGGA
*
854018 ATGCTGT-ATTAACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
*
854041 ATGCTGTTA-TCACCACTCTT-AT-
1 ATGCTGTCATTCACCACT-TTCATC
* *
854063 ACTGTTGT-AATCACCA-TTCTCATC
1 A-TGCTGTCATTCACCACTT-TCATC
* * * *
854087 CTGCTGTTA-TAACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* **
854110 ATGCTGTCA-TCA-CAATTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
*
854133 ATTCTGTCA-TCACCACTCTT-ATC
1 ATGCTGTCATTCACCACT-TTCATC
* *
854156 ATGCTGTCA-CCACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * * *
854179 ATGCTGTTA-TAACCAGTCTCAAC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
854202 ACGCTGTCA-CCACCACTCTCATT
1 ATGCTGTCATTCACCACTTTCATC
*
854225 ATGCTGTCA-CCACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
* **
854248 ATGCTGTCATT-ACCATTTTTGTC
1 ATGCTGTCATTCACCACTTTCATC
* *
854271 ATGTTGT-ATTAACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
854294 ATGCTGTGA--CAACCACTCTAATAACC
1 ATGCTGTCATTC-ACCACT-T--TCATC
* * * **
854320 ATTCTCATCATGCTGTCATCACAAT--TC
1 ATGCT-GTCA---T-TCACCACTTTCATC
* *
854347 TTGTCATTCCGTCA-TCACCACTCTCATC
1 ATG-C--T--GTCATTCACCACTTTCATC
* *
854375 ATGCTGTCA--CAATCACTCTCATC
1 ATGCTGTCATTC-ACCACTTTCATC
*
854398 ATGCTGTCATT-ACCACTATT-AGC
1 ATGCTGTCATTCACCACT-TTCATC
* * **
854421 CTGCTGT-AATCTTC-C--TCATC
1 ATGCTGTCATTCACCACTTTCATC
*
854441 ATGCTGTCATT-ACCATTTTCAT-
1 ATGCTGTCATTCACCACTTTCATC
*
854463 ATAACTGTCA-TCACCACTTTCATC
1 AT-GCTGTCATTCACCACTTTCATC
* * * *
854487 ATGCTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
854510 ACGCTGTCA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
*
854533 ACGCTGTCA-TCACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
** * * * *
854556 ATATTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
854579 ATACTGTCA-TCACCACTTTCATT
1 ATGCTGTCATTCACCACTTTCATC
* * * *
854602 ATGCTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
854625 ACGCTG--ATATCACCAATCTCATC
1 ATGCTGTCAT-TCACCACTTTCATC
*
854648 ACGCTGTCA-TCACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * **
854671 ATGCTGTTA-CCACCA-TTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * * * *
854694 ATGCTCT-TTTAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
854717 ACGCTGTCA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
854740 ATGCTGTCA-TCACTACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
854763 ATACTCTCGTT-ACCAC-TCCTATC
1 ATGCTGTCATTCACCACTTTC-ATC
* *
854786 ATGCAGTC-CTCACCACTCTT-ATC
1 ATGCTGTCATTCACCACT-TTCATC
**
854809 ATGCTGTCATT-ACCACTCCCATC
1 ATGCTGTCATTCACCACTTTCATC
* **
854832 ATGCTGTCA-TCA-CAATTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * *
854855 ATTCCGTCA-TCACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
854878 ATGCTGTCA--CAATCACTCTCATC
1 ATGCTGTCATTC-ACCACTTTCATC
*
854901 ATGCTGTCATT-ACCACTATT-AGC
1 ATGCTGTCATTCACCACT-TTCATC
* * * **
854924 CTGCTG-AAATCTTC-C--TCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
854944 ATGCTGCCATT-ACCATTTTCAT-
1 ATGCTGTCATTCACCACTTTCATC
* *
854966 ATAACTGTCA-TCACCACTCTCATC
1 AT-GCTGTCATTCACCACTTTCATC
* *
854990 ATGCTGTTA-TCACCA-TTCACATC
1 ATGCTGTCATTCACCACTT-TCATC
* *
855013 AAGCTGTCATATTCACC-C--TCACC
1 ATGCTGTC--ATTCACCACTTTCATC
*** **
855036 CCACTGTCA-TCA-TTC-TT-ATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
855056 ATGCAGTCA-CCACTACTCTT-AT-
1 ATGCTGTCATTCACCACT-TTCATC
** *
855078 ACTGCTGTCA-TCACTTCTTTCATT
1 A-TGCTGTCATTCACCACTTTCATC
* * *
855102 ATGCTGTTA-TAACCACTTTCTTC
1 ATGCTGTCATTCACCACTTTCATC
* *
855125 ATGCTGTCA-TAACCA-TCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* ** *
855147 ATGCTGTCA-TCACTA-TTCTTGTT
1 ATGCTGTCATTCACCACTT-TCATC
* * *
855170 ATGCTGTCA-TCACTA-TTCTTATT
1 ATGCTGTCATTCACCACTT-TCATC
**
855193 ATGCTGTCA-TCACCA-TTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * * *
855216 ATGCTATTA-TAACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855239 ATGCTGTCA-CCACTA-TTCTTAAC
1 ATGCTGTCATTCACCACTT-TCATC
*
855262 ATGTTGTCA-TCACCA--TTC-T-
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855281 -TGTCATGTCA-TAACCACTCTAATA
1 ATG-C-TGTCATTCACCACTTTCATC
* *
855305 ATGCTGTCA-TAACCA-TTCTTATC
1 ATGCTGTCATTCACCACTT-TCATC
* * * * *
855328 ATACTGTTA-TAACCACTCTCTTC
1 ATGCTGTCATTCACCACTTTCATC
* **
855351 ATGCTGTCA-TCACTA-TTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * *
855374 ATGCTGTTA-TAACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
855397 ATGCTGTCA-TAACCACTCTCTTC
1 ATGCTGTCATTCACCACTTTCATC
**
855420 ATGCTGTCA-TCACCA-TTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * * *
855443 ATGCTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855466 ACGCTGTTA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
855489 ACGCTGTCA-TCACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855512 ATGCTGTTA-TAAACACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* ** * *
855535 TTAATGTCATT-ACTACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * * **
855558 AAGCTGTTA-CCA-CAATTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * *
855581 ATGCTGTTA-TAACCAGTCTT-ATC
1 ATGCTGTCATTCACCACT-TTCATC
* * * *
855604 ACGCTATCA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
855627 ACGCTGCCA-TCACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855650 ATGCTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
855673 ACGCTGTCA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
*
855696 ACGCTGTCA-TCACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * * *
855719 ATACTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
855742 AAGCTGTCA-TCACCACTTTCATT
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855765 ATGCTGTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
855788 ACGCTGTCA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
855811 ACGCTGTTA-TCACCACTTTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * **
855834 ATGCTGTTA-CCACCA-TTCTTGTC
1 ATGCTGTCATTCACCACTT-TCATC
* * * * * *
855857 GTGCTCTTA-TAACCAGTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * *
855880 ACGCTGTCA-TCACCAATCTCATC
1 ATGCTGTCATTCACCACTTTCATC
*
855903 ATGCTGTCA-TCACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* * * *
855926 ATACTCTCGTT-ACCAC-TCCTATC
1 ATGCTGTCATTCACCACTTTC-ATC
* * *
855949 ATGCAGTC-CTCACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
**
855972 ATGCTGTCATT-ACCACTCCCATC
1 ATGCTGTCATTCACCACTTTCATC
855995 ATGCTGTCA-TCACCACTCTT-ATC
1 ATGCTGTCATTCACCACT-TTCATC
*
856018 ATGCTGTCATT-ACCACTCTCATC
1 ATGCTGTCATTCACCACTTTCATC
* ** *
856041 AAGCAATC-TTCACCA-TTCTCTTC
1 ATGCTGTCATTCACCACTT-TCATC
* * *
856064 ATGCTGTCGTT-ATCAC-TCCTATC
1 ATGCTGTCATTCACCACTTTC-ATC
* **
856087 ATGCTGTC-CTCACCACTCCCATC
1 ATGCTGTCATTCACCACTTTCATC
* *
856110 ATGCTGTCATT-ACCACTCTCTTC
1 ATGCTGTCATTCACCACTTTCATC
* *
856133 ACGCTGTCA-TCACCACTTTCTTC
1 ATGCTGTCATTCACCACTTTCATC
* *
856156 ATGCTTTCA-TCACCACTCTCAT
1 ATGCTGTCATTCACCACTTTCAT
856178 TATACTGGTC
Statistics
Matches: 1592, Mismatches: 413, Indels: 264
0.70 0.18 0.12
Matches are distributed among these distances:
18 2 0.00
19 2 0.00
20 40 0.03
21 11 0.01
22 77 0.05
23 1368 0.86
24 44 0.03
25 8 0.01
26 19 0.01
27 5 0.00
28 5 0.00
29 1 0.00
30 1 0.00
31 4 0.00
32 4 0.00
33 1 0.00
ACGTcount: A:0.24, C:0.33, G:0.09, T:0.35
Consensus pattern (24 bp):
ATGCTGTCATTCACCACTTTCATC
Found at i:854086 original size:46 final size:46
Alignment explanation
Indices: 853988--856538 Score: 1018
Period size: 46 Copynumber: 55.3 Consensus size: 46
853978 CTCACCATGC
* * * *** *
853988 TCTCATCATGCTGTTATTACCATTTTTGGAATGCTGT-ATTAACCACT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCA-TCACCA-T
* * *
854035 T-TCATCATGCTGTTATCACCACTCTTAT-ACTGTTGTAATCACCAT
1 TCTCATCATGCTGTTATAACCACTCTTATCA-TGCTGTCATCACCAT
* * *
854080 TCTCATCCTGCTGTTATAACCACTCTCATCATGCTGTCATCACAAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
** * * * * *
854126 TCTTGTCATTCTGTCATCACCACTCTTATCATGCTGTCACCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
854172 TCTCATCATGCTGTTATAACCAGTCTCAACACGCTGTCACCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * ** *
854218 TCTCATTATGCTGTCACCACCACT-TTCATCATGCTGTCATTACCAT
1 TCTCATCATGCTGTTATAACCACTCTT-ATCATGCTGTCATCACCAT
* ** *
854264 TTTTGTCATGTTG-TATTAACCACT-TTCATCATGCTGTGACAACCACTCTAATAACCAT
1 TCTCATCATGCTGTTA-TAACCACTCTT-ATCATGCTGT------CA-TC-----ACCAT
* * * * * * * *
854322 TCTCATCATGCTGTCATCACAATTCTTGTCATTCCGTCATCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
854368 TCTCATCATGCTGTCACAATCACTCTCATCATGCTGTCATTACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * ** * *
854414 TATTAGCCTGCTG-TA-ATCTTC-CTCATCATGCTGTCATTACCAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * *
854457 TTTCAT-ATAACTGTCATCACCACT-TTCATCATGCTGTTATAACCAG
1 TCTCATCAT-GCTGTTATAACCACTCTT-ATCATGCTGTCATCACCAT
* * * * * *
854503 TCTCATCACGCTGTCATCACCAATCTCATCACGCTGTCATCACCACT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCA-T
** * * *
854550 T-TCATCATATTGTTATAACCAGTCTCATCATACTGTCATCACCACT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCA-T
* * * * *
854596 T-TCATTATGCTGTTATAACCAGTCTCATCACGCTGAT-ATCACCAA
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTG-TCATCACCAT
* * * * *
854641 TCTCATCACGCTGTCATCACCACT-TTCATCATGCTGTTACCACCAT
1 TCTCATCATGCTGTTATAACCACTCTT-ATCATGCTGTCATCACCAT
** * * * * * *
854687 TCTTGTCATGCTCTTTTAACCAGTCTCATCACGCTGTCATCACCAA
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * * * *
854733 TCTCATCATGCTGTCATCACTACTCTCATCATACTCTCGTTACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* ** * * *
854779 TC-CTATCATGCAGTCCTCACCACTCTTATCATGCTGTCATTACCAC
1 TCTC-ATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * * * *
854825 TCCCATCATGCTGTCATCACAATTCTTGTCATTCCGTCATCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
854871 TCTCATCATGCTGTCACAATCACTCTCATCATGCTGTCATTACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * * * *
854917 TATTAGCCTGCTG--A-AATC-TTCCTCATCATGCTGCCATTACCAT
1 TCTCATCATGCTGTTATAACCACT-CTTATCATGCTGTCATCACCAT
* * * * * *
854960 TTTCAT-ATAACTGTCATCACCACTCTCATCATGCTGTTATCACCAT
1 TCTCATCAT-GCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * ** * * * ***
855006 TCACATCAAGCTGTCATATTCACCCTCACCCCACTGTCAT---CAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * ** *
855049 TCTTATCATGCAGTCACCACTACTCTTAT-ACTGCTGTCATCA-C-T
1 TCTCATCATGCTGTTATAACCACTCTTATCA-TGCTGTCATCACCAT
* * *
855093 TCTTTCATTATGCTGTTATAACCACT-TTCTTCATGCTGTCATAACCA-
1 TC--TCATCATGCTGTTATAACCACTCTT-ATCATGCTGTCATCACCAT
* * * * * * *
855140 TCTCATCATGCTGTCATCACTATTCTTGTTATGCTGTCATCACTAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * * * * *
855186 TCTTATTATGCTGTCATCACCATTCTTGTCATGCTATTATAACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* ** * * * *
855232 TCTCATCATGCTGTCACCACTATTCTTAACATGTTGTCATCACCAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
** * * * *
855278 TCTTGTCA---TGTCATAACCACTCTAATAATGCTGTCATAACCAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * *
855321 TCTTATCATACTGTTATAACCACTCTCT-TCATGCTGTCATCACTAT
1 TCTCATCATGCTGTTATAACCACTCT-TATCATGCTGTCATCACCAT
** * * *
855367 TCTTGTCATGCTGTTATAACCACTCTCATCATGCTGTCATAACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * * *
855413 TCTCTTCATGCTGTCATCACCATTCTTGTCATGCTGTTATAACCAG
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
855459 TCTCATCACGCTGTTATCACCAATCTCATCACGCTGTCATCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * ** * * *
855505 TCTCATCATGCTGTTATAAACACTCTCATCTTAATGTCATTACTAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* ** * * * * * *
855551 TCTCATCAAGCTGTTACCACAATTCTTGTCATGCTGTTATAACCAG
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * * * *
855597 TCTTATCACGCTATCATCACCAATCTCATCACGCTGCCATCACCACT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCA-T
* * * *
855644 T-TCATCATGCTGTTATAACCAGTCTCATCACGCTGTCATCACCAA
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * * *
855689 TCTCATCACGCTGTCATCACCACT-TTCATCATACTGTTATAACCAG
1 TCTCATCATGCTGTTATAACCACTCTT-ATCATGCTGTCATCACCAT
* * * * * * *
855735 TCTCATCAAGCTGTCATCACCACT-TTCATTATGCTGTTATAACCAG
1 TCTCATCATGCTGTTATAACCACTCTT-ATCATGCTGTCATCACCAT
* * * * * * *
855781 TCTCATCACGCTGTCATCACCAATCTCATCACGCTGTTATCACCACT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCA-T
** * * * * * * *
855828 T-TCATCATGCTGTTACCACCATTCTTGTCGTGCTCTTATAACCAG
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
855873 TCTCATCACGCTGTCATCACCAATCTCATCATGCTGTCATCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * ** * * * * *
855919 TCTCATCATACTCTCGTTACCACTCCTATCATGCAGTCCTCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * ** *
855965 TCTCATCATGCTGTCATTACCACTCCCATCATGCTGTCATCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * ** *
856011 TCTTATCATGCTGTCATTACCACTCTCATCAAGCAATCTTCACCAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* ** * * * * *
856057 TCTCTTCATGCTGTCGTTATCACTCCTATCATGCTGTCCTCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * *
856103 TCCCATCATGCTGTCATTACCACTCTCT-TCACGCTGTCATCACCACT
1 TCTCATCATGCTGTTATAACCACTCT-TATCATGCTGTCATCACCA-T
* * * * *
856150 T-TCTTCATGCT-TTCATCACCACTCTCATTATACTGGTCATACACTGCAT
1 TCTCATCATGCTGTT-ATAACCACTCTTATCATGCT-GTCAT-CAC--CAT
** * * * * * * ** *
856199 AGTAAT-ATGCTCTCATAACCACCCTCAGCGCGATGTCATCATCCTTAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCA-CC--AT
* * *
856247 CATGCAGTCACCATGCTGTCATAACCACTCTTAT-ACTGCTGTCATAACCAT
1 --T-C--TCATCATGCTGTTATAACCACTCTTATCA-TGCTGTCATCACCAT
** * ** *
856298 TCTTGTCATGCTG-TATAACCACTCTCATCATGCCCTCATCATCAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
** * * * ** *
856343 TCTCATCACACTGTCATTACAACTCCCATCATGCTGTCATCACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
856389 TCTTATCACGCTGTCATCACCACTCTCATCATGCTGTCATCACAAT
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * ** * * * *
856435 TCTCATCATGCTGTTATAAACACTC--ATCTTATTTTCGTTACCAC
1 TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
* * * * * *
856479 TCTTATCAAGCTGTTACCAA-CACTCTCATCATGCTGTCATCATCAC
1 TCTCATCATGCTGTTA-TAACCACTCTTATCATGCTGTCATCACCAT
*
856525 TCTCATAATGCTGT
1 TCTCATCATGCTGT
856539 CCTCACCCAT
Statistics
Matches: 1889, Mismatches: 526, Indels: 179
0.73 0.20 0.07
Matches are distributed among these distances:
42 3 0.00
43 117 0.06
44 37 0.02
45 87 0.05
46 1514 0.80
47 27 0.01
48 12 0.01
49 19 0.01
50 5 0.00
51 4 0.00
52 4 0.00
53 5 0.00
54 26 0.01
58 26 0.01
59 3 0.00
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.35
Consensus pattern (46 bp):
TCTCATCATGCTGTTATAACCACTCTTATCATGCTGTCATCACCAT
Found at i:854100 original size:69 final size:69
Alignment explanation
Indices: 854018--856538 Score: 755
Period size: 69 Copynumber: 36.4 Consensus size: 69
854008 CATTTTTGGA
* *
854018 ATGCTGT-ATTAACCACTTTCATCATGCTGTTATCACCACTCTTAT-ACTGT-TGTAATCACCAT
1 ATGCTGTCA-TAACCACTCTCATCATGCTGTTATCACCACTCTTATCA-T-TCTGTAATCACCAC
854080 TCTCATC
63 TCTCATC
* * * * * * *
854087 CTGCTGTTATAACCACTCTCATCATGCTGTCATCACAATTCTTGTCATTCTGTCATCACCACTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
*
854152 TATC
66 CATC
** * * * * ** * *
854156 ATGCTGTCACCACCACTCTCATCATGCTGTTATAACCAGTCTCAACACGCTGTCACCACCACTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
*
854221 CATT
66 CATC
** * * * * * * * * *
854225 ATGCTGTCACCACCACTTTCATCATGCTGTCATTACCATTTTTGTCATGT-TGTATTAACCACTT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCAT-TCTGTAATCACCACTC
854289 TCATC
65 TCATC
* * * * * *
854294 ATGCTGTGACAACCACTCTAATAACCATTCTCATCATGCTGTCATCACAATTCTTGTCATTCCGT
1 ATGC--TG--------TC--ATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGT
*
854359 CATCACCACTCTCATC
54 AATCACCACTCTCATC
* * * * * * * * **
854375 ATGCTGTCACAATCACTCTCATCATGCTGTCATTACCACTATTAGCCTGCTGTAAT--CTTC-CT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
854437 CATC
66 CATC
* * * * * * * * *
854441 ATGCTGTCATTACCATTTTCAT-ATAACTGTCATCACCACT-TTCATCATGCTGTTATAACCAGT
1 ATGCTGTCATAACCACTCTCATCAT-GCTGTTATCACCACTCTT-ATCATTCTGTAATCACCACT
854504 CTCATC
64 CTCATC
* * * * * * * *
854510 ACGCTGTCATCACCAATCTCATCACGCTGTCATCACCACT-TTCATCATAT-TGTTATAACCAGT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTT-ATCAT-TCTGTAATCACCACT
854573 CTCATC
64 CTCATC
* * * * * * * ** *
854579 ATACTGTCATCACCACTTTCATTATGCTGTTATAACCAGTCTCATCACGCTG-ATATCACCAATC
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTA-ATCACCACTC
854643 TCATC
65 TCATC
* * * * * * * * ** * *
854648 ACGCTGTCATCACCACTTTCATCATGCTGTTACCACCATTCTTGTCATGCTCTTTTAACCAGTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
854713 CATC
66 CATC
* * * * * * * * ** *
854717 ACGCTGTCATCACCAATCTCATCATGCTGTCATCACTACTCTCATCATACTCTCGTTACCACTC-
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
854781 CTATC
66 C-ATC
* * * * * * ** * * * *
854786 ATGCAGTCCTCACCACTCTTATCATGCTGTCATTACCACTCCCATCATGCTGTCATCACAATTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
**
854851 TGTC
66 CATC
* * * * * * * * * *
854855 ATTCCGTCATCACCACTCTCATCATGCTGTCA-CAATCACTCTCATCATGCTGTCATTACCACTA
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATC-ACCACTCTTATCATTCTGTAATCACCACTC
* *
854919 TTAGC
65 TCATC
* * * ** * *
854924 CTGCTG--A-AATC-TTCCTCATCATGCTGCCATTACCA-T-TT-TCATATAACTGTCATCACCA
1 ATGCTGTCATAACCACT-CTCATCATGCTGTTATCACCACTCTTATCAT-T--CTGTAATCACCA
854982 CTCTCATC
62 CTCTCATC
* * * * * * *** * *
854990 ATGCTGTTATCACCATTCACATCAAGCTGTCATATTCACC-CTC--ACCCCACTG---TCATCAT
1 ATGCTGTCATAACCACTCTCATCATGCTGT--TA-TCACCACTCTTATCATTCTGTAATCACCAC
*
855049 TCTTATC
63 TCTCATC
* ** * * * ** * * * *
855056 ATGCAGTCACCACTACTCTTAT-ACTGCTGTCATCACTTCT-TTCATTATGCTGTTATAACCACT
1 ATGCTGTCATAACCACTCTCATCA-TGCTGTTATCACCACTCTT-ATCATTCTGTAATCACCACT
* *
855119 TTCTTC
64 CTCATC
* * * * * * * * *
855125 ATGCTGTCATAACCA-TCTCATCATGCTGTCATCACTATTCTTGTTATGCTGTCATCACTATTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
* *
855189 TATT
66 CATC
* * ** * * * * * * * *
855193 ATGCTGTCATCACCATTCTTGTCATGCTATTATAACCACTCTCATCATGCTGTCACCACTATTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
* *
855258 TAAC
66 CATC
* * * ** * * * * * * * *
855262 ATGTTGTCATCACCATTCTTGTCA---TGTCATAACCACTCTAATAATGCTGTCATAACCATTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
*
855324 TATC
66 CATC
* * * * * * * * * *
855328 ATACTGTTATAACCACTCTCTTCATGCTGTCATCACTATTCTTGTCATGCTGTTATAACCACTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
855393 CATC
66 CATC
* * * * * * * *
855397 ATGCTGTCATAACCACTCTCTTCATGCTGTCATCACCATTCTTGTCATGCTGTTATAACCAGTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
855462 CATC
66 CATC
* * * * * * * * * * *
855466 ACGCTGTTATCACCAATCTCATCACGCTGTCATCACCACTCTCATCATGCTGTTATAAACACTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
855531 CATC
66 CATC
* ** * * * * * * * * * * *
855535 TTAATGTCATTACTACTCTCATCAAGCTGTTACCACAATTCTTGTCATGCTGTTATAACCAGTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
*
855600 TATC
66 CATC
* * * * * ** * * * *
855604 ACGCTATCATCACCAATCTCATCACGCTGCCATCACCACT-TTCATCATGCTGTTATAACCAGTC
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTT-ATCATTCTGTAATCACCACTC
855668 TCATC
65 TCATC
* * * * * * * * *
855673 ACGCTGTCATCACCAATCTCATCACGCTGTCATCACCACT-TTCATCATACTGTTATAACCAGTC
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTT-ATCATTCTGTAATCACCACTC
855737 TCATC
65 TCATC
* * * * * * * ** * *
855742 AAGCTGTCATCACCACTTTCATTATGCTGTTATAACCAGTCTCATCACGCTGTCATCACCAATCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
855807 CATC
66 CATC
* * * * * * * * * * * * *
855811 ACGCTGTTATCACCACTTTCATCATGCTGTTACCACCATTCTTGTCGTGCTCTTATAACCAGTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
855876 CATC
66 CATC
* * * * * * * ** *
855880 ACGCTGTCATCACCAATCTCATCATGCTGTCATCACCACTCTCATCATACTCTCGTTACCACTC-
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
855944 CTATC
66 C-ATC
* * * * * ** * *
855949 ATGCAGTCCTCACCACTCTCATCATGCTGTCATTACCACTCCCATCATGCTGTCATCACCACTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
*
856014 TATC
66 CATC
* * ** * * ** * *
856018 ATGCTGTCATTACCACTCTCATCAAGCAATCT-TCACCATTCTCT-TCATGCTGTCGTTATCACT
1 ATGCTGTCATAACCACTCTCATCATGCTGT-TATCACCACTCT-TATCATTCTGTAATCACCACT
856081 C-CTATC
64 CTC-ATC
* * * * * ** * *
856087 ATGCTGTCCTCACCACTCCCATCATGCTGTCATTACCACTCTCT-TCACGCTGTCATCACCACTT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCT-TATCATTCTGTAATCACCACTC
*
856151 TCTTC
65 TCATC
* * * * * * * * * *
856156 ATGCTTTCATCACCACTCTCATTATACTGGTCAT-A-CACTGCATAGTAATATGCTCTCATAACC
1 ATGCTGTCATAACCACTCTCATCATGCT-GTTATCACCACT-CTTA-TCAT-T-CTGTAATCACC
* *
856219 ACCCTCAGC
61 ACTCTCATC
** * * * * * * *
856228 GCGATGTCATCATCCTTATCATGCAGTCACCATGCTGTCATAACCACTCTTAT-ACTGCTGTCAT
1 ATGCTGTCAT-AACC--A-C-T-C--TCATCATGCTGTTATCACCACTCTTATCA-TTCTGTAAT
* * **
856292 AACCATTCTTGTC
57 CACCACTCTCATC
** * * * * ** * * * *
856305 ATGCTGT-ATAACCACTCTCATCATGCCCTCATCATCATTCTCATCACACTGTCATTACAACTCC
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
856369 CATC
66 CATC
* * * * * * * * *
856373 ATGCTGTCATCACCACTCTTATCACGCTGTCATCACCACTCTCATCATGCTGTCATCACAATTCT
1 ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
856438 CATC
66 CATC
* * * * * ** * * *
856442 ATGCTGTTATAAACACTCATC-TTAT--T-TTCGTTACCACTCTTATCAAGCTGTTACCAACACT
1 ATGCTGTCATAACCACTC-TCATCATGCTGTT-ATCACCACTCTTATCATTCTGTAATCACCACT
856503 CTCATC
64 CTCATC
* * *
856509 ATGCTGTCATCATCACTCTCATAATGCTGT
1 ATGCTGTCATAACCACTCTCATCATGCTGT
856539 CCTCACCCAT
Statistics
Matches: 1875, Mismatches: 483, Indels: 187
0.74 0.19 0.07
Matches are distributed among these distances:
63 8 0.00
64 4 0.00
65 7 0.00
66 175 0.09
67 51 0.03
68 103 0.05
69 1367 0.73
70 18 0.01
71 6 0.00
72 27 0.01
73 3 0.00
75 4 0.00
76 3 0.00
77 19 0.01
78 2 0.00
79 11 0.01
80 12 0.01
81 55 0.03
ACGTcount: A:0.24, C:0.32, G:0.09, T:0.34
Consensus pattern (69 bp):
ATGCTGTCATAACCACTCTCATCATGCTGTTATCACCACTCTTATCATTCTGTAATCACCACTCT
CATC
Found at i:854378 original size:81 final size:81
Alignment explanation
Indices: 854243--854393 Score: 198
Period size: 81 Copynumber: 1.9 Consensus size: 81
854233 ACCACCACTT
* * * * * *
854243 TCATCATGCTGTCATTACCATTTTTGTCATGTTGTATTAACCACTTTCATCATGCTGTGACAACC
1 TCATCATGCTGTCATCACAATTCTTGTCATGTCGTATTAACCACTCTCATCATGCTGTCACAACC
854308 ACTCTAATAACCATTC
66 ACTCTAATAACCATTC
*
854324 TCATCATGCTGTCATCACAATTCTTGTCAT-TCCGTCA-TCACCACTCTCATCATGCTGTCACAA
1 TCATCATGCTGTCATCACAATTCTTGTCATGT-CGT-ATTAACCACTCTCATCATGCTGTCACAA
*
854387 TCACTCT
64 CCACTCT
854394 CATCATGCTG
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
80 1 0.02
81 58 0.97
82 1 0.02
ACGTcount: A:0.25, C:0.30, G:0.09, T:0.36
Consensus pattern (81 bp):
TCATCATGCTGTCATCACAATTCTTGTCATGTCGTATTAACCACTCTCATCATGCTGTCACAACC
ACTCTAATAACCATTC
Found at i:856290 original size:23 final size:23
Alignment explanation
Indices: 856258--856539 Score: 160
Period size: 23 Copynumber: 12.4 Consensus size: 23
856248 ATGCAGTCAC
856258 CATGCTGTCATAACCACTCTTAT
1 CATGCTGTCATAACCACTCTTAT
* *
856281 -ACTGCTGTCATAACCATTCTTGT
1 CA-TGCTGTCATAACCACTCTTAT
*
856304 CATGCTGT-ATAACCACTCTCAT
1 CATGCTGTCATAACCACTCTTAT
** * * * *
856326 CATGCCCTCATCATCATTCTCAT
1 CATGCTGTCATAACCACTCTTAT
** * * **
856349 CACACTGTCATTACAACTCCCAT
1 CATGCTGTCATAACCACTCTTAT
*
856372 CATGCTGTCATCACCACTCTTAT
1 CATGCTGTCATAACCACTCTTAT
* * *
856395 CACGCTGTCATCACCACTCTCAT
1 CATGCTGTCATAACCACTCTTAT
* * * *
856418 CATGCTGTCATCACAATTCTCAT
1 CATGCTGTCATAACCACTCTTAT
* *
856441 CATGCTGTTATAAACACTC--AT
1 CATGCTGTCATAACCACTCTTAT
* ** * * *
856462 CTTATTTTCGTTACCACTCTTAT
1 CATGCTGTCATAACCACTCTTAT
* * * *
856485 CAAGCTGTTACCAA-CACTCTCAT
1 CATGCTGTCA-TAACCACTCTTAT
* * *
856508 CATGCTGTCATCATCACTCTCAT
1 CATGCTGTCATAACCACTCTTAT
*
856531 AATGCTGTC
1 CATGCTGTC
856540 CTCACCCATC
Statistics
Matches: 194, Mismatches: 58, Indels: 14
0.73 0.22 0.05
Matches are distributed among these distances:
21 13 0.07
22 19 0.10
23 160 0.82
24 2 0.01
ACGTcount: A:0.25, C:0.33, G:0.09, T:0.34
Consensus pattern (23 bp):
CATGCTGTCATAACCACTCTTAT
Found at i:856926 original size:2 final size:2
Alignment explanation
Indices: 856919--856985 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
856909 ATCAAACATT
856919 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
856961 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
856986 CGCGAGTATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:858103 original size:50 final size:50
Alignment explanation
Indices: 858044--858709 Score: 1005
Period size: 50 Copynumber: 13.0 Consensus size: 50
858034 CCAGGACAAC
*
858044 AGTACATATAGCAGTAGATCTAC-TTTCAGCAGTAACAGTATTTAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTT-ATCAGTAACAGTATTTAAGGAGT
*
858094 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTCAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
*
858144 GGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
*
858194 AGTACATACAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
*
858244 AGTACATATAGCAGTAGATCTAC-TCTTATCAATAACAGTATTTAAGGAGT
1 AGTACATATAGCAGTAGATCTACAT-TTATCAGTAACAGTATTTAAGGAGT
*
858294 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAATATTTAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
* * *
858344 GGTACATATAGTAGTAGATCTACATTTATCAGTAACAGTATTTAGGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
*
858394 AGTACATATAGCAGTAGATCTAC-TCTTATCCGTAACAGTATTTAGGAGTATTAAGGAGT
1 AGTACATATAGCAGTAGATCTACAT-TTATCAGTAACAG----T---A-T-TTAAGGAGT
* *
858453 AGTACATATAGTAGTAGATCTACATTTATCAGTAACAGTATTCAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
*
858503 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAATGAAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAA-GGAGT
*
858554 AGTACAGATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
858604 AGTACATATAGCAGTAGATCTACAATATACATTTATCAGTAACAGTATTTAAGGAGT
1 AGTACATATAGCAGTAGA--T-C----TACATTTATCAGTAACAGTATTTAAGGAGT
858661 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAG
1 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAG
858710 GCTATGTGAT
Statistics
Matches: 567, Mismatches: 27, Indels: 44
0.89 0.04 0.07
Matches are distributed among these distances:
49 2 0.00
50 412 0.73
51 53 0.09
52 2 0.00
53 1 0.00
54 2 0.00
55 2 0.00
57 49 0.09
58 1 0.00
59 42 0.07
60 1 0.00
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (50 bp):
AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGT
Found at i:858462 original size:59 final size:60
Alignment explanation
Indices: 858389--858503 Score: 180
Period size: 59 Copynumber: 1.9 Consensus size: 60
858379 CAGTATTTAG
* *
858389 GGAGTAGTACATATAGCAGTAGATCTAC-TCTTATCCGTAACAGTATT-TAGGAGTATTAA
1 GGAGTAGTACATATAGCAGTAGATCTACAT-TTATCAGTAACAGTATTCAAGGAGTATTAA
*
858448 GGAGTAGTACATATAGTAGTAGATCTACATTTATCAGTAACAGTATTCAAGGAGTA
1 GGAGTAGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTCAAGGAGTA
858504 GTACATATAG
Statistics
Matches: 51, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 43 0.84
60 8 0.16
ACGTcount: A:0.36, C:0.12, G:0.21, T:0.31
Consensus pattern (60 bp):
GGAGTAGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTCAAGGAGTATTAA
Found at i:858536 original size:159 final size:159
Alignment explanation
Indices: 858280--858709 Score: 613
Period size: 159 Copynumber: 2.7 Consensus size: 159
858270 TATCAATAAC
* *
858280 AGTATTTAAGGAGTAGTACATATAGCAGTAGATCTACATTTATCAGTAACAATATTTAAGGAGTG
1 AGTA-TTAAGGAGTAGTACATATAG-AGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGTA
* * *
858345 GTACATATAGTAGTAGATCTACATTTATCAGTAACAGTATTTAGGGAGTAGTACATATAGCAGTA
64 GTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGTAGTACAGATAGCAGTA
*
858410 GATCTAC-TCTTATCCGTAACAGTATTT-AGG
129 GATCTACAT-TTATCAGTAACAGTATTTAAGG
*
858440 AGTATTAAGGAGTAGTACATATAGTAGTAGATCTACATTTATCAGTAACAGTATTCAAGGAGTAG
1 AGTATTAAGGAGTAGTACATATAG-AGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGTAG
*
858505 TACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAATGAAGTAGTACAGATAGCAGTA
65 TACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAA-GGAGTAGTACAGATAGCAGTA
858570 GATCTACATTTATCAGTAACAGTATTTAAGG
129 GATCTACATTTATCAGTAACAGTATTTAAGG
* * * * * *
858601 AGTAGT-A-CA-TA-TAGCA-GTAGATCTACAATATACATTTATCAGTAACAGTATTTAAGGAGT
1 AGTATTAAGGAGTAGTA-CATATAGA-GTA-GATCTACATTTATCAGTAACAGTATTTAAGGAGT
858661 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAG
63 AGTACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAG
858710 GCTATGTGAT
Statistics
Matches: 247, Mismatches: 17, Indels: 15
0.89 0.06 0.05
Matches are distributed among these distances:
156 1 0.00
157 10 0.04
158 80 0.32
159 99 0.40
160 48 0.19
161 9 0.04
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.32
Consensus pattern (159 bp):
AGTATTAAGGAGTAGTACATATAGAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGTAGT
ACATATAGCAGTAGATCTACATTTATCAGTAACAGTATTTAAGGAGTAGTACAGATAGCAGTAGA
TCTACATTTATCAGTAACAGTATTTAAGG
Found at i:858619 original size:32 final size:32
Alignment explanation
Indices: 858583--858676 Score: 96
Period size: 32 Copynumber: 3.2 Consensus size: 32
858573 CTACATTTAT
858583 CAGTAACAGTATTTAAGGAGTAGTACATATAG
1 CAGTAACAGTATTTAAGGAGTAGTACATATAG
* * *
858615 CAGT---AG-ATCTACA--A-TA-TACATTTAT
1 CAGTAACAGTATTTA-AGGAGTAGTACATATAG
858640 CAGTAACAGTATTTAAGGAGTAGTACATATAG
1 CAGTAACAGTATTTAAGGAGTAGTACATATAG
858672 CAGTA
1 CAGTA
858677 GATCTACATT
Statistics
Matches: 47, Mismatches: 6, Indels: 18
0.66 0.08 0.25
Matches are distributed among these distances:
25 11 0.23
26 2 0.04
27 1 0.02
28 7 0.15
29 7 0.15
30 1 0.02
31 2 0.04
32 16 0.34
ACGTcount: A:0.40, C:0.12, G:0.18, T:0.30
Consensus pattern (32 bp):
CAGTAACAGTATTTAAGGAGTAGTACATATAG
Found at i:860271 original size:29 final size:29
Alignment explanation
Indices: 860245--860336 Score: 105
Period size: 29 Copynumber: 3.2 Consensus size: 29
860235 ATATTAGGTA
**
860245 TAGTTATTGTTCATTGTGTACACTAGGAC
1 TAGTTATTGTTCAAAGTGTACACTAGGAC
* * *
860274 TTGTTATTGTTGAAAGTGTACACTACGAC
1 TAGTTATTGTTCAAAGTGTACACTAGGAC
* * *
860303 TTGTTATTGTTGAAAGTGTACACTA-GCC
1 TAGTTATTGTTCAAAGTGTACACTAGGAC
860331 TAGTTA
1 TAGTTA
860337 GGAATAGTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
28 7 0.12
29 49 0.88
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (29 bp):
TAGTTATTGTTCAAAGTGTACACTAGGAC
Found at i:860376 original size:29 final size:29
Alignment explanation
Indices: 860334--860522 Score: 236
Period size: 29 Copynumber: 6.5 Consensus size: 29
860324 ACTAGCCTAG
*
860334 TTAGGAATAGTTATTGTTGAAAATGTACA
1 TTAGGAATAGTTATTGTTGAAAGTGTACA
* *
860363 TTAGGAATAGTTATTATTGAAAGGGTACA
1 TTAGGAATAGTTATTGTTGAAAGTGTACA
* * *
860392 CTAGGAAAACTTATTGTT-AAATGTGTACA
1 TTAGGAATAGTTATTGTTGAAA-GTGTACA
* *
860421 CTAGCAATAGTTATTGTTGAAAGTGTACA
1 TTAGGAATAGTTATTGTTGAAAGTGTACA
* *
860450 TTAGGAATAGTTATTGTTGAATGTGTGCA
1 TTAGGAATAGTTATTGTTGAAAGTGTACA
* * *
860479 TTAGGAATAGTTATTTTTGAATGTGAACA
1 TTAGGAATAGTTATTGTTGAAAGTGTACA
*
860508 CTAGGAATAGTTATT
1 TTAGGAATAGTTATT
860523 TATTAGAAAT
Statistics
Matches: 139, Mismatches: 19, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
28 3 0.02
29 133 0.96
30 3 0.02
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.38
Consensus pattern (29 bp):
TTAGGAATAGTTATTGTTGAAAGTGTACA
Found at i:860430 original size:58 final size:58
Alignment explanation
Indices: 860344--860885 Score: 249
Period size: 58 Copynumber: 9.6 Consensus size: 58
860334 TTAGGAATAG
* *
860344 TTATTGTTGAAA-ATGTACATTAGGAATAGTTATTATTGAAAGGGTACACTAGGAAAAC
1 TTATTGTT-AAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* * * * * *
860402 TTATTGTTAAATGTGTACACTAGCAATAGTTATTGTTGAAAGTGTACATTAGGAATAG
1 TTATTGTTAAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* * * * *
860460 TTATTGTTGAATGTGTGCATTAGGAATAGTTATTTTTGAATGTGAACACTAGG--AA-
1 TTATTGTTAAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* * * * * * * *
860515 -TA--GTT--AT-T-T--ATTAGAAATATTTATTGTTGAATGTGTACATTAAGAATAT
1 TTATTGTTAAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* ** * * * * * * * * * *
860564 TTATTATTGGATGTGTTA-AATAGGAATAGATCTTGTTGAATGTGTACTCCAGCAATAG
1 TTATTGTTAAATGTG-TACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* * * * * * * *
860622 TTATTGTTGAACT-TGTACACTAGGACTTGTTATTGTTCAATGTGTTCACTAGGAATAA-
1 TTATTGTT-AAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAA-AAC
* * ** * * * * * * *
860680 TTATTGTTGAATGTGTACACTAAAAATATTTATTGTTGAATGTGTACATTAAGAATAG
1 TTATTGTTAAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* * * * * * *
860738 TTATTAATGAAA-GTGTACATTAGGAATAGTTATTGTTGAATGTGTACATTAGGAATAG
1 TTATT-GTTAAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
* * * * * ** * * *
860796 TTATTGTTGAATGTGTACACTAGCAAAAGTTATTGTT-AAATGTGTA-TTTAGCAATAG
1 TTATTGTTAAATGTGTACATTAGGAATAGTTATTATTGAAA-GTGTACACTAGGAAAAC
* *
860853 TTATTGTTGAATGTATACATTAGGAATAGTTAT
1 TTATTGTTAAATGTGTACATTAGGAATAGTTAT
860886 AGCTGATTTT
Statistics
Matches: 379, Mismatches: 84, Indels: 43
0.75 0.17 0.08
Matches are distributed among these distances:
46 29 0.08
48 2 0.01
49 1 0.00
50 4 0.01
52 5 0.01
54 4 0.01
55 1 0.00
56 1 0.00
57 52 0.14
58 275 0.73
59 5 0.01
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (58 bp):
TTATTGTTAAATGTGTACATTAGGAATAGTTATTATTGAAAGTGTACACTAGGAAAAC
Found at i:860485 original size:87 final size:87
Alignment explanation
Indices: 860339--860522 Score: 260
Period size: 87 Copynumber: 2.1 Consensus size: 87
860329 CCTAGTTAGG
860339 AATAGTTATTGTTGAAAATGTACATTAGGAATAGTTATTATTGAAAGGGTACACTAGGAAAACTT
1 AATAGTTATTGTTGAAAATGTACATTAGGAATAGTTATTATTGAAAGGGTACACTAGGAAAACTT
*
860404 ATTGTTAAATGTGTACACTAGC
66 ATTGTTAAATGTGAACACTAGC
* * * * * * * *
860426 AATAGTTATTGTTGAAAGTGTACATTAGGAATAGTTATTGTTGAATGTGTGCATTAGGAATAGTT
1 AATAGTTATTGTTGAAAATGTACATTAGGAATAGTTATTATTGAAAGGGTACACTAGGAAAACTT
* * *
860491 ATTTTTGAATGTGAACACTAGG
66 ATTGTTAAATGTGAACACTAGC
860513 AATAGTTATT
1 AATAGTTATT
860523 TATTAGAAAT
Statistics
Matches: 85, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
87 85 1.00
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (87 bp):
AATAGTTATTGTTGAAAATGTACATTAGGAATAGTTATTATTGAAAGGGTACACTAGGAAAACTT
ATTGTTAAATGTGAACACTAGC
Found at i:860545 original size:46 final size:46
Alignment explanation
Indices: 860478--860568 Score: 119
Period size: 46 Copynumber: 2.0 Consensus size: 46
860468 GAATGTGTGC
* * *
860478 ATTAGGAATAGTTATTTTTGAATGTGAACACTAGGAATAGTTATTT
1 ATTAGAAATAGTTATTGTTGAATGTGAACACTAAGAATAGTTATTT
* * * *
860524 ATTAGAAATATTTATTGTTGAATGTGTACATTAAGAATATTTATT
1 ATTAGAAATAGTTATTGTTGAATGTGAACACTAAGAATAGTTATT
860569 ATTGGATGTG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
46 38 1.00
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.44
Consensus pattern (46 bp):
ATTAGAAATAGTTATTGTTGAATGTGAACACTAAGAATAGTTATTT
Found at i:860566 original size:29 final size:29
Alignment explanation
Indices: 860530--860885 Score: 328
Period size: 29 Copynumber: 12.3 Consensus size: 29
860520 ATTTATTAGA
*
860530 AATATTTATTGTTGAATGTGTACATTAAG
1 AATAGTTATTGTTGAATGTGTACATTAAG
* * * * *
860559 AATATTTATTATTGGATGTGTTA-AATAGG
1 AATAGTTATTGTTGAATGTG-TACATTAAG
* * **
860588 AATAGATCTTGTTGAATGTGTAC-TCCAG
1 AATAGTTATTGTTGAATGTGTACATTAAG
* *
860616 CAATAGTTATTGTTGAACT-TGTACACTAGG
1 -AATAGTTATTGTTGAA-TGTGTACATTAAG
* * * * * *
860646 ACTTGTTATTGTTCAATGTGTTCACTAGG
1 AATAGTTATTGTTGAATGTGTACATTAAG
* * *
860675 AATAATTATTGTTGAATGTGTACACTAAA
1 AATAGTTATTGTTGAATGTGTACATTAAG
*
860704 AATATTTATTGTTGAATGTGTACATTAAG
1 AATAGTTATTGTTGAATGTGTACATTAAG
** * *
860733 AATAGTTATTAATGAAAGTGTACATTAGG
1 AATAGTTATTGTTGAATGTGTACATTAAG
*
860762 AATAGTTATTGTTGAATGTGTACATTAGG
1 AATAGTTATTGTTGAATGTGTACATTAAG
*
860791 AATAGTTATTGTTGAATGTGTACACT-AG
1 AATAGTTATTGTTGAATGTGTACATTAAG
* * *
860819 CAAAAGTTATTGTTAAATGTGT--ATTTAG
1 -AATAGTTATTGTTGAATGTGTACATTAAG
* *
860847 CAATAGTTATTGTTGAATGTATACATTAGG
1 -AATAGTTATTGTTGAATGTGTACATTAAG
860877 AATAGTTAT
1 AATAGTTAT
860886 AGCTGATTTT
Statistics
Matches: 266, Mismatches: 51, Indels: 20
0.79 0.15 0.06
Matches are distributed among these distances:
27 2 0.01
28 26 0.10
29 230 0.86
30 8 0.03
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.41
Consensus pattern (29 bp):
AATAGTTATTGTTGAATGTGTACATTAAG
Found at i:860621 original size:104 final size:104
Alignment explanation
Indices: 860426--860626 Score: 258
Period size: 104 Copynumber: 1.9 Consensus size: 104
860416 GTACACTAGC
* * * * *
860426 AATAGTTATTGTTGAAAGTGTACATTAGGAATAGTTATTGTTGAATGTGTGCATTAGGAATAGTT
1 AATAGTTATTGTTGAAAGTGTACATTAAGAATAGTTATTATTGAATGTGTGAAATAGGAATAGAT
* * *
860491 ATTTTTGAATGTGAACACTAGGAATAGTTATTTATTAGA
66 ATTGTTGAATGTGAACACCAGCAATAGTTATTTATTAGA
* * * * *
860530 AATATTTATTGTTGAATGTGTACATTAAGAATATTTATTATTGGATGTGTTAAATAGGAATAGAT
1 AATAGTTATTGTTGAAAGTGTACATTAAGAATAGTTATTATTGAATGTGTGAAATAGGAATAGAT
* * *
860595 CTTGTTGAATGTGTACTCCAGCAATAGTTATT
66 ATTGTTGAATGTGAACACCAGCAATAGTTATT
860627 GTTGAACTTG
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
104 81 1.00
ACGTcount: A:0.33, C:0.05, G:0.20, T:0.41
Consensus pattern (104 bp):
AATAGTTATTGTTGAAAGTGTACATTAAGAATAGTTATTATTGAATGTGTGAAATAGGAATAGAT
ATTGTTGAATGTGAACACCAGCAATAGTTATTTATTAGA
Found at i:860642 original size:133 final size:133
Alignment explanation
Indices: 860402--860800 Score: 320
Period size: 145 Copynumber: 2.9 Consensus size: 133
860392 CTAGGAAAAC
* * *
860402 TTATTGTTAAATGTGTACACTAGCAATAGTTATTGTTGAAAGTGTACATTAGGAATAGTTATTGT
1 TTATTGTTAAATGTGTACACTAGCAATAGTTATTATTGAAAGTGTACAATAGGAATAGATATTGT
* * * *
860467 TGAATGTGTGCATTAGGAATAGTTATTTTTGAATGTGAACACTAGGAATAGTTATTTATTAGAAA
66 TGAATGTGTACATCAGCAATAGTTATTGTTGAATGTGAACACTAGGAATAGTTATTTATTAGAAA
860532 TAT
131 TAT
* * * * * *
860535 TTATTGTTGAATGTGTACATTAAG-AATATTTATTATTGGATGTGTTA-AATAGGAATAGATCTT
1 TTATTGTTAAATGTGTACACT-AGCAATAGTTATTATTGAAAGTG-TACAATAGGAATAGATATT
* *
860598 GTTGAATGTGTAC-TCCAGCAATAGTTATTGTTGAACT-TGTACACTAGGACTTGTTATTGTTCA
64 GTTGAATGTGTACAT-CAGCAATAGTTATTGTTGAA-TGTGAACACTAGGA------ATAGTT--
* * *
860661 ATGTGTTCACTAGGAATAA
119 A--T-TT-ATTAGAAATAT
* ** * * * * * * **
860680 TTATTGTTGAATGTGTACACTAAAAATATTTATTGTTGAATGTGTACATTAAGAATAGTTATTAA
1 TTATTGTTAAATGTGTACACTAGCAATAGTTATTATTGAAAGTGTACAATAGGAATAGATATTGT
* * * * *
860745 TGAAAGTGTACATTAGGAATAGTTATTGTTGAATGTGTACATTAGGAATAGTTATT
66 TGAATGTGTACATCAGCAATAGTTATTGTTGAATGTGAACACTAGGAATAGTTATT
860801 GTTGAATGTG
Statistics
Matches: 213, Mismatches: 33, Indels: 39
0.75 0.12 0.14
Matches are distributed among these distances:
132 1 0.00
133 88 0.41
134 6 0.03
135 1 0.00
137 1 0.00
139 10 0.05
141 1 0.00
143 1 0.00
144 6 0.03
145 97 0.46
146 1 0.00
ACGTcount: A:0.33, C:0.06, G:0.20, T:0.41
Consensus pattern (133 bp):
TTATTGTTAAATGTGTACACTAGCAATAGTTATTATTGAAAGTGTACAATAGGAATAGATATTGT
TGAATGTGTACATCAGCAATAGTTATTGTTGAATGTGAACACTAGGAATAGTTATTTATTAGAAA
TAT
Found at i:862501 original size:2 final size:2
Alignment explanation
Indices: 862494--862539 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
862484 TTGAGCAACA
862494 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
862536 TC TC
1 TC TC
862540 ACACACACAC
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:863304 original size:25 final size:25
Alignment explanation
Indices: 863276--863473 Score: 324
Period size: 25 Copynumber: 7.9 Consensus size: 25
863266 CATTGTAGTC
* *
863276 TGTACATACAATCACTCAATGTGTA
1 TGTACACACAGTCACTCAATGTGTA
863301 TGTACACACAGTCACTCAATGTGTA
1 TGTACACACAGTCACTCAATGTGTA
863326 TGTACACACAGTCACTCAATGTGTA
1 TGTACACACAGTCACTCAATGTGTA
* *
863351 TGTACACATAGTCACTCAGTGTGTA
1 TGTACACACAGTCACTCAATGTGTA
863376 TGTACACACAGTCACTCAATGTGTA
1 TGTACACACAGTCACTCAATGTGTA
*
863401 TGTACACACAGTCACCCAATGTGTA
1 TGTACACACAGTCACTCAATGTGTA
*
863426 TGTACACACAGTCACTCACTGTGTA
1 TGTACACACAGTCACTCAATGTGTA
* *
863451 TGTACACATAGTCACTCAGTGTG
1 TGTACACACAGTCACTCAATGTG
863474 AGATCTTGAG
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
25 162 1.00
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.29
Consensus pattern (25 bp):
TGTACACACAGTCACTCAATGTGTA
Found at i:864892 original size:27 final size:27
Alignment explanation
Indices: 864862--865194 Score: 468
Period size: 27 Copynumber: 12.3 Consensus size: 27
864852 ATTCTTAGAC
** *
864862 AGGTAACTAACTTGTAACCTGTGGTAA
1 AGGTAACTAACTTGTAACCTGTGACAG
** *
864889 AGGTAACTAACTTGTAACCTGTGGTAA
1 AGGTAACTAACTTGTAACCTGTGACAG
864916 AGGTAACTAACTTGTAACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
* * * *
864943 AGGTAACAAACTTGAAACCAGTGACAA
1 AGGTAACTAACTTGTAACCTGTGACAG
*
864970 AGGTAACTAACTTGTTACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
** *
864997 AGGTAACTAACTTGTAACCTGTGGTAA
1 AGGTAACTAACTTGTAACCTGTGACAG
*
865024 AGGTAACTAACTTGTTACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
*
865051 AGGTAACAAACTTGTAACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
* *
865078 AGGTAACTAGCTTGTTACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
* *
865105 AGGTAACTAACTTGTAACCTATGACAA
1 AGGTAACTAACTTGTAACCTGTGACAG
*
865132 AGGTAACTAACTTGTTACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
*
865159 AGGTAACAAACTTGTAACCTGTGACAG
1 AGGTAACTAACTTGTAACCTGTGACAG
865186 AGGTAACTA
1 AGGTAACTA
865195 GCTTTTAATT
Statistics
Matches: 271, Mismatches: 35, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 271 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (27 bp):
AGGTAACTAACTTGTAACCTGTGACAG
Found at i:865198 original size:108 final size:108
Alignment explanation
Indices: 864862--865194 Score: 558
Period size: 108 Copynumber: 3.1 Consensus size: 108
864852 ATTCTTAGAC
* ** *
864862 AGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAAC
1 AGGTAACTAACTTGTTACCTGTGACAGAGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAAC
* * * *
864927 TTGTAACCTGTGACAGAGGTAACAAACTTGAAACCAGTGACAA
66 TTGTTACCTGTGACAGAGGTAACAAACTTGTAACCTGTGACAG
864970 AGGTAACTAACTTGTTACCTGTGACAGAGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAAC
1 AGGTAACTAACTTGTTACCTGTGACAGAGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAAC
865035 TTGTTACCTGTGACAGAGGTAACAAACTTGTAACCTGTGACAG
66 TTGTTACCTGTGACAGAGGTAACAAACTTGTAACCTGTGACAG
* * **
865078 AGGTAACTAGCTTGTTACCTGTGACAGAGGTAACTAACTTGTAACCTATGACAAAGGTAACTAAC
1 AGGTAACTAACTTGTTACCTGTGACAGAGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAAC
865143 TTGTTACCTGTGACAGAGGTAACAAACTTGTAACCTGTGACAG
66 TTGTTACCTGTGACAGAGGTAACAAACTTGTAACCTGTGACAG
865186 AGGTAACTA
1 AGGTAACTA
865195 GCTTTTAATT
Statistics
Matches: 213, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
108 213 1.00
ACGTcount: A:0.35, C:0.17, G:0.22, T:0.26
Consensus pattern (108 bp):
AGGTAACTAACTTGTTACCTGTGACAGAGGTAACTAACTTGTAACCTGTGGTAAAGGTAACTAAC
TTGTTACCTGTGACAGAGGTAACAAACTTGTAACCTGTGACAG
Found at i:865356 original size:21 final size:20
Alignment explanation
Indices: 865318--865361 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
865308 ATCTTTTACA
* * *
865318 ATTTTATGCTATGGTATGCG
1 ATTTTATGATATGCTATGAG
865338 ATTTTAATGATATGCTATGAG
1 ATTTT-ATGATATGCTATGAG
865359 ATT
1 ATT
865362 CCAATTTAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.27, C:0.07, G:0.20, T:0.45
Consensus pattern (20 bp):
ATTTTATGATATGCTATGAG
Found at i:866702 original size:4 final size:4
Alignment explanation
Indices: 866693--866732 Score: 53
Period size: 4 Copynumber: 10.0 Consensus size: 4
866683 AGTTGCGTCT
* * *
866693 ACAG ACAG ACGG ACAG ACAG ACAG ACGG ACAG ACGG ACAG
1 ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG ACAG
866733 GGTGAAACCA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.42, C:0.25, G:0.33, T:0.00
Consensus pattern (4 bp):
ACAG
Found at i:866709 original size:8 final size:8
Alignment explanation
Indices: 866696--866732 Score: 65
Period size: 8 Copynumber: 4.6 Consensus size: 8
866686 TGCGTCTACA
866696 GACAGACG
1 GACAGACG
*
866704 GACAGACA
1 GACAGACG
866712 GACAGACG
1 GACAGACG
866720 GACAGACG
1 GACAGACG
866728 GACAG
1 GACAG
866733 GGTGAAACCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.41, C:0.24, G:0.35, T:0.00
Consensus pattern (8 bp):
GACAGACG
Found at i:866815 original size:10 final size:10
Alignment explanation
Indices: 866797--866830 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
866787 GGCTTAATGT
866797 TATGGTATGC
1 TATGGTATGC
* *
866807 TATGCTATGA
1 TATGGTATGC
866817 TATGGTATGC
1 TATGGTATGC
866827 TATG
1 TATG
866831 AGATTTGAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.24, C:0.09, G:0.26, T:0.41
Consensus pattern (10 bp):
TATGGTATGC
Found at i:866820 original size:15 final size:15
Alignment explanation
Indices: 866797--866831 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
866787 GGCTTAATGT
*
866797 TATGGTATGCTATGC
1 TATGATATGCTATGC
*
866812 TATGATATGGTATGC
1 TATGATATGCTATGC
866827 TATGA
1 TATGA
866832 GATTTGAACA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (15 bp):
TATGATATGCTATGC
Found at i:867891 original size:57 final size:56
Alignment explanation
Indices: 867818--868102 Score: 347
Period size: 57 Copynumber: 5.0 Consensus size: 56
867808 AGTGTGGGCT
* * * * * ** *
867818 TGAGACCCCTTCCTTTGATTTAGGCTTACAATATATTCAACACT-ATGAGTGTGGGCT
1 TGAGATCCCTTACTTTGATTAAGGCTTACAATATATTCAACATTAATAAGT-T-ACCA
* * * *
867875 TGAGACCCCTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
1 TGAGATCCCTTACTTTGATTAAGGCTTACAATATATTCAACATTA-ATAAGTTACCA
*
867932 TGAGATCCCTTACTTTGATTTAGGCTTACAATATATTCAACATTACATAAGTTACCA
1 TGAGATCCCTTACTTTGATTAAGGCTTACAATATATTCAACATTA-ATAAGTTACCA
* * *
867989 TGAGATCCCTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
1 TGAGATCCCTTACTTTGATTAAGGCTTACAATATATTCAACATTA-ATAAGTTACCA
* *
868046 TGAGATCCCTTACTTTGATTAAGGCTTACAATAAATTCAACATTACATAAGATACCA
1 TGAGATCCCTTACTTTGATTAAGGCTTACAATATATTCAACATTA-ATAAGTTACCA
868103 GTACTCATTT
Statistics
Matches: 202, Mismatches: 24, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
57 197 0.98
58 1 0.00
59 4 0.02
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (56 bp):
TGAGATCCCTTACTTTGATTAAGGCTTACAATATATTCAACATTAATAAGTTACCA
Found at i:868018 original size:114 final size:114
Alignment explanation
Indices: 867818--868102 Score: 439
Period size: 114 Copynumber: 2.5 Consensus size: 114
867808 AGTGTGGGCT
* * * * ** *
867818 TGAGACCCCTTCCTTTGATTTAGGCTTACAATATATTCAACACT--ATGAGTGTGGGCTTGAGAC
1 TGAGATCCCTTACTTTGATTTAGGCTTACAATATATTCAACATTACATAAGT-T-ACCATGAGAC
867881 CCCTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
64 CCCTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
*
867932 TGAGATCCCTTACTTTGATTTAGGCTTACAATATATTCAACATTACATAAGTTACCATGAGATCC
1 TGAGATCCCTTACTTTGATTTAGGCTTACAATATATTCAACATTACATAAGTTACCATGAGACCC
867997 CTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
66 CTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
* * *
868046 TGAGATCCCTTACTTTGATTAAGGCTTACAATAAATTCAACATTACATAAGATACCA
1 TGAGATCCCTTACTTTGATTTAGGCTTACAATATATTCAACATTACATAAGTTACCA
868103 GTACTCATTT
Statistics
Matches: 158, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
114 152 0.96
115 1 0.01
116 5 0.03
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.34
Consensus pattern (114 bp):
TGAGATCCCTTACTTTGATTTAGGCTTACAATATATTCAACATTACATAAGTTACCATGAGACCC
CTTACTTTGAGTAAGGTTTACAATATATTCAACATTACATAACTTACCA
Found at i:869292 original size:34 final size:35
Alignment explanation
Indices: 869209--869424 Score: 312
Period size: 34 Copynumber: 6.3 Consensus size: 35
869199 AGGTAATGCA
* *
869209 CGTTTTGATGGGATTGACATGATTTATCAGCACAT
1 CGTTTTGACGGGATTGACATGATTTATCAACACAT
*
869244 CGTTTTGACAGGATTGACATGATTTATCAACACAT
1 CGTTTTGACGGGATTGACATGATTTATCAACACAT
869279 CG-TTTGACGGGATTGACATGATTTATCAACACAT
1 CGTTTTGACGGGATTGACATGATTTATCAACACAT
869313 CG-TTTGACGGGATTGACATGATTTATCAACACAT
1 CGTTTTGACGGGATTGACATGATTTATCAACACAT
* * * *
869347 TGTTTTGACGGGATCGACATGATTGATCAAC-CAG
1 CGTTTTGACGGGATTGACATGATTTATCAACACAT
* * *
869381 CGTTTTGACGGAATTTAAATGATTTATCAACACAT
1 CGTTTTGACGGGATTGACATGATTTATCAACACAT
*
869416 CATTTTGAC
1 CGTTTTGAC
869425 AAGAACTAAG
Statistics
Matches: 163, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
34 93 0.57
35 70 0.43
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (35 bp):
CGTTTTGACGGGATTGACATGATTTATCAACACAT
Found at i:869354 original size:69 final size:70
Alignment explanation
Indices: 869209--869424 Score: 312
Period size: 69 Copynumber: 3.1 Consensus size: 70
869199 AGGTAATGCA
* * *
869209 CGTTTTGATGGGATTGACATGATTTATCAGCACATCGTTTTGACAGGATTGACATGATTTATCAA
1 CGTTTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACGGGATTGACATGATTTATCAA
869274 CACAT
66 CACAT
869279 CG-TTTGACGGGATTGACATGATTTATCAACACATCG-TTTGACGGGATTGACATGATTTATCAA
1 CGTTTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACGGGATTGACATGATTTATCAA
869342 CACAT
66 CACAT
* * * * * * *
869347 TGTTTTGACGGGATCGACATGATTGATCAAC-CAGCGTTTTGACGGAATTTAAATGATTTATCAA
1 CGTTTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACGGGATTGACATGATTTATCAA
869411 CACAT
66 CACAT
*
869416 CATTTTGAC
1 CGTTTTGAC
869425 AAGAACTAAG
Statistics
Matches: 132, Mismatches: 12, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
68 36 0.27
69 94 0.71
70 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (70 bp):
CGTTTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACGGGATTGACATGATTTATCAA
CACAT
Found at i:869391 original size:103 final size:103
Alignment explanation
Indices: 869212--869416 Score: 304
Period size: 103 Copynumber: 2.0 Consensus size: 103
869202 TAATGCACGT
* * * *
869212 TTTGATGGGATTGACATGATTTATCAGCACATCGTTTTGACAGGATTGACATGATTTATCAACAC
1 TTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACAGGATCGACATGATTGATCAACAC
* * *
869277 ATCGTTTGACGGGATTGACATGATTTATCAACACATCG
66 AGCGTTTGACGGAATTGAAATGATTTATCAACACATCG
* *
869315 TTTGACGGGATTGACATGATTTATCAACACATTGTTTTGACGGGATCGACATGATTGATCAAC-C
1 TTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACAGGATCGACATGATTGATCAACAC
*
869379 AGCGTTTTGACGGAATTTAAATGATTTATCAACACATC
66 AGCG-TTTGACGGAATTGAAATGATTTATCAACACATC
869417 ATTTTGACAA
Statistics
Matches: 91, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
102 4 0.04
103 87 0.96
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.34
Consensus pattern (103 bp):
TTTGACGGGATTGACATGATTTATCAACACATCGTTTTGACAGGATCGACATGATTGATCAACAC
AGCGTTTGACGGAATTGAAATGATTTATCAACACATCG
Found at i:875482 original size:31 final size:30
Alignment explanation
Indices: 875447--875536 Score: 126
Period size: 31 Copynumber: 2.9 Consensus size: 30
875437 GCCCTTCATC
*
875447 TCAATGAACATACTGAAACAGAGGTCAGAGG
1 TCAATGAACATACT-AAACAGAGGTCAAAGG
875478 TCAATGAACATACTAAAACAGAGGTCAAAGG
1 TCAATGAACATACT-AAACAGAGGTCAAAGG
* *
875509 TCAATAAACATACTATAACTGAGGTCAA
1 TCAATGAACATACTA-AACAGAGGTCAA
875537 TGAGCATGCT
Statistics
Matches: 54, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
30 1 0.02
31 53 0.98
ACGTcount: A:0.46, C:0.17, G:0.19, T:0.19
Consensus pattern (30 bp):
TCAATGAACATACTAAACAGAGGTCAAAGG
Found at i:875534 original size:24 final size:24
Alignment explanation
Indices: 875506--875551 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
875496 CAGAGGTCAA
875506 AGGTCAATAAACATACTATAACTG
1 AGGTCAATAAACATACTATAACTG
* * *
875530 AGGTCAATGAGCATGCTATAAC
1 AGGTCAATAAACATACTATAAC
875552 AGACTGAGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.41, C:0.17, G:0.17, T:0.24
Consensus pattern (24 bp):
AGGTCAATAAACATACTATAACTG
Found at i:876166 original size:49 final size:48
Alignment explanation
Indices: 876108--876251 Score: 165
Period size: 42 Copynumber: 3.1 Consensus size: 48
876098 CCTACTTGTT
*
876108 TGTTCAAGGGTATCGAACCCGTCTCCCCTCCCCCCTCCCCCCTCCCGTC
1 TGTTCAAGGGTATCAAACCCGTCTCCCCTCCCCCCT-CCCCCTCCCGTC
** *
876157 TGTTCAAGGGTATCTTACCCGTCTCCCCT------TCCTCCTCCCGTC
1 TGTTCAAGGGTATCAAACCCGTCTCCCCTCCCCCCTCCCCCTCCCGTC
* *
876199 TGTTCAAGGGTATCAAACCCGTCTCCTGTCTCCCCCCTCCCCCTCCCGCC
1 TGTTCAAGGGTATCAAACCCGTCTCC--CCTCCCCCCTCCCCCTCCCGTC
876249 TGT
1 TGT
876252 CTGTTCTAAG
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
42 35 0.44
43 1 0.01
44 2 0.03
49 27 0.34
50 14 0.18
ACGTcount: A:0.10, C:0.48, G:0.15, T:0.27
Consensus pattern (48 bp):
TGTTCAAGGGTATCAAACCCGTCTCCCCTCCCCCCTCCCCCTCCCGTC
Found at i:876964 original size:277 final size:277
Alignment explanation
Indices: 876470--877023 Score: 984
Period size: 277 Copynumber: 2.0 Consensus size: 277
876460 GGAGAGGTGG
*
876470 TCAAAGACTAGGCTTGGCGTGTCTTATCTCCAGTCATGATATGTTTACCCAATAAATACAGATCA
1 TCAAAGACTAGGCTTGGCGTGTCTAATCTCCAGTCATGATATGTTTACCCAATAAATACAGATCA
* *
876535 AATCAAGCACTAACAATACAATATATGAATTTTTTTATCAAAATGAGGGAAAGTCTACATATGCT
66 AATCAAGCACTAACAAAACAATATATGAATTTTTTTATCAAAATGAGGGAAAGTCTACATATGCC
876600 AAATATTTCCGACGACAAATTAAATGATTTTTTATTCCCCATCCTCCTTTTTAAATAATCATAAG
131 AAATATTTCCGACGACAAATTAAATGATTTTTTATTCCCCATCCTCCTTTTTAAATAATCATAAG
* *
876665 ACACTTAAATTTCGTGTTAAAATAAGCACACTTATGACCACTGAATCCTCTAGTTCTTTCCCTGA
196 ACACTTAAATTTCGTGTTAAAATAAGCACACTTATAACCACTGAATCCTCTAGCTCTTTCCCTGA
876730 ATAAAAATGCAT-AAAA
261 ATAAAAATGCATGAAAA
* * *
876746 NTCAAAGACTAGGCTTGGCGTGTCTAATCTCCAGTCATGATATTTTTACCCAATAAATACGGATT
1 -TCAAAGACTAGGCTTGGCGTGTCTAATCTCCAGTCATGATATGTTTACCCAATAAATACAGATC
*
876811 AAATCAAGCACTAACAAAACAATATATGAATTTTTTTATCAAAATGAGGGAAAGTCTACATGTGC
65 AAATCAAGCACTAACAAAACAATATATGAATTTTTTTATCAAAATGAGGGAAAGTCTACATATGC
* *
876876 CGAATATTTCCGACGACAAATTAAATGATTTTTTATTCCCCATCCTCCTTTTTAAATCATCATAA
130 CAAATATTTCCGACGACAAATTAAATGATTTTTTATTCCCCATCCTCCTTTTTAAATAATCATAA
*
876941 GACACTTAAATTTCGTGTTAAAATAAGCACACTTATAACCACTGAATCCTCTAGCTGTTTCCCTG
195 GACACTTAAATTTCGTGTTAAAATAAGCACACTTATAACCACTGAATCCTCTAGCTCTTTCCCTG
877006 AATAAAAATGCATGAAAA
260 AATAAAAATGCATGAAAA
877024 GTTCACCTCT
Statistics
Matches: 264, Mismatches: 12, Indels: 1
0.95 0.04 0.00
Matches are distributed among these distances:
277 260 0.98
278 4 0.02
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (277 bp):
TCAAAGACTAGGCTTGGCGTGTCTAATCTCCAGTCATGATATGTTTACCCAATAAATACAGATCA
AATCAAGCACTAACAAAACAATATATGAATTTTTTTATCAAAATGAGGGAAAGTCTACATATGCC
AAATATTTCCGACGACAAATTAAATGATTTTTTATTCCCCATCCTCCTTTTTAAATAATCATAAG
ACACTTAAATTTCGTGTTAAAATAAGCACACTTATAACCACTGAATCCTCTAGCTCTTTCCCTGA
ATAAAAATGCATGAAAA
Found at i:877521 original size:73 final size:73
Alignment explanation
Indices: 877430--877972 Score: 780
Period size: 73 Copynumber: 7.6 Consensus size: 73
877420 TCTGTGATGG
* * * * * * **
877430 ATAATCTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTGATGTT
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
877495 TTACATGT
66 TTACATGT
*
877503 ATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
877568 TTACATGT
66 TTACATGT
* *
877576 ATAATCTACAGGTTGTGGTTAACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCG
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
877641 TTACATGT
66 TTACATGT
** * *
877649 ATAATCTACAGGTAATGGTTTACTTACTTTGAGATGATCCCTATCTTGTAT-TA---AT-CTG--
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
*
877707 -T-GATGT
66 TTACATGT
* * * * * **
877713 ATAATCTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTAATGTT
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
877778 TTACATGT
66 TTACATGT
*
877786 ATAATCTACAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCTTGTATCTATCTATAATGCA
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
*
877851 TAACATGT
66 TTACATGT
* *
877859 ATAATCTACAGGTTGTGTTTTACCTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
877924 TTACATGT
66 TTACATGT
877932 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCC
1 ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCC
877973 CTTCCTGATG
Statistics
Matches: 423, Mismatches: 38, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
64 49 0.12
65 3 0.01
68 3 0.01
69 4 0.01
72 3 0.01
73 361 0.85
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (73 bp):
ATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAATGCA
TTACATGT
Found at i:877732 original size:210 final size:215
Alignment explanation
Indices: 877496--877972 Score: 721
Period size: 210 Copynumber: 2.2 Consensus size: 215
877486 TGTGATGTTT
*
877496 TACATGTATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTA
1 TACATGTATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCCTGTATCTATCTA
*
877561 TAATGCATTACATGTATAATCTACAGGTTGTGGTTAACTTACTTTGAGATGATCCCTGTCTTGTA
66 TAATGCATTACATGTATAATCTACAGGTTGTGGTTAACTTACTTTGAAATGATCCCTGTCTTGTA
* * *
877626 TCTATCTATAATGCGTTACATGTATAATCTACAGGTAATGGTTTACTTACTTTGAGATGATCCCT
131 TCTATCTATAATGCATAACATGTATAATCTACAGGTAATGGTTTACCTACTTTGAGATGATCCCT
*
877691 ATCTTGTAT-TA-AT-CTG-
196 ATCTTGTATCTATATAATGA
* * * *
877707 T-GATGTATAATCTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTG
1 TACATGTATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCCTGTATCTATCTA
** *
877771 TAATGTTTTACATGTATAATCTACAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCTTGTA
66 TAATGCATTACATGTATAATCTACAGGTTGTGGTTAACTTACTTTGAAATGATCCCTGTCTTGTA
** *
877836 TCTATCTATAATGCATAACATGTATAATCTACAGGTTGTGTTTTACCTACTTTGAGATGATCCCT
131 TCTATCTATAATGCATAACATGTATAATCTACAGGTAATGGTTTACCTACTTTGAGATGATCCCT
*
877901 GTCTTGTATCTATCTATAATGCA
196 ATCTTGTATCTA--TATAATG-A
*
877924 TTACATGTATAATCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCC
1 -TACATGTATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCC
877973 CTTCCTGATG
Statistics
Matches: 237, Mismatches: 20, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
210 186 0.78
211 3 0.01
214 2 0.01
215 2 0.01
218 1 0.00
219 43 0.18
ACGTcount: A:0.25, C:0.16, G:0.17, T:0.43
Consensus pattern (215 bp):
TACATGTATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCCTGTATCTATCTA
TAATGCATTACATGTATAATCTACAGGTTGTGGTTAACTTACTTTGAAATGATCCCTGTCTTGTA
TCTATCTATAATGCATAACATGTATAATCTACAGGTAATGGTTTACCTACTTTGAGATGATCCCT
ATCTTGTATCTATATAATGA
Found at i:877889 original size:283 final size:283
Alignment explanation
Indices: 877370--877972 Score: 1098
Period size: 283 Copynumber: 2.1 Consensus size: 283
877360 TGATGTAAAT
*
877370 TCTACAGGTAATGGTTTACTTACTTTGAGATAATCCCTATCTTGTATTAATCTGTGATGGATAAT
1 TCTACAGGTAATGGTTTACTTACTTTGAGATGATCCCTATCTTGTATTAATCTGTGATGGATAAT
*
877435 CTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTGATGTTTTACA
66 CTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTAATGTTTTACA
* *
877500 TGTATAATCTATAGGTTGTGGTTTACTTACTTTGAGATGATCCCTGTCTTGTATCTATCTATAAT
131 TGTATAATCTACAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCTTGTATCTATCTATAAT
* *
877565 GCATTACATGTATAATCTACAGGTTGTGGTTAACTTACTTTGAGATGATCCCTGTCTTGTATCTA
196 GCATAACATGTATAATCTACAGGTTGTGGTTAACCTACTTTGAGATGATCCCTGTCTTGTATCTA
*
877630 TCTATAATGCGTTACATGTATAA
261 TCTATAATGCATTACATGTATAA
*
877653 TCTACAGGTAATGGTTTACTTACTTTGAGATGATCCCTATCTTGTATTAATCTGTGATGTATAAT
1 TCTACAGGTAATGGTTTACTTACTTTGAGATGATCCCTATCTTGTATTAATCTGTGATGGATAAT
877718 CTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTAATGTTTTACA
66 CTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTAATGTTTTACA
877783 TGTATAATCTACAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCTTGTATCTATCTATAAT
131 TGTATAATCTACAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCTTGTATCTATCTATAAT
* *
877848 GCATAACATGTATAATCTACAGGTTGTGTTTTACCTACTTTGAGATGATCCCTGTCTTGTATCTA
196 GCATAACATGTATAATCTACAGGTTGTGGTTAACCTACTTTGAGATGATCCCTGTCTTGTATCTA
877913 TCTATAATGCATTACATGTATAA
261 TCTATAATGCATTACATGTATAA
**
877936 TCTACAGGTTGTGGTTTACTTACTTTGAGATGATCCC
1 TCTACAGGTAATGGTTTACTTACTTTGAGATGATCCC
877973 CTTCCTGATG
Statistics
Matches: 308, Mismatches: 12, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
283 308 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.43
Consensus pattern (283 bp):
TCTACAGGTAATGGTTTACTTACTTTGAGATGATCCCTATCTTGTATTAATCTGTGATGGATAAT
CTATAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCCTGTATTTATCTGTAATGTTTTACA
TGTATAATCTACAGGTTGTGGTTTACTTACTTTGAAATGATCCCTGTCTTGTATCTATCTATAAT
GCATAACATGTATAATCTACAGGTTGTGGTTAACCTACTTTGAGATGATCCCTGTCTTGTATCTA
TCTATAATGCATTACATGTATAA
Found at i:878204 original size:61 final size:60
Alignment explanation
Indices: 878032--878306 Score: 418
Period size: 61 Copynumber: 4.7 Consensus size: 60
878022 ACATCGTTCT
*
878032 TGATCCTCTATAAAAATCAACA--TCAACATGACACACAGATCAACAGATATAAAACAAA
1 TGATCCTCTACAAAAATCAACACGTCAACATGACACACAGATCAACAGATATAAAACAAA
*
878090 TGATCCTCTACAAAAATC-A-ACGTCAACATGAAACACAGATCAACAGATATAAAACAAA
1 TGATCCTCTACAAAAATCAACACGTCAACATGACACACAGATCAACAGATATAAAACAAA
** *
878148 CAATCCTCTACAAAAATCAACGACGTCAACATGACACACAGATCAAGAGATATAAAACAAA
1 TGATCCTCTACAAAAATCAAC-ACGTCAACATGACACACAGATCAACAGATATAAAACAAA
* *
878209 TGATCCTCTACAAAAATCAACGACGTCAACATGACACATAGATCAACAGATAAAAAACAAA
1 TGATCCTCTACAAAAATCAAC-ACGTCAACATGACACACAGATCAACAGATATAAAACAAA
*
878270 TGATCCTCTACAAAAATC-A-ACGTCAACTTGACACACA
1 TGATCCTCTACAAAAATCAACACGTCAACATGACACACA
878307 NGTTTCCGAT
Statistics
Matches: 199, Mismatches: 13, Indels: 10
0.90 0.06 0.05
Matches are distributed among these distances:
56 1 0.01
57 1 0.01
58 84 0.42
59 1 0.01
60 1 0.01
61 111 0.56
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (60 bp):
TGATCCTCTACAAAAATCAACACGTCAACATGACACACAGATCAACAGATATAAAACAAA
Found at i:878293 original size:119 final size:116
Alignment explanation
Indices: 878032--878306 Score: 415
Period size: 119 Copynumber: 2.3 Consensus size: 116
878022 ACATCGTTCT
* *
878032 TGATCCTCTATAAAAATCAACATCAACATGACACACAGATCAACAGATATAAAACAAATGATCCT
1 TGATCCTCTACAAAAATCAACGTCAACATGACACACAGATCAACAGATATAAAACAAATGATCCT
*
878097 CTACAAAAATCAACGTCAACATGAAACACAGATCAACAGATATAAAACAAA
66 CTACAAAAATCAACGTCAACATGAAACACAGATCAACAGATAAAAAACAAA
** *
878148 CAATCCTCTACAAAAATCAACGACGTCAACATGACACACAGATCAAGAGATATAAAACAAATGAT
1 TGATCCTCTACAAAAATC-A--ACGTCAACATGACACACAGATCAACAGATATAAAACAAATGAT
* *
878213 CCTCTACAAAAATCAACGACGTCAACATGACACATAGATCAACAGATAAAAAACAAA
63 CCTCTACAAAAATC-A--ACGTCAACATGAAACACAGATCAACAGATAAAAAACAAA
*
878270 TGATCCTCTACAAAAATCAACGTCAACTTGACACACA
1 TGATCCTCTACAAAAATCAACGTCAACATGACACACA
878307 NGTTTCCGAT
Statistics
Matches: 142, Mismatches: 11, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
116 15 0.11
117 1 0.01
119 72 0.51
120 1 0.01
121 1 0.01
122 52 0.37
ACGTcount: A:0.50, C:0.24, G:0.09, T:0.17
Consensus pattern (116 bp):
TGATCCTCTACAAAAATCAACGTCAACATGACACACAGATCAACAGATATAAAACAAATGATCCT
CTACAAAAATCAACGTCAACATGAAACACAGATCAACAGATAAAAAACAAA
Found at i:889803 original size:166 final size:165
Alignment explanation
Indices: 889395--890338 Score: 1086
Period size: 166 Copynumber: 5.8 Consensus size: 165
889385 AGTCTTTAAA
*
889395 AAGAAGATTTTTAAAGATTTTCTCTATATA-T-CTATGTAAAAATTCA-TCCACC-ATTGTGGCC
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAA-TCATTCCCCCAATTGTGGCC
* * * * * * * * * *
889456 TCACCCTACCCCTGGG-CTATTATTTAAACAAACTTGAATCTATACGATCTGGGGATGCTTCCAC
65 CCACCCTACCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAT
** * *
889520 TCAAATTTGGGCTTTCCTGGCCTAATAG-TTTTGAG
130 TTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
* *
889555 AAGAAGATTTTGAAAGATGTTCT-T-TATA----TA--TAAAAATCCATTCCCCC-ATTGTGGCC
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAAT-CATTCCCCCAATTGTGGCC
* * * **
889611 CCACCATACCACCAGGGACCATGATTTGAGCAAACTTGAATCTACACTACCTGAGGATGCTTCTG
65 CCACCCTACC-CCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCA
*
889676 TTTTAATTTGAGCTTTCCTGGCCTAATAGTTTTTGAG
129 TTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
* *
889713 AAGAAGATTTTTAAAGATTTTCAT-TGTATATTTCTATGTAAAAATCCATTCCCCC-ATTGTGGC
1 AAGAAGATTTTTAAAGATTTTC-TCTATATATTCCTATGTAAAAAT-CATTCCCCCAATTGTGGC
* * * * * * * *
889776 CCCACCATACCACCAGGGACTATGATTTGAACAAACTTGAGTTTACACTACCTGAGTACGATTCC
64 CCCACCCTACC-CCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCC
* *
889841 ACTTTAATTTGAGCTTTTATGGCCTAATAGTTTTTGAG
128 ATTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
* * **
889879 AAGAAGATTTTTAAAGATTTTCTCAATATATTCCTATGTAAAACTTGTTCCCCCAATTGTGGCCC
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCATTCCCCCAATTGTGGCCC
* *
889944 CACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTCCCAT
66 CACCCTA-CCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCAT
*
890009 TTTAATTTGAGCTTTTCTGGCCAAATAGTTTTTGAG
130 TTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
* * * **
890045 AGGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTTAAACTTGTTCCCCCAATTGTGGCCC
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCATTCCCCCAATTGTGGCCC
* *
890110 CACCCTACTCCCGGGGACCATGATTTGAACAAA-TTGAATCTACACTATCTGAGGATGC-TCTTA
66 CACCCTAC-CCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTC-CA
* ***
890173 TTTTAATTTGAGCTTTTCTGGCCTGATAGTGAATGAG
129 TTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
* **
890210 AAGAAGATTTTTAAAGATTTTCTCTTTATATTCCTATGT-AAAA-C-TTGACCCCCTTTTTGTGG
1 AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCATT--CCCCC-AATTGTGG
* * *
890272 TCCCTCCCTACCCCCGGGGACCAGGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTC
63 CCCCACCCTA-CCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTC
890337 CA
127 CA
890339 CACAAGTTTA
Statistics
Matches: 686, Mismatches: 74, Indels: 42
0.86 0.09 0.05
Matches are distributed among these distances:
153 1 0.00
154 8 0.01
155 22 0.03
156 7 0.01
157 62 0.09
158 31 0.05
159 3 0.00
160 25 0.04
162 2 0.00
164 11 0.02
165 141 0.21
166 369 0.54
167 4 0.01
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (165 bp):
AAGAAGATTTTTAAAGATTTTCTCTATATATTCCTATGTAAAAATCATTCCCCCAATTGTGGCCC
CACCCTACCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTTCCATT
TTAATTTGAGCTTTTCTGGCCTAATAGTTTTTGAG
Found at i:890305 original size:331 final size:325
Alignment explanation
Indices: 889368--890334 Score: 1143
Period size: 331 Copynumber: 3.0 Consensus size: 325
889358 CACAAGTTTA
* * * * *
889368 AGCTTTTCTAGCAAAATAGTCTTTAAAAAGAAGATTTTTAAAGATTTTCTCTATATA-TCTATGT
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCTATGT
* * * * *
889432 AAAAATTCA-TCCACCATTGTGGCCTCACCCTACCCCTGGG-CTATTATTTAAACAAACTTGAAT
66 AAAAATT-ATTCCCCCATTGTGGCCCCACCCTACCCCAGGGACTATGATTTGAACAAACTTGAAT
* * * ** * *
889495 CTATACGATCTGGGGATGCTTCCACTCAAATTTGGGCTTTCCTGGCCTAATAGTTTTGAGAAGAA
130 CTACACTATCTGAGGATGCTTCCACTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTGAGAAGAA
* * * *
889560 GATTTTGAAAGA-TGT-TCTTTATA----TAT-AAAAATCCATT-CCCCCATTGTGGCCCCACCA
195 GATTTTTAAAGATTTTCTCTTTATATTCCTATGTAAAA--C-TTGCCCCCATTGTGGCCCCACCC
* * * * **
889617 TACCACCAGGGACCATGATTTGAGCAAACTTGAATCTACACTACCTGAGGATGCTTCTGTTTTAA
257 TACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTCCCATTTTAA
889682 TTTG
322 TTTG
* * *
889686 AGCTTTCCTGGCCTAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCAT-TGTATATTTCTAT
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTC-TCTATATA-TTCTAT
* *
889750 GTAAAAATCCATTCCCCCATTGTGGCCCCACCATACCACCAGGGACTATGATTTGAACAAACTTG
64 GTAAAAAT-TATTCCCCCATTGTGGCCCCACCCTACC-CCAGGGACTATGATTTGAACAAACTTG
* * * * * * *
889815 AGTTTACACTACCTGAGTACGATTCCACTTTAATTTGAGCTTTTATGGCCTAATAGTTTTTGAGA
127 AATCTACACTATCTGAGGATGCTTCCACTTTAATTTGAGCTTTTCTGGCCTAATAG-TTTTGAGA
**
889880 AGAAGATTTTTAAAGATTTTCTCAATATATTCCTATGTAAAACTTGTTCCCCCAATTGTGGCCCC
191 AGAAGATTTTTAAAGATTTTCTCTTTATATTCCTATGTAAAACTTG--CCCCC-ATTGTGGCCCC
*
889945 ACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTATCTGAGGATGCTCCCATT
253 ACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTCCCATT
890010 TTAATTTG
318 TTAATTTG
*
890018 AGCTTTTCTGGCCAAATAGTTTTTGAGAGGAAGATTTTTAAAGATTTTCTCTATATATTCCTATG
1 AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATT-CTATG
* * * * *
890083 TTAAACTTGTTCCCCCAATTGTGGCCCCACCCTACTCCCGGGGACCATGATTTGAACAAA-TTGA
65 TAAAAATTATTCCCCC-ATTGTGGCCCCACCCTAC-CCCAGGGACTATGATTTGAACAAACTTGA
* * * **
890147 ATCTACACTATCTGAGGATGC-TCTTATTTTAATTTGAGCTTTTCTGGCCTGATAGTGAATGAGA
128 ATCTACACTATCTGAGGATGCTTC-CACTTTAATTTGAGCTTTTCTGGCCTAATAGT-TTTGAGA
* *
890211 AGAAGATTTTTAAAGATTTTCTCTTTATATTCCTATGTAAAACTTGACCCCCTTTTTGTGGTCCC
191 AGAAGATTTTTAAAGATTTTCTCTTTATATTCCTATGTAAAACTTG-CCCCC--ATTGTGGCCCC
* *
890276 TCCCTACCCCCGGGGACCAGGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCT
253 ACCCTACCCCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCT
890335 TCCACACAAG
Statistics
Matches: 549, Mismatches: 74, Indels: 39
0.83 0.11 0.06
Matches are distributed among these distances:
318 47 0.09
319 1 0.00
320 14 0.03
321 22 0.04
322 5 0.01
323 60 0.11
324 23 0.04
325 2 0.00
326 6 0.01
328 2 0.00
329 1 0.00
330 11 0.02
331 179 0.33
332 175 0.32
333 1 0.00
ACGTcount: A:0.28, C:0.22, G:0.16, T:0.34
Consensus pattern (325 bp):
AGCTTTTCTGGCCAAATAGTTTTTGAGAAGAAGATTTTTAAAGATTTTCTCTATATATTCTATGT
AAAAATTATTCCCCCATTGTGGCCCCACCCTACCCCAGGGACTATGATTTGAACAAACTTGAATC
TACACTATCTGAGGATGCTTCCACTTTAATTTGAGCTTTTCTGGCCTAATAGTTTTGAGAAGAAG
ATTTTTAAAGATTTTCTCTTTATATTCCTATGTAAAACTTGCCCCCATTGTGGCCCCACCCTACC
CCCGGGGACCATGATTTGAACAAACTTGAATCTACACTACCTGAGGATGCTCCCATTTTAATTTG
Found at i:911054 original size:20 final size:20
Alignment explanation
Indices: 911025--911063 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
911015 AGGGATTAAG
911025 TCATTATTTTCTCATTTTTC
1 TCATTATTTTCTCATTTTTC
* *
911045 TCATTTTTTTTTCATTTTT
1 TCATTATTTTCTCATTTTT
911064 TATAATCGTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (20 bp):
TCATTATTTTCTCATTTTTC
Found at i:921026 original size:36 final size:36
Alignment explanation
Indices: 920979--921051 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
920969 TTAGAATTGA
920979 TTTATTTAATAAAATGAAGGAGAAGATCTCGTAAGT
1 TTTATTTAATAAAATGAAGGAGAAGATCTCGTAAGT
921015 TTTATTTAATAAAATGAAGGAGAAGATCTCGTAAGT
1 TTTATTTAATAAAATGAAGGAGAAGATCTCGTAAGT
921051 T
1 T
921052 GTACTAATCC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.34
Consensus pattern (36 bp):
TTTATTTAATAAAATGAAGGAGAAGATCTCGTAAGT
Found at i:921660 original size:1 final size:1
Alignment explanation
Indices: 921654--921678 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
921644 TGGAGGAGAT
921654 GGGGGGGGGGGGGGGGGGGGGGGGG
1 GGGGGGGGGGGGGGGGGGGGGGGGG
921679 AGTGGGTGGG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:1.00, T:0.00
Consensus pattern (1 bp):
G
Found at i:925202 original size:2 final size:2
Alignment explanation
Indices: 925195--925246 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
925185 TGTACTCGTA
925195 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
925237 CT CT CT CT CT
1 CT CT CT CT CT
925247 TTTCTCCCAC
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:929676 original size:23 final size:23
Alignment explanation
Indices: 929650--929694 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
929640 GTCATTTTTG
929650 TATGCAATGAACATTTAACAGAT
1 TATGCAATGAACATTTAACAGAT
*
929673 TATGCAATGAACATTTGACAGA
1 TATGCAATGAACATTTAACAGA
929695 GTTACAGTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (23 bp):
TATGCAATGAACATTTAACAGAT
Found at i:932014 original size:2 final size:2
Alignment explanation
Indices: 932009--932036 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
931999 GTGTGTGTGT
932009 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
932037 ACAAAGTGCC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:935015 original size:1 final size:1
Alignment explanation
Indices: 935009--935039 Score: 62
Period size: 1 Copynumber: 31.0 Consensus size: 1
934999 ATAATGTATT
935009 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
935040 TTTTTTATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 30 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:941247 original size:11 final size:11
Alignment explanation
Indices: 941231--941258 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
941221 AGGTACCAAG
941231 AAAATTGTTTT
1 AAAATTGTTTT
941242 AAAATTGTTTT
1 AAAATTGTTTT
941253 AAAATT
1 AAAATT
941259 TATCGATTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (11 bp):
AAAATTGTTTT
Found at i:943202 original size:18 final size:18
Alignment explanation
Indices: 943181--943250 Score: 122
Period size: 18 Copynumber: 3.9 Consensus size: 18
943171 GATCATCGCT
943181 TCTTCTATCATCAAATGG
1 TCTTCTATCATCAAATGG
943199 TCTTCTATCATCAAATGG
1 TCTTCTATCATCAAATGG
*
943217 TCTTCTGTCATCAAATGG
1 TCTTCTATCATCAAATGG
*
943235 TCCTCTATCATCAAAT
1 TCTTCTATCATCAAAT
943251 CTTCTATCTG
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 49 1.00
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.39
Consensus pattern (18 bp):
TCTTCTATCATCAAATGG
Found at i:943256 original size:15 final size:16
Alignment explanation
Indices: 943181--943258 Score: 77
Period size: 18 Copynumber: 4.6 Consensus size: 16
943171 GATCATCGCT
943181 TCTTCTATCATCAAATGG
1 TCTTCTATCATCAAA--G
943199 TCTTCTATCATCAAATGG
1 TCTTCTATCATCAAA--G
*
943217 TCTTCTGTCATCAAATGG
1 TCTTCTATCATCAAA--G
*
943235 TCCTCTATCATCAAA-
1 TCTTCTATCATCAAAG
943250 TCTTCTATC
1 TCTTCTATC
943259 TGGATCGAAT
Statistics
Matches: 56, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
15 8 0.14
18 48 0.86
ACGTcount: A:0.26, C:0.26, G:0.09, T:0.40
Consensus pattern (16 bp):
TCTTCTATCATCAAAG
Found at i:952282 original size:2 final size:2
Alignment explanation
Indices: 952275--952316 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
952265 CTGCACGTGA
952275 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
952317 GCTGTATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:958605 original size:14 final size:14
Alignment explanation
Indices: 958586--958619 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
958576 TAAATTTGAA
*
958586 TTAACAACAACATT
1 TTAACAACAACAAT
*
958600 TTAACAACAATAAT
1 TTAACAACAACAAT
958614 TTAACA
1 TTAACA
958620 GCAAAAACTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.53, C:0.18, G:0.00, T:0.29
Consensus pattern (14 bp):
TTAACAACAACAAT
Found at i:958652 original size:2 final size:2
Alignment explanation
Indices: 958645--958690 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
958635 GAAATCAGAC
958645 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
958687 GA GA
1 GA GA
958691 ATGAATATGT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:975642 original size:2 final size:2
Alignment explanation
Indices: 975637--975682 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
975627 ATGAAAAAAA
975637 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
975679 TC TC
1 TC TC
975683 ATTTAATTGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:980213 original size:2 final size:2
Alignment explanation
Indices: 980206--980271 Score: 132
Period size: 2 Copynumber: 33.0 Consensus size: 2
980196 GCATTACAAT
980206 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
980248 TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC
980272 CAAAATTGTA
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 64 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:981182 original size:20 final size:18
Alignment explanation
Indices: 981145--981197 Score: 52
Period size: 19 Copynumber: 2.8 Consensus size: 18
981135 AAAGAATCTT
* *
981145 AAGAGAAAAAGAATAAAAA
1 AAGAGAACAA-AAGAAAAA
* *
981164 AGGACGAACAAGAGAAAAA
1 AAGA-GAACAAAAGAAAAA
981183 AAGAGAACAAAAGAA
1 AAGAGAACAAAAGAA
981198 TTCACAAAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
18 10 0.37
19 12 0.44
20 5 0.19
ACGTcount: A:0.72, C:0.06, G:0.21, T:0.02
Consensus pattern (18 bp):
AAGAGAACAAAAGAAAAA
Found at i:981190 original size:18 final size:18
Alignment explanation
Indices: 981145--981197 Score: 54
Period size: 20 Copynumber: 2.8 Consensus size: 18
981135 AAAGAATCTT
*
981145 AAGAGAAAAAGA-ATAAAA
1 AAGAGAACAAGAGA-AAAA
981163 AAGGACGAACAAGAGAAAAA
1 AA-GA-GAACAAGAGAAAAA
*
981183 AAGAGAACAAAAGAA
1 AAGAGAACAAGAGAA
981198 TTCACAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
18 12 0.40
19 4 0.13
20 13 0.43
21 1 0.03
ACGTcount: A:0.72, C:0.06, G:0.21, T:0.02
Consensus pattern (18 bp):
AAGAGAACAAGAGAAAAA
Found at i:998595 original size:2 final size:2
Alignment explanation
Indices: 998588--998638 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
998578 ATCATTATTA
998588 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
998630 CT CT CT CT C
1 CT CT CT CT C
998639 GTGAGATTTA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:1001177 original size:8 final size:8
Alignment explanation
Indices: 1001164--1001194 Score: 53
Period size: 8 Copynumber: 3.9 Consensus size: 8
1001154 AGGATGTAAA
*
1001164 AGAGAGAG
1 AGAGAGAC
1001172 AGAGAGAC
1 AGAGAGAC
1001180 AGAGAGAC
1 AGAGAGAC
1001188 AGAGAGA
1 AGAGAGA
1001195 TGGATCTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.42, T:0.00
Consensus pattern (8 bp):
AGAGAGAC
Found at i:1008539 original size:2 final size:2
Alignment explanation
Indices: 1008532--1008628 Score: 173
Period size: 2 Copynumber: 50.0 Consensus size: 2
1008522 TAGGAATGTG
1008532 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA -A GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1008573 GA G- GA -A GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1008613 GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA
1008629 TCTGAAAGGT
Statistics
Matches: 92, Mismatches: 0, Indels: 6
0.94 0.00 0.06
Matches are distributed among these distances:
1 3 0.03
2 89 0.97
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
GA
Found at i:1008714 original size:2 final size:2
Alignment explanation
Indices: 1008707--1008785 Score: 149
Period size: 2 Copynumber: 39.5 Consensus size: 2
1008697 GCTATGGAAC
*
1008707 AG AG AG AG AG AG AG AG GG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1008749 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1008786 TCTGATTACT
Statistics
Matches: 75, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 75 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
AG
Found at i:1016387 original size:21 final size:21
Alignment explanation
Indices: 1016363--1016448 Score: 100
Period size: 21 Copynumber: 4.1 Consensus size: 21
1016353 TAATTATATT
*
1016363 AAAGTTTCGCGTTTATTTGCG
1 AAAGTTTCGCGTTTATTCGCG
* **
1016384 AAAGCTTCGCGTTTATTCTTG
1 AAAGTTTCGCGTTTATTCGCG
*
1016405 AAAGTTTCGCGTTCATTCGCG
1 AAAGTTTCGCGTTTATTCGCG
* **
1016426 AAAATAACGCGTTTATTCGCG
1 AAAGTTTCGCGTTTATTCGCG
1016447 AA
1 AA
1016449 TTCCTTTTTA
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.24, C:0.19, G:0.21, T:0.36
Consensus pattern (21 bp):
AAAGTTTCGCGTTTATTCGCG
Found at i:1019195 original size:21 final size:21
Alignment explanation
Indices: 1019150--1019209 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
1019140 TATTATGTGG
1019150 ATTGCGTTTAAACGC-AAAGT
1 ATTGCGTTTAAACGCAAAAGT
* *
1019170 ATTGCGTTTAATCGCAAAATT
1 ATTGCGTTTAAACGCAAAAGT
1019191 ATTGCGTTTAAACGCAAAA
1 ATTGCGTTTAAACGCAAAA
1019210 AATACTGCGT
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.32
Consensus pattern (21 bp):
ATTGCGTTTAAACGCAAAAGT
Found at i:1019245 original size:22 final size:22
Alignment explanation
Indices: 1019219--1019366 Score: 153
Period size: 22 Copynumber: 6.6 Consensus size: 22
1019209 AAATACTGCG
*
1019219 TTTTGCGAATAAACGCAA-AAGT
1 TTTTGCGATTAAACGCAATAA-T
*
1019241 TTTTGCGATTAAATGCAATAATTT
1 TTTTGCGATTAAACGCAATAA--T
1019265 TAAAATTTGCGATTAAACGCAATAAT
1 T----TTTGCGATTAAACGCAATAAT
1019291 TTTTGCGATTAAACGCAATAA-
1 TTTTGCGATTAAACGCAATAAT
*
1019312 TTTTGCGATTAAATGCAATGAA-
1 TTTTGCGATTAAACGCAAT-AAT
*
1019334 -TTTGCGATTAAACGCAATGAT
1 TTTTGCGATTAAACGCAATAAT
1019355 TTTTGCG-TTAAA
1 TTTTGCGATTAAA
1019367 TGGCAATTAC
Statistics
Matches: 110, Mismatches: 7, Indels: 19
0.81 0.05 0.14
Matches are distributed among these distances:
20 1 0.01
21 40 0.36
22 44 0.40
23 2 0.02
24 2 0.02
26 2 0.02
28 19 0.17
ACGTcount: A:0.37, C:0.11, G:0.16, T:0.36
Consensus pattern (22 bp):
TTTTGCGATTAAACGCAATAAT
Found at i:1019274 original size:50 final size:50
Alignment explanation
Indices: 1019220--1019315 Score: 158
Period size: 50 Copynumber: 1.9 Consensus size: 50
1019210 AATACTGCGT
*
1019220 TTTGCGAATAAACGCAA-AAGTTTTTGCGATTAAATGCAATAATTTTAAAA
1 TTTGCGAATAAACGCAATAA-TTTTTGCGATTAAACGCAATAATTTTAAAA
*
1019270 TTTGCGATTAAACGCAATAATTTTTGCGATTAAACGCAATAATTTT
1 TTTGCGAATAAACGCAATAATTTTTGCGATTAAACGCAATAATTTT
1019316 GCGATTAAAT
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
50 41 0.95
51 2 0.05
ACGTcount: A:0.39, C:0.11, G:0.14, T:0.36
Consensus pattern (50 bp):
TTTGCGAATAAACGCAATAATTTTTGCGATTAAACGCAATAATTTTAAAA
Found at i:1019317 original size:21 final size:22
Alignment explanation
Indices: 1019270--1019366 Score: 139
Period size: 21 Copynumber: 4.5 Consensus size: 22
1019260 AATTTTAAAA
1019270 TTTGCGATTAAACGCAAT-AATT
1 TTTGCGATTAAACGCAATGAA-T
1019292 TTTGCGATTAAACGCAAT-AAT
1 TTTGCGATTAAACGCAATGAAT
*
1019313 TTTGCGATTAAATGCAATGAA-
1 TTTGCGATTAAACGCAATGAAT
*
1019334 TTTGCGATTAAACGCAATGATT
1 TTTGCGATTAAACGCAATGAAT
1019356 TTTGCG-TTAAA
1 TTTGCGATTAAA
1019367 TGGCAATTAC
Statistics
Matches: 70, Mismatches: 3, Indels: 5
0.90 0.04 0.06
Matches are distributed among these distances:
21 42 0.60
22 28 0.40
ACGTcount: A:0.35, C:0.12, G:0.16, T:0.36
Consensus pattern (22 bp):
TTTGCGATTAAACGCAATGAAT
Found at i:1021569 original size:22 final size:22
Alignment explanation
Indices: 1021542--1021916 Score: 255
Period size: 22 Copynumber: 17.4 Consensus size: 22
1021532 ATAATTTCTT
*
1021542 TTGCGTTTAAACGCAATAACTA
1 TTGCGTTTAAACGCAATAAGTA
* *
1021564 TTGCG-TTAAATCGCAAT--CTT
1 TTGCGTTTAAA-CGCAATAAGTA
* * *
1021584 TTGCG-TTAAATTGCAAAAAGTT
1 TTGCGTTTAAA-CGCAATAAGTA
1021606 TTGCGTTTAAACGCAA-AA-TA
1 TTGCGTTTAAACGCAATAAGTA
* *
1021626 TTGCGATTAAACGC-ATTAGCTA
1 TTGCGTTTAAACGCAATAAG-TA
* *
1021648 TTGCGTTTAAACGCAAAGAACT-
1 TTGCGTTTAAACGC-AATAAGTA
* *
1021670 TTGCGTTTTAACGCAA-AGGT-
1 TTGCGTTTAAACGCAATAAGTA
* *
1021690 TTGCATTTAAACGCAA-ATGTA
1 TTGCGTTTAAACGCAATAAGTA
*
1021711 -TGCGTTTATACGCAA-AAGTA
1 TTGCGTTTAAACGCAATAAGTA
*
1021731 ATGCGTTTAAACGCAA-AAGTA
1 TTGCGTTTAAACGCAATAAGTA
* *
1021752 TTGCGTTTAAACGCAAAAAATTA
1 TTGCGTTTAAACGC-AATAAGTA
1021775 TTGCGTTTAAACGCAAAGCTAA-TA
1 TTGCGTTTAAACGC-AA--TAAGTA
* *
1021799 TTGCGTTTAAACGCAATAATTT
1 TTGCGTTTAAACGCAATAAGTA
** * * *
1021821 TTGCGAATAAACGCAAAAAATT
1 TTGCGTTTAAACGCAATAAGTA
** *
1021843 TTGCAATTAAACGCAATAA-TCG
1 TTGCGTTTAAACGCAATAAGT-A
*
1021865 TTGCGTTTAATCGCAA-AAGGTA
1 TTGCGTTTAAACGCAATAA-GTA
*
1021887 TTGGGTTTAAACGCAAT-AGTTA
1 TTGCGTTTAAACGCAATAAG-TA
1021909 TTGCGTTT
1 TTGCGTTT
1021917 TATTGCAAAA
Statistics
Matches: 291, Mismatches: 41, Indels: 42
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.00
20 68 0.23
21 48 0.16
22 124 0.43
23 30 0.10
24 18 0.06
25 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (22 bp):
TTGCGTTTAAACGCAATAAGTA
Found at i:1021589 original size:20 final size:20
Alignment explanation
Indices: 1021538--1021599 Score: 72
Period size: 20 Copynumber: 3.0 Consensus size: 20
1021528 AACAATAATT
1021538 TCTTTTGCGTTTAAA-CGCAA
1 TCTTTTGCG-TTAAATCGCAA
*
1021558 TAACTATTGCGTTAAATCGCAA
1 T--CTTTTGCGTTAAATCGCAA
*
1021580 TCTTTTGCGTTAAATTGCAA
1 TCTTTTGCGTTAAATCGCAA
1021600 AAAGTTTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
20 18 0.50
21 5 0.14
22 13 0.36
ACGTcount: A:0.29, C:0.18, G:0.15, T:0.39
Consensus pattern (20 bp):
TCTTTTGCGTTAAATCGCAA
Found at i:1021630 original size:42 final size:41
Alignment explanation
Indices: 1021542--1021916 Score: 240
Period size: 42 Copynumber: 8.7 Consensus size: 41
1021532 ATAATTTCTT
* * ** *
1021542 TTGCGTTTAAACGCAATAACTATTGCG-TTAAATCGCAATCTT
1 TTGCGTTTAAACGCAA-AAGTTTTGCGTTTAAA-CGCAAAATA
*
1021584 TTGCG-TTAAATTGCAAAAAGTTTTGCGTTTAAACGCAAAATA
1 TTGCGTTTAAA-CGC-AAAAGTTTTGCGTTTAAACGCAAAATA
* ** *
1021626 TTGCGATTAAACGCATTAGCTATTGCGTTTAAACGCAAAGA-A
1 TTGCGTTTAAACGCAAAAG-TTTTGCGTTTAAACGCAAA-ATA
* * * *
1021668 CTTTGCGTTTTAACGC-AAAGGTTTGCATTTAAACGC-AAATG
1 --TTGCGTTTAAACGCAAAAGTTTTGCGTTTAAACGCAAAATA
* **
1021709 TATGCGTTTATACGCAAAAGTAATGCGTTTAAACGCAAAAGTA
1 T-TGCGTTTAAACGCAAAAGTTTTGCGTTTAAACGCAAAA-TA
*
1021752 TTGCGTTTAAACGCAAAAAATTATTGCGTTTAAACGCAAAGCTAATA
1 TTGCGTTTAAACGC-AAAAGTT-TTGCGTTTAAACGC-AA---AATA
* ** *
1021799 TTGCGTTTAAACGCAATAATTTTTGCGAATAAACGCAAAAAATT
1 TTGCGTTTAAACGCAA-AAGTTTTGCGTTTAAACGC--AAAATA
** * *
1021843 TTGCAATTAAACGCAATAA-TCGTTGCGTTTAATCGCAAAAGGTA
1 TTGCGTTTAAACGCAA-AAGT-TTTGCGTTTAAACGCAAAA--TA
* *
1021887 TTGGGTTTAAACGCAATAGTTATTGCGTTT
1 TTGCGTTTAAACGCAAAAGTT-TTGCGTTT
1021917 TATTGCAAAA
Statistics
Matches: 262, Mismatches: 45, Indels: 50
0.73 0.13 0.14
Matches are distributed among these distances:
39 1 0.00
40 12 0.05
41 26 0.10
42 79 0.30
43 24 0.09
44 79 0.30
45 2 0.01
46 14 0.05
47 23 0.09
48 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (41 bp):
TTGCGTTTAAACGCAAAAGTTTTGCGTTTAAACGCAAAATA
Found at i:1021736 original size:21 final size:21
Alignment explanation
Indices: 1021607--1021814 Score: 158
Period size: 20 Copynumber: 9.7 Consensus size: 21
1021597 CAAAAAGTTT
*
1021607 TGCGTTTAAACGCAAAA-TAT
1 TGCGTTTAAACGCAAAAGTAA
* ** *
1021627 TGCGATTAAACGCATTAGCTAT
1 TGCGTTTAAACGCAAAAG-TAA
1021649 TGCGTTTAAACGC-AAAG-AA
1 TGCGTTTAAACGCAAAAGTAA
* * *
1021668 CTTTGCGTTTTAACGCAAAGGT-T
1 ---TGCGTTTAAACGCAAAAGTAA
* *
1021691 TGCATTTAAACGCAAATGT-A
1 TGCGTTTAAACGCAAAAGTAA
*
1021711 TGCGTTTATACGCAAAAGTAA
1 TGCGTTTAAACGCAAAAGTAA
*
1021732 TGCGTTTAAACGCAAAAGTAT
1 TGCGTTTAAACGCAAAAGTAA
* *
1021753 TGCGTTTAAACGCAAAAAATTAT
1 TGCGTTTAAACGC--AAAAGTAA
1021776 TGCGTTTAAACGC-AAAGCTAATA
1 TGCGTTTAAACGCAAAAG-T-A-A
1021799 TTGCGTTTAAACGCAA
1 -TGCGTTTAAACGCAA
1021815 TAATTTTTGC
Statistics
Matches: 151, Mismatches: 22, Indels: 25
0.76 0.11 0.13
Matches are distributed among these distances:
19 1 0.01
20 49 0.32
21 36 0.24
22 28 0.19
23 23 0.15
24 13 0.09
25 1 0.01
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.30
Consensus pattern (21 bp):
TGCGTTTAAACGCAAAAGTAA
Found at i:1021791 original size:44 final size:43
Alignment explanation
Indices: 1021542--1021916 Score: 284
Period size: 44 Copynumber: 8.7 Consensus size: 43
1021532 ATAATTTCTT
* ** *
1021542 TTGCGTTTAAACGCAATAACTATTGCG-TTAAATCGC-AATCTT
1 TTGCGTTTAAACGCAATAATTATTGCGTTTAAA-CGCAAAAGTA
* *
1021584 TTGCG-TTAAATTGCAAAAAGTT-TTGCGTTTAAACGCAAAA-TA
1 TTGCGTTTAAA-CGCAATAA-TTATTGCGTTTAAACGCAAAAGTA
* * ** *
1021626 TTGCGATTAAACGCATTAGCTATTGCGTTTAAACGC-AAAGAA
1 TTGCGTTTAAACGCAATAATTATTGCGTTTAAACGCAAAAGTA
* ** * *
1021668 CTTTGCGTTTTAACGCAA-AGGT-TTGCATTTAAACGCAAATGTA
1 --TTGCGTTTAAACGCAATAATTATTGCGTTTAAACGCAAAAGTA
* * *
1021711 -TGCGTTTATACGCAA-AAGTAATGCGTTTAAACGCAAAAGTA
1 TTGCGTTTAAACGCAATAATTATTGCGTTTAAACGCAAAAGTA
* *
1021752 TTGCGTTTAAACGCAAAAAATTATTGCGTTTAAACGCAAAGCTAATA
1 TTGCGTTTAAACGC-AATAATTATTGCGTTTAAACGCAAA---AGTA
* ** * *
1021799 TTGCGTTTAAACGCAATAATTTTTGCGAATAAACGCAAAAAATT
1 TTGCGTTTAAACGCAATAATTATTGCGTTTAAACGC-AAAAGTA
** ** *
1021843 TTGCAATTAAACGCAATAATCGTTGCGTTTAATCGCAAAAGGTA
1 TTGCGTTTAAACGCAATAATTATTGCGTTTAAACGCAAAA-GTA
* *
1021887 TTGGGTTTAAACGCAATAGTTATTGCGTTT
1 TTGCGTTTAAACGCAATAATTATTGCGTTT
1021917 TATTGCAAAA
Statistics
Matches: 266, Mismatches: 48, Indels: 36
0.76 0.14 0.10
Matches are distributed among these distances:
40 16 0.06
41 27 0.10
42 69 0.26
43 26 0.10
44 90 0.34
46 18 0.07
47 20 0.08
ACGTcount: A:0.35, C:0.15, G:0.17, T:0.32
Consensus pattern (43 bp):
TTGCGTTTAAACGCAATAATTATTGCGTTTAAACGCAAAAGTA
Found at i:1022944 original size:21 final size:21
Alignment explanation
Indices: 1022908--1023253 Score: 213
Period size: 22 Copynumber: 16.1 Consensus size: 21
1022898 TAAGCAAAGG
1022908 AATTAATTGCGATTTAA-CGCAAA
1 AATT-ATTGCG-TTTAATCGC-AA
* *
1022931 AATCACTGCGTTTAATCGCAA
1 AATTATTGCGTTTAATCGCAA
*
1022952 ATTTATTGCGTTTAATCGCAA
1 AATTATTGCGTTTAATCGCAA
*
1022973 AATCATTGCGTTTAATCGCAA
1 AATTATTGCGTTTAATCGCAA
*
1022994 AATTATTGCGATTAATCGCAAA
1 AATTATTGCGTTTAATCGC-AA
*
1023016 AATTATTGCGTTTAATCGATAA
1 AATTATTGCGTTTAATCG-CAA
*
1023038 AACTT-TTGCGTTTATTCGCAA
1 AA-TTATTGCGTTTAATCGCAA
*
1023059 AATATATTGCGTTTAAACGCAA
1 AAT-TATTGCGTTTAATCGCAA
** * *
1023081 TACTAGCACTGCGTTTAAACGCAA
1 -A--ATTATTGCGTTTAATCGCAA
* * *
1023105 TATTTTTTGCGTTTAAACGCAA
1 -AATTATTGCGTTTAATCGCAA
* * *
1023127 TAATT-TTGCGATAAAACGCAA
1 -AATTATTGCGTTTAATCGCAA
* * *
1023148 TACT-TTGCGTTTAAACGCAA
1 AATTATTGCGTTTAATCGCAA
* *
1023168 AACT-TTGCGTTTAAACGCAA
1 AATTATTGCGTTTAATCGCAA
* * *
1023188 TCCACT-TTGCGTTTCATCGCAA
1 --AATTATTGCGTTTAATCGCAA
* * *
1023210 TACTTTTTGCGTTTTATCGC-A
1 -AATTATTGCGTTTAATCGCAA
* * *
1023231 ATTTTTTGCG-TTAAACGCAA
1 AATTATTGCGTTTAATCGCAA
1023251 AAT
1 AAT
1023254 ACATTGCAAA
Statistics
Matches: 267, Mismatches: 43, Indels: 29
0.79 0.13 0.09
Matches are distributed among these distances:
19 6 0.02
20 48 0.18
21 82 0.31
22 106 0.40
23 6 0.02
24 18 0.07
25 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.36
Consensus pattern (21 bp):
AATTATTGCGTTTAATCGCAA
Found at i:1022950 original size:22 final size:22
Alignment explanation
Indices: 1022913--1023080 Score: 170
Period size: 21 Copynumber: 7.8 Consensus size: 22
1022903 AAAGGAATTA
1022913 ATTGCGATTTAA-CGCAAAAATC
1 ATTGCG-TTTAATCGCAAAAATC
* * *
1022935 ACTGCGTTTAATCGC-AAATTT
1 ATTGCGTTTAATCGCAAAAATC
1022956 ATTGCGTTTAATCGC-AAAATC
1 ATTGCGTTTAATCGCAAAAATC
*
1022977 ATTGCGTTTAATCGC-AAAATT
1 ATTGCGTTTAATCGCAAAAATC
* *
1022998 ATTGCGATTAATCGCAAAAATT
1 ATTGCGTTTAATCGCAAAAATC
1023020 ATTGCGTTTAATCG-ATAAAA-C
1 ATTGCGTTTAATCGCA-AAAATC
* *
1023041 TTTTGCGTTTATTCGCAAAATAT-
1 -ATTGCGTTTAATCGCAAAA-ATC
*
1023064 ATTGCGTTTAAACGCAA
1 ATTGCGTTTAATCGCAA
1023081 TACTAGCACT
Statistics
Matches: 124, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
21 62 0.50
22 60 0.48
23 2 0.02
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (22 bp):
ATTGCGTTTAATCGCAAAAATC
Found at i:1023067 original size:44 final size:43
Alignment explanation
Indices: 1022908--1023231 Score: 202
Period size: 42 Copynumber: 7.5 Consensus size: 43
1022898 TAAGCAAAGG
*
1022908 AATTAATTGCGATTTAA-CGCAAAA-ATCACTGCGTTTAATCGCAA
1 AATT-ATTGCG-TTTAATCGCAAAATAT-ATTGCGTTTAATCGCAA
* *
1022952 ATTTATTGCGTTTAATCGCAAAAT-CATTGCGTTTAATCGCAA
1 AATTATTGCGTTTAATCGCAAAATATATTGCGTTTAATCGCAA
* *
1022994 AATTATTGCGATTAATCGCAAAA-ATTATTGCGTTTAATCGATAA
1 AATTATTGCGTTTAATCGCAAAATA-TATTGCGTTTAATCG-CAA
* *
1023038 AACTT-TTGCGTTTATTCGCAAAATATATTGCGTTTAAACGCAA
1 AA-TTATTGCGTTTAATCGCAAAATATATTGCGTTTAATCGCAA
** * * * * * *
1023081 TACTAGCACTGCGTTTAAACGCAATATTTTTTGCGTTTAAACGCAA
1 -A--ATTATTGCGTTTAATCGCAAAATATATTGCGTTTAATCGCAA
* * * *
1023127 TAATT-TTGCGATAAAACGC--AATACT-TTGCGTTTAAACGCAA
1 -AATTATTGCGTTTAATCGCAAAATA-TATTGCGTTTAATCGCAA
* * *** *
1023168 AACT-TTGCGTTTAAACGCAATCCACT-TTGCGTTTCATCGCAA
1 AATTATTGCGTTTAATCGCAAAATA-TATTGCGTTTAATCGCAA
* * *
1023210 TACTTTTTGCGTTTTATCGCAA
1 -AATTATTGCGTTTAATCGCAA
1023232 TTTTTTGCGT
Statistics
Matches: 226, Mismatches: 38, Indels: 32
0.76 0.13 0.11
Matches are distributed among these distances:
40 15 0.07
41 18 0.08
42 60 0.27
43 42 0.19
44 53 0.23
45 3 0.01
46 35 0.15
ACGTcount: A:0.32, C:0.18, G:0.14, T:0.35
Consensus pattern (43 bp):
AATTATTGCGTTTAATCGCAAAATATATTGCGTTTAATCGCAA
Found at i:1023160 original size:41 final size:42
Alignment explanation
Indices: 1023110--1023216 Score: 137
Period size: 40 Copynumber: 2.6 Consensus size: 42
1023100 CGCAATATTT
1023110 TTTGCGTTTAAACGCAATAATTTTGCGATAAAACGCAAT-AC
1 TTTGCGTTTAAACGCAATAATTTTGCGATAAAACGCAATCAC
* * *
1023151 TTTGCGTTTAAACGCAA-AACTTTGCGTTTAAACGCAATCCAC
1 TTTGCGTTTAAACGCAATAATTTTGCGATAAAACGCAAT-CAC
* * *
1023193 TTTGCGTTTCATCGCAATACTTTT
1 TTTGCGTTTAAACGCAATAATTTT
1023217 TGCGTTTTAT
Statistics
Matches: 56, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
40 18 0.32
41 17 0.30
42 17 0.30
43 4 0.07
ACGTcount: A:0.30, C:0.21, G:0.14, T:0.36
Consensus pattern (42 bp):
TTTGCGTTTAAACGCAATAATTTTGCGATAAAACGCAATCAC
Found at i:1023197 original size:83 final size:83
Alignment explanation
Indices: 1023090--1023252 Score: 193
Period size: 83 Copynumber: 2.0 Consensus size: 83
1023080 ATACTAGCAC
***
1023090 TGCGTTTAAACGCAATATTTTTTGCGTTTAAACGCAATA-ATTTTGCGATAAAACGCAATACTTT
1 TGCGTTTAAACGCAATACACTTTGCGTTTAAACGCAATACATTTTGCGATAAAACGCAATACTTT
1023154 GCGTTTAAACGCAAAACTT
66 GCG-TTAAACGCAAAACTT
* * * * * ** * **
1023173 TGCGTTTAAACGCAATCCACTTTGCGTTTCATCGCAATACTTTTTGCGTTTTATCGCAATTTTTT
1 TGCGTTTAAACGCAATACACTTTGCGTTTAAACGCAATACATTTTGCGATAAAACGCAATACTTT
1023238 GCGTTAAACGCAAAA
66 GCGTTAAACGCAAAA
1023253 TACATTGCAA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
83 45 0.68
84 21 0.32
ACGTcount: A:0.29, C:0.19, G:0.15, T:0.37
Consensus pattern (83 bp):
TGCGTTTAAACGCAATACACTTTGCGTTTAAACGCAATACATTTTGCGATAAAACGCAATACTTT
GCGTTAAACGCAAAACTT
Found at i:1023217 original size:105 final size:106
Alignment explanation
Indices: 1023042--1023294 Score: 260
Period size: 105 Copynumber: 2.4 Consensus size: 106
1023032 CGATAAAACT
** * *
1023042 TTTGCGTTTATTCGCAAAATATATTGCGTTTAAACGCAATACTAGCACTGCGTTTAAACGCAATA
1 TTTGCGTTTAAACGCAAAA-CT-TTGCGTTTAAACGCAATACCAGCACTGCGTTTAAACGCAATA
*
1023107 TTTTTTGCGTTTAAACGCAATAATTTTGCGATAAAACGC-AATAC
64 CTTTTTGCGTTTAAACGCAAT-ATTTTGCG-TAAAACGCAAATAC
** * *
1023151 TTTGCGTTTAAACGCAAAACTTTGCGTTTAAACGCAAT-CCA-CTTTGCGTTTCATCGCAATACT
1 TTTGCGTTTAAACGCAAAACTTTGCGTTTAAACGCAATACCAGCACTGCGTTTAAACGCAATACT
* * * *
1023214 TTTTGCGTTTTATCGCAATTTTTTGCGTTAAACGCAAAATAC
66 TTTTGCGTTTAAACGCAATATTTTGCGTAAAACGC-AAATAC
* *** * * *
1023256 ATTGCAAATAAACGCAAAACATTGCATTAAAACGCAATA
1 TTTGCGTTTAAACGCAAAACTTTGCGTTTAAACGCAATA
1023295 AATATTGCGA
Statistics
Matches: 121, Mismatches: 20, Indels: 9
0.81 0.13 0.06
Matches are distributed among these distances:
103 7 0.06
104 7 0.06
105 70 0.58
106 2 0.02
107 17 0.14
108 1 0.01
109 17 0.14
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (106 bp):
TTTGCGTTTAAACGCAAAACTTTGCGTTTAAACGCAATACCAGCACTGCGTTTAAACGCAATACT
TTTTGCGTTTAAACGCAATATTTTGCGTAAAACGCAAATAC
Found at i:1023279 original size:20 final size:22
Alignment explanation
Indices: 1023242--1023281 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
1023232 TTTTTTGCGT
1023242 TAAACGCAAAATACATTGCAAA
1 TAAACGCAAAATACATTGCAAA
1023264 TAAACGC-AAA-ACATTGCA
1 TAAACGCAAAATACATTGCA
1023282 TTAAAACGCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 8 0.44
21 3 0.17
22 7 0.39
ACGTcount: A:0.53, C:0.20, G:0.10, T:0.17
Consensus pattern (22 bp):
TAAACGCAAAATACATTGCAAA
Found at i:1029943 original size:4 final size:4
Alignment explanation
Indices: 1029916--1029977 Score: 90
Period size: 4 Copynumber: 15.8 Consensus size: 4
1029906 AAAGTTTACA
* * *
1029916 GACG GACA GACA GACG GACA GACG GACG GACG GACG GACG GACG GACG
1 GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG GACG
1029964 GACG GAC- GACG GAC
1 GACG GACG GACG GAC
1029978 AAAAAGTGAT
Statistics
Matches: 53, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
3 3 0.06
4 50 0.94
ACGTcount: A:0.31, C:0.26, G:0.44, T:0.00
Consensus pattern (4 bp):
GACG
Found at i:1033174 original size:164 final size:164
Alignment explanation
Indices: 1032844--1033337 Score: 828
Period size: 164 Copynumber: 3.0 Consensus size: 164
1032834 CTTGAAAACT
*
1032844 GAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCCTAGTTGTGAAAATCATGAC
1 GAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCCAAGTTGTGAAAATCATGA-
* * * * * *
1032909 CCCCGGGGGTATGTTGGGGCCACGATGGGGGCGTGAAGTTTTACATAGGAATATATAGAGTAAAT
65 CCCCGAGGGTAGGGTGGGGCCACAATGGGGG-TTGAAGTTTTACATAGGAATAAATAGAGTAAAT
*
1032974 CTTTAAAAATCTTCTTCTCAGAAACTAATAAGCCAG
129 CTTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAG
1033010 GAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCCAAGTTGTGAAAATCATGAC
1 GAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCCAAGTTGTGAAAATCATGAC
1033075 CCCGAGGGTAGGGTGGGGCCACAATGGGGGTTGAAGTTTTACATAGGAATAAATAGAGTAAATCT
66 CCCGAGGGTAGGGTGGGGCCACAATGGGGGTTGAAGTTTTACATAGGAATAAATAGAGTAAATCT
1033140 TTAAAAATCTTCTTCTCAGAAACTAATCAGCCAG
131 TTAAAAATCTTCTTCTCAGAAACTAATCAGCCAG
* *
1033174 GAAAGCTGAAACTTGTGTGGAAGCATCCTCAGGTAGTGTAGATTCCAATTTGTGAAAATCATGAC
1 GAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCCAAGTTGTGAAAATCATGAC
** *
1033239 CCCGAGGGTAGGGTGGGGCCACAATGGGGGTCAAAGTTTTACATAGGAATATAA-AGAGTAAATT
66 CCCGAGGGTAGGGTGGGGCCACAATGGGGGTTGAAGTTTTACATAGGAATA-AATAGAGTAAATC
*
1033303 TTTAAAAATCTTCTTCTCAGAAACTTATCAGCCAG
130 TTTAAAAATCTTCTTCTCAGAAACTAATCAGCCAG
1033338 ATGATTCTAT
Statistics
Matches: 313, Mismatches: 14, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
164 221 0.71
165 29 0.09
166 63 0.20
ACGTcount: A:0.32, C:0.16, G:0.25, T:0.27
Consensus pattern (164 bp):
GAAAGCTGAAACTTGTGTGGAAGCATTCTCAGGTAGTGTAGATTCCAAGTTGTGAAAATCATGAC
CCCGAGGGTAGGGTGGGGCCACAATGGGGGTTGAAGTTTTACATAGGAATAAATAGAGTAAATCT
TTAAAAATCTTCTTCTCAGAAACTAATCAGCCAG
Found at i:1036651 original size:11 final size:11
Alignment explanation
Indices: 1036635--1036664 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
1036625 ATTTACTTAG
1036635 TGTCATTTTAT
1 TGTCATTTTAT
*
1036646 TGTCATGTTAT
1 TGTCATTTTAT
1036657 TGTCATTT
1 TGTCATTT
1036665 AAATTTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.17, C:0.10, G:0.13, T:0.60
Consensus pattern (11 bp):
TGTCATTTTAT
Found at i:1038870 original size:26 final size:26
Alignment explanation
Indices: 1038841--1038896 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
1038831 CCCTTAATTT
*
1038841 ATTTTACAGGTTTTATCTTATGATTA
1 ATTTGACAGGTTTTATCTTATGATTA
*
1038867 ATTTGACAGGTTTTATCTTTTGATT-
1 ATTTGACAGGTTTTATCTTATGATTA
1038892 ATTTG
1 ATTTG
1038897 TTCATATGCA
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 5 0.18
26 23 0.82
ACGTcount: A:0.23, C:0.07, G:0.14, T:0.55
Consensus pattern (26 bp):
ATTTGACAGGTTTTATCTTATGATTA
Found at i:1044868 original size:56 final size:56
Alignment explanation
Indices: 1044801--1044912 Score: 197
Period size: 56 Copynumber: 2.0 Consensus size: 56
1044791 AGCTGTACCC
* *
1044801 CATTATACATGGTTTATGGAGAAACCGGAAGGTTTCTGTTATCTGTTAAGATATAT
1 CATTATACATGGTTTATGGAGAAACCGGAAGGTGTCCGTTATCTGTTAAGATATAT
*
1044857 CATTATACATGGTTTATGGAGAAACCGGAAGGTGTCCGTTATCTGTTAATATATAT
1 CATTATACATGGTTTATGGAGAAACCGGAAGGTGTCCGTTATCTGTTAAGATATAT
1044913 ACTAGAATGG
Statistics
Matches: 53, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 53 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (56 bp):
CATTATACATGGTTTATGGAGAAACCGGAAGGTGTCCGTTATCTGTTAAGATATAT
Found at i:1045877 original size:146 final size:146
Alignment explanation
Indices: 1045611--1046996 Score: 1736
Period size: 146 Copynumber: 9.5 Consensus size: 146
1045601 GTCTGTGCAA
* *
1045611 TTGTGTCCGGTCTATATCTTTCTTATAGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * * * *
1045676 TTATGACCTAAGTGTGTGTCATGACCTTGACCCAAGGCCATTCCGGCAAGGTCAAGGTCACAGGT
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
*
1045741 AGAAAAAATACAAAAT
131 AGAAAAAATGCAAAAT
* * * * ** * *
1045757 TCGTGTCTGGTCCATATCTTTCTTTTTGAGAATTATTGTAAGTTCTTACTTCACACAAAGATTGT
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * *
1045822 TTATAACCTAAGGGTGTGTCATGACCTTGACCAAAGGTCATTCCGGCAAGGTCAAGGTCACTGGC
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
*
1045887 AGAAAAAATACAAAAT
131 AGAAAAAATGCAAAAT
* *
1045903 TTGTGTCCGGTCCATATCTTCCTT-TGGAGAATA-ATTGTTAAGTTCTTACTTCACACAAAGATT
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAA-ACATTG-GAAGTTCTTACTTCACACAAAGATT
* * * *
1045966 GCTTATGACCTAAGGGTGTGGCATGACCTTGACCCAAGGTCATTTGGGCAAGGTCAAGGTCAATT
64 GCTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTG
* *
1046031 GCAGAAAAAGTGCCAAAT
129 GCAGAAAAAATGCAAAAT
* *
1046049 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTAATTCACACAAATATTGC
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
*
1046114 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGA
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
*
1046179 AGAAAAAATACAAAAT
131 AGAAAAAATGCAAAAT
* * * *
1046195 TTGTGTCCGGTCCATATCTTTCTTTTTGAG-AACTATTGTAAGTTCGTACTTCACACAAAGATTG
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAAC-ATTGGAAGTTCTTACTTCACACAAAGATTG
* * * * * * * * * *
1046259 TTTTTGACCTAAGAGTTTGTCACGACCTTAACCCAAGGTCATTTGGGCGAGGTTAAGGTCACTGA
65 CTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGG
* * *
1046324 CAGGAAAATTACAAAAT
130 CAGAAAAAATGCAAAAT
* * * ** * *
1046341 TCGTGTCCGGTCCTTATCTTTCTGATGGAGAATTATTGTAAATTCTTACTTCACACAAAGATTGC
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* *
1046406 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAGGGTCAAGGTCACCT-A
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCA-CTGG
* *
1046470 CAGAAAAAGTGCAATAT
130 CAGAAAAAATGCAAAAT
*
1046487 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTAATTCACACAAAGATTGC
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * **
1046552 TTATGACCTAAGGGTATGTCATGACCTTGATCCAAGGTCATTCGGGCAAGGTCAAGGTCGTTGG-
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
1046616 -GAAAAATAGTGCAAAAT
131 AGAAAAA-A-TGCAAAAT
* * *
1046633 TCGTGTCCGGTCCATATCTTTCTTTTGGAGAAACATTGGAAGTTCTTAATTCACACAAAGATTGC
1 TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
* * * ** * * **
1046698 TTATGACCTAAGGGTATGTCATGAACTTGATCCAAGGTCATTTTGGCAAGGGCATGGTCGTTGG-
66 TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
1046762 -GAAAAATAGTGCAAAAT
131 AGAAAAA-A-TGCAAAAT
* *
1046779 TTGTGTCC-GT-CATTATCTTTCTTATGGAGAAACATTGGAAGTTCTTAATTCACACAAAAATTG
1 TTGTGTCCGGTCCA-TATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTG
* ** **
1046842 CTTATGACCTAAGGGTGTGTCATGACCTTGATCCAAGGTCATTTTGGCAAGGTCAAGGTCGTTGG
65 CTTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGG
* * *
1046907 AAAAAAAAATGCAATAT
130 CAGAAAAAATGCAAAAT
* * * * * *
1046924 TCGTTTCTGGT-CATTATCTTTCTTATGGAGAAGCATT-GAATGTTCTAACTTCTA-ACAAATAT
1 TTGTGTCCGGTCCA-TATCTTTCTTATGGAGAAACATTGGAA-GTTCTTACTTC-ACACAAAGAT
1046986 TGCTTATGACC
63 TGCTTATGACC
1046997 AACAGTTTTA
Statistics
Matches: 1100, Mismatches: 124, Indels: 32
0.88 0.10 0.03
Matches are distributed among these distances:
144 8 0.01
145 140 0.13
146 932 0.85
147 20 0.02
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.31
Consensus pattern (146 bp):
TTGTGTCCGGTCCATATCTTTCTTATGGAGAAACATTGGAAGTTCTTACTTCACACAAAGATTGC
TTATGACCTAAGGGTGTGTCATGACCTTGACCCAAGGTCATTCGGGCAAGGTCAAGGTCACTGGC
AGAAAAAATGCAAAAT
Found at i:1047282 original size:2 final size:2
Alignment explanation
Indices: 1047275--1047311 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1047265 TTTTTGTAAT
*
1047275 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1047312 GTGTGTGTGT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1049485 original size:46 final size:46
Alignment explanation
Indices: 1049429--1049520 Score: 166
Period size: 46 Copynumber: 2.0 Consensus size: 46
1049419 TAGTCCTTCA
*
1049429 AAATACTATCAGTACATCATATAGCTACTGTAAGTTTAGGAACATC
1 AAATACTATCAGTACATCATATAGCTACTGGAAGTTTAGGAACATC
*
1049475 AAATATTATCAGTACATCATATAGCTACTGGAAGTTTAGGAACATC
1 AAATACTATCAGTACATCATATAGCTACTGGAAGTTTAGGAACATC
1049521 CATTAATACT
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.30
Consensus pattern (46 bp):
AAATACTATCAGTACATCATATAGCTACTGGAAGTTTAGGAACATC
Done.