Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008225.1 Hibiscus syriacus cultivar Beakdansim tig00110858_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1890193
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 9 of 10
Found at i:1617347 original size:14 final size:14
Alignment explanation
Indices: 1617328--1617354 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
1617318 ACTGAGCTGT
1617328 TTGAAAGCCCCATG
1 TTGAAAGCCCCATG
1617342 TTGAAAGCCCCAT
1 TTGAAAGCCCCAT
1617355 CTTCACCATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (14 bp):
TTGAAAGCCCCATG
Found at i:1621150 original size:53 final size:54
Alignment explanation
Indices: 1621055--1621253 Score: 271
Period size: 53 Copynumber: 3.7 Consensus size: 54
1621045 AAAATAAGGT
* *
1621055 TCGCTCTCTATCGT-TTCAGGGAGTAAAAACTCGAACAATCTTCTTCCTACGGG-
1 TCGCTCTCTAT-TTCTTCAGGGAGTAAGAACTCGAACAATCTTCTTCCTACGGGC
* *
1621108 TCTGCTCTTTTTTTCTTCAGGGAGT-AGAACTCGAACAATCTTCTTCCTACGGGC
1 TC-GCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATCTTCTTCCTACGGGC
* * ** *
1621162 TCGCTATCTCTTTCTTCAGGGAGT-AGAACTCGAACAATAATCTTCTTACGGGC
1 TCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATCTTCTTCCTACGGGC
1621215 TCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAAT
1 TCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAAT
1621254 AATCTTCTTA
Statistics
Matches: 130, Mismatches: 12, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
53 97 0.75
54 33 0.25
ACGTcount: A:0.24, C:0.25, G:0.19, T:0.33
Consensus pattern (54 bp):
TCGCTCTCTATTTCTTCAGGGAGTAAGAACTCGAACAATCTTCTTCCTACGGGC
Found at i:1621300 original size:54 final size:53
Alignment explanation
Indices: 1621069--1621286 Score: 267
Period size: 53 Copynumber: 4.1 Consensus size: 53
1621059 TCTCTATCGT
* ** * * *
1621069 TTCAGGGAGTAAAAACTCGAACAATCTTCTTCCTACGGG-TCTGCTCTTTTTTTC
1 TTCAGGGAGT-AGAACTCGAACAATAATCTTCTTACGGGCTC-GCTCTCTCTTTC
** * *
1621123 TTCAGGGAGTAGAACTCGAACAATCTTCTTCCTACGGGCTCGCTATCTCTTTC
1 TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
*
1621176 TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTATTTC
1 TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
** * *
1621229 TTCAGGGAGTAAGAACTCGAACAATAATCTTCTTACGATCGCGCTCTCCCTTTC
1 TTCAGGGAGT-AGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
1621283 TTCA
1 TTCA
1621287 AGAAAATAGA
Statistics
Matches: 148, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
53 94 0.64
54 54 0.36
ACGTcount: A:0.23, C:0.26, G:0.17, T:0.33
Consensus pattern (53 bp):
TTCAGGGAGTAGAACTCGAACAATAATCTTCTTACGGGCTCGCTCTCTCTTTC
Found at i:1621393 original size:108 final size:107
Alignment explanation
Indices: 1621329--1623516 Score: 2999
Period size: 108 Copynumber: 20.3 Consensus size: 107
1621319 TATATGCTCT
* ** *
1621329 CTATTTCTTCAGAGAGTATAAGACTCGAATC-ATCTTAAACAAACTTATCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAACTGA-TTGTCTGCCCCCTATTTCTT
* *
1621393 CAGAGAGTATAAGACCCATAATCTTCATCGATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* * * **
1621437 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAAC-GGTCACGTCTGCCCATTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
* *
1621499 CAGAGAGTATAAGACCAACAATCTTCATCAATCGCATCTGTCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTG-CCCC
*
1621544 CTATTTCTTCACAGAGTATAAGACTCGAACAATCTTCAAC-GATTGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
1621608 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
1621652 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
* * *
1621716 CAGAGAGTATAAGACTCAAACAATCTTCAACGATCGCGTCTGCCCC
64 CAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCC
* * *
1621762 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATC-GATCGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
* * * *
1621824 CAGAGAGTATAAGACCCACAATCTTCAACGATCGTGT-TTCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* * *
1621867 CTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATC-AATCACGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
* * * *
1621929 CAGAGAGTATAAGACTCAAACAATCTTCAACGATTGCGTCTGCCCC
64 CAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCC
* *
1621975 TTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTGCGTCTGCCCCTTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
*
1622039 CAGAGAGTATAAGACCCACAATCTTCATCAATTGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* *
1622083 CTATTTCTTCAGAGAGTATAAGACTCTAACAATCTTCAA-TGATTGTGTCTGCCCCCTATATCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGA-T-TGTCTGCCCCCTATTTCTT
* *
1622147 CAGAGAGTATAAGACCCATAATCTTCATCAATAGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* **
1622191 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-GATTGTGTTTTCCCCTATTTCTTC
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATTGT-CTGCCCCCTATTTCTTC
1622255 AGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
65 AGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* * *
1622298 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAAC-GATCGCGTCTGCCCCCTATATCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
*
1622360 CAGAGAGTATAAGACCAACAATCTTCATCAATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
1622404 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-GATTACGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
*
1622468 CAAAGAGTATAAGACCCACAATCTTCATCAATCGC-TCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1622511 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTGCGTCTGCCCCTTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
* *
1622575 CAGAGAATAAAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1622619 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATTGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
* * *
1622683 CAGAGAGTATAAGACCCACAATCTTTATCAATCGTGTTTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1622727 TTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTACGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
* *
1622791 CAAAGAGTATAAGACCCACATTCTTCATCAATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
1622835 CTATTTC-TCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
1622898 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1622942 CTATTTTTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-GATTGTGGCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATTGT--CTGCCCCCTATTTCTT
1623006 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* *
1623050 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAAC-GATCGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
* * *
1623112 TAGAGAGTATAAGACCAACAATCTTCATCGATCGCGTCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* *
1623156 CTATTTCTTCAGAGAGTATAAGACTCGAACAACCTTCAAC-GATTGTGTCTGTCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGA-T-TGTCTGCCCCCTATTTCTT
*
1623220 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCATCTGCCCC
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1623264 CTATTTCTTCAGAGAGTATAAGACTCGAA-ATATCTTCAA-TGATTACGTCTTCCCCCTATTTCT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACA-ATCTTCAACTGATT--GTCTGCCCCCTATTTCT
*
1623327 TCAGAGAGTAAAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
63 TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* * * * * *
1623372 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATATTTATC-AATCGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
* * * *
1623434 TAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCGTCTGCCCC
64 CAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCC
*
1623480 TTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1623517 TTTTGTTTCA
Statistics
Matches: 1893, Mismatches: 130, Indels: 112
0.89 0.06 0.05
Matches are distributed among these distances:
104 1 0.00
105 95 0.05
106 300 0.16
107 340 0.18
108 980 0.52
109 75 0.04
110 102 0.05
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (107 bp):
CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATTGTCTGCCCCCTATTTCTTCA
GAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
Found at i:1621440 original size:53 final size:53
Alignment explanation
Indices: 1621376--1623516 Score: 2812
Period size: 53 Copynumber: 39.8 Consensus size: 53
1621366 AACAAACTTA
* *
1621376 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCATAATCTTCATCGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * * *
1621429 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGGTCACG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
** * *
1621482 TCTGCCCATTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCAATCGCA
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * *
1621535 TCTGTCCCCCTATTTCTTCACAGAGTATAAGACTCGAACAATCTTCAACGATTGCG
1 TCTG-CCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
* *
1621591 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
*
1621644 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-GATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC-ATCGATCGCG
*
1621699 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAACGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
*
1621754 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * *
1621807 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGTG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * *
1621860 T-TTCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCAATCACG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* *
1621912 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAACGATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
* *
1621967 TCTGCCCCTTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-GATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC-ATCGATCGCG
* * * *
1622022 TCTGCCCCTTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* *
1622075 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCTAACAATCTTCAAT-GATTGTG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC-ATCGATCGCG
* * * * *
1622130 TCTGCCCCCTATATCTTCAGAGAGTATAAGACCCATAATCTTCATCAATAGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * *
1622183 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
** * *
1622238 T-TTTCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* *
1622290 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* *
1622343 TCTGCCCCCTATATCTTCAGAGAGTATAAGACCAACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* **
1622396 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTACG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
* * *
1622451 TCTGCCCCCTATTTCTTCAAAGAGTATAAGACCCACAATCTTCATCAATCGC-
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
*
1622503 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-GATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC-ATCGATCGCG
* * * * *
1622558 TCTGCCCCTTATTTCTTCAGAGAATAAAAGACCCACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * *
1622611 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
* * * *
1622666 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTTATCAATCGTG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * **
1622719 TTTGCCCCTTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAT-GATTACG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC-ATCGATCGCG
* * * *
1622774 TCTGCCCCCTATTTCTTCAAAGAGTATAAGACCCACATTCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
*
1622827 TCTGCCCCCTATTTC-TCAGAGAGTATAAGACTCGAACAATCTTCAAT-GATTGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC-ATCGATCGCG
* *
1622881 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * * *
1622934 TCTGCCCCCTATTTTTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGTG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
* * *
1622989 GCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* *
1623042 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCAACGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
*
1623095 TCTGCCCCCTATTTCTTTAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * * *
1623148 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAACCTTCAACGATTGTG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
* * * *
1623203 TCTGTCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCA
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
**
1623256 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAA-ATATCTTCAAT-GATTACG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACA-ATCTTC-ATCGATCGCG
* * * *
1623311 TCTTCCCCCTATTTCTTCAGAGAGTAAAAGACCCACAATCTTCATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* * * *
1623364 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATATTTATCAATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
* *
1623417 TCTGCCCCCTATTTCTTTAGAGAGTATAAGACTCGAACAATCTTCAACGATCGCG
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCGATCGCG
*
1623472 TCTGCCCCTTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1 TCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTC
1623517 TTTTGTTTCA
Statistics
Matches: 1845, Mismatches: 194, Indels: 96
0.86 0.09 0.04
Matches are distributed among these distances:
52 120 0.07
53 919 0.50
54 120 0.07
55 657 0.36
56 29 0.02
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (53 bp):
TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCAACAATCTTCATCGATCGCG
Found at i:1621677 original size:323 final size:321
Alignment explanation
Indices: 1621329--1623516 Score: 3247
Period size: 323 Copynumber: 6.8 Consensus size: 321
1621319 TATATGCTCT
* ** *
1621329 CTATTTCTTCAGAGAGTATAAGACTCGAATC-ATCTTAAACAAACTTATCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAA-CAATCTTCAACTGA-TTGTCTGCCCCCTATTTCTT
* *
1621393 CAGAGAGTATAAGACCCATAATCTTCATCGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
* * ** *
1621458 GACCCACAATCTTCAACGGTCACGTCTGCCCATTATTTCTTCAGAGAGTATAAGACCAACAATCT
129 GACCCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCT
* *
1621523 TCATCAATCGCATCTGTCCCCCTATTTCTTCACAGAGTATAAGACTCGAACAATCTTCAACGATT
194 TCATCAATCGCGTCTG-CCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATT
1621588 GCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
258 GCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
1621652 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
* * *
1621716 CAGAGAGTATAAGACTCAAACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTAT
64 CAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTAT
*
1621781 AAGACCCACAATCTTCATCGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAAT
127 AAGACCCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAAT
* * * * * *
1621846 CTTCAACGATCGTGT-TTCCCCCTATTTCTTCAGAGAGTATAAGAC-C-AACAATCTTCATCAAT
192 CTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT
** * * * *
1621908 CACGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCAAACAATCTTCAACGATTGCGTCTGCC
257 TGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCATCAATCGCGTCTGCC
1621973 CC
320 CC
* *
1621975 TTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAA-TGATTGCGTCTGCCCCTTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
*
1622039 CAGAGAGTATAAGACCCACAATCTTCATCAATTGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
* * * * * *
1622104 GACTCTAACAATCTTCAATGATTGTGTCTGCCCCCTATATCTTCAGAGAGTATAAGACCCATAAT
129 GAC-C-CACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAAT
*
1622169 CTTCATCAATAGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT
192 CTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT
* **
1622234 TGTGT-TTTCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
257 TGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
* * *
1622298 CTATTTCTTCAGAGAGTATAAGAC-C-CACAATCTTCAAC-GATCGCGTCTGCCCCCTATATCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGAT--TGTCTGCCCCCTATTTCTT
*
1622360 CAGAGAGTATAAGACCAACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
* ** *
1622425 GACTCGAACAATCTTCAACGATTACGTCTGCCCCCTATTTCTTCAAAGAGTATAAGACCCACAAT
129 GAC-C-CACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAAT
*
1622490 CTTCATCAATCGC-TCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAATGAT
192 CTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT
* * *
1622554 TGCGTCTGCCCCTTATTTCTTCAGAGAATAAAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
257 TGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1622619 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATTGCGTCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATT--GTCTGCCCCCTATTTCTT
* * * *
1622683 CAGAGAGTATAAGACCCACAATCTTTATCAATCGTGTTTGCCCCTTATTTCTTCAGAGAGTATAA
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
* * ** * *
1622748 GACTCGAACAATCTTCAATGATTACGTCTGCCCCCTATTTCTTCAAAGAGTATAAGACCCACATT
129 GAC-C-CACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAAT
*
1622813 CTTCATCAATCGCGTCTGCCCCCTATTTC-TCAGAGAGTATAAGACTCGAACAATCTTCAATGAT
192 CTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGAT
1622877 TGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
257 TGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1622942 CTATTTTTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-GATTGTGGCTGCCCCCTATTTCTT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATTGT--CTGCCCCCTATTTCTT
1623006 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
64 CAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAA
* *
1623071 GACCCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAGACCAACAATCT
129 GACCCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCT
* *
1623136 TCATCGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAACCTTCAACGATTG
194 TCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTG
* * *
1623201 TGTCTGTCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCATCTGCCCC
259 CGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
*
1623264 CTATTTCTTCAGAGAGTATAAGACTCGAA-ATATCTTCAA-TGATTACGTCTTCCCCCTATTTCT
1 CTATTTCTTCAGAGAGTATAAGACTCGAACA-ATCTTCAACTGATT--GTCTGCCCCCTATTTCT
*
1623327 TCAGAGAGTAAAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
63 TCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATA
* * * * * *
1623392 AGACCCACAATATTTATCAATCGCGTCTGCCCCCTATTTCTTTAGAGAGTATAAGACTCGAACAA
128 AGACCCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGAC-C-CACAA
* * *
1623457 TCTTCAACGATCGCGTCTGCCCCTTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
191 TCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
1623517 TTTTGTTTCA
Statistics
Matches: 1713, Mismatches: 122, Indels: 59
0.90 0.06 0.03
Matches are distributed among these distances:
320 54 0.03
321 421 0.25
322 275 0.16
323 693 0.40
324 111 0.06
325 143 0.08
326 16 0.01
ACGTcount: A:0.28, C:0.28, G:0.14, T:0.30
Consensus pattern (321 bp):
CTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACTGATTGTCTGCCCCCTATTTCTTCA
GAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGA
CCCACAATCTTCAACGATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTC
ATCAATCGCGTCTGCCCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACGATTGCG
TCTGCCCCCTATTTCTTCAGAGAGTATAAGACCCACAATCTTCATCAATCGCGTCTGCCCC
Found at i:1626085 original size:20 final size:20
Alignment explanation
Indices: 1626060--1626102 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
1626050 GTGAGTTTTC
1626060 TTTCTTTCCTTTTTTCCAAT
1 TTTCTTTCCTTTTTTCCAAT
* *
1626080 TTTCTTTTCTTTTTTCCTAT
1 TTTCTTTCCTTTTTTCCAAT
1626100 TTT
1 TTT
1626103 TTAACATTGC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.07, C:0.21, G:0.00, T:0.72
Consensus pattern (20 bp):
TTTCTTTCCTTTTTTCCAAT
Found at i:1628378 original size:6 final size:6
Alignment explanation
Indices: 1628367--1628391 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1628357 ATGCAATGAA
1628367 AAATGC AAATGC AAATGC AAATGC A
1 AAATGC AAATGC AAATGC AAATGC A
1628392 CTAGGTGTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AAATGC
Found at i:1629182 original size:45 final size:45
Alignment explanation
Indices: 1629097--1629186 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
1629087 CACAAAAAAT
* *
1629097 CCTAACCACATGGTATCTAATTCACATGCTTGCTTGAAAAATAAA
1 CCTAACCACATGATATCTAATTCACATACTTGCTTGAAAAATAAA
* * * *
1629142 CCTAACCACATGATCTCTAGTTCGCATACTT-TTTGCAAAAATAAA
1 CCTAACCACATGATATCTAATTCACATACTTGCTTG-AAAAATAAA
1629187 TAAATTCGAG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
44 3 0.08
45 35 0.92
ACGTcount: A:0.37, C:0.23, G:0.10, T:0.30
Consensus pattern (45 bp):
CCTAACCACATGATATCTAATTCACATACTTGCTTGAAAAATAAA
Found at i:1633867 original size:28 final size:28
Alignment explanation
Indices: 1633825--1633925 Score: 102
Period size: 28 Copynumber: 3.6 Consensus size: 28
1633815 TACGTTTATG
*
1633825 ATTATTTTTTTTATTTAATTAAGTATATA
1 ATTATTATTTTTATTTAATTAAGTA-ATA
* *
1633854 ATT-TTATTTTTATTTATTTAAGTAATT
1 ATTATTATTTTTATTTAATTAAGTAATA
*
1633881 ATTATTATTATTATTT-ATTAA-TACGA-A
1 ATTATTATTTTTATTTAATTAAGTA--ATA
1633908 ATTAATTATTTTTATTTA
1 ATT-ATTATTTTTATTTA
1633926 TTTCATAATA
Statistics
Matches: 60, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
26 2 0.03
27 12 0.20
28 43 0.72
29 3 0.05
ACGTcount: A:0.35, C:0.01, G:0.03, T:0.61
Consensus pattern (28 bp):
ATTATTATTTTTATTTAATTAAGTAATA
Found at i:1634591 original size:2 final size:2
Alignment explanation
Indices: 1634584--1634653 Score: 140
Period size: 2 Copynumber: 35.0 Consensus size: 2
1634574 TGTTTACCAA
1634584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1634626 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1634654 TGCCATAAAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 68 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1641640 original size:23 final size:23
Alignment explanation
Indices: 1641614--1641674 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 23
1641604 CCAAGTGTTT
1641614 GTGAACATGTTCGTTTAACATTC
1 GTGAACATGTTCGTTTAACATTC
** * * *
1641637 GTGAGTATATTTGTTTAATATTC
1 GTGAACATGTTCGTTTAACATTC
**
1641660 ACGAACATGTTCGTT
1 GTGAACATGTTCGTT
1641675 ATATATTTCG
Statistics
Matches: 27, Mismatches: 11, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (23 bp):
GTGAACATGTTCGTTTAACATTC
Found at i:1641664 original size:81 final size:81
Alignment explanation
Indices: 1641526--1641686 Score: 259
Period size: 81 Copynumber: 2.0 Consensus size: 81
1641516 TGATTCGTTT
* * * *
1641526 AGTGTTTGTGAACTTATTCGTTTAACATTCGTGAGCATATTTGTTTATTGTTTACGAACATGTTC
1 AGTGTTTGTGAACATATTCGTTTAACATTCGTGAGCATATTTGTTTAATATTCACGAACATGTTC
*
1641591 GTTATATGTTTCGCCA
66 GTTATATATTTCGCCA
* *
1641607 AGTGTTTGTGAACATGTTCGTTTAACATTCGTGAGTATATTTGTTTAATATTCACGAACATGTTC
1 AGTGTTTGTGAACATATTCGTTTAACATTCGTGAGCATATTTGTTTAATATTCACGAACATGTTC
1641672 GTTATATATTTCGCC
66 GTTATATATTTCGCC
1641687 GACATATTCA
Statistics
Matches: 73, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.45
Consensus pattern (81 bp):
AGTGTTTGTGAACATATTCGTTTAACATTCGTGAGCATATTTGTTTAATATTCACGAACATGTTC
GTTATATATTTCGCCA
Found at i:1651957 original size:243 final size:243
Alignment explanation
Indices: 1651520--1652011 Score: 921
Period size: 243 Copynumber: 2.0 Consensus size: 243
1651510 AATTACCAAA
1651520 AAAAATGATGAAGGAAAAACTAAGAAACAGTAGTGTTATGAAGCATTTCATATAGAAATGCTAGA
1 AAAAATGATGAAGGAAAAACTAAGAAACAGTAGTGTTATGAAGCATTTCATATAGAAATGCTAGA
*
1651585 AACTCATTTATTTGTACCAGTAACTATCTGATAGATATGGTTTGCTGGTATGTGAGGCCTGTTCA
66 AACTCATTTATTTGTACCAGTAACTATCTGATAGATATGATTTGCTGGTATGTGAGGCCTGTTCA
* *
1651650 GCCTTTAATTGATGAATTCCAATGGCTGGTTCTAGCAATAACCCCCTGGTCAAGATATACTTTTA
131 GCCTTTAATTGATGAATTCCAATGGCTGGTTCTAGCAATAACACCCTGGTCAAGATACACTTTTA
*
1651715 GTTATAGCAAATACATACTGACCCGTTACTTTTTTAACCTTAGGTACC
196 GTTATAGCAAATACATACTGACCCATTACTTTTTTAACCTTAGGTACC
*
1651763 AAAAATGATGAAGGAAAAACTAAGAAACAGTAGTGTTATGAAGCATTTCATATGGAAATGCTAGA
1 AAAAATGATGAAGGAAAAACTAAGAAACAGTAGTGTTATGAAGCATTTCATATAGAAATGCTAGA
1651828 AACTCATTTATTTGTACCAGTAACTATCTGATAGATATGATTTGCTGGTATGTGAGGCCTGTTCA
66 AACTCATTTATTTGTACCAGTAACTATCTGATAGATATGATTTGCTGGTATGTGAGGCCTGTTCA
* *
1651893 GCCTTTAATTGATGAATTCCAATGGCTGGTTCTGGCAATAACACCCTGGTCAAGGTACACTTTTA
131 GCCTTTAATTGATGAATTCCAATGGCTGGTTCTAGCAATAACACCCTGGTCAAGATACACTTTTA
1651958 GTTATAGCAAATACATACTGACCCATTACTTTTTTAACCTTAGGTACC
196 GTTATAGCAAATACATACTGACCCATTACTTTTTTAACCTTAGGTACC
1652006 AAAAAT
1 AAAAAT
1652012 TTGTGCTTAG
Statistics
Matches: 242, Mismatches: 7, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
243 242 1.00
ACGTcount: A:0.34, C:0.16, G:0.18, T:0.32
Consensus pattern (243 bp):
AAAAATGATGAAGGAAAAACTAAGAAACAGTAGTGTTATGAAGCATTTCATATAGAAATGCTAGA
AACTCATTTATTTGTACCAGTAACTATCTGATAGATATGATTTGCTGGTATGTGAGGCCTGTTCA
GCCTTTAATTGATGAATTCCAATGGCTGGTTCTAGCAATAACACCCTGGTCAAGATACACTTTTA
GTTATAGCAAATACATACTGACCCATTACTTTTTTAACCTTAGGTACC
Found at i:1654163 original size:72 final size:73
Alignment explanation
Indices: 1654041--1654191 Score: 286
Period size: 72 Copynumber: 2.1 Consensus size: 73
1654031 TATTTGCAGC
*
1654041 ATCAATAAAGTGTCAAGCCCAGAATCAATAAAAACGCGACTTCAAGAGGC-AAATAGGTAAAATG
1 ATCAGTAAAGTGTCAAGCCCAGAATCAATAAAAACGCGACTTCAAGAGGCAAAATAGGTAAAATG
1654105 AGTGGAGA
66 AGTGGAGA
1654113 ATCAGTAAAGTGTCAAGCCCAGAATCAATAAAAACGCGACTTCAAGAGGCAAAATAGGTAAAATG
1 ATCAGTAAAGTGTCAAGCCCAGAATCAATAAAAACGCGACTTCAAGAGGCAAAATAGGTAAAATG
1654178 AGTGGAGA
66 AGTGGAGA
1654186 ATCAGT
1 ATCAGT
1654192 GTTATTTCAT
Statistics
Matches: 77, Mismatches: 1, Indels: 1
0.97 0.01 0.01
Matches are distributed among these distances:
72 49 0.64
73 28 0.36
ACGTcount: A:0.45, C:0.15, G:0.23, T:0.17
Consensus pattern (73 bp):
ATCAGTAAAGTGTCAAGCCCAGAATCAATAAAAACGCGACTTCAAGAGGCAAAATAGGTAAAATG
AGTGGAGA
Found at i:1658783 original size:14 final size:14
Alignment explanation
Indices: 1658764--1658799 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
1658754 TTGAGCCTCA
*
1658764 AATTTTTTCACTCC
1 AATTTTTTCAATCC
*
1658778 AATTTTCTCAATCC
1 AATTTTTTCAATCC
1658792 AATTTTTT
1 AATTTTTT
1658800 ACTTTTATAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.25, C:0.22, G:0.00, T:0.53
Consensus pattern (14 bp):
AATTTTTTCAATCC
Found at i:1658927 original size:43 final size:43
Alignment explanation
Indices: 1658880--1659041 Score: 141
Period size: 43 Copynumber: 3.8 Consensus size: 43
1658870 CAATCTTACC
* * *
1658880 TTTTACCATTACAATTGAGGTCCTTAATTTTTTCAATATCACT
1 TTTTACCTTTATAATTGAGGTCCTTAATTTTTTCAATACCACT
* * *
1658923 TTTTAGCTTTATAATTGAGGT-CTCTAATCCTTTTCAATCCCACT
1 TTTTACCTTTATAATTGAGGTCCT-TAAT-TTTTTCAATACCACT
* * * * *
1658967 ATCTATCTTTATAATTGAGGCCCTTAATTTTTTCAAT-CTCAAT
1 TTTTACCTTTATAATTGAGGTCCTTAATTTTTTCAATAC-CACT
* * * *
1659010 TTCTACCTTTATGATCGAGG-CCCTAATTTTTT
1 TTTTACCTTTATAATTGAGGTCCTTAATTTTTT
1659042 AAGTTCCATA
Statistics
Matches: 98, Mismatches: 17, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
42 14 0.14
43 49 0.50
44 33 0.34
45 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.09, T:0.46
Consensus pattern (43 bp):
TTTTACCTTTATAATTGAGGTCCTTAATTTTTTCAATACCACT
Found at i:1660189 original size:25 final size:23
Alignment explanation
Indices: 1660152--1660207 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
1660142 GTACCAAATA
1660152 ATTATCTATAATATAATTATAT-TAT
1 ATTAT-TATAATA-AA-TATATCTAT
1660177 ATTATTATGAATAAATATATCTAT
1 ATTATTAT-AATAAATATATCTAT
1660201 ATATATT
1 AT-TATT
1660208 GCTATGTCGA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
23 5 0.18
24 10 0.36
25 13 0.46
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (23 bp):
ATTATTATAATAAATATATCTAT
Found at i:1660633 original size:2 final size:2
Alignment explanation
Indices: 1660622--1660653 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
1660612 CTATGTCCAT
1660622 TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1660654 AACTAACATT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:1664872 original size:22 final size:23
Alignment explanation
Indices: 1664832--1664874 Score: 63
Period size: 22 Copynumber: 1.9 Consensus size: 23
1664822 CGTATAAATT
1664832 TATTATTTTATAAGAATTCTATA
1 TATTATTTTATAAGAATTCTATA
1664855 TATTAATTTT-TAA-AATTCTA
1 TATT-ATTTTATAAGAATTCTA
1664875 ACTTCAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 7 0.37
23 7 0.37
24 5 0.26
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TATTATTTTATAAGAATTCTATA
Found at i:1670168 original size:23 final size:23
Alignment explanation
Indices: 1670137--1670191 Score: 92
Period size: 23 Copynumber: 2.4 Consensus size: 23
1670127 CCTGTGGTAA
*
1670137 GTATGGCACCTATTGTCCAGCTG
1 GTATAGCACCTATTGTCCAGCTG
1670160 GTATAGCACCTATTGTCCAGCTG
1 GTATAGCACCTATTGTCCAGCTG
*
1670183 GTTTAGCAC
1 GTATAGCAC
1670192 TCAACAATAA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 30 1.00
ACGTcount: A:0.20, C:0.25, G:0.24, T:0.31
Consensus pattern (23 bp):
GTATAGCACCTATTGTCCAGCTG
Found at i:1673176 original size:2 final size:2
Alignment explanation
Indices: 1673169--1673210 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
1673159 TATACACATA
1673169 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1673211 GTGTGTGCAC
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:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1678291 original size:22 final size:22
Alignment explanation
Indices: 1678266--1678316 Score: 84
Period size: 22 Copynumber: 2.3 Consensus size: 22
1678256 ACGTGAGAAT
*
1678266 CACGGGTTCTGCAAGGAGAGAG
1 CACGGGTTCTGCAAGGAGAAAG
*
1678288 CACGGGTTCTGCAAGGAGAAAT
1 CACGGGTTCTGCAAGGAGAAAG
1678310 CACGGGT
1 CACGGGT
1678317 CCTGGGTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.27, C:0.20, G:0.37, T:0.16
Consensus pattern (22 bp):
CACGGGTTCTGCAAGGAGAAAG
Found at i:1679093 original size:172 final size:173
Alignment explanation
Indices: 1678806--1679164 Score: 560
Period size: 172 Copynumber: 2.1 Consensus size: 173
1678796 TTGTAAAGTT
* * * *
1678806 TTAGGGACCATTTTGTAAAATTTAAGGAATTTAAGGAATAAGAGTAAATTATTAAAAGTTGCTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
*
1678871 ACTATGCTGGAATTTAGTATTAGTATGCTTAATTGGTTAAATTAGAAAGAATTTA-AAATTTA-T
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
*
1678934 AGATTAAATTGCTAACTTTGAAAATGTTGAGAACCAAATAGTAA
131 -GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
* * * * *
1678978 TTAGGGATCGTTTTGCAAAATTTGAGGAATTTAATAAATTAGAGTAAATTATAAAAAGTTGGTAT
1 TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
* *
1679043 ACTATGCTTGAATTTAGTATTAATATGCTTAATTGGTTAAATTTGAAAGAATTTATAAATTTAGT
66 ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
* *
1679108 GATTAAATTGCAAAGTTTGAAAATGTTGAGAAGCAAATAGTAA
131 GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
1679151 TTAGGGATCATTTT
1 TTAGGGATCATTTT
1679165 ATATTTGATG
Statistics
Matches: 169, Mismatches: 16, Indels: 3
0.90 0.09 0.02
Matches are distributed among these distances:
172 108 0.64
173 60 0.36
174 1 0.01
ACGTcount: A:0.40, C:0.05, G:0.18, T:0.37
Consensus pattern (173 bp):
TTAGGGATCATTTTGCAAAATTTAAGGAATTTAAGAAATAAGAGTAAATTATAAAAAGTTGCTAT
ACTATGCTGGAATTTAGTATTAATATGCTTAATTGGTTAAATTAGAAAGAATTTATAAATTTAGT
GATTAAATTGCAAACTTTGAAAATGTTGAGAACCAAATAGTAA
Found at i:1680917 original size:6 final size:6
Alignment explanation
Indices: 1680906--1680930 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1680896 CAAGAAGGAC
1680906 TGGGAG TGGGAG TGGGAG TGGGAG T
1 TGGGAG TGGGAG TGGGAG TGGGAG T
1680931 TCTTCTCACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.16, C:0.00, G:0.64, T:0.20
Consensus pattern (6 bp):
TGGGAG
Found at i:1681469 original size:37 final size:37
Alignment explanation
Indices: 1681419--1682212 Score: 1053
Period size: 37 Copynumber: 20.5 Consensus size: 37
1681409 CATTAAAGTC
*
1681419 AAGTAATTATTATTAAATCATGAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681456 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAG--------TTAAATCATTA
1681501 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681538 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
*
1681575 AA-TCATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAG--------TTAAATCATTA
1681619 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681656 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681693 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
*
1681730 AA-TCATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAG--------TTAAATCATTA
1681774 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681811 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
*
1681848 AA-TTATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAG--------TTAAATCATTA
1681892 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681929 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
*
1681966 AAGTAATTATTATTAAATCATTAAAGTTAAATAATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
* * * * *
1682003 TTATTAA--ATCATTAAA--GTTAAATCATTAAATCATTA
1 -AAGTAATTATTATTAAATCATTAAA--GTTAAATCATTA
1682039 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAG--------TTAAATCATTA
1682084 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1682121 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1682158 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
*
1682195 AAATAATTATTATTAAAT
1 AAGTAATTATTATTAAAT
1682213 ATGTACTCGA
Statistics
Matches: 687, Mismatches: 20, Indels: 100
0.85 0.02 0.12
Matches are distributed among these distances:
34 5 0.01
35 4 0.01
36 84 0.12
37 406 0.59
38 4 0.01
39 5 0.01
44 39 0.06
45 140 0.20
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.41
Consensus pattern (37 bp):
AAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
Found at i:1681611 original size:118 final size:119
Alignment explanation
Indices: 1681419--1682196 Score: 1157
Period size: 118 Copynumber: 6.6 Consensus size: 119
1681409 CATTAAAGTC
*
1681419 AAGTAATTATTATTAAATCATGAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1681484 AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
66 AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
*
1681538 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAA-TCATTATTATTAAATCATTAAAGTT
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1681602 AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
66 AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681656 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
* * * * *
1681721 AAATCATTAAATCATTATTATTAA--ATCATTAAA--GTTAAATCATTAAATCATTA
66 AAATCATTAAATCATTA-AAGTAATTATTATTAAATCATTAAA--GTTAAATCATTA
1681774 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
* * * * * *
1681839 AAATCATTAAATTATTATTATTAA--ATCATTAAA--GTTAAATCATTAAATCATTA
66 AAATCATTAAATCATTA-AAGTAATTATTATTAAATCATTAAA--GTTAAATCATTA
1681892 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAG--
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
*
1681955 ------TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATAATTA
66 AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
* * * * *
1682003 TTATTAA--ATCATTAAA--GTTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1 -AAGTAATTATTATTAAATCATTAAA--GTTAAATCATTAAAGTAATTATTATTAAATCATTAAA
1682064 GTTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
63 GTTAAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1682121 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1 AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
1682186 AAATCATTAAA
66 AAATCATTAAA
1682197 ATAATTATTA
Statistics
Matches: 609, Mismatches: 27, Indels: 46
0.89 0.04 0.07
Matches are distributed among these distances:
108 5 0.01
109 4 0.01
110 55 0.09
111 18 0.03
112 4 0.01
113 5 0.01
116 5 0.01
117 4 0.01
118 363 0.60
119 137 0.22
120 4 0.01
121 5 0.01
ACGTcount: A:0.49, C:0.06, G:0.05, T:0.40
Consensus pattern (119 bp):
AAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTT
AAATCATTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
Found at i:1681670 original size:155 final size:155
Alignment explanation
Indices: 1681445--1682212 Score: 1201
Period size: 155 Copynumber: 4.9 Consensus size: 155
1681435 ATCATGAAAG
1681445 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTAAAGTAATTA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAG--------TTAAATCATTAAAGTAATTA
1681510 TTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
58 TTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTA
1681575 AATCATTATTATTAAATCATTAAAGTTAAATCA
123 AATCATTATTATTAAATCATTAAAGTTAAATCA
1681608 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
1681673 TCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
66 TCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
1681738 TTATTAAATCATTAAAGTTAAATCA
131 TTATTAAATCATTAAAGTTAAATCA
1681763 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
*
1681828 TCATTAAAGTTAAATCATTAAA-TTATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
66 TCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
* * * * *
1681892 -AAGTAATTATTATTAAATCATTAAA--G
131 TTATTAA--ATCATTAAA--GTTAAATCA
1681918 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
* * * * * * *
1681983 TCATTAAAGTTAAATAATTATTATTAA--ATCATTAAA--GTTAAATCATTAAATCATTAAAGTA
66 TCATTAAAGTTAAATCATTA-AAGTAATTATTATTAAATCATTAAA--GTTAAATCATTAAA-TC
1682044 ATTATTATTAAATCATTAAAGTTAAATCA
127 ATTATTATTAAATCATTAAAGTTAAATCA
1682073 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
1 TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
*
1682138 TCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAATAATT
66 TCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATT-AAATCATT
1682203 ATTATTAAAT
130 ATTATTAAAT
1682213 ATGTACTCGA
Statistics
Matches: 564, Mismatches: 24, Indels: 41
0.90 0.04 0.07
Matches are distributed among these distances:
153 14 0.02
154 45 0.08
155 410 0.73
156 39 0.07
157 14 0.02
158 5 0.01
163 37 0.07
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.41
Consensus pattern (155 bp):
TTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAAGTAATTATTATTAAA
TCATTAAAGTTAAATCATTAAAGTAATTATTATTAAATCATTAAAGTTAAATCATTAAATCATTA
TTATTAAATCATTAAAGTTAAATCA
Found at i:1685585 original size:18 final size:18
Alignment explanation
Indices: 1685562--1685608 Score: 94
Period size: 18 Copynumber: 2.6 Consensus size: 18
1685552 AAATTATTAG
1685562 TCTCACGCTTCAGACGAA
1 TCTCACGCTTCAGACGAA
1685580 TCTCACGCTTCAGACGAA
1 TCTCACGCTTCAGACGAA
1685598 TCTCACGCTTC
1 TCTCACGCTTC
1685609 GGACACAAAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.23, C:0.36, G:0.15, T:0.26
Consensus pattern (18 bp):
TCTCACGCTTCAGACGAA
Found at i:1691516 original size:3 final size:3
Alignment explanation
Indices: 1691510--1691549 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
1691500 ACAATTATAT
1691510 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1691550 TATTATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:1691554 original size:3 final size:3
Alignment explanation
Indices: 1691548--1691585 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
1691538 AATAATAATA
1691548 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1691586 AATTTATATT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:1692075 original size:42 final size:41
Alignment explanation
Indices: 1691979--1692079 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 41
1691969 AGGTCTTATG
* * *
1691979 GATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACA
1 GATGGCCCGAAGGACTTAGCATCTTGCTCGAAAGACTTACA
* * * * *
1692020 AATGACCCAAAGGATTTAAGCATCATT-CTCGAAAGACTTACT
1 GATGGCCCGAAGGACTT-AGCATC-TTGCTCGAAAGACTTACA
1692062 GATGGCCCGAAGGACTTA
1 GATGGCCCGAAGGACTTA
1692080 TAAATTGTGA
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
41 14 0.30
42 30 0.65
43 2 0.04
ACGTcount: A:0.32, C:0.23, G:0.21, T:0.25
Consensus pattern (41 bp):
GATGGCCCGAAGGACTTAGCATCTTGCTCGAAAGACTTACA
Found at i:1692210 original size:214 final size:213
Alignment explanation
Indices: 1691796--1693117 Score: 1909
Period size: 214 Copynumber: 6.3 Consensus size: 213
1691786 CTCTTTGGTG
* * * *
1691796 AAGGCTTA-AGATGGCCCGAAGGACTTAATCATCATGCTCGAAAGACTTACTGATGACCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * * * * *
1691860 ACTTAT--ATAGTGCAAAGTATTGGAAATCGCCTTCTTACTTCTAAAAAATTTCATCTTCTTAAA
66 ACTTATAAATTGTG-AAA-TTTTGAAAATCGCATTCTTA-TTTTCAAAAATTTCATCTTCTTAAA
1691923 A-ATCATTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCC
128 ACATCA-TTTTTT-ATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCC
1691987 GAAGGACTTATCATCTTGCTCTA
191 GAAGGACTTATCATCTTGCTCTA
* * *
1692010 AAGGCTTACAAATGACCCAAAGGATTTAAGCATCATTCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* *
1692075 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTAAGTTTCCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTA-TTTTCAAAAATTTCATCTTCTTAAAAC
* * *
1692140 ATCATTTTTTATTTTCAAATTCATTTGAAGACATCCTACCCAAAGGTCTTATGGATGGCCCGAAG
130 ATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
1692205 GACTTATCATCTTGCTCTA
195 GACTTATCATCTTGCTCTA
* *
1692224 AAGGCTTACAGATGACCTGAAGAATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * *
1692289 ACTTATAAACTGTGAAATTTTGAAAATTC-CA-TC-T-TCTT--AAAA---CATC--ATT-----
66 ACTTATAAATTGTGAAATTTTGAAAA-TCGCATTCTTATTTTCAAAAATTTCATCTTCTTAAAAC
* * * *
1692338 -T--TTTTTCATTTTCAAATTCATGTGAAAACATCCCACCTGAAGGTTTTATGGATGGCCCGAAG
130 ATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
*
1692400 GATTTATCATCTTGCTCTA
195 GACTTATCATCTTGCTCTA
* *
1692419 AAGGCTTATAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
* * * * *
1692484 ACTTATAAATTATGAAATTTTGAAAATTGCATTTTTCTTTTTCAAAAATTCCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTT-ATTTTCAAAAATTTCATCTTCTTAAAAC
* *
1692549 ATCATTTTTTATTTTCAAATTCATGTGAAAACATCATACCCGAAGGTCTTATGGATGGCCTGAAG
130 ATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
*
1692614 AACTTATCATCTTGCTCTA
195 GACTTATCATCTTGCTCTA
1692633 AAGGCTTACAGATGACCCGAAGG-TTTGAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAG
1 AAGGCTTACAGATGACCCGAAGGATTT-AAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAG
* * *
1692697 GACTTATAAATTGTGAAATTTTGAAAATCACATTCTTCATTTTCATAAATTCCATCTTCTTAAAA
65 GACTTATAAATTGTGAAATTTTGAAAATCGCATTCTT-ATTTTCAAAAATTTCATCTTCTTAAAA
* *
1692762 CATCATTTTTTATTTCCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCTGAA
129 CATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAA
1692827 GGACTTATCATCTTGCTCTA
194 GGACTTATCATCTTGCTCTA
* * * *
1692847 AAGGCTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAATGACTTACTGATGGCCCAAAAG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
*
1692912 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAAC
66 ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTT-ATTTTCAAAAATTTCATCTTCTTAAAAC
* *
1692977 ATCATTTTTTATTTCCAAATTCATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAG
130 ATCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAG
*
1693042 GACTTATTATCTTGCTCTA
195 GACTTATCATCTTGCTCTA
*
1693061 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACTTACTGATGG
1 AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGG
1693118 GTTTGCTTCA
Statistics
Matches: 1004, Mismatches: 77, Indels: 54
0.88 0.07 0.05
Matches are distributed among these distances:
194 1 0.00
195 161 0.16
196 1 0.00
197 2 0.00
199 3 0.00
201 4 0.00
203 2 0.00
204 4 0.00
205 4 0.00
206 2 0.00
208 4 0.00
210 2 0.00
212 1 0.00
213 5 0.00
214 691 0.69
215 105 0.10
216 7 0.01
217 5 0.00
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.33
Consensus pattern (213 bp):
AAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGG
ACTTATAAATTGTGAAATTTTGAAAATCGCATTCTTATTTTCAAAAATTTCATCTTCTTAAAACA
TCATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGG
ACTTATCATCTTGCTCTA
Found at i:1692483 original size:42 final size:41
Alignment explanation
Indices: 1692383--1692484 Score: 116
Period size: 42 Copynumber: 2.5 Consensus size: 41
1692373 CCTGAAGGTT
* * * * *
1692383 TTATGGATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGC
1 TTATAGATGGCCCGAAGGATTTAGCATCATGCTCGAAAGAC
* *
1692424 TTATAGATGACCTGAAGGATTTAAGCATCATGCTCGAAAGAC
1 TTATAGATGGCCCGAAGGATTT-AGCATCATGCTCGAAAGAC
1692466 TTACT-GATGGCCCGAAGGA
1 TTA-TAGATGGCCCGAAGGA
1692485 CTTATAAATT
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
41 19 0.38
42 30 0.60
43 1 0.02
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (41 bp):
TTATAGATGGCCCGAAGGATTTAGCATCATGCTCGAAAGAC
Found at i:1692687 original size:409 final size:408
Alignment explanation
Indices: 1691904--1693117 Score: 1858
Period size: 409 Copynumber: 2.9 Consensus size: 408
1691894 TTACTTCTAA
*
1691904 AAAATTTCATCTTCTTAAAA-ATCA-TTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCC
1 AAAATTCCATCTTCTTAAAACATCATTTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCC
* *
1691967 GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAAATGACCCAAAG
66 GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAG
*
1692032 GATTTAAGCATCATTCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTG
131 GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTG
** *
1692097 AAAATCGCATTCTAAGTTTCCAAAAATTTCATCTTCTTAAAACATCATTTTTTATTTTCAAATTC
196 AAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTATTTTCAAATTC
* *
1692162 ATTTGAAGACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAG
261 ATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAG
* *
1692227 GCTTACAGATGACCTGAAGAATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
326 GCTTACAGATGACCCGAAG-GTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
1692292 TATAAACTGTGAAATTTTG
390 TATAAACTGTGAAATTTTG
* *
1692311 AAAATTCCATCTTCTTAAAACATCATTTTTTTTCATTTTCAAATTCATGTGAAAACATCCCACCT
1 AAAATTCCATCTTCTTAAAACATCATTTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCC
* * * *
1692376 GAAGGTTTTATGGATGGCCCGAAGGATTTATCATCTTGCTCTAAAGGCTTATAGATGACCTGAAG
66 GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAG
*
1692441 GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTATGAAATTTTG
131 GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTG
* * * *
1692506 AAAATTGCATTTTTCTTTTTCAAAAATTCCATCTTCTTAAAACATCATTTTTTATTTTCAAATTC
196 AAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTATTTTCAAATTC
* * * *
1692571 ATGTGAAAACATCATACCCGAAGGTCTTATGGATGGCCTGAAGAACTTATCATCTTGCTCTAAAG
261 ATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAG
1692636 GCTTACAGATGACCCGAAGGTTTGAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
326 GCTTACAGATGACCCGAAGGTTT-AAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACT
*
1692701 TATAAATTGTGAAATTTTG
390 TATAAACTGTGAAATTTTG
* * *
1692720 AAAA-TCACATTCTTCATTTTCATAAATTCCATCTTCTTAAAACATCATTTTTTATTTCCAAATT
1 AAAATTC-CA-TCTTC---TT-A-AAA---CATC--ATT------T--TTTTTCATTTTCAAATT
*
1692784 CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCTGAAGGACTTATCATCTTGCTCTAAA
46 CATGTGAAAACATCCTACCCGAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAA
* * * *
1692849 GGCTTACAGATGACCCGAAGGTTTTAAGCATCATGCTCGAATGACTTACTGATGGCCCAAAAGAC
111 GGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGAC
1692914 TTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACAT
176 TTATAAATTGTGAAATTTTGAAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACAT
*
1692979 CATTTTTTATTTCCAAATTCATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGA
241 CATTTTTTATTTTCAAATTCATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGA
* *
1693044 CTTATTATCTTGCTCTAAAGGCTTACAGATGACCCGAAGGATTTAAGCATCATGCTCAAAAGACT
306 CTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAGG-TTTAAGCATCATGCTCGAAAGACT
1693109 TACTGATGG
370 TACTGATGG
1693118 GTTTGCTTCA
Statistics
Matches: 730, Mismatches: 53, Indels: 27
0.90 0.07 0.03
Matches are distributed among these distances:
407 19 0.03
408 9 0.01
409 359 0.49
410 5 0.01
413 2 0.00
414 1 0.00
415 3 0.00
418 4 0.01
420 2 0.00
426 1 0.00
428 322 0.44
429 3 0.00
ACGTcount: A:0.32, C:0.19, G:0.15, T:0.33
Consensus pattern (408 bp):
AAAATTCCATCTTCTTAAAACATCATTTTTTTTCATTTTCAAATTCATGTGAAAACATCCTACCC
GAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAGGCTTACAGATGACCCGAAG
GATTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATAAATTGTGAAATTTTG
AAAATCGCATTCTTCGTTTTCAAAAATTTCATCTTCTTAAAACATCATTTTTTATTTTCAAATTC
ATGTGAAAACATCCTACCCAAAGGTCTTATGGATGGCCCGAAGGACTTATCATCTTGCTCTAAAG
GCTTACAGATGACCCGAAGGTTTAAGCATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTT
ATAAACTGTGAAATTTTG
Found at i:1693240 original size:36 final size:37
Alignment explanation
Indices: 1693155--1693307 Score: 191
Period size: 37 Copynumber: 4.1 Consensus size: 37
1693145 CTCAAGGTAG
* *
1693155 TGCTTCACTACTCTTCGGTGAAGGCTTACAAATTGATT
1 TGCTTCACTCCTCTTCGGTGAAGGCTTA-AGATTGATT
* * * *
1693193 TGCTTCCCTCCTTTTTGGTGAAGGCTTAAGA-TGGTT
1 TGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTGATT
* * *
1693229 TGCTTCACTCCTCTTTGCTGAAGGCTTAAGATTAATT
1 TGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTGATT
*
1693266 TGCTTCACTCCTTTTCGGTGAAGGCTTAAGATTGACTT
1 TGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTGA-TT
1693304 TGCT
1 TGCT
1693308 CCAATCTCAT
Statistics
Matches: 98, Mismatches: 15, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
36 32 0.33
37 36 0.37
38 30 0.31
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (37 bp):
TGCTTCACTCCTCTTCGGTGAAGGCTTAAGATTGATT
Found at i:1693277 original size:37 final size:37
Alignment explanation
Indices: 1693155--1693307 Score: 175
Period size: 36 Copynumber: 4.1 Consensus size: 37
1693145 CTCAAGGTAG
* * * *
1693155 TGCTTCACTACTCTTCGGTGAAGGCTTACAAATTGATT
1 TGCTTCACTCCTCTTTGGTGAAGGCTTA-AGATTAATT
* * **
1693193 TGCTTCCCTCCTTTTTGGTGAAGGCTTAAGA-TGGTT
1 TGCTTCACTCCTCTTTGGTGAAGGCTTAAGATTAATT
*
1693229 TGCTTCACTCCTCTTTGCTGAAGGCTTAAGATTAATT
1 TGCTTCACTCCTCTTTGGTGAAGGCTTAAGATTAATT
*
1693266 TGCTTCACTCCT-TTTCGGTGAAGGCTTAAGATTGACTT
1 TGCTTCACTCCTCTTT-GGTGAAGGCTTAAGATT-AATT
1693304 TGCT
1 TGCT
1693308 CCAATCTCAT
Statistics
Matches: 99, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
36 35 0.35
37 33 0.33
38 31 0.31
ACGTcount: A:0.19, C:0.21, G:0.20, T:0.40
Consensus pattern (37 bp):
TGCTTCACTCCTCTTTGGTGAAGGCTTAAGATTAATT
Found at i:1693288 original size:73 final size:74
Alignment explanation
Indices: 1693155--1693297 Score: 216
Period size: 73 Copynumber: 1.9 Consensus size: 74
1693145 CTCAAGGTAG
* * * *
1693155 TGCTTCACTACTCTTCGGTGAAGGCTTACAAATTGATTTGCTTCCCTCCTTTTTGGTGAAGGCTT
1 TGCTTCACTACTCTTCGCTGAAGGCTTACAAATTAATTTGCTTCACTCCTTTTCGGTGAAGGCTT
1693220 AAGATGGTT
66 AAGATGGTT
* * *
1693229 TGCTTCACTCCTCTTTGCTGAAGGCTTA-AGATTAATTTGCTTCACTCCTTTTCGGTGAAGGCTT
1 TGCTTCACTACTCTTCGCTGAAGGCTTACAAATTAATTTGCTTCACTCCTTTTCGGTGAAGGCTT
1693293 AAGAT
66 AAGAT
1693298 TGACTTTGCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
73 37 0.60
74 25 0.40
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (74 bp):
TGCTTCACTACTCTTCGCTGAAGGCTTACAAATTAATTTGCTTCACTCCTTTTCGGTGAAGGCTT
AAGATGGTT
Found at i:1701111 original size:3 final size:3
Alignment explanation
Indices: 1701103--1701160 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
1701093 ATATTAATTA
* *
1701103 ATT ATT ATT ATT ATA ATT ATA ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1701151 ATT ATT ATT A
1 ATT ATT ATT A
1701161 AATATATTAA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:1701689 original size:11 final size:11
Alignment explanation
Indices: 1701673--1701709 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1701663 AACAACCATT
1701673 CAGAAAAGAAA
1 CAGAAAAGAAA
1701684 CAGAAAAG-AA
1 CAGAAAAGAAA
1701694 -AGAAAAGAAA
1 CAGAAAAGAAA
*
1701704 AAGAAA
1 CAGAAA
1701710 GAAGAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.29
10 4 0.17
11 13 0.54
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (11 bp):
CAGAAAAGAAA
Found at i:1701697 original size:15 final size:15
Alignment explanation
Indices: 1701677--1701718 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
1701667 ACCATTCAGA
1701677 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
1701692 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
1701707 AAAGAAGAGAAA
1 AAAGAAAAGAAA
1701719 CTTACTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:1701699 original size:20 final size:20
Alignment explanation
Indices: 1701674--1701718 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1701664 ACAACCATTC
*
1701674 AGAAAAGAAACAGAAAAGAA-
1 AGAAAAGAAAAAG-AAAGAAG
1701694 AGAAAAGAAAAAGAAAGAAG
1 AGAAAAGAAAAAGAAAGAAG
1701714 AGAAA
1 AGAAA
1701719 CTTACTGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (20 bp):
AGAAAAGAAAAAGAAAGAAG
Found at i:1703216 original size:6 final size:7
Alignment explanation
Indices: 1703195--1703219 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
1703185 TGTCTCCATT
1703195 AATTAAA
1 AATTAAA
1703202 AATTAAA
1 AATTAAA
1703209 AATTAAA
1 AATTAAA
1703216 AATT
1 AATT
1703220 TATATATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:1713651 original size:10 final size:10
Alignment explanation
Indices: 1713636--1713660 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1713626 GAAGAAGAGA
1713636 AAAAAAAAAG
1 AAAAAAAAAG
1713646 AAAAAAAAAG
1 AAAAAAAAAG
1713656 AAAAA
1 AAAAA
1713661 GGGGGGTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.08, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:1714898 original size:83 final size:82
Alignment explanation
Indices: 1714779--1715070 Score: 376
Period size: 83 Copynumber: 3.4 Consensus size: 82
1714769 ATATCTTAGT
*
1714779 CCAAACATT-AATTGGAAGATGAATTTGC-CAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATTGGAAGATGAA-TTGCTC-ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
*
1714842 TGATCTGGTTTGG-CAGAA
64 TGATCTGGTTTGGAAAGAA
*
1714860 CCAGTCATTGAATTGGGAAGATGAATGTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAATT-GGAAGATGAAT-TGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1714925 TGATCTGG-TTGGAAAGAA
64 TGATCTGGTTTGGAAAGAA
*
1714943 CCAATCATTGAATTTGGAAGATGAATTGGCTAATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1 CCAATCATTGAA-TTGGAAGATGAATT-GCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATC
1715008 TGATCTGGTTTGGTAAGAACTACAGAA
64 TGATCTGGTTT-G---G-A--A-AGAA
1715035 CCAATCATTGAATTTGGAAGATGAATTTGCTCATAG
1 CCAATCATTGAA-TTGGAAGATGAA-TTGCTCATAG
1715071 TAGAAATAAG
Statistics
Matches: 188, Mismatches: 6, Indels: 23
0.87 0.03 0.11
Matches are distributed among these distances:
81 7 0.04
82 10 0.05
83 124 0.66
84 5 0.03
85 1 0.01
88 1 0.01
89 1 0.01
91 1 0.01
92 36 0.19
93 2 0.01
ACGTcount: A:0.29, C:0.14, G:0.23, T:0.34
Consensus pattern (82 bp):
CCAATCATTGAATTGGAAGATGAATTGCTCATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTG
ATCTGGTTTGGAAAGAA
Found at i:1715287 original size:114 final size:115
Alignment explanation
Indices: 1714974--1715277 Score: 558
Period size: 114 Copynumber: 2.7 Consensus size: 115
1714964 TGAATTGGCT
*
1714974 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAAGAACTACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
1715039 TCATT-GAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAACTC
66 TCATTGGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAACTC
*
1715088 AATAGCATCTTCTAGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
*
1715153 TCA-TGGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAGACTC
66 TCATTGGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAACTC
*
1715202 AATAGCATCTTCTGGAAGTGTTCTTTGAGCTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
1 AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
1715267 TCATTGGAATT
66 TCATTGGAATT
1715278 AAAAGATGAA
Statistics
Matches: 183, Mismatches: 5, Indels: 3
0.96 0.03 0.02
Matches are distributed among these distances:
113 1 0.01
114 175 0.96
115 7 0.04
ACGTcount: A:0.32, C:0.14, G:0.22, T:0.33
Consensus pattern (115 bp):
AATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGGTTTGGTAGGAACTACAGAACCAA
TCATTGGAATTTGGAAGATGAATTTGCTCATAGTAGAAATAAGGAAACTC
Found at i:1716304 original size:112 final size:112
Alignment explanation
Indices: 1715996--1716830 Score: 1399
Period size: 112 Copynumber: 7.5 Consensus size: 112
1715986 TGGATTGACA
1715996 TTTT-CAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*** * * * * *
1716060 AGAATTTGTTCAACCTTTTGTTTCAATTCATTACTTGATGGATTATT
66 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
1716107 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
1 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAG
*
1716172 AAGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATC
65 AAGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
1716220 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1716285 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
1716332 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1716397 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
*
1716444 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCACAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
*
1716509 AGAATTTGTTCAACCTTTTACCTGAATCCATCATTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
1716556 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
1 TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
** ** *
1716621 AGAA-TTCATCAACCTTTTGTCTGAATTCATCACTTGATGGATCATC
66 AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
1716667 TTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG-AGAAAGTTCATAATGA
1 TTTTCCAGAG-AAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAG-AAGTTCATAATGA
** * * * *
1716731 GAAGAGCTTGTTCAACCTTTTACATGAATTCATCAATTGATGGATCAAC
64 GAAGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
*
1716780 ATTTT-CAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGAAAGAAGA
1 -TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGA
1716831 CAACTTTTTG
Statistics
Matches: 689, Mismatches: 28, Indels: 13
0.94 0.04 0.02
Matches are distributed among these distances:
111 52 0.08
112 488 0.71
113 145 0.21
114 4 0.01
ACGTcount: A:0.38, C:0.14, G:0.19, T:0.29
Consensus pattern (112 bp):
TTTTCCAGAGAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAATGAGA
AGAATTTGTTCAACCTTTTACCTGAATCCATCACTTGATGGATCATC
Found at i:1717173 original size:3 final size:3
Alignment explanation
Indices: 1717165--1717221 Score: 71
Period size: 3 Copynumber: 19.3 Consensus size: 3
1717155 ATATTAATTA
* * * *
1717165 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATA ATT A-T AAT AAT AAT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1717212 ATT ATT ATT A
1 ATT ATT ATT A
1717222 AATATATTAA
Statistics
Matches: 50, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
2 2 0.04
3 48 0.96
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (3 bp):
ATT
Found at i:1717638 original size:11 final size:11
Alignment explanation
Indices: 1717622--1717658 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
1717612 AACAACCATT
1717622 CAGAAAAGAAA
1 CAGAAAAGAAA
1717633 CAGAAAAG-AA
1 CAGAAAAGAAA
1717643 -AGAAAAGAAA
1 CAGAAAAGAAA
*
1717653 AAGAAA
1 CAGAAA
1717659 GAAGAGAAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 7 0.29
10 4 0.17
11 13 0.54
ACGTcount: A:0.76, C:0.05, G:0.19, T:0.00
Consensus pattern (11 bp):
CAGAAAAGAAA
Found at i:1717646 original size:15 final size:15
Alignment explanation
Indices: 1717626--1717667 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
1717616 ACCATTCAGA
1717626 AAAGAAACAG-AAAAG
1 AAAGAAA-AGAAAAAG
1717641 AAAGAAAAGAAAAAG
1 AAAGAAAAGAAAAAG
*
1717656 AAAGAAGAGAAA
1 AAAGAAAAGAAA
1717668 CTTACTGTCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 2 0.08
15 23 0.92
ACGTcount: A:0.76, C:0.02, G:0.21, T:0.00
Consensus pattern (15 bp):
AAAGAAAAGAAAAAG
Found at i:1717648 original size:20 final size:20
Alignment explanation
Indices: 1717623--1717667 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
1717613 ACAACCATTC
*
1717623 AGAAAAGAAACAGAAAAGAA-
1 AGAAAAGAAAAAG-AAAGAAG
1717643 AGAAAAGAAAAAGAAAGAAG
1 AGAAAAGAAAAAGAAAGAAG
1717663 AGAAA
1 AGAAA
1717668 CTTACTGTCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.76, C:0.02, G:0.22, T:0.00
Consensus pattern (20 bp):
AGAAAAGAAAAAGAAAGAAG
Found at i:1720756 original size:15 final size:15
Alignment explanation
Indices: 1720736--1720766 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1720726 AATATACGTT
1720736 TTATGAACAATAAAA
1 TTATGAACAATAAAA
*
1720751 TTATGAACAGTAAAA
1 TTATGAACAATAAAA
1720766 T
1 T
1720767 ATGGTATGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.06, G:0.10, T:0.29
Consensus pattern (15 bp):
TTATGAACAATAAAA
Found at i:1721180 original size:17 final size:17
Alignment explanation
Indices: 1721158--1721191 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1721148 TAACCATATC
1721158 CAGATCCATATTATACT
1 CAGATCCATATTATACT
1721175 CAGATCCATATTATACT
1 CAGATCCATATTATACT
1721192 TAATGAACTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.24, G:0.06, T:0.35
Consensus pattern (17 bp):
CAGATCCATATTATACT
Found at i:1723139 original size:20 final size:20
Alignment explanation
Indices: 1723114--1723166 Score: 106
Period size: 20 Copynumber: 2.6 Consensus size: 20
1723104 CGTTATACAA
1723114 GGGGGGAATCGGTACCCCTG
1 GGGGGGAATCGGTACCCCTG
1723134 GGGGGGAATCGGTACCCCTG
1 GGGGGGAATCGGTACCCCTG
1723154 GGGGGGAATCGGT
1 GGGGGGAATCGGT
1723167 TCCCTCCGAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.15, C:0.21, G:0.49, T:0.15
Consensus pattern (20 bp):
GGGGGGAATCGGTACCCCTG
Found at i:1725908 original size:23 final size:23
Alignment explanation
Indices: 1725879--1725939 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
1725869 TCCCCTGTGA
1725879 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGGTTCCCCTTCAAAG
1725902 GGGGAATCGGTTCCCCTTCAAAG
1 GGGGAATCGGTTCCCCTTCAAAG
*
1725925 GGGGAATCGATTCCC
1 GGGGAATCGGTTCCC
1725940 TCTGCACCAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.21, C:0.26, G:0.31, T:0.21
Consensus pattern (23 bp):
GGGGAATCGGTTCCCCTTCAAAG
Found at i:1733556 original size:21 final size:22
Alignment explanation
Indices: 1733519--1733560 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
1733509 ATGTCAGAGG
*
1733519 GGAACCGATTCCCCTGCTACAA
1 GGAACCGATTACCCTGCTACAA
1733541 GGAACCGA-TACCCTGCTACA
1 GGAACCGATTACCCTGCTACA
1733561 GTATTGCTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 11 0.58
22 8 0.42
ACGTcount: A:0.29, C:0.36, G:0.19, T:0.17
Consensus pattern (22 bp):
GGAACCGATTACCCTGCTACAA
Found at i:1747231 original size:195 final size:196
Alignment explanation
Indices: 1746899--1747291 Score: 779
Period size: 195 Copynumber: 2.0 Consensus size: 196
1746889 ATCTAGCTGC
1746899 AATTAGTTTAAGAAAAATTTTAAAGCAATAATTGAGCAAAGTTGATTCCAACTTCGCCTTCAGCA
1 AATTAGTTTAAGAAAAATTTTAAAGCAATAATTGAGCAAAGTTGATTCCAACTTCGCCTTCAGCA
1746964 TACAACAGTGCAAAATACATTTGCGTCTTACTCACACCCTGGTACTACATTTTTCAATATTTAAC
66 TACAACAGTGCAAAATACATTTGCGTCTTACTCACACCCTGGTACTACATTTTTCAATATTTAAC
1747029 AGAATTCTTTGTAGCTTAGAATAGTATCTAACTATCAAAAAGTGCTGAG-AAATGTAGATTATAA
131 AGAATTCTTTGTAGCTTAGAATAGTATCTAACTATCAAAAAGTGCTGAGAAAATGTAGATTATAA
1747093 A
196 A
1747094 AATTAGTTTAAGAAAAATTTTAAAGCAATAATTGAGCAAAGTTGATTCCAACTTCGCCTTCAGCA
1 AATTAGTTTAAGAAAAATTTTAAAGCAATAATTGAGCAAAGTTGATTCCAACTTCGCCTTCAGCA
1747159 TACAACAGTGCAAAATACATTTGCGTCTTACTCACACCCTGGTACTACATTTTTCAATATTTAAC
66 TACAACAGTGCAAAATACATTTGCGTCTTACTCACACCCTGGTACTACATTTTTCAATATTTAAC
1747224 AGAATTCTTTGTAGCTTAGAATAGTATCTAACTATCAAAAAGTGCTGAGAAAATGTAGATTATAA
131 AGAATTCTTTGTAGCTTAGAATAGTATCTAACTATCAAAAAGTGCTGAGAAAATGTAGATTATAA
1747289 A
196 A
1747290 AA
1 AA
1747292 ATGAAAATGA
Statistics
Matches: 197, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
195 179 0.91
196 18 0.09
ACGTcount: A:0.38, C:0.16, G:0.13, T:0.32
Consensus pattern (196 bp):
AATTAGTTTAAGAAAAATTTTAAAGCAATAATTGAGCAAAGTTGATTCCAACTTCGCCTTCAGCA
TACAACAGTGCAAAATACATTTGCGTCTTACTCACACCCTGGTACTACATTTTTCAATATTTAAC
AGAATTCTTTGTAGCTTAGAATAGTATCTAACTATCAAAAAGTGCTGAGAAAATGTAGATTATAA
A
Found at i:1747825 original size:178 final size:178
Alignment explanation
Indices: 1747521--1747878 Score: 671
Period size: 178 Copynumber: 2.0 Consensus size: 178
1747511 GAAATTGCTT
*
1747521 CCGAATTGACCGTGAGAACACCAATGCTCAAATGAAAAAAAATCGGAACTGCTTAAAATAAAATG
1 CCGAATTGACCGTGAGAACACCAATGCTCAAATGAAAAAAAATCAGAACTGCTTAAAATAAAATG
1747586 ATACAAGAAGCCAACAAGTAAATTCAACTAGACGTGTGCAAGTAAATGTATCTGACTACTATATA
66 ATACAAGAAGCCAACAAGTAAATTCAACTAGACGTGTGCAAGTAAATGTATCTGACTACTATATA
1747651 CACAATAGAAATCAGTCTCCAAACAATTAAATACAAGCACAAACTAGC
131 CACAATAGAAATCAGTCTCCAAACAATTAAATACAAGCACAAACTAGC
* *
1747699 CCGAATTGACTGTGAGAACACCAATGCTCAAATGAAACAAAATCAGAACTGCTTAAAATAAAATG
1 CCGAATTGACCGTGAGAACACCAATGCTCAAATGAAAAAAAATCAGAACTGCTTAAAATAAAATG
*
1747764 ATACAAGAAGCCAACAAGTAAATTCAACTAGACGTGTGCAAGTAAATGTATCTGCCTACTATATA
66 ATACAAGAAGCCAACAAGTAAATTCAACTAGACGTGTGCAAGTAAATGTATCTGACTACTATATA
*
1747829 CACAATAGGAATCAGTCTCCAAACAATTAAATACAAGCACAAACTAGC
131 CACAATAGAAATCAGTCTCCAAACAATTAAATACAAGCACAAACTAGC
1747877 CC
1 CC
1747879 TTGTTACTTT
Statistics
Matches: 175, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
178 175 1.00
ACGTcount: A:0.45, C:0.20, G:0.14, T:0.20
Consensus pattern (178 bp):
CCGAATTGACCGTGAGAACACCAATGCTCAAATGAAAAAAAATCAGAACTGCTTAAAATAAAATG
ATACAAGAAGCCAACAAGTAAATTCAACTAGACGTGTGCAAGTAAATGTATCTGACTACTATATA
CACAATAGAAATCAGTCTCCAAACAATTAAATACAAGCACAAACTAGC
Found at i:1753602 original size:31 final size:31
Alignment explanation
Indices: 1753567--1753625 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
1753557 AACTTAAAAG
* * *
1753567 AGTTTTGCAATACTGAAATTTAACTAATTTT
1 AGTTTTACAATAATGAAATTTAAATAATTTT
*
1753598 AGTTTTATAATAATGAAATTTAAATAAT
1 AGTTTTACAATAATGAAATTTAAATAAT
1753626 CCATACAACT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (31 bp):
AGTTTTACAATAATGAAATTTAAATAATTTT
Found at i:1753674 original size:22 final size:22
Alignment explanation
Indices: 1753649--1753904 Score: 374
Period size: 22 Copynumber: 11.6 Consensus size: 22
1753639 ATAATAAATT
*
1753649 TTTTAAAATAAACCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1753671 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1753693 TTTTAAAATAAATCAATCAATA
1 TTTTAAAATAAATCAATCCATA
1753715 TTTTAAAAT-AATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1753736 TTTTAAAATAAATAAAATTTTCCATA
1 TTTTAAAATAAAT-CAA---TCCATA
*
1753762 TTTTAAAATAAATTAATCCATA
1 TTTTAAAATAAATCAATCCATA
***
1753784 TTTTAAAATAAATTTTTCCATA
1 TTTTAAAATAAATCAATCCATA
1753806 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1753828 TTTTAAAATAAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
1753850 -TTTAAAA-AAATCAATCCATA
1 TTTTAAAATAAATCAATCCATA
*
1753870 TTTTAAAATAAATCAATCTATA
1 TTTTAAAATAAATCAATCCATA
*
1753892 TTTTAAATTAAAT
1 TTTTAAAATAAAT
1753905 TTTAAAATAG
Statistics
Matches: 215, Mismatches: 12, Indels: 14
0.89 0.05 0.06
Matches are distributed among these distances:
20 13 0.06
21 34 0.16
22 145 0.67
23 2 0.01
25 2 0.01
26 19 0.09
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAATCAATCCATA
Found at i:1753771 original size:113 final size:108
Alignment explanation
Indices: 1753649--1753904 Score: 370
Period size: 113 Copynumber: 2.3 Consensus size: 108
1753639 ATAATAAATT
*
1753649 TTTTAAAATAAACCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
1753714 ATTTTAAAAT-AATCAATCCATATTTTAAAATAAATAAAATTTTCCATA
66 ATTTTAAAATAAATCAATCCATA-TTTAAAA-AAAT-AAA---TCCATA
* *** *
1753762 TTTTAAAATAAATTAATCCATATTTTAAAATAAATTTTTCCATATTTTAAAATAAATCAATCCAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
*
1753827 ATTTTAAAATAAATCAATCCATATTTAAAAAAATCAATCCATA
66 ATTTTAAAATAAATCAATCCATATTTAAAAAAATAAATCCATA
* *
1753870 TTTTAAAATAAATCAATCTATATTTTAAATTAAAT
1 TTTTAAAATAAATCAATCCATATTTTAAAATAAAT
1753905 TTTAAAATAG
Statistics
Matches: 132, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
108 38 0.29
111 2 0.02
112 4 0.03
113 76 0.58
114 12 0.09
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (108 bp):
TTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCAAT
ATTTTAAAATAAATCAATCCATATTTAAAAAAATAAATCCATA
Found at i:1754361 original size:20 final size:20
Alignment explanation
Indices: 1754324--1754363 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
1754314 AGATCACTTT
*
1754324 GTTTTTTCTCTTCTTAAAAA
1 GTTTTTTCTCTTCATAAAAA
1754344 GTTTTTTACTCTT-ATAAAAA
1 GTTTTTT-CTCTTCATAAAAA
1754364 TATAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (20 bp):
GTTTTTTCTCTTCATAAAAA
Found at i:1754363 original size:21 final size:20
Alignment explanation
Indices: 1754324--1754363 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1754314 AGATCACTTT
* *
1754324 GTTTTTTCTCTTCTTAAAAA
1 GTTTTTTCTCTTATAAAAAA
1754344 GTTTTTTACTCTTATAAAAA
1 GTTTTTT-CTCTTATAAAAA
1754364 TATAAAAATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.30, C:0.12, G:0.05, T:0.53
Consensus pattern (20 bp):
GTTTTTTCTCTTATAAAAAA
Found at i:1759808 original size:21 final size:21
Alignment explanation
Indices: 1759783--1759822 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1759773 CCAAAAATAT
*
1759783 TAAAAATATTAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
1759804 TAAAAATAATAATATTTTA
1 TAAAAATAATAATATTTTA
1759823 GATATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:1761323 original size:103 final size:105
Alignment explanation
Indices: 1761094--1761326 Score: 240
Period size: 103 Copynumber: 2.2 Consensus size: 105
1761084 CTTAATCCTA
* * *
1761094 AGTTTCGAAACTCAAAACCTAAAATGTTACCTATTACAATCTAAAATGTTTATATATTTTGATAA
1 AGTTTCGAAACTCAAAACCTAAAATATTACCTATTACAACCTAAAATGTGTATATATTTTGATAA
* * * **
1761159 CAAATTCAGTTGTAGTATAACGTTTTAAAACTTATGTTTG
66 CAAATTCAGTTGTAGTATAACGTTTCAAAACTCATATACG
* * ** * * ** * *
1761199 AGTTTTGAAATTTGATACCTAAAGTATTACCTATTGTAACCTAAAATG-GTATATGTTTTGCTAA
1 AGTTTCGAAACTCAAAACCTAAAATATTACCTATTACAACCTAAAATGTGTATATATTTTGATAA
*
1761263 C-AATT-ATGATTGT-GTATAATGTTTCAAAACTCATATACG
66 CAAATTCA-G-TTGTAGTATAACGTTTCAAAACTCATATACG
*
1761302 AGTTTCGATACTCAAAACCTAAAAT
1 AGTTTCGAAACTCAAAACCTAAAAT
1761327 GTTATACATT
Statistics
Matches: 100, Mismatches: 26, Indels: 6
0.76 0.20 0.05
Matches are distributed among these distances:
102 1 0.01
103 43 0.43
104 18 0.18
105 38 0.38
ACGTcount: A:0.37, C:0.13, G:0.12, T:0.38
Consensus pattern (105 bp):
AGTTTCGAAACTCAAAACCTAAAATATTACCTATTACAACCTAAAATGTGTATATATTTTGATAA
CAAATTCAGTTGTAGTATAACGTTTCAAAACTCATATACG
Found at i:1763782 original size:31 final size:31
Alignment explanation
Indices: 1763747--1763807 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
1763737 AAGACATAAT
* *
1763747 ATTTGGTCATTTTTATTTTTATTTAATTAAG
1 ATTTGGTCACTTTCATTTTTATTTAATTAAG
*
1763778 ATTTGGTCACTTTCGTTTTTATTTAATTAA
1 ATTTGGTCACTTTCATTTTTATTTAATTAA
1763808 AATGTGATCA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.07, G:0.10, T:0.59
Consensus pattern (31 bp):
ATTTGGTCACTTTCATTTTTATTTAATTAAG
Found at i:1763819 original size:31 final size:31
Alignment explanation
Indices: 1763762--1763820 Score: 91
Period size: 31 Copynumber: 1.9 Consensus size: 31
1763752 GTCATTTTTA
* * *
1763762 TTTTTATTTAATTAAGATTTGGTCACTTTCG
1 TTTTTATTTAATTAAAATGTGATCACTTTCG
1763793 TTTTTATTTAATTAAAATGTGATCACTT
1 TTTTTATTTAATTAAAATGTGATCACTT
1763821 GGGGTTAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.54
Consensus pattern (31 bp):
TTTTTATTTAATTAAAATGTGATCACTTTCG
Found at i:1769504 original size:22 final size:23
Alignment explanation
Indices: 1769479--1769529 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
1769469 ACCAAATTCA
1769479 GACTCA-GGGGTTGAGACA-AACC
1 GACTCAGGGGGTTGAGA-AGAACC
1769501 GACTCAGGGGGTTGAGAAGAACC
1 GACTCAGGGGGTTGAGAAGAACC
1769524 GACTCA
1 GACTCA
1769530 TGAAATTTGG
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
22 7 0.26
23 20 0.74
ACGTcount: A:0.31, C:0.22, G:0.33, T:0.14
Consensus pattern (23 bp):
GACTCAGGGGGTTGAGAAGAACC
Found at i:1774913 original size:28 final size:27
Alignment explanation
Indices: 1774851--1774903 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
1774841 AAACTATTTT
*
1774851 TCAATAATCATTAACACAAAAAATTAG
1 TCAATAATCATTAACACAAAAAAATAG
1774878 TCAATAATCATTAACACAAAAAAATA
1 TCAATAATCATTAACACAAAAAAATA
1774904 TTCATTTAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.58, C:0.15, G:0.02, T:0.25
Consensus pattern (27 bp):
TCAATAATCATTAACACAAAAAAATAG
Found at i:1777372 original size:93 final size:93
Alignment explanation
Indices: 1777213--1777398 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
1777203 CATTTGTCCT
1777213 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
1 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
1777278 ACACCAATTTATAACAGATACAATGCTC
66 ACACCAATTTATAACAGATACAATGCTC
1777306 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
1 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
*
1777371 ACACCAATTTATAAGAGATACAATGCTC
66 ACACCAATTTATAACAGATACAATGCTC
1777399 ATCAGCTTTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.41, C:0.16, G:0.13, T:0.30
Consensus pattern (93 bp):
TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
ACACCAATTTATAACAGATACAATGCTC
Found at i:1777509 original size:26 final size:27
Alignment explanation
Indices: 1777458--1777509 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1777448 CTAACTGCTT
* *
1777458 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
1777485 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
1777510 TCTAACATTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:1777606 original size:36 final size:36
Alignment explanation
Indices: 1777559--1777771 Score: 340
Period size: 36 Copynumber: 5.9 Consensus size: 36
1777549 AGATGAACAA
* *
1777559 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
1777595 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
* *
1777630 CTTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
*
1777667 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC-TT
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
1777702 CTTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
1 -TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
1777739 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
1 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTC
1777772 TTCTTATTCA
Statistics
Matches: 163, Mismatches: 10, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
35 2 0.01
36 159 0.98
37 2 0.01
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.36
Consensus pattern (36 bp):
TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACT
Found at i:1777676 original size:72 final size:72
Alignment explanation
Indices: 1777559--1777776 Score: 418
Period size: 72 Copynumber: 3.0 Consensus size: 72
1777549 AGATGAACAA
1777559 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1777624 GTTCTTC
66 GTTCTTC
1777631 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1777696 GTTCTTC
66 GTTCTTC
* *
1777703 TTGAATCGAAAGTGCCGATGCTTCCTTTCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1 TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
1777768 GTTCTTC
66 GTTCTTC
1777775 TT
1 TT
1777777 ATTCACCTTC
Statistics
Matches: 144, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
72 144 1.00
ACGTcount: A:0.18, C:0.25, G:0.20, T:0.37
Consensus pattern (72 bp):
TTGAATCGAAAGTGCGGATGCTTCCTTCCGTTCACTTTGAATCGAAAGTGCCGATGCTTCCTTTC
GTTCTTC
Found at i:1779370 original size:93 final size:93
Alignment explanation
Indices: 1779211--1779396 Score: 363
Period size: 93 Copynumber: 2.0 Consensus size: 93
1779201 AATGATACCA
1779211 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
1 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
1779276 ACACCAATTTATAAGAGATACAATGCTC
66 ACACCAATTTATAAGAGATACAATGCTC
*
1779304 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAATGATGATCTTTCATATCAACAAGT
1 TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
1779369 ACACCAATTTATAAGAGATACAATGCTC
66 ACACCAATTTATAAGAGATACAATGCTC
1779397 ATCAACTTTC
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
93 92 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.31
Consensus pattern (93 bp):
TATTAGAAAACTAATTTCAATGGTGTATTTACACAGGAAAAGGATGATCTTTCATATCAACAAGT
ACACCAATTTATAAGAGATACAATGCTC
Found at i:1779507 original size:26 final size:27
Alignment explanation
Indices: 1779456--1779507 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
1779446 CTAACTGCTT
* *
1779456 AATACATGTGCATATTTCTTTAACAGC
1 AATACACGTGCATAGTTCTTTAACAGC
1779483 AATACACGTGCAT-GTTCTTTAACAG
1 AATACACGTGCATAGTTCTTTAACAG
1779508 TCTAACAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (27 bp):
AATACACGTGCATAGTTCTTTAACAGC
Found at i:1794363 original size:32 final size:32
Alignment explanation
Indices: 1794310--1794370 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
1794300 ATGAATTTCT
**
1794310 AAAAATTTTGAAGGGTCAAATTAAAATTTTTG
1 AAAAATTTTGAAGAATCAAATTAAAATTTTTG
*
1794342 AAAAATTTT-AAGAATCTAAATTATAATTT
1 AAAAATTTTGAAGAATC-AAATTAAAATTT
1794371 CATTATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 5 0.20
32 20 0.80
ACGTcount: A:0.48, C:0.03, G:0.10, T:0.39
Consensus pattern (32 bp):
AAAAATTTTGAAGAATCAAATTAAAATTTTTG
Found at i:1796093 original size:19 final size:20
Alignment explanation
Indices: 1796052--1796106 Score: 94
Period size: 19 Copynumber: 2.8 Consensus size: 20
1796042 TTAAAGGACT
*
1796052 GGGGTATCGGTACCATCTGG
1 GGGGTACCGGTACCATCTGG
1796072 GGGGTACCGGTACCATCT-G
1 GGGGTACCGGTACCATCTGG
1796091 GGGGTACCGGTACCAT
1 GGGGTACCGGTACCAT
1796107 TCGAGCATTC
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 17 0.50
20 17 0.50
ACGTcount: A:0.16, C:0.24, G:0.38, T:0.22
Consensus pattern (20 bp):
GGGGTACCGGTACCATCTGG
Found at i:1798349 original size:14 final size:13
Alignment explanation
Indices: 1798309--1798349 Score: 64
Period size: 13 Copynumber: 3.1 Consensus size: 13
1798299 ATGGGAAAAT
*
1798309 TTTGAAAACTATG
1 TTTGAAAACAATG
1798322 TTTGAAAACAATG
1 TTTGAAAACAATG
1798335 TTTGAAAATCAATG
1 TTTGAAAA-CAATG
1798349 T
1 T
1798350 GTAGTTTTGA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
13 20 0.77
14 6 0.23
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (13 bp):
TTTGAAAACAATG
Found at i:1799754 original size:23 final size:23
Alignment explanation
Indices: 1799728--1799772 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1799718 CACCACAGCT
*
1799728 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1799751 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1799773 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1799892 original size:24 final size:25
Alignment explanation
Indices: 1799863--1799913 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
1799853 CAAAGAATAT
*
1799863 ATATATATCCCGAAGGACCGCGTAGA
1 ATAT-TATCCCGAAGGACCACGTAGA
*
1799889 ATATTGTCCCGAAGGACCACGTAGA
1 ATATTATCCCGAAGGACCACGTAGA
1799914 CCCTCTACCC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 19 0.83
26 4 0.17
ACGTcount: A:0.33, C:0.24, G:0.24, T:0.20
Consensus pattern (25 bp):
ATATTATCCCGAAGGACCACGTAGA
Found at i:1800988 original size:19 final size:19
Alignment explanation
Indices: 1800939--1800980 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1800929 CACGTTTGGA
1800939 AGAAGAGAAG-AGTGAAGAAG
1 AGAAGA-AAGAAG-GAAGAAG
*
1800959 ATAAGAAAGAAGGAAGAAG
1 AGAAGAAAGAAGGAAGAAG
1800978 AGA
1 AGA
1800981 TGAGAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (19 bp):
AGAAGAAAGAAGGAAGAAG
Found at i:1806556 original size:23 final size:23
Alignment explanation
Indices: 1806530--1806574 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1806520 CACCACAGCT
*
1806530 CGTATAAATGCACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCG
* *
1806553 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
1806575 ATATAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.27, G:0.27, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCG
Found at i:1806717 original size:25 final size:25
Alignment explanation
Indices: 1806689--1806757 Score: 129
Period size: 25 Copynumber: 2.8 Consensus size: 25
1806679 TATATATATA
1806689 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
1806714 TCCCGAAGGACCGCGTAGAATATTG
1 TCCCGAAGGACCGCGTAGAATATTG
*
1806739 TCCCGAAGGACCACGTAGA
1 TCCCGAAGGACCGCGTAGA
1806758 CCCTCTACCC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
25 43 1.00
ACGTcount: A:0.29, C:0.26, G:0.28, T:0.17
Consensus pattern (25 bp):
TCCCGAAGGACCGCGTAGAATATTG
Found at i:1807230 original size:21 final size:21
Alignment explanation
Indices: 1807200--1807242 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
1807190 TTTTTTATAT
*
1807200 GGGGGAATCGGTTCCCCCCTA
1 GGGGGAATCGATTCCCCCCTA
* *
1807221 GGGGGTATCGATTCCCCTCTA
1 GGGGGAATCGATTCCCCCCTA
1807242 G
1 G
1807243 CATTCTGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.14, C:0.30, G:0.33, T:0.23
Consensus pattern (21 bp):
GGGGGAATCGATTCCCCCCTA
Found at i:1807815 original size:19 final size:19
Alignment explanation
Indices: 1807766--1807807 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
1807756 CACGTTTGGA
1807766 AGAAGAGAAG-AGTGAAGAAG
1 AGAAGA-AAGAAG-GAAGAAG
*
1807786 ATAAGAAAGAAGGAAGAAG
1 AGAAGAAAGAAGGAAGAAG
1807805 AGA
1 AGA
1807808 TGAGAGAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 3
0.79 0.08 0.12
Matches are distributed among these distances:
19 12 0.63
20 7 0.37
ACGTcount: A:0.60, C:0.00, G:0.36, T:0.05
Consensus pattern (19 bp):
AGAAGAAAGAAGGAAGAAG
Found at i:1813555 original size:20 final size:20
Alignment explanation
Indices: 1813530--1813586 Score: 87
Period size: 20 Copynumber: 2.9 Consensus size: 20
1813520 TTAAATGACT
1813530 GGGGTATCGGTACCATCTGG
1 GGGGTATCGGTACCATCTGG
*
1813550 GGGGTATCAGTACCATCTGG
1 GGGGTATCGGTACCATCTGG
* *
1813570 TGGGTACCGGTACCATC
1 GGGGTATCGGTACCATC
1813587 CGAGCATTCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.18, C:0.23, G:0.35, T:0.25
Consensus pattern (20 bp):
GGGGTATCGGTACCATCTGG
Found at i:1816555 original size:35 final size:35
Alignment explanation
Indices: 1816498--1816572 Score: 89
Period size: 35 Copynumber: 2.1 Consensus size: 35
1816488 AAAATACTTT
*
1816498 AATTTAGGGTTTAAAATATAATTAAATTATTTTGG
1 AATTTAGGGTTTAAAATATAATTAAAGTATTTTGG
* * * *
1816533 AATTT-GGGATTTAGAATGTAATTGAAGTGTTTTGG
1 AATTTAGGG-TTTAAAATATAATTAAAGTATTTTGG
1816568 AATTT
1 AATTT
1816573 TGAACATGAA
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
34 3 0.09
35 31 0.91
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (35 bp):
AATTTAGGGTTTAAAATATAATTAAAGTATTTTGG
Found at i:1818754 original size:12 final size:12
Alignment explanation
Indices: 1818737--1818771 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
1818727 GAGAAGTAGA
1818737 TAAACGTCAACG
1 TAAACGTCAACG
1818749 TAAACGTCAACG
1 TAAACGTCAACG
1818761 TAAACGTCAAC
1 TAAACGTCAAC
1818772 CGAAGAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.43, C:0.26, G:0.14, T:0.17
Consensus pattern (12 bp):
TAAACGTCAACG
Found at i:1827229 original size:132 final size:132
Alignment explanation
Indices: 1827073--1827329 Score: 372
Period size: 132 Copynumber: 1.9 Consensus size: 132
1827063 CTATAATTGG
* * *
1827073 AAGATCATTTTATAACTTTTAATAGTCAAAAGAACTAACA-AAGTAACTTGTTATAGTCAGAGAA
1 AAGATCATTTTATAACTTTTAATAGTCAAAAGAACTAACACAA-CAACATCTTATAGTCAGAGAA
* * *
1827137 CCATTCATATACTTTACCTTAAATTTAAATTGTTAGTGGAAGAAGTCAAAGCTATGAAAGAAAAG
65 CCATTCATATACTTTACCCTAAATTTAAATTGTTAGCGAAAGAAGTCAAAGCTATGAAAGAAAAG
1827202 AGT
130 AGT
* * * * *
1827205 AAGATTATTTTATAACTTTTAATAGTTAAAATATCTAACACAACAACATCTTATAGTCAGAGAAT
1 AAGATCATTTTATAACTTTTAATAGTCAAAAGAACTAACACAACAACATCTTATAGTCAGAGAAC
* * *
1827270 CATTTATGTATTTTACCCTAAATTTAAATTGTTAGCGAAAGAAGTCAAAGCTATGAAAGA
66 CATTCATATACTTTACCCTAAATTTAAATTGTTAGCGAAAGAAGTCAAAGCTATGAAAGA
1827330 TGATAGGTTA
Statistics
Matches: 110, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
132 108 0.98
133 2 0.02
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.33
Consensus pattern (132 bp):
AAGATCATTTTATAACTTTTAATAGTCAAAAGAACTAACACAACAACATCTTATAGTCAGAGAAC
CATTCATATACTTTACCCTAAATTTAAATTGTTAGCGAAAGAAGTCAAAGCTATGAAAGAAAAGA
GT
Found at i:1830324 original size:12 final size:12
Alignment explanation
Indices: 1830307--1830342 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
1830297 TGAATTTTAA
1830307 GATTTTACAAAT
1 GATTTTACAAAT
1830319 GATTTTACAAAT
1 GATTTTACAAAT
1830331 GATTTTACAAAT
1 GATTTTACAAAT
1830343 TTATATTCGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.42
Consensus pattern (12 bp):
GATTTTACAAAT
Found at i:1830600 original size:19 final size:19
Alignment explanation
Indices: 1830576--1830614 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1830566 TCGAATGCAT
1830576 TCCATGCACCGATGCACTC
1 TCCATGCACCGATGCACTC
*
1830595 TCCATGCATCGATGCACTC
1 TCCATGCACCGATGCACTC
1830614 T
1 T
1830615 GAATACTTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.21, C:0.38, G:0.15, T:0.26
Consensus pattern (19 bp):
TCCATGCACCGATGCACTC
Found at i:1830631 original size:65 final size:63
Alignment explanation
Indices: 1830513--1830721 Score: 201
Period size: 65 Copynumber: 3.2 Consensus size: 63
1830503 TATTCAAAGG
* *
1830513 CATGCACCGATGCA-TCAGTCCATGCATCGATGCA-TCAATGAATTAATT-GAACATCGAATGCA
1 CATGCACCGATGCACTC--TCCATGCATCGATGCACTC--TGAA-TATTTCAAACATCGAATGCA
*
1830575 TTC
61 TTT
1830578 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATACTTTCAAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATA-TTTC-AAACATCGAATGCATTT
* * *** * * *
1830643 GATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTCAAACATCGAATGCATTT
1 CATGCACCGATGCACTCTCCATGCATCGATGCACTC-TG-AATATTTCAAACATCGAATGCATTT
*
1830707 CATGCATCGATGCAC
1 CATGCACCGATGCAC
1830722 ACTTGGTGTA
Statistics
Matches: 125, Mismatches: 12, Indels: 15
0.82 0.08 0.10
Matches are distributed among these distances:
62 2 0.02
63 6 0.05
64 48 0.38
65 65 0.52
66 4 0.03
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.26
Consensus pattern (63 bp):
CATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATATTTCAAACATCGAATGCATTT
Found at i:1830721 original size:64 final size:65
Alignment explanation
Indices: 1830562--1830722 Score: 209
Period size: 65 Copynumber: 2.5 Consensus size: 65
1830552 GAATTAATTG
* * *** *
1830562 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCGATGCACTCTGAATACTTTCAA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATACTTTCAA
* ** *
1830627 AACATCGAATGCATTTGATGCATCGATGCACAAGCCATGCATCGATGCAC-CAGGCTATTTTTC-
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATA-CTTTCA
1830690 A
65 A
1830691 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1830723 CTTGGTGTAC
Statistics
Matches: 84, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
64 36 0.43
65 48 0.57
ACGTcount: A:0.30, C:0.27, G:0.16, T:0.26
Consensus pattern (65 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCGATGCACTCAGAATACTTTCAA
Found at i:1832831 original size:20 final size:21
Alignment explanation
Indices: 1832798--1832837 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1832788 TTTTAACGTA
**
1832798 ATTGATATTCATTTT-AAACC
1 ATTGATATAAATTTTCAAACC
1832818 ATTGATATAAATTTTCAAAC
1 ATTGATATAAATTTTCAAAC
1832838 AATTTGATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.40, C:0.12, G:0.05, T:0.42
Consensus pattern (21 bp):
ATTGATATAAATTTTCAAACC
Found at i:1837796 original size:19 final size:19
Alignment explanation
Indices: 1837772--1837810 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
1837762 TCGAATGCAT
*
1837772 TCCATGCACCGATGCACTC
1 TCCATGCACCAATGCACTC
*
1837791 TCCATGCATCAATGCACTC
1 TCCATGCACCAATGCACTC
1837810 T
1 T
1837811 GAATACTTTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.23, C:0.38, G:0.13, T:0.26
Consensus pattern (19 bp):
TCCATGCACCAATGCACTC
Found at i:1837850 original size:65 final size:63
Alignment explanation
Indices: 1837758--1837918 Score: 173
Period size: 65 Copynumber: 2.5 Consensus size: 63
1837748 GAATTAATTG
* * ***
1837758 AACATCGAATGCATTCCATGCACCGATGCACTCTCCATGCATCAATGCACTCTGAA-TA-CTTTC
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCAATGCAC-C--AACTATCTTTC
1837821 AA
63 -A
* * * * *
1837823 AACATCGAATGCATTTGATACATCGATGTACAAGCCATGCATCGATGCACCAAGCTATTTTTCA
1 AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCAATGCACCAA-CTATCTTTCA
1837887 AACATCGAATGCATTTCATGCATCGATGCACA
1 AACATCGAATGCATTTCATGCATCGATGCACA
1837919 CTTGGTGCAC
Statistics
Matches: 80, Mismatches: 13, Indels: 7
0.80 0.13 0.07
Matches are distributed among these distances:
62 2 0.03
64 33 0.41
65 45 0.56
ACGTcount: A:0.32, C:0.27, G:0.14, T:0.27
Consensus pattern (63 bp):
AACATCGAATGCATTTCATGCATCGATGCACAAGCCATGCATCAATGCACCAACTATCTTTCA
Found at i:1846714 original size:18 final size:18
Alignment explanation
Indices: 1846691--1846725 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1846681 AGTAAACTTC
1846691 TTTGGCCACT-GCTGTGGT
1 TTTGGCCA-TGGCTGTGGT
1846709 TTTGGCCATGGCTGTGG
1 TTTGGCCATGGCTGTGG
1846726 GCTTTTTCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.06, C:0.20, G:0.37, T:0.37
Consensus pattern (18 bp):
TTTGGCCATGGCTGTGGT
Found at i:1847711 original size:41 final size:41
Alignment explanation
Indices: 1847654--1847736 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
1847644 TTCTTGTTTG
* *
1847654 TGTTCGTTCGTTAAAAAATGTAGTTTGTTCGTGTTCGTTCA
1 TGTTCGTTCATTAAAAAATGTAGCTTGTTCGTGTTCGTTCA
1847695 TGTTCGTTCATTAAAAAATGTAGCTTGTTCGTGTTCGTTCA
1 TGTTCGTTCATTAAAAAATGTAGCTTGTTCGTGTTCGTTCA
1847736 T
1 T
1847737 TTAAATGATA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.20, C:0.13, G:0.20, T:0.46
Consensus pattern (41 bp):
TGTTCGTTCATTAAAAAATGTAGCTTGTTCGTGTTCGTTCA
Found at i:1848086 original size:14 final size:14
Alignment explanation
Indices: 1848049--1848092 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
1848039 GATTGAGCTA
1848049 AACATAAATGAACG
1 AACATAAATGAACG
*
1848063 CACAT--A--AACG
1 AACATAAATGAACG
1848073 AACATAAATGAACG
1 AACATAAATGAACG
1848087 AACATA
1 AACATA
1848093 TTATCGAACG
Statistics
Matches: 24, Mismatches: 2, Indels: 8
0.71 0.06 0.24
Matches are distributed among these distances:
10 8 0.33
12 2 0.08
14 14 0.58
ACGTcount: A:0.57, C:0.18, G:0.11, T:0.14
Consensus pattern (14 bp):
AACATAAATGAACG
Found at i:1854778 original size:21 final size:21
Alignment explanation
Indices: 1854731--1854792 Score: 72
Period size: 21 Copynumber: 2.9 Consensus size: 21
1854721 CCCCCCATGA
1854731 GGGAACCGATTCCCCCTTTGAAG
1 GGGAACCGATTCCCCC--TGAAG
1854754 GGGAACCGATTCCCCCT-ACAG
1 GGGAACCGATTCCCCCTGA-AG
* *
1854775 GGGAATCGATACCCCCTG
1 GGGAACCGATTCCCCCTG
1854793 GGGTTCTGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
20 1 0.03
21 18 0.51
23 16 0.46
ACGTcount: A:0.23, C:0.34, G:0.26, T:0.18
Consensus pattern (21 bp):
GGGAACCGATTCCCCCTGAAG
Found at i:1858445 original size:2 final size:2
Alignment explanation
Indices: 1858384--1858426 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
1858374 ATTTTTACAT
1858384 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1858426 T
1 T
1858427 TGAAATTCAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:1868365 original size:27 final size:28
Alignment explanation
Indices: 1868295--1868365 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
1868285 TATTAGATCC
* *
1868295 AAACCTAAAATCCATACTCCCAAACCCT
1 AAACCTCAAATTCATACTCCCAAACCCT
*
1868323 AAACCTCATATTCATAC-CCCTAAACCCT
1 AAACCTCAAATTCATACTCCC-AAACCCT
1868351 AAA-CTCAAATTCATA
1 AAACCTCAAATTCATA
1868366 ATATCTCCTC
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
27 14 0.37
28 24 0.63
ACGTcount: A:0.42, C:0.35, G:0.00, T:0.23
Consensus pattern (28 bp):
AAACCTCAAATTCATACTCCCAAACCCT
Found at i:1869728 original size:41 final size:41
Alignment explanation
Indices: 1869671--1869916 Score: 456
Period size: 41 Copynumber: 6.0 Consensus size: 41
1869661 CTATCGCAAA
*
1869671 TTCGCTTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1869712 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1869753 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1869794 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1869835 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
1 TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
* *
1869876 TTCGCGTTGTGATAGTCTACAGTTGTCGTTGCGATTTTCCA
1 TTCGCGTTGCGATAGTCTACAGTCG-CGTTGCGATTTTCCA
1869917 AATTCGTTGT
Statistics
Matches: 201, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
41 186 0.93
42 15 0.07
ACGTcount: A:0.15, C:0.24, G:0.24, T:0.38
Consensus pattern (41 bp):
TTCGCGTTGCGATAGTCTACAGTCGCGTTGCGATTTTCCAT
Found at i:1870020 original size:6 final size:6
Alignment explanation
Indices: 1870009--1870066 Score: 107
Period size: 6 Copynumber: 9.7 Consensus size: 6
1869999 AGACACGTAT
*
1870009 GACCAC GACCAC GACCAC GACCAC GTCCAC GACCAC GACCAC GACCAC
1 GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC GACCAC
1870057 GACCAC GACC
1 GACCAC GACC
1870067 CGAGACGAGA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.31, C:0.50, G:0.17, T:0.02
Consensus pattern (6 bp):
GACCAC
Found at i:1870077 original size:5 final size:5
Alignment explanation
Indices: 1870067--1870097 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
1870057 GACCACGACC
1870067 CGAGA CGAGA CGAGA CGAGA CGAGA CG-GA CG
1 CGAGA CGAGA CGAGA CGAGA CGAGA CGAGA CG
1870098 GCGGCGGCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.35, C:0.23, G:0.42, T:0.00
Consensus pattern (5 bp):
CGAGA
Found at i:1870582 original size:6 final size:6
Alignment explanation
Indices: 1870573--1870618 Score: 92
Period size: 6 Copynumber: 7.7 Consensus size: 6
1870563 GTCCGTCTCG
1870573 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTC
1870619 ATACGTGTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.00, C:0.17, G:0.50, T:0.33
Consensus pattern (6 bp):
GGTCGT
Found at i:1870746 original size:22 final size:22
Alignment explanation
Indices: 1870720--1870787 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
1870710 TGAAAAATCA
1870720 CAACGACAACTGTAGACTATCG
1 CAACGACAACTGTAGACTATCG
* * **
1870742 CAACG--AA-TTTGGAAAATCG
1 CAACGACAACTGTAGACTATCG
1870761 CAACGACAACTGTAGACTATCG
1 CAACGACAACTGTAGACTATCG
1870783 CAACG
1 CAACG
1870788 CGAAATGGAA
Statistics
Matches: 35, Mismatches: 8, Indels: 6
0.71 0.16 0.12
Matches are distributed among these distances:
19 13 0.37
20 2 0.06
21 2 0.06
22 18 0.51
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.18
Consensus pattern (22 bp):
CAACGACAACTGTAGACTATCG
Found at i:1870751 original size:41 final size:41
Alignment explanation
Indices: 1870694--1870787 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
1870684 CTTTTTTTTA
*
1870694 ACTATCACAACGAATTTGAAAAATCACAACGACAACTGTAG
1 ACTATCGCAACGAATTTGAAAAATCACAACGACAACTGTAG
* *
1870735 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATTTGAAAAATCACAACGACAACTGTAG
1870776 ACTATCGCAACG
1 ACTATCGCAACG
1870788 CGAAATGGAA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 50 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.19
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGAAAAATCACAACGACAACTGTAG
Found at i:1870798 original size:42 final size:41
Alignment explanation
Indices: 1870694--1870807 Score: 158
Period size: 41 Copynumber: 2.8 Consensus size: 41
1870684 CTTTTTTTTA
* * * *
1870694 ACTATCACAACGAATTTGAAAAATCACAACGACAACTGTAG
1 ACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTAG
*
1870735 ACTATCGCAACGAATTTGGAAAATCGCAACGACAACTGTAG
1 ACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTAG
1870776 ACTATCGCAACGCGAA-ATGGAAAATCGCAACG
1 ACTATCGCAA--CGAATATGGAAAATCGCAACG
1870808 CGAAATGGAA
Statistics
Matches: 67, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
41 48 0.72
42 15 0.22
43 4 0.06
ACGTcount: A:0.42, C:0.23, G:0.18, T:0.18
Consensus pattern (41 bp):
ACTATCGCAACGAATATGGAAAATCGCAACGACAACTGTAG
Found at i:1870804 original size:20 final size:20
Alignment explanation
Indices: 1870779--1870871 Score: 123
Period size: 20 Copynumber: 4.6 Consensus size: 20
1870769 ACTGTAGACT
1870779 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
1870799 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
** ** *
1870819 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAA-A
1870840 ATCGCAACGCGAAATGGAAA
1 ATCGCAACGCGAAATGGAAA
*
1870860 ATCACAACGCGA
1 ATCGCAACGCGA
1870872 TTTTCAACTA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
20 46 0.75
21 15 0.25
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.14
Consensus pattern (20 bp):
ATCGCAACGCGAAATGGAAA
Found at i:1870807 original size:61 final size:59
Alignment explanation
Indices: 1870738--1870868 Score: 165
Period size: 61 Copynumber: 2.2 Consensus size: 59
1870728 ACTGTAGACT
*
1870738 ATCGCAACGAATTTGGAAAATCGCAACGACAACTGT-AGACTATCGCAACGCGAAATGGAAA
1 ATCGCAACGAA-ATGGAAAATCGCAACG-CAACTGTCA-ACTATCGCAACGCGAAATGGAAA
* * *
1870799 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAA
1 ATCGCAA--CGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAATGGAAA
*
1870860 ATCACAACG
1 ATCGCAACG
1870869 CGATTTTCAA
Statistics
Matches: 62, Mismatches: 5, Indels: 8
0.83 0.07 0.11
Matches are distributed among these distances:
59 2 0.03
61 40 0.65
62 16 0.26
63 4 0.06
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.16
Consensus pattern (59 bp):
ATCGCAACGAAATGGAAAATCGCAACGCAACTGTCAACTATCGCAACGCGAAATGGAAA
Found at i:1870845 original size:21 final size:21
Alignment explanation
Indices: 1870819--1870892 Score: 87
Period size: 21 Copynumber: 3.6 Consensus size: 21
1870809 GAAATGGAAA
1870819 ATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
** ** *
1870840 ATCGCAACGCGAAATGGAA-A
1 ATCGCAACGCGATTTTCAACT
*
1870860 ATCACAACGCGATTTTCAACT
1 ATCGCAACGCGATTTTCAACT
1870881 ATCGCAACGCGA
1 ATCGCAACGCGA
1870893 AATGCAACAC
Statistics
Matches: 40, Mismatches: 12, Indels: 2
0.74 0.22 0.04
Matches are distributed among these distances:
20 14 0.35
21 26 0.65
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (21 bp):
ATCGCAACGCGATTTTCAACT
Found at i:1870913 original size:41 final size:41
Alignment explanation
Indices: 1870799--1870896 Score: 187
Period size: 41 Copynumber: 2.4 Consensus size: 41
1870789 GAAATGGAAA
*
1870799 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCAACT
1870840 ATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCAACT
1 ATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCAACT
1870881 ATCGCAACGCGAAATG
1 ATCGCAACGCGAAATG
1870897 CAACACGAAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.38, C:0.24, G:0.19, T:0.18
Consensus pattern (41 bp):
ATCGCAACGCGAAATGGAAAATCACAACGCGATTTTCAACT
Found at i:1870952 original size:20 final size:20
Alignment explanation
Indices: 1870929--1871034 Score: 54
Period size: 20 Copynumber: 5.2 Consensus size: 20
1870919 AGATCGCGTT
*
1870929 GCGATTTCAACTATCGCAAC
1 GCGATTGCAACTATCGCAAC
* * * *
1870949 GCGAAATGGAA-AATCGCAAT
1 GCG-ATTGCAACTATCGCAAC
*
1870969 GCGATCTCCAACTATCGCAAC
1 GCGAT-TGCAACTATCGCAAC
* * * *
1870990 GCGAAATGGAA-AAACGCAAC
1 GCG-ATTGCAACTATCGCAAC
* *
1871010 GCGATTTTCAACTATCGCAAT
1 GCGA-TTGCAACTATCGCAAC
1871031 GCGA
1 GCGA
1871035 AATGCAACGT
Statistics
Matches: 59, Mismatches: 21, Indels: 11
0.65 0.23 0.12
Matches are distributed among these distances:
19 2 0.03
20 29 0.49
21 27 0.46
22 1 0.02
ACGTcount: A:0.36, C:0.25, G:0.20, T:0.19
Consensus pattern (20 bp):
GCGATTGCAACTATCGCAAC
Found at i:1870987 original size:41 final size:40
Alignment explanation
Indices: 1870928--1871038 Score: 168
Period size: 41 Copynumber: 2.7 Consensus size: 40
1870918 GAGATCGCGT
*
1870928 TGCGATTTCAACTATCGCAACGCGAAATGGAAAATCGCAA
1 TGCGATTTCAACTATCGCAACGCGAAATGGAAAAACGCAA
*
1870968 TGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACGCAA
1 TGCGAT-TTCAACTATCGCAACGCGAAATGGAAAAACGCAA
* *
1871009 CGCGATTTTCAACTATCGCAATGCGAAATG
1 TGCGA-TTTCAACTATCGCAACGCGAAATG
1871039 CAACGTGAAT
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
40 6 0.09
41 57 0.89
42 1 0.02
ACGTcount: A:0.36, C:0.24, G:0.20, T:0.20
Consensus pattern (40 bp):
TGCGATTTCAACTATCGCAACGCGAAATGGAAAAACGCAA
Found at i:1871042 original size:21 final size:21
Alignment explanation
Indices: 1870936--1871042 Score: 83
Period size: 21 Copynumber: 5.2 Consensus size: 21
1870926 GTTGCGATTT
1870936 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * * ** *
1870957 GAA-AATCGCAATGCGATCTC
1 CAACTATCGCAACGCGAAATG
1870977 CAACTATCGCAACGCGAAATG
1 CAACTATCGCAACGCGAAATG
* * * ** *
1870998 GAA-AAACGCAACGCGATTTT
1 CAACTATCGCAACGCGAAATG
*
1871018 CAACTATCGCAATGCGAAATG
1 CAACTATCGCAACGCGAAATG
1871039 CAAC
1 CAAC
1871043 GTGAATTTGC
Statistics
Matches: 59, Mismatches: 25, Indels: 4
0.67 0.28 0.05
Matches are distributed among these distances:
20 28 0.47
21 31 0.53
ACGTcount: A:0.38, C:0.26, G:0.19, T:0.17
Consensus pattern (21 bp):
CAACTATCGCAACGCGAAATG
Found at i:1871067 original size:142 final size:142
Alignment explanation
Indices: 1870799--1871055 Score: 442
Period size: 142 Copynumber: 1.8 Consensus size: 142
1870789 GAAATGGAAA
* * *
1870799 ATCGCAACGCGAAATGGAAAATCGCAACGCGATTTTCAACTATCGCAACGCGAAATGGAAAATCA
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACA
1870864 CAACGCGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGATGATAGAGATCGCGTT
66 CAACGCGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGATGATAGAGATCGCGTT
1870929 GCGATTTCAACT
131 GCGATTTCAACT
* *
1870941 ATCGCAACGCGAAATGGAAAATCGCAATGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACG
1 ATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACA
* **
1871006 CAACGCGATTTTCAACTATCGCAATGCGAAATGCAACGTGAATTTGCGAT
66 CAACGCGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGAT
1871056 AGTGGAGATC
Statistics
Matches: 107, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
142 107 1.00
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (142 bp):
ATCGCAACGCGAAATGGAAAATCGCAACGCGATCTCCAACTATCGCAACGCGAAATGGAAAAACA
CAACGCGATTTTCAACTATCGCAACGCGAAATGCAACACGAATTTGCGATGATAGAGATCGCGTT
GCGATTTCAACT
Found at i:1871365 original size:2 final size:2
Alignment explanation
Indices: 1871358--1871391 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
1871348 AAATTATTTG
1871358 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1871392 TCAAATCAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1880494 original size:24 final size:24
Alignment explanation
Indices: 1880462--1880524 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
1880452 TATTTGGTCT
1880462 AATGTTGTAAGATCAATTATAAAC
1 AATGTTGTAAGATCAATTATAAAC
1880486 AATGTTGTAAGATCAATTATAAAC
1 AATGTTGTAAGATCAATTATAAAC
*
1880510 -ATGTTATAA-ATCAAT
1 AATGTTGTAAGATCAAT
1880525 AACCAATTGA
Statistics
Matches: 38, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
22 6 0.16
23 8 0.21
24 24 0.63
ACGTcount: A:0.46, C:0.08, G:0.11, T:0.35
Consensus pattern (24 bp):
AATGTTGTAAGATCAATTATAAAC
Found at i:1881182 original size:18 final size:18
Alignment explanation
Indices: 1881159--1881193 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1881149 TCCACTGTAT
*
1881159 TTTGAAAATGGGTTGAAA
1 TTTGAAAATGAGTTGAAA
1881177 TTTGAAAATGAGTTGAA
1 TTTGAAAATGAGTTGAA
1881194 GAATTGACAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.40, C:0.00, G:0.26, T:0.34
Consensus pattern (18 bp):
TTTGAAAATGAGTTGAAA
Done.