Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007961.1 Hibiscus syriacus cultivar Beakdansim tig00110388_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: 2700559
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 10 of 12
Found at i:2026909 original size:14 final size:15
Alignment explanation
Indices: 2026633--2026919 Score: 93
Period size: 19 Copynumber: 16.9 Consensus size: 15
2026623 TAATTTCGCA
*
2026633 TTGCGATTATC-TCG
1 TTGCGATTTTCATCG
2026647 TTGCGATTTTCATTTCG
1 TTGCGATTTTCA--TCG
2026664 CATTGCGATTTTCATTTCG
1 --TTGCGATTTTCA--TCG
2026683 CATTGCGATTCTT--TCG
1 --TTGCGATT-TTCATCG
2026699 TTGCGATTTTCATTTCG
1 TTGCGATTTTCA--TCG
2026716 CATTGCGATTTTCATTTCG
1 --TTGCGATTTTCA--TCG
2026735 CATTGCGATTTTCATTTCG
1 --TTGCGATTTTCA--TCG
*
2026754 CATTGCGATTTTAATTTCG
1 --TTGCGATTTTCA--TCG
* *
2026773 CATTGCGATTCT-GTCG
1 --TTGCGATTTTCATCG
2026789 TTGCGATTTTCATTTCG
1 TTGCGATTTTCA--TCG
2026806 CATTGCGATTTTCATTTCG
1 --TTGCGATTTTCA--TCG
*
2026825 CATTGCGATTCTC-TCG
1 --TTGCGATTTTCATCG
2026841 TTGCGATTTTCATTTCG
1 TTGCGATTTTCA--TCG
2026858 CATTGCGATTTTCATTTCG
1 --TTGCGATTTTCA--TCG
*
2026877 CATTGCGATTCTC-TCG
1 --TTGCGATTTTCATCG
2026893 TTGCGATTTTCAT-G
1 TTGCGATTTTCATCG
*
2026907 TTGGGATTTTCAT
1 TTGCGATTTTCAT
2026920 TTCGCGTTGC
Statistics
Matches: 239, Mismatches: 11, Indels: 46
0.81 0.04 0.16
Matches are distributed among these distances:
13 2 0.01
14 60 0.25
15 1 0.00
16 12 0.05
17 12 0.05
19 150 0.63
20 2 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (15 bp):
TTGCGATTTTCATCG
Found at i:2026928 original size:33 final size:34
Alignment explanation
Indices: 2026647--2026933 Score: 233
Period size: 33 Copynumber: 8.2 Consensus size: 34
2026637 GATTATCTCG
2026647 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTTCGCA
2026685 TTGCGATTCTT--TCGTTGCGATTTTCATTTCGCA
1 TTGCGATT-TTCATCGTTGCGATTTTCATTTCGCA
2026718 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTTCGCA
* *
2026756 TTGCGATTTTAATTTCGCATTGCGA--TTC-TGTCG--
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTTCGCA
2026789 TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTTCGCA
*
2026827 TTGCGATTCTC-TCGTTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATCGTTGCGATTTTCATTTCGCA
*
2026860 TTGCGATTTTCATTTCGCATTGCGA--TTC-TCTCG--
1 TTGCGATTTTCA--TCG--TTGCGATTTTCATTTCGCA
* *
2026893 TTGCGATTTTCAT-GTTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATCGTTGCGATTTTCATTTCGCA
2026926 TTGCGATT
1 TTGCGATT
2026934 GTATTTTCCG
Statistics
Matches: 218, Mismatches: 9, Indels: 49
0.79 0.03 0.18
Matches are distributed among these distances:
28 5 0.02
30 4 0.02
31 5 0.02
32 2 0.01
33 100 0.46
35 17 0.08
36 16 0.07
38 67 0.31
39 2 0.01
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (34 bp):
TTGCGATTTTCATCGTTGCGATTTTCATTTCGCA
Found at i:2029225 original size:12 final size:12
Alignment explanation
Indices: 2029208--2029232 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2029198 TCTTCGGGGA
2029208 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2029220 CTTTTTCTTCTT
1 CTTTTTCTTCTT
2029232 C
1 C
2029233 AGGATTATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:2029440 original size:24 final size:24
Alignment explanation
Indices: 2029406--2029452 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2029396 CTGAAACATC
2029406 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
2029430 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
2029453 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:2030163 original size:20 final size:20
Alignment explanation
Indices: 2030135--2030503 Score: 449
Period size: 20 Copynumber: 18.4 Consensus size: 20
2030125 AAATTTCAGT
* * * *
2030135 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
2030155 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * **
2030175 GTTGCGATTTACAGATTCTT
1 GTTGCGATTTACGGATACGC
*
2030195 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2030215 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2030235 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
2030255 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2030275 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2030295 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2030315 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
*
2030335 GTTGCGGTTTACGGATACGC
1 GTTGCGATTTACGGATACGC
2030355 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
2030375 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
2030395 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
2030415 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
2030435 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
2030455 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
2030475 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
2030495 GTTGCGATT
1 GTTGCGATT
2030504 ATGGAAAATC
Statistics
Matches: 307, Mismatches: 34, Indels: 16
0.86 0.10 0.04
Matches are distributed among these distances:
19 5 0.02
20 297 0.97
21 5 0.02
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.35
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:2031410 original size:3 final size:3
Alignment explanation
Indices: 2031402--2031471 Score: 72
Period size: 3 Copynumber: 22.3 Consensus size: 3
2031392 AAAATGTTAG
*
2031402 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAAT GAAT AAG AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT -AAT AAT AAT AAT
2031449 AACT AA- AA- AAT AAAT AAAT AAT A
1 AA-T AAT AAT AAT -AAT -AAT AAT A
2031472 TAAATTATAA
Statistics
Matches: 60, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
2 4 0.07
3 40 0.67
4 16 0.27
ACGTcount: A:0.69, C:0.01, G:0.03, T:0.27
Consensus pattern (3 bp):
AAT
Found at i:2031475 original size:20 final size:23
Alignment explanation
Indices: 2031402--2031465 Score: 69
Period size: 23 Copynumber: 2.8 Consensus size: 23
2031392 AAAATGTTAG
* *
2031402 AATAAT-AATAAT-AATAATAAT
1 AATAATAAAAAATAAATAAGAAT
* *
2031423 AATAATAATAAATGAATAAGAAT
1 AATAATAAAAAATAAATAAGAAT
2031446 AATAACTAAAAAATAAATAA
1 AATAA-TAAAAAATAAATAA
2031466 ATAATATAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
21 6 0.17
22 4 0.11
23 13 0.37
24 12 0.34
ACGTcount: A:0.69, C:0.02, G:0.03, T:0.27
Consensus pattern (23 bp):
AATAATAAAAAATAAATAAGAAT
Found at i:2031490 original size:24 final size:23
Alignment explanation
Indices: 2031455--2031522 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 23
2031445 TAATAACTAA
*
2031455 AAAATAAATAAATAATATAAATTAT
1 AAAATAATTAAA-AA-ATAAATTAT
* *
2031480 AAAA-AATTAAACAAATATATTGT
1 AAAATAATTAAA-AAATAAATTAT
2031503 AAAATAATTAAAAAAATAAA
1 AAAATAATT-AAAAAATAAA
2031523 AAAGAATAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 11 0.31
24 18 0.50
25 7 0.19
ACGTcount: A:0.69, C:0.01, G:0.01, T:0.28
Consensus pattern (23 bp):
AAAATAATTAAAAAATAAATTAT
Found at i:2032540 original size:9 final size:9
Alignment explanation
Indices: 2032526--2032551 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
2032516 GCCGCTGGAT
2032526 TTTCAATTG
1 TTTCAATTG
2032535 TTTCAATTG
1 TTTCAATTG
2032544 TTTCAATT
1 TTTCAATT
2032552 TGGTCCTCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.12, G:0.08, T:0.58
Consensus pattern (9 bp):
TTTCAATTG
Found at i:2033832 original size:46 final size:46
Alignment explanation
Indices: 2033781--2033885 Score: 176
Period size: 46 Copynumber: 2.3 Consensus size: 46
2033771 CTATATGACT
*
2033781 ATATGAAATGATATATGAATATGCAATACGTGATACATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
* *
2033827 ATATGAAATGACATATGAATATGTAATACGTGATATATGTGATATG
1 ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
2033873 ATATGAAAT-ACAT
1 ATATGAAATGACAT
2033886 GGTTACACAT
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 4 0.07
46 52 0.93
ACGTcount: A:0.43, C:0.06, G:0.18, T:0.33
Consensus pattern (46 bp):
ATATGAAATGACATATGAATATGCAATACGTGATACATGTGATATG
Found at i:2034085 original size:17 final size:17
Alignment explanation
Indices: 2034063--2034129 Score: 71
Period size: 17 Copynumber: 3.6 Consensus size: 17
2034053 ACAGATTACA
2034063 TCCTTCGGGATGACAGG
1 TCCTTCGGGATGACAGG
2034080 TCCTTCAGGACACAGATGACAGG
1 TCCTTC-GG-----GATGACAGG
*
2034103 TCCTTCGGGATGATAGG
1 TCCTTCGGGATGACAGG
2034120 TCCTTCGGGA
1 TCCTTCGGGA
2034130 CATTTATACG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
17 24 0.56
18 2 0.05
22 2 0.05
23 15 0.35
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.24
Consensus pattern (17 bp):
TCCTTCGGGATGACAGG
Found at i:2034121 original size:40 final size:38
Alignment explanation
Indices: 2034034--2034131 Score: 133
Period size: 40 Copynumber: 2.5 Consensus size: 38
2034024 TATAAGACAT
* * *
2034034 ATGATAAGTCCTACGGGACACAGATTACATCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
* *
2034072 ATGACAGGTCCTTCAGGACACAGATGACAGGTCCTTCGGG
1 ATGATAGGTCCTTCGGGACACAGATGACA--TCCTTCGGG
2034112 ATGATAGGTCCTTCGGGACA
1 ATGATAGGTCCTTCGGGACA
2034132 TTTATACGAG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
38 24 0.47
40 27 0.53
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (38 bp):
ATGATAGGTCCTTCGGGACACAGATGACATCCTTCGGG
Found at i:2034974 original size:22 final size:23
Alignment explanation
Indices: 2034938--2034981 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
2034928 GTGCCATTGT
*
2034938 TTTTTATATTTTTTATCTTTTCA
1 TTTTTATATTATTTATCTTTTCA
*
2034961 TTTTTAT-TTATTTATTTTTTC
1 TTTTTATATTATTTATCTTTTC
2034982 TATCTAACAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (23 bp):
TTTTTATATTATTTATCTTTTCA
Found at i:2040884 original size:262 final size:258
Alignment explanation
Indices: 2040399--2041010 Score: 876
Period size: 262 Copynumber: 2.4 Consensus size: 258
2040389 ATCCGAGGCA
* *
2040399 CGACTCGACCAAAATAAAGTTTCACCCGACCTGACCCGAATATATGAATTAGAAACCCGACCCGA
1 CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCGA
** *
2040464 CC----CGATAAAAAATTTATTTTTATTCAATAAAAACAGTGACTTAATTTAAAAAATTATATAT
66 CCTAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTTAAAAAATTATATAT
** *
2040525 AGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTTTTTGGGTCGGGT
131 AGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTGGTCGGGTCGGGT
*
2040590 ATTTTTCACCCTAAACCTGAACCCAGCCCGACCCGAATATCACACTTAAAAAAA-AC-CGATC
196 ATTTTTCACCCTAAACCCGAACCCAGCCCGACCCGAATATCACACTTAAAAAAATACTCGATC
*
2040651 CGACTCGACCAAAATAAAGTTTCACATGACCCGACCCGAATATATGAATTAGAAACCCGACCCGA
1 CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCGA
2040716 CCTAAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAA-TTAAATATATATATA
66 CCT-AAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTTAAA-A-A-AT-TA
2040780 TATAGATAGAGGGGTATTATTGTAATTATTCCTAAATATAT-AGGTAAAATTATATATTCGGTCG
126 TAT--ATAGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATT-GGTCG
*
2040844 GGTCGGGTATTTTTCACCCTAAACCCGAACTCTA-CCCGACCCGAATATCACACTTAAAAAAATT
188 GGTCGGGTATTTTTCACCCTAAACCCGAAC-CCAGCCCGACCCGAATATCACACTTAAAAAAA-T
*
2040908 GACTTGATC
251 -ACTCGATC
* *
2040917 CGAC-C-A--AAAATAAAATTTCACCCT-ACCCGACCCGAATATATGAATTAGAAACCCGACCCA
1 CGACTCGACCAAAATAAAGTTTCA-CCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCG
2040977 ACCTGAAATAATAAAAAAA-TATTTTTATTCAATA
65 ACCT-AAATAATAAAAAAATTATTTTTATTCAATA
2041011 TATAAATAAA
Statistics
Matches: 326, Mismatches: 16, Indels: 27
0.88 0.04 0.07
Matches are distributed among these distances:
252 64 0.20
256 5 0.02
257 40 0.12
258 1 0.00
259 2 0.01
260 5 0.02
261 32 0.10
262 161 0.49
263 4 0.01
264 1 0.00
265 3 0.01
266 8 0.02
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (258 bp):
CGACTCGACCAAAATAAAGTTTCACCTGACCCGACCCGAATATATGAATTAGAAACCCGACCCGA
CCTAAATAATAAAAAAATTATTTTTATTCAATAAAAACAGTGACTTAATTTAAAAAATTATATAT
AGAGGGGTATTATTGTAATTATTCCTAAATATATAAGGTAAAATTATATATTGGTCGGGTCGGGT
ATTTTTCACCCTAAACCCGAACCCAGCCCGACCCGAATATCACACTTAAAAAAATACTCGATC
Found at i:2043823 original size:17 final size:18
Alignment explanation
Indices: 2043780--2043820 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
2043770 CAATTATATT
2043780 AGTAAAATA-TTAAATAA
1 AGTAAAATACTTAAATAA
2043797 AGTAAAATACTTAAATAA
1 AGTAAAATACTTAAATAA
*
2043815 ATTAAA
1 AGTAAA
2043821 TACATAATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (18 bp):
AGTAAAATACTTAAATAA
Found at i:2044699 original size:2 final size:2
Alignment explanation
Indices: 2044692--2044728 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
2044682 AATCATTTCA
2044692 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2044729 ATAAGGAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2049115 original size:60 final size:58
Alignment explanation
Indices: 2048989--2049137 Score: 147
Period size: 60 Copynumber: 2.5 Consensus size: 58
2048979 TGCCATTAGG
* * * * *
2048989 ATATTCAAAAGTTTGATGACTAATTTTAAAAAATATCATAGTTCAGGGATGAAATTATA
1 ATATTCAAAAGTTTAAAGACTAA-TTTAAAAAACAGCATAGTTCAGGGATAAAATTATA
* * * **
2049048 ATGTTCAAAAGTTTAAGGACTAATTTAAACAGACAGCTATAGTTTGGGGATAAAATTGA-A
1 ATATTCAAAAGTTTAAAGACTAATTTAAA-AAACAGC-ATAGTTCAGGGATAAAATT-ATA
* *
2049108 ATATTCAAAATTTTAAAGATTAATTTAAAA
1 ATATTCAAAAGTTTAAAGACTAATTTAAAA
2049138 TTATAATTTG
Statistics
Matches: 74, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
58 6 0.08
59 25 0.34
60 42 0.57
61 1 0.01
ACGTcount: A:0.45, C:0.07, G:0.14, T:0.34
Consensus pattern (58 bp):
ATATTCAAAAGTTTAAAGACTAATTTAAAAAACAGCATAGTTCAGGGATAAAATTATA
Found at i:2055089 original size:23 final size:23
Alignment explanation
Indices: 2055063--2055127 Score: 85
Period size: 23 Copynumber: 2.8 Consensus size: 23
2055053 CAGCTCGTAT
2055063 AATTGCACCGAAGTGCCATGTAG
1 AATTGCACCGAAGTGCCATGTAG
* **
2055086 AATTGCACCGGAGTGCCGCGTAG
1 AATTGCACCGAAGTGCCATGTAG
* *
2055109 AATTGCACAGTAGTGCCAT
1 AATTGCACCGAAGTGCCAT
2055128 ATAATAATGT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (23 bp):
AATTGCACCGAAGTGCCATGTAG
Found at i:2055314 original size:103 final size:103
Alignment explanation
Indices: 2055142--2055359 Score: 355
Period size: 103 Copynumber: 2.1 Consensus size: 103
2055132 TAATGTCCAT
* * * * *
2055142 AAGGACTACATATCATTCCTTAATAATCATATACATATACTAGGGATCAAATATGTGTCTCACCG
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
2055207 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
* *
2055245 AAGGACCACATATCATTCCTTAAGAATCATATACATATGCCAAGGATCAAGTATGTGTCTCACCA
1 AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
*
2055310 GACTTCACACATGTTTCAAAGAATACATATATGTCCCG
66 GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
*
2055348 AAAGACCACATA
1 AAGGACCACATA
2055360 GACCCTCAAC
Statistics
Matches: 106, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
103 106 1.00
ACGTcount: A:0.37, C:0.23, G:0.13, T:0.27
Consensus pattern (103 bp):
AAGGACCACATATCATTCCTTAAGAATCATATACATATACCAAGGATCAAATATGTGTCTCACCA
GACTTCACACATGTTCCAAAGAATACATATATGTCCCG
Found at i:2075493 original size:24 final size:24
Alignment explanation
Indices: 2075461--2075509 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
2075451 GATCAGAAAC
2075461 TCACCGTGAATAATTGGTCCATAA
1 TCACCGTGAATAATTGGTCCATAA
*
2075485 TCACCGTGATTAATTGGTCCATAA
1 TCACCGTGAATAATTGGTCCATAA
2075509 T
1 T
2075510 TTGAAGGGAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (24 bp):
TCACCGTGAATAATTGGTCCATAA
Found at i:2076186 original size:14 final size:13
Alignment explanation
Indices: 2076167--2076250 Score: 70
Period size: 14 Copynumber: 6.5 Consensus size: 13
2076157 AAATAGATTA
2076167 AATATTAATTTTTT
1 AATATTAA-TTTTT
*
2076181 AATATT-ATATTAT
1 AATATTAAT-TTTT
2076194 AGATATTAA-TTTT
1 A-ATATTAATTTTT
2076207 AATATTAATTTTT
1 AATATTAATTTTT
* *
2076220 AA-A-TAA-ATTA
1 AATATTAATTTTT
2076230 AATATTAATTTTTT
1 AATATTAA-TTTTT
2076244 AATATTA
1 AATATTA
2076251 TATTATAGAT
Statistics
Matches: 56, Mismatches: 6, Indels: 16
0.72 0.08 0.21
Matches are distributed among these distances:
10 4 0.07
11 4 0.07
12 12 0.21
13 15 0.27
14 20 0.36
15 1 0.02
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (13 bp):
AATATTAATTTTT
Found at i:2076192 original size:26 final size:27
Alignment explanation
Indices: 2076141--2076213 Score: 75
Period size: 26 Copynumber: 2.8 Consensus size: 27
2076131 ATTTTAATTT
*
2076141 TAATATTATTTTTTTTAA-A-TAGATTA
1 TAATATTA-ATTTTTTAATATTAGATTA
*
2076167 -AATATTAATTTTTTAATATTATATTA
1 TAATATTAATTTTTTAATATTAGATTA
2076193 TAGATATTAA--TTTTAATATTA
1 TA-ATATTAATTTTTTAATATTA
2076214 ATTTTTAAAT
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
24 8 0.20
25 8 0.20
26 17 0.41
27 1 0.02
28 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (27 bp):
TAATATTAATTTTTTAATATTAGATTA
Found at i:2076200 original size:28 final size:28
Alignment explanation
Indices: 2076168--2076270 Score: 98
Period size: 28 Copynumber: 3.4 Consensus size: 28
2076158 AATAGATTAA
2076168 ATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAATATTATATTATAG
* * * *
2076196 ATATTAATTTTAATATTAATTTTTAAATAAATTAA
1 ATATTAA-TTT--T-TTAA-TATTATAT-TA-TAG
2076231 ATATTAATTTTTTAATATTATATTATAG
1 ATATTAATTTTTTAATATTATATTATAG
2076259 ATATTTAATTTT
1 ATA-TTAATTTT
2076271 ATATCATATA
Statistics
Matches: 59, Mismatches: 8, Indels: 15
0.72 0.10 0.18
Matches are distributed among these distances:
28 12 0.20
29 12 0.20
30 6 0.10
31 5 0.08
32 5 0.08
33 6 0.10
34 4 0.07
35 9 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (28 bp):
ATATTAATTTTTTAATATTATATTATAG
Found at i:2076213 original size:12 final size:12
Alignment explanation
Indices: 2076102--2076271 Score: 73
Period size: 12 Copynumber: 13.5 Consensus size: 12
2076092 CTTCAAAGAG
2076102 ATTTT-ATATTTA
1 ATTTTAATA-TTA
2076114 ATTTT-ATATT-
1 ATTTTAATATTA
* *
2076124 ATATTTGATTTTA
1 AT-TTTAATATTA
2076137 ATTTTAATATTA
1 ATTTTAATATTA
* ** *
2076149 TTTTTTTTAAATA
1 ATTTTAAT-ATTA
*
2076162 GA-TTAAATATTA
1 -ATTTTAATATTA
2076174 ATTTTTTAATATTA
1 A--TTTTAATATTA
*
2076188 TATTATAGATATTA
1 -ATTTTA-ATATTA
2076202 ATTTTAATATTA
1 ATTTTAATATTA
2076214 ATTTTTAA-A-TA
1 A-TTTTAATATTA
* *
2076225 AATTAAATATTA
1 ATTTTAATATTA
2076237 ATTTTTTAATATTA
1 A--TTTTAATATTA
*
2076251 TATTATAGATATTTA
1 -ATTTTA-ATA-TTA
2076266 ATTTTA
1 ATTTTA
2076272 TATCATATAA
Statistics
Matches: 119, Mismatches: 21, Indels: 34
0.68 0.12 0.20
Matches are distributed among these distances:
10 6 0.05
11 10 0.08
12 39 0.33
13 27 0.23
14 32 0.27
15 5 0.04
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.58
Consensus pattern (12 bp):
ATTTTAATATTA
Found at i:2076224 original size:63 final size:64
Alignment explanation
Indices: 2076115--2076279 Score: 241
Period size: 63 Copynumber: 2.6 Consensus size: 64
2076105 TTATATTTAA
* * *
2076115 TTTT-ATATTATATT-T-GATTTTAATTTTAATATTATTTTTTTTAAATAGATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTA-TATTTTTAAATAAATTAAATATTAATT
2076177 TTTTAATATTATATTATAGATATTAATTTTAATATTA-ATTTTTAAATAAATTAAATATTAATT
1 TTTTAATATTATATTATAGATATTAATTTTAATATTATATTTTTAAATAAATTAAATATTAATT
*
2076240 TTTTAATATTATATTATAGATATTTAATTTT-ATATCATAT
1 TTTTAATATTATATTATAGATA-TTAATTTTAATATTATAT
2076280 AAATTATTTT
Statistics
Matches: 94, Mismatches: 4, Indels: 8
0.89 0.04 0.08
Matches are distributed among these distances:
62 4 0.04
63 61 0.65
64 11 0.12
65 18 0.19
ACGTcount: A:0.39, C:0.01, G:0.02, T:0.58
Consensus pattern (64 bp):
TTTTAATATTATATTATAGATATTAATTTTAATATTATATTTTTAAATAAATTAAATATTAATT
Found at i:2076304 original size:20 final size:20
Alignment explanation
Indices: 2076266--2076327 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
2076256 TAGATATTTA
2076266 ATTTTATATCA-TA-TAAATT
1 ATTTTATAT-ATTATTAAATT
2076285 ATTTTATATATTATTAAA-T
1 ATTTTATATATTATTAAATT
*
2076304 -TTTTATAT-TTATTTTAATT
1 ATTTTATATATTA-TTAAATT
2076323 ATTTT
1 ATTTT
2076328 GATTTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 3 0.08
18 13 0.35
19 13 0.35
20 8 0.22
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTATATATTATTAAATT
Found at i:2076322 original size:18 final size:18
Alignment explanation
Indices: 2076286--2076340 Score: 51
Period size: 18 Copynumber: 2.9 Consensus size: 18
2076276 ATATAAATTA
*
2076286 TTTTATATATTA-TTAAAT
1 TTTTATAT-TTATTTTAAT
2076304 TTTTATATTTATTTTAAT
1 TTTTATATTTATTTTAAT
2076322 TATTT-TGATTTAATTTTAA
1 T-TTTAT-ATTT-ATTTTAA
2076341 ATATAATATT
Statistics
Matches: 32, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
17 3 0.09
18 15 0.47
19 7 0.22
20 7 0.22
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTTATATTTATTTTAAT
Found at i:2076566 original size:17 final size:18
Alignment explanation
Indices: 2076533--2076566 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
2076523 AAAATAATCA
2076533 TAAAATAATTTTATAAAT
1 TAAAATAATTTTATAAAT
*
2076551 TAAAAT-ATTTTCTAAA
1 TAAAATAATTTTATAAA
2076567 AATATCATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.53, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TAAAATAATTTTATAAAT
Found at i:2077207 original size:2 final size:2
Alignment explanation
Indices: 2077200--2077251 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
2077190 ATTTTATCTA
2077200 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
2077242 AT AT AT AT AT
1 AT AT AT AT AT
2077252 GGGGGGATAA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:2077790 original size:28 final size:28
Alignment explanation
Indices: 2077759--2077850 Score: 184
Period size: 28 Copynumber: 3.3 Consensus size: 28
2077749 ATCATTAAAA
2077759 AGAGGTTTGAGATTAACAAACACTCAAC
1 AGAGGTTTGAGATTAACAAACACTCAAC
2077787 AGAGGTTTGAGATTAACAAACACTCAAC
1 AGAGGTTTGAGATTAACAAACACTCAAC
2077815 AGAGGTTTGAGATTAACAAACACTCAAC
1 AGAGGTTTGAGATTAACAAACACTCAAC
2077843 AGAGGTTT
1 AGAGGTTT
2077851 TTTCATCAAC
Statistics
Matches: 64, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.41, C:0.16, G:0.20, T:0.23
Consensus pattern (28 bp):
AGAGGTTTGAGATTAACAAACACTCAAC
Found at i:2078850 original size:19 final size:20
Alignment explanation
Indices: 2078794--2078885 Score: 98
Period size: 19 Copynumber: 4.5 Consensus size: 20
2078784 TTCGCATTGT
2078794 GATAGTCCAAGTTCGCGTTGC
1 GATAGTCCAAGTTC-CGTTGC
* * *
2078815 GATTTATTCCAAATT-CGTTAC
1 GA--TAGTCCAAGTTCCGTTGC
2078836 GATAGTCCAAGTT-CGTTGC
1 GATAGTCCAAGTTCCGTTGC
*
2078855 GATAGTCGAAGTTCGCGTTGC
1 GATAGTCCAAGTTC-CGTTGC
2078876 GATAGTCCAA
1 GATAGTCCAA
2078886 AATCGCAACG
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
19 26 0.44
21 24 0.41
23 9 0.15
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.32
Consensus pattern (20 bp):
GATAGTCCAAGTTCCGTTGC
Found at i:2078875 original size:21 final size:21
Alignment explanation
Indices: 2078784--2078885 Score: 104
Period size: 21 Copynumber: 5.0 Consensus size: 21
2078774 GATTTACATA
* *
2078784 TTCGCATTGTGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
* *
2078805 TTCGCGTTGCGATTTATTCCAAA
1 TTCGCGTTGCGA--TAGTCCAAG
*
2078828 TT--CGTTACGATAGTCCAAG
1 TTCGCGTTGCGATAGTCCAAG
*
2078847 TT--CGTTGCGATAGTCGAAG
1 TTCGCGTTGCGATAGTCCAAG
2078866 TTCGCGTTGCGATAGTCCAA
1 TTCGCGTTGCGATAGTCCAA
2078886 AATCGCAACG
Statistics
Matches: 67, Mismatches: 10, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
19 26 0.39
21 32 0.48
23 9 0.13
ACGTcount: A:0.23, C:0.21, G:0.24, T:0.33
Consensus pattern (21 bp):
TTCGCGTTGCGATAGTCCAAG
Found at i:2079834 original size:42 final size:42
Alignment explanation
Indices: 2079752--2079943 Score: 298
Period size: 42 Copynumber: 4.6 Consensus size: 42
2079742 CGTTGCGATT
*
2079752 TTGGACTATCGCAACGAATTTGG--TAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
2079792 TTGGACTATCACAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
* *
2079834 TTCGACTATGGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
*
2079876 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
2079918 TTGGACTATCGCAACGCGAACTTGGA
1 TTGGACTATCGCAA--CGAACTTGGA
2079944 CTATCGCAAC
Statistics
Matches: 141, Mismatches: 7, Indels: 4
0.93 0.05 0.03
Matches are distributed among these distances:
40 22 0.16
42 109 0.77
44 10 0.07
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (42 bp):
TTGGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
Found at i:2079889 original size:63 final size:63
Alignment explanation
Indices: 2079777--2079996 Score: 186
Period size: 63 Copynumber: 3.5 Consensus size: 63
2079767 GAATTTGGTA
* * * * * *
2079777 AATCGCAACGCGAACTTGGACTATCACAA--CGAATTTGGAATAAATCGCAACGCGAACTTCGAC
1 AATCGCAAC-CGAACTTGGAATATCGCAACGCGAACTTCGACT--ATCGCAACGCGAACTTCGAA
2079840 T
63 T
* *
2079841 -ATGGCAA-CGAACTTGGAATAAATCGCAACGCGAACTTCGACTATCGCAA--CGAACTTGGAAT
1 AATCGCAACCGAACTTGGAAT--ATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGAAT
* * * *
2079902 AAATCGCAACGCGAACTTGGACTATCGCAACGCGAACTTGGACTATCGCAA--CGAATTTGGAAT
1 -AATCGCAAC-CGAACTTGGAATATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGAAT
*
2079965 AAATCGCAACGCGAACTTGGACTATCGCAACG
1 -AATCGCAAC-CGAACTTGGAATATCGCAACG
2079997 AATATGGAAA
Statistics
Matches: 136, Mismatches: 12, Indels: 17
0.82 0.07 0.10
Matches are distributed among these distances:
61 21 0.15
63 95 0.70
65 20 0.15
ACGTcount: A:0.35, C:0.25, G:0.21, T:0.20
Consensus pattern (63 bp):
AATCGCAACCGAACTTGGAATATCGCAACGCGAACTTCGACTATCGCAACGCGAACTTCGAAT
Found at i:2079950 original size:42 final size:41
Alignment explanation
Indices: 2079752--2079996 Score: 275
Period size: 42 Copynumber: 5.9 Consensus size: 41
2079742 CGTTGCGATT
* *
2079752 TTGGACTATCGCAACGAATTTGGTA-AATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAATAATCGCAACGCGAAC
* *
2079792 TTGGACTATCACAACGAATTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAAC
* *
2079834 TTCGACTATGGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAAC
*
2079876 TTCGACTATCGCAACGAACTTGGAATAAATCGCAACGCGAAC
1 TTGGACTATCGCAACGAACTTGGAAT-AATCGCAACGCGAAC
* *
2079918 TTGGACTATCGCAACGCGAACTTGGACT-ATCGCAA--CGAAT
1 TTGGACTATCGCAA--CGAACTTGGAATAATCGCAACGCGAAC
* *
2079958 TTGGAATAAATCGCAACGCGAACTTGGACT-ATCGCAACG
1 TTGGACT--ATCGCAA--CGAACTTGGAATAATCGCAACG
2079997 AATATGGAAA
Statistics
Matches: 186, Mismatches: 11, Indels: 12
0.89 0.05 0.06
Matches are distributed among these distances:
40 33 0.18
42 142 0.76
44 11 0.06
ACGTcount: A:0.34, C:0.24, G:0.21, T:0.21
Consensus pattern (41 bp):
TTGGACTATCGCAACGAACTTGGAATAATCGCAACGCGAAC
Found at i:2079997 original size:42 final size:42
Alignment explanation
Indices: 2079925--2080005 Score: 153
Period size: 42 Copynumber: 1.9 Consensus size: 42
2079915 AACTTGGACT
*
2079925 ATCGCAACGCGAACTTGGACTATCGCAACGAATTTGGAATAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATATGGAATAA
2079967 ATCGCAACGCGAACTTGGACTATCGCAACGAATATGGAA
1 ATCGCAACGCGAACTTGGACTATCGCAACGAATATGGAA
2080006 AATCGTATTG
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.36, C:0.22, G:0.22, T:0.20
Consensus pattern (42 bp):
ATCGCAACGCGAACTTGGACTATCGCAACGAATATGGAATAA
Found at i:2080010 original size:19 final size:18
Alignment explanation
Indices: 2079759--2080010 Score: 63
Period size: 21 Copynumber: 12.2 Consensus size: 18
2079749 ATTTTGGACT
*
2079759 ATCGCAACGAATTTGGTAA
1 ATCGCAACGAA-TTGGAAA
**
2079778 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAA-TTGGAAA
*
2079799 ATCACAACGAATTTGGAATAA
1 ATCGCAACGAA-TTGG-A-AA
* **
2079820 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAA-TTGGAAA
*
2079841 ATGGCAACGAACTTGGAATAA
1 ATCGCAACGAA-TTGG-A-AA
* **
2079862 ATCGCAACGCGAACTTCGACT
1 ATCGCAA--CGAA-TTGGAAA
2079883 ATCGCAACGAACTTGGAATAA
1 ATCGCAACGAA-TTGG-A-AA
**
2079904 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAA-TTGGAAA
**
2079925 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAA-TTGGAAA
2079946 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAA-TTGG-A-AA
**
2079967 ATCGCAACGCGAACTTGGACT
1 ATCGCAA--CGAA-TTGGAAA
2079988 ATCGCAACGAATATGGAAA
1 ATCGCAACGAAT-TGGAAA
2080007 ATCG
1 ATCG
2080011 TATTGCGATA
Statistics
Matches: 180, Mismatches: 34, Indels: 38
0.71 0.13 0.15
Matches are distributed among these distances:
18 1 0.01
19 51 0.28
20 4 0.02
21 88 0.49
22 4 0.02
23 32 0.18
ACGTcount: A:0.36, C:0.23, G:0.21, T:0.20
Consensus pattern (18 bp):
ATCGCAACGAATTGGAAA
Found at i:2080043 original size:21 final size:21
Alignment explanation
Indices: 2080013--2080081 Score: 120
Period size: 21 Copynumber: 3.3 Consensus size: 21
2080003 GAAAATCGTA
*
2080013 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCGATGTTCGCG
*
2080034 TTGTGATAGTCGATGTTCGCG
1 TTGCGATAGTCGATGTTCGCG
2080055 TTGCGATAGTCGATGTTCGCG
1 TTGCGATAGTCGATGTTCGCG
2080076 TTGCGA
1 TTGCGA
2080082 ATTTAGAAAC
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.16, C:0.17, G:0.33, T:0.33
Consensus pattern (21 bp):
TTGCGATAGTCGATGTTCGCG
Found at i:2080728 original size:20 final size:20
Alignment explanation
Indices: 2080634--2081002 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
2080624 GATTTTCCAT
* ** *
2080634 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
2080654 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
2080674 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2080694 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
2080714 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
2080734 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2080754 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2080774 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
2080794 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2080814 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2080834 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
2080854 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2080874 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
2080894 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
2080914 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2080934 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2080954 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
2080974 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
2080994 AATCACAAC
1 AATCGCAAC
2081003 ACTGAAATTT
Statistics
Matches: 305, Mismatches: 36, Indels: 16
0.85 0.10 0.04
Matches are distributed among these distances:
19 3 0.01
20 299 0.98
21 3 0.01
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (20 bp):
AATCGCAACGCGTATCCGTA
Found at i:2081715 original size:24 final size:24
Alignment explanation
Indices: 2081676--2081722 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
2081666 AAATTTGGTC
2081676 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
2081700 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
2081723 GATGTTTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (24 bp):
TTGGTCAATATCCGGACTTTGATA
Found at i:2081914 original size:12 final size:12
Alignment explanation
Indices: 2081897--2081921 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
2081887 ATATAATCCT
2081897 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2081909 GAAGAAGAAAAA
1 GAAGAAGAAAAA
2081921 G
1 G
2081922 TCCCCGAAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:2082654 original size:14 final size:14
Alignment explanation
Indices: 2082635--2082691 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
2082625 GCGAAATGAA
*
2082635 AATCGCAACGACAG
1 AATCGCAACGAAAG
2082649 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
2082666 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
2082682 AATCGCAACG
1 AATCGCAACG
2082692 CGAAATGAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 10
0.77 0.02 0.21
Matches are distributed among these distances:
14 18 0.49
16 5 0.14
17 6 0.16
19 8 0.22
ACGTcount: A:0.46, C:0.23, G:0.21, T:0.11
Consensus pattern (14 bp):
AATCGCAACGAAAG
Found at i:2082662 original size:33 final size:33
Alignment explanation
Indices: 2082616--2082708 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
2082606 GCGAAACCAA
*
2082616 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
2082649 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
2082682 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
2082709 TGCGATTTTG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 57 1.00
ACGTcount: A:0.47, C:0.22, G:0.20, T:0.11
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAAAG
Found at i:2082673 original size:19 final size:19
Alignment explanation
Indices: 2082579--2082713 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
2082569 TAGTTTACTT
* *
2082579 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
2082599 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
2082618 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2082637 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
2082651 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
2082670 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
2082684 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
2082703 TCGCAATGCGA
1 TCGCAACGCGA
2082714 TTTTGGTTTC
Statistics
Matches: 97, Mismatches: 8, Indels: 21
0.77 0.06 0.17
Matches are distributed among these distances:
14 16 0.16
16 11 0.11
17 11 0.11
19 47 0.48
20 12 0.12
ACGTcount: A:0.46, C:0.24, G:0.19, T:0.11
Consensus pattern (19 bp):
TCGCAACGCGAAATGAAAA
Found at i:2082731 original size:19 final size:19
Alignment explanation
Indices: 2082709--2082837 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
2082699 AAAATCGCAA
2082709 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2082728 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
2082742 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
2082761 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
2082775 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
2082794 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
2082813 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
2082833 TGCGA
1 TGCGA
2082838 AAGTAAACTA
Statistics
Matches: 90, Mismatches: 9, Indels: 21
0.75 0.08 0.17
Matches are distributed among these distances:
14 22 0.24
15 1 0.01
16 2 0.02
17 2 0.02
18 2 0.02
19 48 0.53
20 13 0.14
ACGTcount: A:0.09, C:0.17, G:0.29, T:0.46
Consensus pattern (19 bp):
TGCGATTTTGGTTTCGCGT
Found at i:2082751 original size:33 final size:33
Alignment explanation
Indices: 2082709--2082800 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
2082699 AAAATCGCAA
2082709 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
2082742 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
2082775 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
2082801 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 2, Indels: 2
0.93 0.03 0.03
Matches are distributed among these distances:
33 54 0.96
34 2 0.04
ACGTcount: A:0.08, C:0.18, G:0.28, T:0.46
Consensus pattern (33 bp):
TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
Found at i:2083040 original size:93 final size:93
Alignment explanation
Indices: 2082881--2083259 Score: 744
Period size: 93 Copynumber: 4.1 Consensus size: 93
2082871 TTGAATGGAT
2082881 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2082946 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2082974 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083039 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083067 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083130 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083158 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083223 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
2083251 AAATTTACT
1 AAATTTACT
2083260 AAGCAATCTA
Statistics
Matches: 284, Mismatches: 0, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
91 87 0.31
92 8 0.03
93 189 0.67
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2083192 original size:184 final size:186
Alignment explanation
Indices: 2082881--2083259 Score: 744
Period size: 184 Copynumber: 2.0 Consensus size: 186
2082871 TTGAATGGAT
2082881 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2082946 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2083011 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2083067 AAATTTACTTTCAACCAAAAGACAAAACAAAGAC-AATA-TATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
2083130 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
66 AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
2083195 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
131 TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
2083251 AAATTTACT
1 AAATTTACT
2083260 AAGCAATCTA
Statistics
Matches: 193, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
184 155 0.80
185 4 0.02
186 34 0.18
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (186 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAACAAATTTACTTTCAACCAAAAGACAAAACAAAGACAAA
TACTATTTCACAGTGTTAAAGAATACACAGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:2084982 original size:14 final size:14
Alignment explanation
Indices: 2084963--2085052 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
2084953 TTGAAATGAA
2084963 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2084977 AATCGCAACGCGAGATG
1 AATCGCAA--CGAGA-G
2084994 ACAATCGCAACGAGAG
1 --AATCGCAACGAGAG
*
2085010 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
2085029 AATCGCAACGAGAG
1 AATCGCAACGAGAG
2085043 AATCGCAACG
1 AATCGCAACG
2085053 CGAAATGAAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.42, C:0.23, G:0.26, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:2085000 original size:33 final size:33
Alignment explanation
Indices: 2084955--2085069 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
2084945 TCTTTTGGTT
2084955 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
* *
2084988 GAGATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2085021 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
2085054 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
2085070 TGCGATTTTG
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.45, C:0.21, G:0.24, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:2085001 original size:19 final size:18
Alignment explanation
Indices: 2084962--2085074 Score: 88
Period size: 19 Copynumber: 6.8 Consensus size: 18
2084952 GTTGAAATGA
2084962 AAATCGCAA--CGAGA-G
1 AAATCGCAACGCGAGATG
2084977 -AATCGCAACGCGAGATG
1 AAATCGCAACGCGAGATG
2084994 ACAATCGCAA--CGAGA-G
1 A-AATCGCAACGCGAGATG
*
2085010 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
2085027 AAAATCGCAA--CGAGA-G
1 -AAATCGCAACGCGAGATG
*
2085043 -AATCGCAACGCGAAATG
1 AAATCGCAACGCGAGATG
*
2085060 AAAATCGCAATGCGA
1 -AAATCGCAACGCGA
2085075 TTTTGGTTTC
Statistics
Matches: 79, Mismatches: 4, Indels: 26
0.72 0.04 0.24
Matches are distributed among these distances:
14 24 0.30
16 15 0.19
17 12 0.15
19 28 0.35
ACGTcount: A:0.43, C:0.22, G:0.25, T:0.10
Consensus pattern (18 bp):
AAATCGCAACGCGAGATG
Found at i:2085105 original size:14 final size:14
Alignment explanation
Indices: 2085086--2085140 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
2085076 TTTGGTTTCG
2085086 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
2085100 CGTTGCGATTTCCATTTCG
1 CGTTGCGA-TT-C---TCT
2085119 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
2085133 CGTTGCGA
1 CGTTGCGA
2085141 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
15 2 0.06
16 1 0.03
17 1 0.03
18 2 0.06
19 10 0.29
ACGTcount: A:0.09, C:0.27, G:0.24, T:0.40
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:2085303 original size:33 final size:33
Alignment explanation
Indices: 2085261--2085331 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
2085251 AATACTAACT
*
2085261 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
2085294 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
2085327 TGAAA
1 TGAAA
2085332 TCTAAGTGAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.48, C:0.18, G:0.23, T:0.11
Consensus pattern (33 bp):
TGAAAATCGCAACGACAGAATAGCAACGCGAAA
Found at i:2085564 original size:22 final size:22
Alignment explanation
Indices: 2085512--2085566 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
2085502 TGGTTGTGAG
**
2085512 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
2085534 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
2085556 GGATTTCTTCG
1 GGATTTCTTCG
2085567 CCGTAGAGAG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.20, C:0.16, G:0.40, T:0.24
Consensus pattern (22 bp):
GGATTTCTTCGGAGATGGGGAC
Found at i:2085737 original size:20 final size:20
Alignment explanation
Indices: 2085712--2085905 Score: 221
Period size: 20 Copynumber: 9.7 Consensus size: 20
2085702 CTTTAAATAT
2085712 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2085732 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
2085754 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2085773 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
2085793 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
2085813 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
2085833 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
2085853 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
2085873 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
2085893 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2085906 TGGAAAATCG
Statistics
Matches: 147, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 128 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:2085899 original size:60 final size:60
Alignment explanation
Indices: 2085712--2085905 Score: 253
Period size: 60 Copynumber: 3.2 Consensus size: 60
2085702 CTTTAAATAT
**
2085712 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
2085773 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
2085833 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
2085893 CGCGTTGCGATTT
1 CGCGTTGCGATTT
2085906 TGGAAAATCG
Statistics
Matches: 112, Mismatches: 21, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
60 84 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:2085922 original size:21 final size:20
Alignment explanation
Indices: 2085898--2085974 Score: 57
Period size: 21 Copynumber: 3.7 Consensus size: 20
2085888 ATATTCGCGT
2085898 TGCGATTTTGGAAAATCGCAA
1 TGCGATTTTGGAAAATCGC-A
* * **
2085919 TGCGAATTTGTACTATCGCA
1 TGCGATTTTGGAAAATCGCA
* *
2085939 TCGCGATTTT-CAAGAATCGCGT
1 T-GCGATTTTGGAA-AATCGC-A
2085961 TGCGATTTTGGAAA
1 TGCGATTTTGGAAA
2085975 CTGATTTGCG
Statistics
Matches: 42, Mismatches: 10, Indels: 8
0.70 0.17 0.13
Matches are distributed among these distances:
20 3 0.07
21 36 0.86
22 3 0.07
ACGTcount: A:0.27, C:0.17, G:0.23, T:0.32
Consensus pattern (20 bp):
TGCGATTTTGGAAAATCGCA
Found at i:2085985 original size:20 final size:20
Alignment explanation
Indices: 2085960--2086011 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
2085950 AAGAATCGCG
*
2085960 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2085980 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
2086000 TTGCGATTCTGG
1 TTGCGATTCTGG
2086012 GGATCGCGTT
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.27, T:0.38
Consensus pattern (20 bp):
TTGCGATTCTGGAAACTGAT
Found at i:2086269 original size:18 final size:19
Alignment explanation
Indices: 2086248--2086283 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
2086238 CTGTTTGATA
2086248 AATATAA-AATTTAAAAAT
1 AATATAATAATTTAAAAAT
2086266 AATATAATAATTTAAAAA
1 AATATAATAATTTAAAAA
2086284 AGACAAACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (19 bp):
AATATAATAATTTAAAAAT
Found at i:2094133 original size:286 final size:285
Alignment explanation
Indices: 2093568--2094541 Score: 1572
Period size: 287 Copynumber: 3.4 Consensus size: 285
2093558 AATAAGGTCA
* ** * *
2093568 ATGATGATAACTTGAAATGCTTGTTTCTCAAAAACATTCGCAGTGACCACCTAAGAGCTTTCGCC
1 ATGATGATAAATCCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAAGAGCTTTCGCC
* *
2093633 TTCGCCCGGCTTGAGAGCTTGTGCTGCTTCGTTACTTCCTTGGATGTCTGAGACCTTATAAGACT
66 TTCGCCTGGCTTGAGAGCTTGTGCTGCTTCATTACTTCCTTGGATGTCTGAGACCTTATAAGACT
* * *
2093698 ATCTTGTACTTT-AAAGTGGTGCTATTTTATGTAGACTTTTGCTTAGTTACTCCATAAATTCAAT
131 ATCTTGTA-TTTGAAAGTGCTGCTATTTTATTTAGGCTTTTGCTTAGTTACTCCATAAATTCAAT
* * *
2093762 TTTGTTTCACTTTTTTGCATGCTGTCATACTACCCTGTTTTCTTGGTACCTGTTAACATCATTAA
195 TTTGTTACACTTTATTGCATGCTGTCATACTACCCTGTATTCTTGGTACCTGTTAACATCATTAA
2093827 TTTTATGTGTTTTGATGGTTTTGTTG
260 TTTTATGTGTTTTGATGGTTTTGTTG
* * * *
2093853 ATGATGATAAATCCAATGGCTTGTTTCTCAAAAACATTCGCAATGGCCGCCTAAGAGCTTTTGCC
1 ATGATGATAAATCCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAAGAGCTTTCGCC
* *
2093918 TTCGTCTGGCTTGAGAGCTTGTGCTGCTTCATTTCTTCCTTGGATGTCTGAGACCTTATAAGACG
66 TTCGCCTGGCTTGAGAGCTTGTGCTGCTTCATTACTTCCTTGGATGTCTGAGACCTTATAAGAC-
* *
2093983 TATCTTGTGTTTGAAAGTGCTGTTATTTTATTTAGGCTTTTGCTTAGTTACTCCATAAATTCAAT
130 TATCTTGTATTTGAAAGTGCTGCTATTTTATTTAGGCTTTTGCTTAGTTACTCCATAAATTCAAT
* *
2094048 TCTGTTACACTTTCTTGCATGCTGTCATACTACCCTGTATTCTTGGTACCTGTTAACATCATTAA
195 TTTGTTACACTTTATTGCATGCTGTCATACTACCCTGTATTCTTGGTACCTGTTAACATCATTAA
* *
2094113 TTTTATGTCTTTTTATGGTTTTGTTG
260 TTTTATGTGTTTTGATGGTTTTGTTG
* *
2094139 ATGATGATAAATACCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAGGAGCTTTCAC
1 ATGATGATAAAT-CCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAAGAGCTTTCGC
*
2094204 CTTCGCCTGGCTTGAGAGCTTGTGCTGCTTCATTTCTTCCTTGGATGTCTGAGACCTTATAAGAC
65 CTTCGCCTGGCTTGAGAGCTTGTGCTGCTTCATTACTTCCTTGGATGTCTGAGACCTTATAAGAC
*
2094269 TCATCTTGTATTTGAAAGTACTGCTATTTTATTTAGGCTTTTGCTTAGTTACTCCATAAATTCAA
130 T-ATCTTGTATTTGAAAGTGCTGCTATTTTATTTAGGCTTTTGCTTAGTTACTCCATAAATTCAA
*
2094334 TTTTGTTACACTTTATTGCATGCTGTCATACTACCCTGTATTCTTGGTACCTGTTAACACCATTA
194 TTTTGTTACACTTTATTGCATGCTGTCATACTACCCTGTATTCTTGGTACCTGTTAACATCATTA
2094399 ATTTTATGTGTTTTGATGGTTTTGTTG
259 ATTTTATGTGTTTTGATGGTTTTGTTG
* ** * *
2094426 ATGATGATAAATCCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAATATATTTTGAC
1 ATGATGATAAATCCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAAGAGCTTTCGCC
* *
2094491 TTCACCTGGCTTGAGAGCTTTTGCTGCTTCATTACTTCCTTGGATGTCTGA
66 TTCGCCTGGCTTGAGAGCTTGTGCTGCTTCATTACTTCCTTGGATGTCTGA
2094542 AAACACAGTT
Statistics
Matches: 636, Mismatches: 49, Indels: 7
0.92 0.07 0.01
Matches are distributed among these distances:
285 119 0.19
286 248 0.39
287 269 0.42
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (285 bp):
ATGATGATAAATCCAAAGGCTTGTTTCTCAAAAACATTCGCAGTGGCCACCTAAGAGCTTTCGCC
TTCGCCTGGCTTGAGAGCTTGTGCTGCTTCATTACTTCCTTGGATGTCTGAGACCTTATAAGACT
ATCTTGTATTTGAAAGTGCTGCTATTTTATTTAGGCTTTTGCTTAGTTACTCCATAAATTCAATT
TTGTTACACTTTATTGCATGCTGTCATACTACCCTGTATTCTTGGTACCTGTTAACATCATTAAT
TTTATGTGTTTTGATGGTTTTGTTG
Found at i:2095821 original size:16 final size:16
Alignment explanation
Indices: 2095791--2095821 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
2095781 AATATTGAAA
*
2095791 CTTGAACTCGAAAAAG
1 CTTGAACTCAAAAAAG
2095807 CTTGAACTCAAAAAA
1 CTTGAACTCAAAAAA
2095822 AATTAGAAGC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.19, G:0.13, T:0.19
Consensus pattern (16 bp):
CTTGAACTCAAAAAAG
Found at i:2098727 original size:2 final size:2
Alignment explanation
Indices: 2098720--2098750 Score: 53
Period size: 2 Copynumber: 15.0 Consensus size: 2
2098710 ACATACATAC
2098720 AT AT AT AT AT AT AT AT AT AT AT AT AT GAT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT -AT AT
2098751 CCATAAATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
2 26 0.93
3 2 0.07
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (2 bp):
AT
Found at i:2108024 original size:18 final size:21
Alignment explanation
Indices: 2107989--2108039 Score: 63
Period size: 20 Copynumber: 2.5 Consensus size: 21
2107979 GAATGATGCC
2107989 ATTTTTTAATGTATTTTATT-
1 ATTTTTTAATGTATTTTATTA
*
2108009 ATTTTTT-ATTTA-TTTATTA
1 ATTTTTTAATGTATTTTATTA
2108028 ATTTTTTTAATG
1 A-TTTTTTAATG
2108040 GAATGTGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
18 6 0.23
19 5 0.19
20 13 0.50
21 2 0.08
ACGTcount: A:0.25, C:0.00, G:0.04, T:0.71
Consensus pattern (21 bp):
ATTTTTTAATGTATTTTATTA
Found at i:2108504 original size:20 final size:20
Alignment explanation
Indices: 2108479--2108518 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
2108469 AGCAACAGAA
*
2108479 TAAAAATGATTCTATCTAAT
1 TAAAAATGATCCTATCTAAT
*
2108499 TAAAAATGATCCTATTTAAT
1 TAAAAATGATCCTATCTAAT
2108519 AACTAATAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAAAAATGATCCTATCTAAT
Found at i:2108566 original size:19 final size:21
Alignment explanation
Indices: 2108532--2108570 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 21
2108522 TAATAGAATA
2108532 AAAAACTGATTCTATCTAATT
1 AAAAACTGATTCTATCTAATT
2108553 AAAAA-TGA-TCTATCTAAT
1 AAAAACTGATTCTATCTAAT
2108571 AACTAATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 10 0.56
20 3 0.17
21 5 0.28
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (21 bp):
AAAAACTGATTCTATCTAATT
Found at i:2108577 original size:52 final size:52
Alignment explanation
Indices: 2108475--2108623 Score: 239
Period size: 52 Copynumber: 2.9 Consensus size: 52
2108465 AATTAGCAAC
*
2108475 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCCTATTTAATAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
2108526 AGAATAAAAAACTGATTCTATCTAATTAAAAATGAT-CTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
* * *
2108578 AGAATAAAGACTGATTATATCTAATTAAAACTGATCCTATCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATA
2108624 TTTAATTTAG
Statistics
Matches: 91, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
51 32 0.35
52 35 0.38
53 24 0.26
ACGTcount: A:0.48, C:0.11, G:0.07, T:0.34
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
Found at i:2108612 original size:20 final size:21
Alignment explanation
Indices: 2108582--2108622 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
2108572 ACTAATAGAA
*
2108582 TAAAGACTGATTATATCTAAT
1 TAAAGACTGATCATATCTAAT
*
2108603 TAAA-ACTGATCCTATCTAAT
1 TAAAGACTGATCATATCTAAT
2108623 ATTTAATTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.41, C:0.15, G:0.07, T:0.37
Consensus pattern (21 bp):
TAAAGACTGATCATATCTAAT
Found at i:2113217 original size:20 final size:20
Alignment explanation
Indices: 2113192--2113231 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
2113182 AGCAACAGAA
2113192 TAAAAATGAT-TCTATCTAAT
1 TAAAAATGATCT-TATCTAAT
2113212 TAAAAATGATCTTATCTAAT
1 TAAAAATGATCTTATCTAAT
2113232 AACTAATAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 18 0.95
21 1 0.05
ACGTcount: A:0.45, C:0.10, G:0.05, T:0.40
Consensus pattern (20 bp):
TAAAAATGATCTTATCTAAT
Found at i:2113260 original size:53 final size:52
Alignment explanation
Indices: 2113188--2113337 Score: 239
Period size: 53 Copynumber: 2.9 Consensus size: 52
2113178 AATTAGCAAC
*
2113188 AGAATAAAAA-TGATTCTATCTAATTAAAAATGATCTTATCTAATAACTAAT
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCATATCTAATAACTAAT
*
2113239 AGAATAAAAAACTGATTCTATCTAATTAAAAATGATCCTATCTAATAACTAAT
1 AGAAT-AAAAACTGATTCTATCTAATTAAAAATGATCATATCTAATAACTAAT
* * *
2113292 AGAATAAAGACTGATTCTATCTAATTAAAACTGATCATACCTAATA
1 AGAATAAAAACTGATTCTATCTAATTAAAAATGATCATATCTAATA
2113338 TTTAATTTAG
Statistics
Matches: 92, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
51 5 0.05
52 42 0.46
53 45 0.49
ACGTcount: A:0.48, C:0.13, G:0.07, T:0.33
Consensus pattern (52 bp):
AGAATAAAAACTGATTCTATCTAATTAAAAATGATCATATCTAATAACTAAT
Found at i:2113274 original size:20 final size:21
Alignment explanation
Indices: 2113245--2113284 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
2113235 TAATAGAATA
*
2113245 AAAAACTGATTCTATCTAATT
1 AAAAACTGATCCTATCTAATT
2113266 AAAAA-TGATCCTATCTAAT
1 AAAAACTGATCCTATCTAAT
2113285 AACTAATAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.15, G:0.05, T:0.35
Consensus pattern (21 bp):
AAAAACTGATCCTATCTAATT
Found at i:2113584 original size:2 final size:2
Alignment explanation
Indices: 2113573--2113635 Score: 119
Period size: 2 Copynumber: 32.0 Consensus size: 2
2113563 CACGACTCTG
2113573 TA TA -A 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
2113614 TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA
2113636 GCATGAAAAA
Statistics
Matches: 60, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
1 1 0.02
2 59 0.98
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:2123659 original size:25 final size:25
Alignment explanation
Indices: 2123625--2123681 Score: 114
Period size: 25 Copynumber: 2.3 Consensus size: 25
2123615 ACGAAAGAAC
2123625 GATTGCATTACATCGATCCCACTGT
1 GATTGCATTACATCGATCCCACTGT
2123650 GATTGCATTACATCGATCCCACTGT
1 GATTGCATTACATCGATCCCACTGT
2123675 GATTGCA
1 GATTGCA
2123682 AGAGTTCAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.25, C:0.26, G:0.18, T:0.32
Consensus pattern (25 bp):
GATTGCATTACATCGATCCCACTGT
Found at i:2124624 original size:23 final size:23
Alignment explanation
Indices: 2124598--2124652 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
2124588 TAATATTAAA
*
2124598 ATTAAAATATCATATCATATATC
1 ATTAAAATATAATATCATATATC
* *
2124621 ATTACAATATAATATCATATATT
1 ATTAAAATATAATATCATATATC
*
2124644 ATTATAATA
1 ATTAAAATA
2124653 CTAAAAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
ATTAAAATATAATATCATATATC
Found at i:2126687 original size:18 final size:18
Alignment explanation
Indices: 2126664--2126722 Score: 82
Period size: 18 Copynumber: 3.2 Consensus size: 18
2126654 TGAATATTTG
*
2126664 TCCCGAAGGACTACTATA
1 TCCCGAAGGACCACTATA
*
2126682 TCCCGAAGGACCACTATG
1 TCCCGAAGGACCACTATA
*
2126700 TCGCGAAGGACCACTATAA
1 TCCCGAAGGACCACTAT-A
2126719 TCCC
1 TCCC
2126723 TCGACTCTTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
18 32 0.91
19 3 0.09
ACGTcount: A:0.31, C:0.32, G:0.19, T:0.19
Consensus pattern (18 bp):
TCCCGAAGGACCACTATA
Found at i:2138144 original size:33 final size:33
Alignment explanation
Indices: 2138107--2138172 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
2138097 TGGGGTTTTA
2138107 TAGAGATCATATTTTTGGATTTGGAATTTTAGT
1 TAGAGATCATATTTTTGGATTTGGAATTTTAGT
2138140 TAGAGATCATATTTTTGGATTTGGAATTTTAGT
1 TAGAGATCATATTTTTGGATTTGGAATTTTAGT
2138173 AAAGAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.27, C:0.03, G:0.21, T:0.48
Consensus pattern (33 bp):
TAGAGATCATATTTTTGGATTTGGAATTTTAGT
Found at i:2141288 original size:14 final size:14
Alignment explanation
Indices: 2141269--2141296 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
2141259 GAGAAATCAA
2141269 TGTTTGCAGGGAAC
1 TGTTTGCAGGGAAC
2141283 TGTTTGCAGGGAAC
1 TGTTTGCAGGGAAC
2141297 ATTGTGAGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.14, G:0.36, T:0.29
Consensus pattern (14 bp):
TGTTTGCAGGGAAC
Found at i:2145564 original size:13 final size:14
Alignment explanation
Indices: 2145546--2145578 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
2145536 TATTTAGTTG
2145546 TTTATTG-AACTTT
1 TTTATTGTAACTTT
*
2145559 TTTATTGTAATTTT
1 TTTATTGTAACTTT
2145573 TTTATT
1 TTTATT
2145579 ATTTATCATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 7 0.39
14 11 0.61
ACGTcount: A:0.21, C:0.03, G:0.06, T:0.70
Consensus pattern (14 bp):
TTTATTGTAACTTT
Found at i:2145636 original size:33 final size:32
Alignment explanation
Indices: 2145599--2145670 Score: 83
Period size: 33 Copynumber: 2.2 Consensus size: 32
2145589 TAATACTTAC
*
2145599 TTTATTTCATT-AATTTAGTTGGATTTATTTTAA
1 TTTATTTCATTAAATTTA-TTGGACTT-TTTTAA
**
2145632 TTTATTTTGTTAAATTTATTGGACTTTTTTAA
1 TTTATTTCATTAAATTTATTGGACTTTTTTAA
*
2145664 TGTATTT
1 TTTATTT
2145671 TAGTTTATTT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
32 12 0.35
33 16 0.47
34 6 0.18
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (32 bp):
TTTATTTCATTAAATTTATTGGACTTTTTTAA
Found at i:2151646 original size:21 final size:22
Alignment explanation
Indices: 2151613--2151653 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
2151603 TTAAAAATTA
*
2151613 TAAAGGTAGTATCGATACTCAT
1 TAAAGGTAGTATCAATACTCAT
2151635 TAAAGG-AGTATCAATACTC
1 TAAAGGTAGTATCAATACTC
2151654 TCTGTCCTGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (22 bp):
TAAAGGTAGTATCAATACTCAT
Found at i:2153250 original size:2 final size:2
Alignment explanation
Indices: 2153243--2153313 Score: 142
Period size: 2 Copynumber: 35.5 Consensus size: 2
2153233 CTTTTAAAAC
2153243 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
2153285 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
2153314 CCCCAATCCG
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 69 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:2153507 original size:24 final size:24
Alignment explanation
Indices: 2153480--2153579 Score: 69
Period size: 24 Copynumber: 4.2 Consensus size: 24
2153470 GATATCAAAA
*
2153480 ATCAAAACATAATTCAGATCAGAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
2153504 ATCAGAACAAAATCCAGGAT-ATGA-
1 ATCAAAACAGAATTCA-GATCA-GAT
* * * *
2153528 ATCAGAATAGATTTCAGATCATAT
1 ATCAAAACAGAATTCAGATCAGAT
* * *
2153552 GTCAAAACAGAATTCAAATCAGAA
1 ATCAAAACAGAATTCAGATCAGAT
2153576 ATCA
1 ATCA
2153580 GATAAAATAT
Statistics
Matches: 56, Mismatches: 16, Indels: 8
0.70 0.20 0.10
Matches are distributed among these distances:
23 4 0.07
24 47 0.84
25 5 0.09
ACGTcount: A:0.49, C:0.16, G:0.12, T:0.23
Consensus pattern (24 bp):
ATCAAAACAGAATTCAGATCAGAT
Found at i:2156176 original size:18 final size:18
Alignment explanation
Indices: 2156152--2156215 Score: 78
Period size: 18 Copynumber: 3.6 Consensus size: 18
2156142 CAGCGGTCAA
2156152 CGGGTCGGGTCAA-TGGGT
1 CGGGTCGGGTCAACT-GGT
*
2156170 TGGGTCGGGTCAACTGGT
1 CGGGTCGGGTCAACTGGT
*
2156188 CGGGTCGGGTAAAC-GGAT
1 CGGGTCGGGTCAACTGG-T
2156206 CGGGTCGGGT
1 CGGGTCGGGT
2156216 TTGAACCGGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
17 2 0.05
18 38 0.93
19 1 0.02
ACGTcount: A:0.12, C:0.17, G:0.48, T:0.22
Consensus pattern (18 bp):
CGGGTCGGGTCAACTGGT
Found at i:2171466 original size:121 final size:121
Alignment explanation
Indices: 2171318--2171561 Score: 479
Period size: 121 Copynumber: 2.0 Consensus size: 121
2171308 TGCAAGTTGG
2171318 AGGAGGAGTCTTCCTCACATTTATTTTTTACTTGTTCTATTGTGTGGACATTATGGAATAAATTT
1 AGGAGGAGTCTTCCTCACATTTATTTTTTACTTGTTCTATTGTGTGGACATTATGGAATAAATTT
*
2171383 ATGAAGTTTTGGAGGCTCAATTCTGTTTTTCATGCAAATGCTAAGAGTTTTCTCCT
66 ATGAAGTTTTGGAGGCTCAATTATGTTTTTCATGCAAATGCTAAGAGTTTTCTCCT
2171439 AGGAGGAGTCTTCCTCACATTTATTTTTTACTTGTTCTATTGTGTGGACATTATGGAATAAATTT
1 AGGAGGAGTCTTCCTCACATTTATTTTTTACTTGTTCTATTGTGTGGACATTATGGAATAAATTT
2171504 ATGAAGTTTTGGAGGCTCAATTATGTTTTTCATGCAAATGCTAAGAGTTTTCTCCT
66 ATGAAGTTTTGGAGGCTCAATTATGTTTTTCATGCAAATGCTAAGAGTTTTCTCCT
2171560 AG
1 AG
2171562 CATGGGAAGA
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
121 122 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.43
Consensus pattern (121 bp):
AGGAGGAGTCTTCCTCACATTTATTTTTTACTTGTTCTATTGTGTGGACATTATGGAATAAATTT
ATGAAGTTTTGGAGGCTCAATTATGTTTTTCATGCAAATGCTAAGAGTTTTCTCCT
Found at i:2182641 original size:17 final size:19
Alignment explanation
Indices: 2182608--2182642 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
2182598 TCAACATCTC
2182608 GATTGCCCTCTTCAAACTA
1 GATTGCCCTCTTCAAACTA
2182627 GATT-CCCTC-TCAAACT
1 GATTGCCCTCTTCAAACT
2182643 GAACAAAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 7 0.44
18 5 0.31
19 4 0.25
ACGTcount: A:0.26, C:0.34, G:0.09, T:0.31
Consensus pattern (19 bp):
GATTGCCCTCTTCAAACTA
Found at i:2193064 original size:22 final size:22
Alignment explanation
Indices: 2193021--2193064 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
2193011 TGGGTGATTG
*
2193021 TAATGGTATTTTCTAGGGAGCT
1 TAATGGTATTTTCTAGGCAGCT
*
2193043 TAATGTGT-TTTTCTAGTCAGCT
1 TAATG-GTATTTTCTAGGCAGCT
2193065 GCTGTCTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.20, C:0.11, G:0.23, T:0.45
Consensus pattern (22 bp):
TAATGGTATTTTCTAGGCAGCT
Found at i:2196446 original size:41 final size:41
Alignment explanation
Indices: 2196385--2196475 Score: 146
Period size: 41 Copynumber: 2.2 Consensus size: 41
2196375 CAGTGATGAT
* *
2196385 CTTTTTCTGATTTCTGCATCTTCTTATGAGATGTCTTTTAG
1 CTTTTTCTGATTTCTACATCTTCTTATGAGATGTCTTCTAG
* *
2196426 CTTTTTCTGGTTTCTACATCTTCTTCTGAGATGTCTTCTAG
1 CTTTTTCTGATTTCTACATCTTCTTATGAGATGTCTTCTAG
2196467 CTTTTTCTG
1 CTTTTTCTG
2196476 TCATTCACGG
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.12, C:0.20, G:0.14, T:0.54
Consensus pattern (41 bp):
CTTTTTCTGATTTCTACATCTTCTTATGAGATGTCTTCTAG
Found at i:2196475 original size:22 final size:22
Alignment explanation
Indices: 2196411--2196475 Score: 64
Period size: 22 Copynumber: 3.1 Consensus size: 22
2196401 CATCTTCTTA
*
2196411 TGAGATGTCTTTTAGCTTTTTC
1 TGAGATGTCTTCTAGCTTTTTC
* * * *
2196433 TG-G-TTTCTAC-ATCTTCTTC
1 TGAGATGTCTTCTAGCTTTTTC
2196452 TGAGATGTCTTCTAGCTTTTTC
1 TGAGATGTCTTCTAGCTTTTTC
2196474 TG
1 TG
2196476 TCATTCACGG
Statistics
Matches: 31, Mismatches: 9, Indels: 6
0.67 0.20 0.13
Matches are distributed among these distances:
19 9 0.29
20 5 0.16
21 6 0.19
22 11 0.35
ACGTcount: A:0.12, C:0.18, G:0.17, T:0.52
Consensus pattern (22 bp):
TGAGATGTCTTCTAGCTTTTTC
Found at i:2196689 original size:38 final size:38
Alignment explanation
Indices: 2196574--2196790 Score: 237
Period size: 38 Copynumber: 5.7 Consensus size: 38
2196564 CCCTCTAGCA
* * *
2196574 TTTTTT-AAGGCTTAACTA-GAA-CCTCCTCCTCTAGT
1 TTTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAGT
* * * * *
2196609 TTTTCT-AGGGATGAACTA-GAACCCTCTTCCTTCAGT
1 TTTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAGT
** * *
2196645 TCTTTTTTTAGGCTAAACTAGGAACCTTCTTCTTTTAGTTT
1 T-TTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAG--T
2196686 TTTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAGT
1 TTTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAGT
* *
2196724 TTTTTTAAAGGCCAAACTAGGAACCCTCTTCCTTTTGT
1 TTTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAGT
2196762 TTTTTTAAAAGGCTAAACTAGGAACCCTC
1 TTTTTT-AAAGGCTAAACTAGGAACCCTC
2196791 CCCTTTGACA
Statistics
Matches: 153, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
35 17 0.11
36 12 0.08
37 4 0.03
38 51 0.33
39 35 0.23
40 32 0.21
41 2 0.01
ACGTcount: A:0.24, C:0.22, G:0.13, T:0.40
Consensus pattern (38 bp):
TTTTTTAAAGGCTAAACTAGGAACCCTCTTCCTTTAGT
Found at i:2196691 original size:40 final size:39
Alignment explanation
Indices: 2196622--2196790 Score: 236
Period size: 39 Copynumber: 4.4 Consensus size: 39
2196612 TCTAGGGATG
* *
2196622 AACTA-GAACCCTCTTCCTTCAGTTCTTTTTT-TAGGCTA
1 AACTAGGAACCCTCTTCCTTTAGTT-TTTTTTAAAGGCTA
* *
2196660 AACTAGGAACCTTCTTCTTTTAGTTTTTTTTTAAAGGCTA
1 AACTAGGAACCCTCTTCCTTTAG-TTTTTTTTAAAGGCTA
*
2196700 AACTAGGAACCCTCTTCCTTTAG-TTTTTTTAAAGGCCA
1 AACTAGGAACCCTCTTCCTTTAGTTTTTTTTAAAGGCTA
* *
2196738 AACTAGGAACCCTCTTCCTTTTGTTTTTTTAAAAGGCTA
1 AACTAGGAACCCTCTTCCTTTAGTTTTTTTTAAAGGCTA
2196777 AACTAGGAACCCTC
1 AACTAGGAACCCTC
2196791 CCCTTTGACA
Statistics
Matches: 117, Mismatches: 10, Indels: 7
0.87 0.07 0.05
Matches are distributed among these distances:
38 41 0.35
39 47 0.40
40 29 0.25
ACGTcount: A:0.25, C:0.22, G:0.12, T:0.40
Consensus pattern (39 bp):
AACTAGGAACCCTCTTCCTTTAGTTTTTTTTAAAGGCTA
Found at i:2202896 original size:51 final size:51
Alignment explanation
Indices: 2202672--2203290 Score: 776
Period size: 51 Copynumber: 11.9 Consensus size: 51
2202662 TGACGAGCCT
* * *
2202672 GCTCCCTATTCCTTCAG-GAAGTATAAGACTCGAACAATCTTCATA-AAACGTGTCT
1 GCTCCCTATTCCTTCAGAG-AGTATAGGACT----CAATCTTCA-ACAAACTTGTCC
* * * * **
2202727 GCTCTCTATTCATTCAGAGAGTATAAGACTTGAACAATCTTCAATAAAACGGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGAC-T---CAATCTTCAA-CAAACTTGTCC
** * * **
2202783 GCTTTCTATTCCTTCAGAGAGTATAGAACTCGAAAAATCTTCAATAAACAGGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTC----AATCTTCAACAAACTTGTCC
* * * *
2202838 GCTCCCTATTCCTTCAGAGAGTACAGGACTCAATCTTTAACAAACGTGTTC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
* *
2202889 GCTCCCTA-TCCGTTCAGGGAGTATAGAACTCAATCTTCAACAAACTTGTCC
1 GCTCCCTATTCC-TTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
* *
2202940 GCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
* *
2202991 GCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
*
2203042 GCTCCCTATTCATTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
*
2203093 GCTCCCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
* * *
2203144 GCTCTCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
* * *
2203195 GCTCTCTATTCTTTCAGAGAGTATAGGACTCAATCTTCAACGAACTTGTCC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
2203246 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAAC
1 GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAAC
2203291 GCATTTGCTT
Statistics
Matches: 517, Mismatches: 37, Indels: 24
0.89 0.06 0.04
Matches are distributed among these distances:
50 3 0.01
51 392 0.76
52 3 0.01
54 1 0.00
55 74 0.14
56 44 0.09
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
GCTCCCTATTCCTTCAGAGAGTATAGGACTCAATCTTCAACAAACTTGTCC
Found at i:2204521 original size:16 final size:16
Alignment explanation
Indices: 2204500--2204550 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
2204490 CCTCCTTTTA
2204500 TTTCTCTTTTTTTATT
1 TTTCTCTTTTTTTATT
*
2204516 TTTCTCTTTTTTCATT
1 TTTCTCTTTTTTTATT
* *
2204532 TTTC-ATTTTTTTCTT
1 TTTCTCTTTTTTTATT
2204547 TTTC
1 TTTC
2204551 CATTTTCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 12 0.39
16 19 0.61
ACGTcount: A:0.06, C:0.16, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTCTCTTTTTTTATT
Found at i:2204533 original size:23 final size:23
Alignment explanation
Indices: 2204507--2204584 Score: 84
Period size: 23 Copynumber: 3.3 Consensus size: 23
2204497 TTATTTCTCT
2204507 TTTTTTATTTTTCTCTTTTTTCA
1 TTTTTTATTTTTCTCTTTTTTCA
* * *
2204530 TTTTTCATTTTTTTCTTTTTCCA
1 TTTTTTATTTTTCTCTTTTTTCA
* *
2204553 TTTTCTTCTTTTTTCGTTTTTTTTCA
1 TTTT-TT-ATTTTTC-TCTTTTTTCA
2204579 TTTTTT
1 TTTTTT
2204585 CCATCATCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
23 24 0.55
24 1 0.02
25 7 0.16
26 12 0.27
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.78
Consensus pattern (23 bp):
TTTTTTATTTTTCTCTTTTTTCA
Found at i:2204548 original size:7 final size:7
Alignment explanation
Indices: 2204507--2204633 Score: 56
Period size: 7 Copynumber: 16.4 Consensus size: 7
2204497 TTATTTCTCT
*
2204507 TTTTTTA
1 TTTTTTC
2204514 TTTTTCTC
1 TTTTT-TC
2204522 TTTTTTC
1 TTTTTTC
*
2204529 ATTTTTC
1 TTTTTTC
2204536 ATTTTTTTC
1 --TTTTTTC
*
2204545 TTTTTCC
1 TTTTTTC
2204552 ATTTTCTTC
1 -TTTT-TTC
2204561 TTTTTTC
1 TTTTTTC
2204568 GTTTTTTTTC
1 ---TTTTTTC
2204578 ATTTTTTC
1 -TTTTTTC
** **
2204586 CATCATC
1 TTTTTTC
2204593 ATTTTTTTC
1 --TTTTTTC
2204602 TTTTTTC
1 TTTTTTC
2204609 TTCTTTTC
1 TT-TTTTC
* *
2204617 TCTTTTA
1 TTTTTTC
*
2204624 TTTCTTC
1 TTTTTTC
2204631 TTT
1 TTT
2204634 AAGCAAAATA
Statistics
Matches: 90, Mismatches: 19, Indels: 22
0.69 0.15 0.17
Matches are distributed among these distances:
7 45 0.50
8 27 0.30
9 11 0.12
10 7 0.08
ACGTcount: A:0.07, C:0.17, G:0.01, T:0.75
Consensus pattern (7 bp):
TTTTTTC
Found at i:2204554 original size:16 final size:15
Alignment explanation
Indices: 2204506--2204575 Score: 70
Period size: 16 Copynumber: 4.5 Consensus size: 15
2204496 TTTATTTCTC
*
2204506 TTTTTTTATTTTTC-
1 TTTTTTTCTTTTTCA
2204520 TCTTTTTTCATTTTTCA
1 T-TTTTTTC-TTTTTCA
2204537 TTTTTTTCTTTTTCCA
1 TTTTTTTCTTTTT-CA
* *
2204553 TTTTCTTCTTTTTTCG
1 TTTTTTTC-TTTTTCA
2204569 TTTTTTT
1 TTTTTTT
2204576 TCATTTTTTC
Statistics
Matches: 47, Mismatches: 4, Indels: 8
0.80 0.07 0.14
Matches are distributed among these distances:
14 1 0.02
15 11 0.23
16 29 0.62
17 6 0.13
ACGTcount: A:0.06, C:0.14, G:0.01, T:0.79
Consensus pattern (15 bp):
TTTTTTTCTTTTTCA
Found at i:2204582 original size:8 final size:8
Alignment explanation
Indices: 2204506--2204585 Score: 60
Period size: 8 Copynumber: 9.9 Consensus size: 8
2204496 TTTATTTCTC
*
2204506 TTTTTTTA
1 TTTTTTCA
2204514 TTTTTCTC-
1 TTTTT-TCA
2204522 TTTTTTCA
1 TTTTTTCA
2204530 -TTTTTCA
1 TTTTTTCA
2204537 TTTTTTTC-
1 -TTTTTTCA
*
2204545 TTTTTCCA
1 TTTTTTCA
2204553 TTTTCTTC-
1 TTTT-TTCA
*
2204561 TTTTTTCGTT
1 TTTTTTC--A
2204571 TTTTTTCA
1 TTTTTTCA
2204579 TTTTTTC
1 TTTTTTC
2204586 CATCATCATT
Statistics
Matches: 59, Mismatches: 4, Indels: 18
0.73 0.05 0.22
Matches are distributed among these distances:
7 18 0.31
8 25 0.42
9 9 0.15
10 7 0.12
ACGTcount: A:0.06, C:0.15, G:0.01, T:0.78
Consensus pattern (8 bp):
TTTTTTCA
Found at i:2232957 original size:26 final size:26
Alignment explanation
Indices: 2232921--2232971 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
2232911 GTTTTCCTTG
2232921 TTTATGGGCTAAACATGGCTCTTCTA
1 TTTATGGGCTAAACATGGCTCTTCTA
2232947 TTTATGGGCTAAACATGGCTCTTCT
1 TTTATGGGCTAAACATGGCTCTTCT
2232972 GTTACATTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.39
Consensus pattern (26 bp):
TTTATGGGCTAAACATGGCTCTTCTA
Found at i:2239827 original size:72 final size:72
Alignment explanation
Indices: 2239736--2239883 Score: 278
Period size: 72 Copynumber: 2.1 Consensus size: 72
2239726 GCCTGATGAT
2239736 TATTCTGATGGCTACGAGGAATGATGATTGATAGGATGATCATACTCATGGATGCCACTGACAGT
1 TATTCTGATGGCTACGAGGAATGATGATTGATAGGATGATCATACTCATGGATGCCACTGACAGT
2239801 TTCGTGG
66 TTCGTGG
* *
2239808 TATTCTGATGGCTATGAGGAATGATGATTGATAGGATGATCATACTCATTGATGCCACTGACAGT
1 TATTCTGATGGCTACGAGGAATGATGATTGATAGGATGATCATACTCATGGATGCCACTGACAGT
2239873 TTCGTGG
66 TTCGTGG
2239880 TATT
1 TATT
2239884 GCCACTTACG
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 74 1.00
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (72 bp):
TATTCTGATGGCTACGAGGAATGATGATTGATAGGATGATCATACTCATGGATGCCACTGACAGT
TTCGTGG
Found at i:2246324 original size:16 final size:15
Alignment explanation
Indices: 2246296--2246329 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
2246286 ATCGCCGTTA
*
2246296 CATCAATCGAACCTC
1 CATCAATCAAACCTC
2246311 CATCTAATCAAACCTC
1 CATC-AATCAAACCTC
2246327 CAT
1 CAT
2246330 AAACAACTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.35, C:0.38, G:0.03, T:0.24
Consensus pattern (15 bp):
CATCAATCAAACCTC
Found at i:2252073 original size:2 final size:2
Alignment explanation
Indices: 2252066--2252098 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
2252056 ATTACAAACT
2252066 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2252099 GGTAGTCGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:2257837 original size:5 final size:5
Alignment explanation
Indices: 2257827--2257854 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
2257817 CATTACCTCT
2257827 ATTTC ATTTC ATTTC ATTTC ATTTC ATT
1 ATTTC ATTTC ATTTC ATTTC ATTTC ATT
2257855 ATGTTGAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.21, C:0.18, G:0.00, T:0.61
Consensus pattern (5 bp):
ATTTC
Found at i:2264775 original size:30 final size:31
Alignment explanation
Indices: 2264721--2264836 Score: 103
Period size: 30 Copynumber: 3.8 Consensus size: 31
2264711 TAATTTTTTA
* * * *
2264721 CCAATATTTTTTAACATTTATTATTAAAG-GT
1 CCAAT-TTTTTTAATACTTGTTATTAAAGAGC
2264752 CCAATTTTTTTAATACTTGTTATT-AAGAGC
1 CCAATTTTTTTAATACTTGTTATTAAAGAGC
* *
2264782 CCAATTTCTTCAATACTTGTTATT-AAGAGC
1 CCAATTTTTTTAATACTTGTTATTAAAGAGC
* * * * *
2264812 TCAATTTCTTCAATATTTTTTATTA
1 CCAATTTTTTTAATACTTGTTATTA
2264837 GGGGCATACT
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
29 3 0.04
30 66 0.89
31 5 0.07
ACGTcount: A:0.31, C:0.14, G:0.07, T:0.48
Consensus pattern (31 bp):
CCAATTTTTTTAATACTTGTTATTAAAGAGC
Found at i:2267000 original size:49 final size:49
Alignment explanation
Indices: 2266926--2267028 Score: 134
Period size: 49 Copynumber: 2.1 Consensus size: 49
2266916 TTGTTATCGG
** * * *
2266926 GTTGGGTCGGGTGGAATAAATACCCGACTCATATCTATCCCTAATTCTA
1 GTTGGGTCGGGCAGAATAAAAACCCGACCCATATCCATCCCTAATTCTA
* * *
2266975 GTTGGGTCGGGCAGAATAAAAACCCGACCCATGTCCATCGCTAATTTTA
1 GTTGGGTCGGGCAGAATAAAAACCCGACCCATATCCATCCCTAATTCTA
2267024 GTTGG
1 GTTGG
2267029 CTTACACTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.28
Consensus pattern (49 bp):
GTTGGGTCGGGCAGAATAAAAACCCGACCCATATCCATCCCTAATTCTA
Found at i:2276155 original size:17 final size:17
Alignment explanation
Indices: 2276133--2276215 Score: 81
Period size: 17 Copynumber: 5.3 Consensus size: 17
2276123 AACGGTCAAC
2276133 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
*
2276150 GGTCAACAGTCGGGTCG
1 GGTCAACGGTCGGGTCG
**
2276167 GGTC-A-GGTC--AAC-
1 GGTCAACGGTCGGGTCG
*
2276179 GGTC--GGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2276194 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2276211 GGTCA
1 GGTCA
2276216 GACCGGTCAG
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
12 8 0.15
13 1 0.02
14 1 0.02
15 7 0.13
16 1 0.02
17 35 0.66
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:2276166 original size:5 final size:5
Alignment explanation
Indices: 2276158--2276214 Score: 51
Period size: 5 Copynumber: 10.6 Consensus size: 5
2276148 CGGGTCAACA
* * *
2276158 GTCGG GTCGG GTCAG GTCAACG GTCGG GTCGG GTCGG GTCAACG GTCGG
1 GTCGG GTCGG GTCGG GTC--GG GTCGG GTCGG GTCGG GTC--GG GTCGG
2276207 GTCGG GTC
1 GTCGG GTC
2276215 AGACCGGTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
5 35 0.81
7 8 0.19
ACGTcount: A:0.09, C:0.23, G:0.49, T:0.19
Consensus pattern (5 bp):
GTCGG
Found at i:2276168 original size:22 final size:22
Alignment explanation
Indices: 2276140--2276214 Score: 132
Period size: 22 Copynumber: 3.4 Consensus size: 22
2276130 AACGGTCAAC
*
2276140 GGTCGGGTCGGGTCAACAGTCG
1 GGTCGGGTCGGGTCAACGGTCG
*
2276162 GGTCGGGTCAGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
2276184 GGTCGGGTCGGGTCAACGGTCG
1 GGTCGGGTCGGGTCAACGGTCG
2276206 GGTCGGGTC
1 GGTCGGGTC
2276215 AGACCGGTCA
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 50 1.00
ACGTcount: A:0.11, C:0.23, G:0.48, T:0.19
Consensus pattern (22 bp):
GGTCGGGTCGGGTCAACGGTCG
Found at i:2276230 original size:10 final size:10
Alignment explanation
Indices: 2276211--2276290 Score: 82
Period size: 10 Copynumber: 8.3 Consensus size: 10
2276201 GGTCGGGTCG
2276211 GGTCAG-ACC
1 GGTCAGAACC
2276220 GGTCAGAACC
1 GGTCAGAACC
2276230 GGTTCAG-ACC
1 GG-TCAGAACC
2276240 GGTCA-AACC
1 GGTCAGAACC
2276249 GGTTC-GAACC
1 GG-TCAGAACC
*
2276259 GGT-TGAAACC
1 GGTCAG-AACC
2276269 GGTCA-AACC
1 GGTCAGAACC
2276278 GGTCAGAACC
1 GGTCAGAACC
2276288 GGT
1 GGT
2276291 TGAAAACCGG
Statistics
Matches: 61, Mismatches: 1, Indels: 17
0.77 0.01 0.22
Matches are distributed among these distances:
9 25 0.41
10 32 0.52
11 4 0.07
ACGTcount: A:0.26, C:0.29, G:0.30, T:0.15
Consensus pattern (10 bp):
GGTCAGAACC
Found at i:2276243 original size:29 final size:29
Alignment explanation
Indices: 2276211--2276310 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
2276201 GGTCGGGTCG
* *
2276211 GGTCAGACCGGTCAGAACCGGTTCAGACC
1 GGTCAAACCGGTCAGAACCGGTTCAAACC
*
2276240 GGTCAAACCGGTTC-GAACCGGTTGAAACC
1 GGTCAAACCGG-TCAGAACCGGTTCAAACC
*
2276269 GGTCAAACCGGTCAGAACCGGTTGAAAACC
1 GGTCAAACCGGTCAGAACCGGTT-CAAACC
*
2276299 GGTTAAACCGGT
1 GGTCAAACCGGT
2276311 TTCCAGCAGC
Statistics
Matches: 63, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.03
29 43 0.68
30 18 0.29
ACGTcount: A:0.28, C:0.27, G:0.29, T:0.16
Consensus pattern (29 bp):
GGTCAAACCGGTCAGAACCGGTTCAAACC
Found at i:2283496 original size:17 final size:17
Alignment explanation
Indices: 2283474--2283512 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
2283464 AACGGTCAAC
2283474 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2283491 GGTCAACGGTCGGGTCG
1 GGTCAACGGTCGGGTCG
2283508 GGTCA
1 GGTCA
2283513 GACCGGTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.13, C:0.23, G:0.46, T:0.18
Consensus pattern (17 bp):
GGTCAACGGTCGGGTCG
Found at i:2283532 original size:19 final size:19
Alignment explanation
Indices: 2283510--2283615 Score: 110
Period size: 19 Copynumber: 5.5 Consensus size: 19
2283500 TCGGGTCGGG
2283510 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
2283529 TCAGACCGGTCAAACCGGT
1 TCAGACCGGTCAAACCGGT
*
2283548 TC-GAACCGGTTGAAACCGG-
1 TCAG-ACCGG-TCAAACCGGT
* *
2283567 TCAAACCGGTTCGAACCGGT
1 TCAGACCGG-TCAAACCGGT
* *
2283587 TGAAACCGGTCAAACCGG-
1 TCAGACCGGTCAAACCGGT
2283605 TCAGAACCGGT
1 TCAG-ACCGGT
2283616 TGAAAACCGG
Statistics
Matches: 74, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
18 3 0.04
19 55 0.74
20 16 0.22
ACGTcount: A:0.27, C:0.29, G:0.27, T:0.16
Consensus pattern (19 bp):
TCAGACCGGTCAAACCGGT
Found at i:2283538 original size:10 final size:10
Alignment explanation
Indices: 2283514--2283636 Score: 132
Period size: 10 Copynumber: 12.7 Consensus size: 10
2283504 GTCGGGTCAG
2283514 ACCGG-TCAA
1 ACCGGTTCAA
*
2283523 ACCGGTTCAG
1 ACCGGTTCAA
2283533 ACCGG-TCAA
1 ACCGGTTCAA
*
2283542 ACCGGTTCGA
1 ACCGGTTCAA
*
2283552 ACCGGTTGAA
1 ACCGGTTCAA
2283562 ACCGG-TCAA
1 ACCGGTTCAA
*
2283571 ACCGGTTCGA
1 ACCGGTTCAA
*
2283581 ACCGGTTGAA
1 ACCGGTTCAA
2283591 ACCGG-TCAA
1 ACCGGTTCAA
2283600 ACCGG-TCAGA
1 ACCGGTTCA-A
*
2283610 ACCGGTTGAAA
1 ACCGGTT-CAA
2283621 ACCGGTT-AA
1 ACCGGTTCAA
2283630 ACCGGTT
1 ACCGGTT
2283637 TCCAGCAGCC
Statistics
Matches: 97, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
9 41 0.42
10 46 0.47
11 9 0.09
12 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.27, T:0.17
Consensus pattern (10 bp):
ACCGGTTCAA
Found at i:2283565 original size:29 final size:28
Alignment explanation
Indices: 2283509--2283635 Score: 164
Period size: 29 Copynumber: 4.4 Consensus size: 28
2283499 GTCGGGTCGG
* * *
2283509 GTCAGACCGGTCAAACCGGTTCAGACCG
1 GTCAAACCGGTCAAACCGGTTGAAACCG
*
2283537 GTCAAACCGGTTCGAACCGGTTGAAACCG
1 GTCAAACCGG-TCAAACCGGTTGAAACCG
*
2283566 GTCAAACCGGTTCGAACCGGTTGAAACCG
1 GTCAAACCGG-TCAAACCGGTTGAAACCG
2283595 GTCAAACCGGTCAGAACCGGTTGAAAACCG
1 GTCAAACCGGTCA-AACCGGTTG-AAACCG
*
2283625 GTTAAACCGGT
1 GTCAAACCGGT
2283636 TTCCAGCAGC
Statistics
Matches: 90, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
28 11 0.12
29 63 0.70
30 16 0.18
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.17
Consensus pattern (28 bp):
GTCAAACCGGTCAAACCGGTTGAAACCG
Found at i:2295797 original size:2 final size:2
Alignment explanation
Indices: 2295786--2295850 Score: 82
Period size: 2 Copynumber: 33.5 Consensus size: 2
2295776 CATATGTATC
* *
2295786 TA TA TA -A TA TA TA TA TA TA TA TA TA TA TA T- TGA -A TA AA CA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA TA TA
2295826 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
2295851 GTGTGTGTGT
Statistics
Matches: 56, Mismatches: 3, Indels: 8
0.84 0.04 0.12
Matches are distributed among these distances:
1 3 0.05
2 53 0.95
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.46
Consensus pattern (2 bp):
TA
Found at i:2298876 original size:60 final size:60
Alignment explanation
Indices: 2298795--2298969 Score: 183
Period size: 60 Copynumber: 2.9 Consensus size: 60
2298785 CCCAAGTATA
*
2298795 ACTCTCATT-TCAAATTGGTCCTTAAACTTTTGAATAAACCAAATTCATCCCCAAACTATG
1 ACTCTCATTCT-AAATTGGTCCTTAAACTTTTGAATAATCCAAATTCATCCCCAAACTATG
* * * * ** * * *
2298855 ACTCTCATTCTAAATTAGTCCTTAAAATTTTGAACACTTTAATTTTATCCCTAAACTATG
1 ACTCTCATTCTAAATTGGTCCTTAAACTTTTGAATAATCCAAATTCATCCCCAAACTATG
* * * **
2298915 ACCCTCTTTCTAAATTGGT-CTCCAAACTTTTGAATCTTCCAAATTCATCCCCAAA
1 ACTCTCATTCTAAATTGGTCCT-TAAACTTTTGAATAATCCAAATTCATCCCCAAA
2298970 TTCATCCAAA
Statistics
Matches: 90, Mismatches: 23, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
59 2 0.02
60 87 0.97
61 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.06, T:0.37
Consensus pattern (60 bp):
ACTCTCATTCTAAATTGGTCCTTAAACTTTTGAATAATCCAAATTCATCCCCAAACTATG
Found at i:2300642 original size:2 final size:2
Alignment explanation
Indices: 2300635--2300678 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
2300625 AAACTCTTCT
2300635 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
2300677 TA
1 TA
2300679 CTCTATAAGT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:2316524 original size:128 final size:126
Alignment explanation
Indices: 2316369--2316626 Score: 417
Period size: 128 Copynumber: 2.0 Consensus size: 126
2316359 TTCAGTCTTT
* *
2316369 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATTAGG
1 ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAAG
* *
2316434 ATCTGACATGTGTTAGCACATGATCATGACACGTGTCATTGGTGACACATGTTACCACCTA
66 ATCTGACATGTGTTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
*
2316495 ATTATTTATATGCTATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCA
1 ATTATTTATAT--AATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCA
* * * *
2316560 AGATCTGACATGTGTTAACACATGATCATGATATGTGTTATTGGTGACACATGTCACCTCCTA
64 AGATCTGACATGTGTTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
2316623 ATTA
1 ATTA
2316627 GAAGAAAATT
Statistics
Matches: 121, Mismatches: 9, Indels: 2
0.92 0.07 0.02
Matches are distributed among these distances:
126 11 0.09
128 110 0.91
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (126 bp):
ATTATTTATATAATCAATTTGGTCCTAAATTAAATAAAATTTAATAAATTAATCATTTAATCAAG
ATCTGACATGTGTTAACACATGATCATGACACGTGTCATTGGTGACACATGTCACCACCTA
Found at i:2317273 original size:21 final size:21
Alignment explanation
Indices: 2317249--2317291 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
2317239 TATTACCTTA
2317249 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
2317270 AATTGAAGTATTTTAGAATTT
1 AATTGAAGTATTTTAGAATTT
2317291 A
1 A
2317292 GGGTTTAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.47
Consensus pattern (21 bp):
AATTGAAGTATTTTAGAATTT
Found at i:2317309 original size:35 final size:35
Alignment explanation
Indices: 2317260--2317345 Score: 100
Period size: 35 Copynumber: 2.5 Consensus size: 35
2317250 ATTGAAGTAT
** * *
2317260 TTTAGAATTTAATTGAAGTATTTTAGAATTTAGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
* * *
2317295 TTTAGAATAAAATTGAATTACTTTGGAAATTGGGG
1 TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
*
2317330 TTTAGAATGAAATTGA
1 TTTAGAATAAAATTGA
2317346 TGACTGTTTT
Statistics
Matches: 43, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 43 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
TTTAGAATAAAATTGAAGTACTTTAGAAATTAGGG
Found at i:2323956 original size:29 final size:29
Alignment explanation
Indices: 2323923--2324004 Score: 121
Period size: 29 Copynumber: 2.8 Consensus size: 29
2323913 CGATGGTAAT
**
2323923 TAAAATTCAAGGGGCAAAATTGAACTTT-
1 TAAAATTCAAGGGGTGAAATTGAACTTTA
2323951 TAAAAATTCAAGGGGTGAAATTGAACTTTA
1 T-AAAATTCAAGGGGTGAAATTGAACTTTA
*
2323981 TTAAATTCAAGGGGTGAAATTGAA
1 TAAAATTCAAGGGGTGAAATTGAA
2324005 AGAATACAAA
Statistics
Matches: 49, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
28 1 0.02
29 47 0.96
30 1 0.02
ACGTcount: A:0.43, C:0.07, G:0.21, T:0.29
Consensus pattern (29 bp):
TAAAATTCAAGGGGTGAAATTGAACTTTA
Found at i:2324015 original size:29 final size:29
Alignment explanation
Indices: 2323954--2324018 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
2323944 GAACTTTTAA
** *
2323954 AAATTCAAGGGGTGAAATTGAACTTTATT
1 AAATTCAAGGGGTGAAATTGAACAATATC
*
2323983 AAATTCAAGGGGTGAAATTGAAAGAATA-C
1 AAATTCAAGGGGTGAAATTG-AACAATATC
2324012 AAATTCA
1 AAATTCA
2324019 TAGCGTACCG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
29 27 0.87
30 4 0.13
ACGTcount: A:0.45, C:0.08, G:0.20, T:0.28
Consensus pattern (29 bp):
AAATTCAAGGGGTGAAATTGAACAATATC
Found at i:2329787 original size:2 final size:2
Alignment explanation
Indices: 2329780--2329820 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
2329770 CATAATACTT
2329780 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
2329821 GCAAATGAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Done.