Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_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: 5892847
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 18 of 27
Found at i:4137436 original size:10 final size:9
Alignment explanation
Indices: 4137401--4137435 Score: 52
Period size: 9 Copynumber: 3.8 Consensus size: 9
4137391 GGAAAAGAAA
4137401 AATAAAATG
1 AATAAAATG
*
4137410 AATTAAAATA
1 AA-TAAAATG
4137420 AATAAAATG
1 AATAAAATG
4137429 AATAAAA
1 AATAAAA
4137436 AAATAATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
9 15 0.65
10 8 0.35
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.23
Consensus pattern (9 bp):
AATAAAATG
Found at i:4137608 original size:38 final size:37
Alignment explanation
Indices: 4137512--4137908 Score: 273
Period size: 38 Copynumber: 11.1 Consensus size: 37
4137502 ATTTAAAAAG
* * *
4137512 TTTTCAAAACTATATGTTATAT-AGTTTTC-AAAAT-
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* *
4137546 GTTTTAAAA--A-ATA-T-TATAAGTTTTCAAAAACTA
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAA-TA
*
4137579 TTTTTAAAACTATATATTATATAATTTTTCAAAAATG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* *
4137616 TTTTTAAAACTATGTACTATATAATTTTTCAAAAAATA
1 TTTTTAAAACTATATATTATATAATTTTTC-AAAAATA
* *
4137654 TTTTTTAAACTATATATTATATAATTTTTCAAAAATGT
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAAT-A
**
4137692 TTTTTAAAACTATATA-T-TAT-A--TTT-AAAAACG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* * * *
4137723 TTTTAAAAACTATATACTATATAAGTTTTC-AAAATG
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* * * *
4137759 TTTTAAAAACTATACAGTATATAAATGTTTTC-AAAATG
1 TTTTTAAAACTATATATTATAT-AAT-TTTTCAAAAATA
* *
4137797 TTTTCAAAACTACATA-T-TAT-A-TTTT-AAAAATA
1 TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
* * * * *
4137829 TTTTCAAAAAATTATATAATATATAAATTTTCGAAAATTA
1 TTTT--TAAAACTATATATTATATAATTTTTC-AAAAATA
* * *
4137869 TTTTTTGAAAATTATATATTATAT--TTTGTCAAAAAAA
1 -TTTTT-AAAACTATATATTATATAATTTTTCAAAAATA
4137906 TTT
1 TTT
4137909 CACAAACTAT
Statistics
Matches: 298, Mismatches: 35, Indels: 58
0.76 0.09 0.15
Matches are distributed among these distances:
29 3 0.01
30 8 0.03
31 21 0.07
32 21 0.07
33 14 0.05
34 18 0.06
35 3 0.01
36 43 0.14
37 46 0.15
38 95 0.32
40 22 0.07
41 4 0.01
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTTTAAAACTATATATTATATAATTTTTCAAAAATA
Found at i:4137637 original size:37 final size:37
Alignment explanation
Indices: 4137471--4137818 Score: 285
Period size: 38 Copynumber: 9.9 Consensus size: 37
4137461 ATAATATATA
*
4137471 TTTCAAAATAT-TTTTTTAAACTATATA-T-TAT-A--
1 TTTCAAAA-ATGTTTTTAAAACTATATACTATATAATT
* ** *
4137503 TTT-AAAAA-GTTTTCAAAACTATATGTTATAT-AGT
1 TTTCAAAAATGTTTTTAAAACTATATACTATATAATT
*
4137537 TTTC-AAAATG-TTTTAAAA--A-ATA-T-TATAAGT
1 TTTCAAAAATGTTTTTAAAACTATATACTATATAATT
* *
4137567 TTTCAAAAACTATTTTTAAAACTATATATTATATAATT
1 TTTCAAAAA-TGTTTTTAAAACTATATACTATATAATT
*
4137605 TTTCAAAAATGTTTTTAAAACTATGTACTATATAATT
1 TTTCAAAAATGTTTTTAAAACTATATACTATATAATT
* * *
4137642 TTTCAAAAAATATTTTTTAAACTATATATTATATAATT
1 TTTC-AAAAATGTTTTTAAAACTATATACTATATAATT
4137680 TTTCAAAAATGTTTTTTAAAACTATATA-T-TAT-A--
1 TTTCAAAAATG-TTTTTAAAACTATATACTATATAATT
* * *
4137713 TTT-AAAAACGTTTTAAAAACTATATACTATATAAGT
1 TTTCAAAAATGTTTTTAAAACTATATACTATATAATT
* * *
4137749 TTTC-AAAATGTTTTAAAAACTATACAGTATATAAATGT
1 TTTCAAAAATGTTTTTAAAACTATATACTATAT-AAT-T
* * *
4137787 TTTC-AAAATGTTTTCAAAACTACATATTATAT
1 TTTCAAAAATGTTTTTAAAACTATATACTATAT
4137819 TTTAAAAATA
Statistics
Matches: 264, Mismatches: 26, Indels: 46
0.79 0.08 0.14
Matches are distributed among these distances:
29 3 0.01
30 22 0.08
31 26 0.10
32 16 0.06
33 14 0.05
34 15 0.06
35 3 0.01
36 34 0.13
37 39 0.15
38 92 0.35
ACGTcount: A:0.43, C:0.07, G:0.04, T:0.45
Consensus pattern (37 bp):
TTTCAAAAATGTTTTTAAAACTATATACTATATAATT
Found at i:4137732 original size:144 final size:143
Alignment explanation
Indices: 4137518--4137794 Score: 348
Period size: 144 Copynumber: 1.9 Consensus size: 143
4137508 AAAGTTTTCA
*
4137518 AAACTATATGTTATATAGTTTTCAAAATGTTTTAAAAAATATTATAAGTTTTCAAAAACTATTTT
1 AAACTATATATTATATAGTTTTCAAAATGTTTTAAAAAATATTATAAGTTTTCAAAAACTATTTT
* * * * **
4137583 TAAAACTATATATTATATAATTTTTCAAAAATGTTTTTAAAACTATGTACTATAT-AAT-TTTTC
66 AAAAACTATATACTATATAAGTTTTC-AAAATGTTTTAAAAACTATACACTATATAAATGTTTTC
4137646 AAAAAATATTTTTT
130 AAAAAATATTTTTT
* * * *
4137660 AAACTATATATTATATAATTTTTCAAAAATGTTTTTTAAAACTATATATTA-TATTT-AAAAAC-
1 AAACTATATATTATAT-AGTTTTC-AAAATG-TTTTAAAAAATAT-TATAAGT-TTTCAAAAACT
* *
4137722 GTTTTAAAAACTATATACTATATAAGTTTTCAAAATGTTTTAAAAACTATACAGTATATAAATGT
61 ATTTTAAAAACTATATACTATATAAGTTTTCAAAATGTTTTAAAAACTATACACTATATAAATGT
4137787 TTTCAAAA
126 TTTCAAAA
4137795 TGTTTTCAAA
Statistics
Matches: 115, Mismatches: 13, Indels: 11
0.83 0.09 0.08
Matches are distributed among these distances:
142 15 0.13
143 30 0.26
144 36 0.31
145 27 0.23
146 7 0.06
ACGTcount: A:0.44, C:0.07, G:0.04, T:0.44
Consensus pattern (143 bp):
AAACTATATATTATATAGTTTTCAAAATGTTTTAAAAAATATTATAAGTTTTCAAAAACTATTTT
AAAAACTATATACTATATAAGTTTTCAAAATGTTTTAAAAACTATACACTATATAAATGTTTTCA
AAAAATATTTTTT
Found at i:4137797 original size:11 final size:11
Alignment explanation
Indices: 4137781--4137805 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
4137771 TACAGTATAT
4137781 AAATGTTTTCA
1 AAATGTTTTCA
4137792 AAATGTTTTCA
1 AAATGTTTTCA
4137803 AAA
1 AAA
4137806 CTACATATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (11 bp):
AAATGTTTTCA
Found at i:4139659 original size:21 final size:22
Alignment explanation
Indices: 4139608--4139653 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
4139598 TAAATTTTAA
* *
4139608 AAATATCTTTTATTTTTGTCTT
1 AAATATATTTTATTTTTGTCGT
*
4139630 AAATATATTTTATTTTTTTCGT
1 AAATATATTTTATTTTTGTCGT
4139652 AA
1 AA
4139654 CTTATTAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.28, C:0.07, G:0.04, T:0.61
Consensus pattern (22 bp):
AAATATATTTTATTTTTGTCGT
Found at i:4139799 original size:25 final size:22
Alignment explanation
Indices: 4139771--4139828 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 22
4139761 TTAAATATTT
*
4139771 TATTATTATTTTAATATAAAATATA
1 TATT-TTATTTCAAT-TAAAA-ATA
4139796 TATTTTTATCTTCAATTAAAAATA
1 TA-TTTTAT-TTCAATTAAAAATA
4139820 TATTTTATT
1 TATTTTATT
4139829 GTTATTTTAA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
22 1 0.03
23 6 0.20
24 5 0.17
25 11 0.37
26 7 0.23
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.55
Consensus pattern (22 bp):
TATTTTATTTCAATTAAAAATA
Found at i:4139884 original size:31 final size:32
Alignment explanation
Indices: 4139811--4139885 Score: 86
Period size: 31 Copynumber: 2.4 Consensus size: 32
4139801 TTATCTTCAA
4139811 TTAAAAATATA--TTTTATTGTTATTTTAAAT
1 TTAAAAATATATTTTTTATTGTTATTTTAAAT
* * *
4139841 TAAAAAAAATATTTTTTATT-TTA-TTTAACTT
1 TTAAAAATATATTTTTTATTGTTATTTTAA-AT
4139872 TTAAAAATATATTT
1 TTAAAAATATATTT
4139886 ATTTTTAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 5
0.79 0.11 0.11
Matches are distributed among these distances:
30 14 0.38
31 16 0.43
32 7 0.19
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.55
Consensus pattern (32 bp):
TTAAAAATATATTTTTTATTGTTATTTTAAAT
Found at i:4139891 original size:29 final size:30
Alignment explanation
Indices: 4139765--4139892 Score: 101
Period size: 30 Copynumber: 4.5 Consensus size: 30
4139755 ATATAATTAA
* *
4139765 ATATTTTATTATTATTTT-AATAT-AAAAT
1 ATATTTTATTTTTATTTTAAATTTAAAAAT
* *
4139793 ATA---TATTTTTATCTTCAA-TTAAAAAT
1 ATATTTTATTTTTATTTTAAATTTAAAAAT
* * *
4139819 ATATTTTATTGTTATTTTAAATTAAAAAAA
1 ATATTTTATTTTTATTTTAAATTTAAAAAT
* *
4139849 ATATTTTTTATTTTA-TTTAACTTTTAAAAAT
1 ATATTTTAT-TTTTATTTTAA-ATTTAAAAAT
4139880 ATA-TTTATTTTTA
1 ATATTTTATTTTTA
4139893 AATATCTTAA
Statistics
Matches: 78, Mismatches: 14, Indels: 15
0.73 0.13 0.14
Matches are distributed among these distances:
25 11 0.14
26 10 0.13
28 3 0.04
29 17 0.22
30 23 0.29
31 14 0.18
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.56
Consensus pattern (30 bp):
ATATTTTATTTTTATTTTAAATTTAAAAAT
Found at i:4139991 original size:29 final size:29
Alignment explanation
Indices: 4139928--4140025 Score: 76
Period size: 29 Copynumber: 3.4 Consensus size: 29
4139918 TAACTCAAAG
* *
4139928 AATAAAATATA-TTTTAAGTTAAAAT-AT
1 AATAAAACATACTTTTAAGTTAAAATAAA
** * *
4139955 TTTAAAAACACT-CTTTTAAGTTAAGATAAG
1 AAT-AAAACA-TACTTTTAAGTTAAAATAAA
* *
4139985 AATAAAATATATTTTTAAGTTAAAATAAA
1 AATAAAACATACTTTTAAGTTAAAATAAA
*
4140014 AATAAAATATAC
1 AATAAAACATAC
4140026 GTTTGAGTGA
Statistics
Matches: 54, Mismatches: 12, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
27 1 0.02
28 6 0.11
29 45 0.83
30 2 0.04
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.37
Consensus pattern (29 bp):
AATAAAACATACTTTTAAGTTAAAATAAA
Found at i:4142284 original size:2 final size:2
Alignment explanation
Indices: 4142277--4142340 Score: 128
Period size: 2 Copynumber: 32.0 Consensus size: 2
4142267 CTGAGTTACA
4142277 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
4142319 AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT
4142341 GAAATTGCAA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 62 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:4146231 original size:20 final size:22
Alignment explanation
Indices: 4146205--4146264 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 22
4146195 GATCGGCTCT
*
4146205 TCTTCTTTTTCAACCCAACCCCA
1 TCTTC-TTCTCAACCCAACCCCA
* *
4146228 TCTTCTTCCTTAATCCAACCCCA
1 TCTTCTT-CTCAACCCAACCCCA
4146251 TCTTCTTCTTCAAC
1 TCTTCTTC-TCAAC
4146265 ACCATTTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
22 3 0.10
23 27 0.90
ACGTcount: A:0.20, C:0.42, G:0.00, T:0.38
Consensus pattern (22 bp):
TCTTCTTCTCAACCCAACCCCA
Found at i:4147933 original size:31 final size:31
Alignment explanation
Indices: 4147895--4147970 Score: 89
Period size: 31 Copynumber: 2.5 Consensus size: 31
4147885 AGTTACGTTA
*
4147895 GGACCATATTGCAAACGAAATAAATGCTGAG
1 GGACCATATTGCAAACGAAATAAATGATGAG
* * * *
4147926 GGACCATATTGTAAACGGACTAAATGATGGG
1 GGACCATATTGCAAACGAAATAAATGATGAG
**
4147957 GGACTGTATTGCAA
1 GGACCATATTGCAA
4147971 GTTTTAATAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.22
Consensus pattern (31 bp):
GGACCATATTGCAAACGAAATAAATGATGAG
Found at i:4149240 original size:31 final size:31
Alignment explanation
Indices: 4149202--4149271 Score: 79
Period size: 31 Copynumber: 2.3 Consensus size: 31
4149192 CTTTTAAAAC
4149202 TTGCAATACAGTCTCC-CAACATTTAGTCCAT
1 TTGCAATACAGTC-CCTCAACATTTAGTCCAT
** * * *
4149233 TTGCAATATGGTCCCTTAACATTTGGTCCGT
1 TTGCAATACAGTCCCTCAACATTTAGTCCAT
4149264 TTGCAATA
1 TTGCAATA
4149272 TGGTCCCCGA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
30 2 0.06
31 31 0.94
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.36
Consensus pattern (31 bp):
TTGCAATACAGTCCCTCAACATTTAGTCCAT
Found at i:4149272 original size:31 final size:31
Alignment explanation
Indices: 4149219--4149278 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4149209 ACAGTCTCCC
4149219 AACATTTAGTCCATTTGCAATATGGTCCCTT
1 AACATTTAGTCCATTTGCAATATGGTCCCTT
* *
4149250 AACATTTGGTCCGTTTGCAATATGGTCCC
1 AACATTTAGTCCATTTGCAATATGGTCCC
4149279 CGACGTAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.37
Consensus pattern (31 bp):
AACATTTAGTCCATTTGCAATATGGTCCCTT
Found at i:4149277 original size:16 final size:16
Alignment explanation
Indices: 4149227--4149277 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
4149217 CCAACATTTA
4149227 GTCCATTTGCAATATG
1 GTCCATTTGCAATATG
* ** *
4149243 GTCCCTTAAC-ATTTG
1 GTCCATTTGCAATATG
*
4149258 GTCCGTTTGCAATATG
1 GTCCATTTGCAATATG
4149274 GTCC
1 GTCC
4149278 CCGACGTAAC
Statistics
Matches: 26, Mismatches: 8, Indels: 2
0.72 0.22 0.06
Matches are distributed among these distances:
15 11 0.42
16 15 0.58
ACGTcount: A:0.20, C:0.24, G:0.20, T:0.37
Consensus pattern (16 bp):
GTCCATTTGCAATATG
Found at i:4156343 original size:12 final size:12
Alignment explanation
Indices: 4156326--4156361 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
4156316 GGTTAGTGTA
4156326 TGAACAGTACCG
1 TGAACAGTACCG
*
4156338 TGAACAGTGCCG
1 TGAACAGTACCG
4156350 TGAACAGTACCG
1 TGAACAGTACCG
4156362 AATGTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.31, C:0.25, G:0.28, T:0.17
Consensus pattern (12 bp):
TGAACAGTACCG
Found at i:4156418 original size:21 final size:22
Alignment explanation
Indices: 4156392--4156434 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
4156382 TTGGACAATG
4156392 GTACCGATACCC-TGCTACAGT
1 GTACCGATACCCTTGCTACAGT
*
4156413 GTACCGATACCCTTGCTTCAGT
1 GTACCGATACCCTTGCTACAGT
4156435 AACTTTCGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.21, C:0.33, G:0.19, T:0.28
Consensus pattern (22 bp):
GTACCGATACCCTTGCTACAGT
Found at i:4156886 original size:20 final size:20
Alignment explanation
Indices: 4156849--4156886 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
4156839 ATATTGTACT
*
4156849 TATCATTTATGTATATCATG
1 TATCATTTATATATATCATG
4156869 TATCATTTCATATA-ATCA
1 TATCATTT-ATATATATCA
4156887 ATTCACACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
20 12 0.75
21 4 0.25
ACGTcount: A:0.34, C:0.13, G:0.05, T:0.47
Consensus pattern (20 bp):
TATCATTTATATATATCATG
Found at i:4157260 original size:31 final size:31
Alignment explanation
Indices: 4157199--4157327 Score: 102
Period size: 31 Copynumber: 4.1 Consensus size: 31
4157189 AAAACCTCAG
* *
4157199 AAACTGTCCATA-GGTCCCGAAGAACCTAGGT
1 AAACTGTCCATATGTTCCCGAA-AACATAGGT
**
4157230 AAACTGTCCATATGTTCCTTAAAACATAGGT
1 AAACTGTCCATATGTTCCCGAAAACATAGGT
* * * *
4157261 ATATTATCCATATG-TCCCGAAAGACATAGAT
1 AAACTGTCCATATGTTCCCGAAA-ACATAGGT
* * *
4157292 AATTCTGTTCATATGTT-CCGTAGAACATAGGT
1 AA-ACTGTCCATATGTTCCCG-AAAACATAGGT
4157324 AAAC
1 AAAC
4157328 CATCTACTCT
Statistics
Matches: 75, Mismatches: 18, Indels: 10
0.73 0.17 0.10
Matches are distributed among these distances:
30 6 0.08
31 40 0.53
32 26 0.35
33 3 0.04
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.29
Consensus pattern (31 bp):
AAACTGTCCATATGTTCCCGAAAACATAGGT
Found at i:4162862 original size:32 final size:32
Alignment explanation
Indices: 4162786--4162851 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
4162776 TTAAAGTTTG
*
4162786 ATGAAAAATATATTCACTCTCATTATTTAAGC
1 ATGAAAAATATTTTCACTCTCATTATTTAAGC
4162818 ATGAAAAATATTTTCACTCTCATTATTTAAGC
1 ATGAAAAATATTTTCACTCTCATTATTTAAGC
4162850 AT
1 AT
4162852 AAGAAGTATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.39, C:0.15, G:0.06, T:0.39
Consensus pattern (32 bp):
ATGAAAAATATTTTCACTCTCATTATTTAAGC
Found at i:4169872 original size:20 final size:20
Alignment explanation
Indices: 4169847--4169960 Score: 102
Period size: 20 Copynumber: 5.7 Consensus size: 20
4169837 AATTGGGAAA
*
4169847 ATCGCAATGCGATACTAACT
1 ATCGCAACGCGATACTAACT
* *
4169867 ATCGCAATGCGATACTTACT
1 ATCGCAACGCGATACTAACT
* * **
4169887 ATCGCAATGCGATAATACAAA
1 ATCGCAACGCGATACTA-ACT
* *
4169908 ATCGCAACGAGATACTGACT
1 ATCGCAACGCGATACTAACT
* * *
4169928 TTCGCAACGCGATTCTGACT
1 ATCGCAACGCGATACTAACT
*
4169948 TTCGCAACGCGAT
1 ATCGCAACGCGAT
4169961 TTACATAGCG
Statistics
Matches: 79, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
20 65 0.82
21 14 0.18
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAACGCGATACTAACT
Found at i:4169891 original size:61 final size:61
Alignment explanation
Indices: 4169844--4169960 Score: 153
Period size: 61 Copynumber: 1.9 Consensus size: 61
4169834 GCGAATTGGG
* * * * *
4169844 AAAATCGCAATGCGATACTAACTATCGCAATGCGATACTTACTATCGCAATGCGATAATAC
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
* * * *
4169905 AAAATCGCAACGAGATACTGACTTTCGCAACGCGATTCTGACTTTCGCAACGCGAT
1 AAAATCGCAACGAGATACTAACTATCGCAACGCGATACTGACTATCGCAACGCGAT
4169961 TTACATAGCG
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
61 47 1.00
ACGTcount: A:0.34, C:0.25, G:0.17, T:0.24
Consensus pattern (61 bp):
AAAATCGCAACGAGATACTAACTATCGCAACGCGATACTGACTATCGCAACGCGATAATAC
Found at i:4169912 original size:41 final size:40
Alignment explanation
Indices: 4169847--4169940 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
4169837 AATTGGGAAA
* ** * * *
4169847 ATCGCAATGCGATACTAACTATCGCAATGCGATACTTACT
1 ATCGCAATGCGATAATAAAAATCGCAACGAGATACTGACT
4169887 ATCGCAATGCGATAATACAAAATCGCAACGAGATACTGACT
1 ATCGCAATGCGATAATA-AAAATCGCAACGAGATACTGACT
* *
4169928 TTCGCAACGCGAT
1 ATCGCAATGCGAT
4169941 TCTGACTTTC
Statistics
Matches: 45, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
40 16 0.36
41 29 0.64
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.23
Consensus pattern (40 bp):
ATCGCAATGCGATAATAAAAATCGCAACGAGATACTGACT
Found at i:4170517 original size:19 final size:19
Alignment explanation
Indices: 4170493--4170537 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 19
4170483 GCAACGAGAT
*
4170493 AATCGCAACGCGAAATAAA
1 AATCGCAACGCGAAACAAA
* *
4170512 AATCGCAACGTGAAACCAA
1 AATCGCAACGCGAAACAAA
4170531 AATCGCA
1 AATCGCA
4170538 TTGCGATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.49, C:0.24, G:0.16, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAACAAA
Found at i:4170598 original size:20 final size:19
Alignment explanation
Indices: 4170533--4170717 Score: 165
Period size: 19 Copynumber: 10.1 Consensus size: 19
4170523 GAAACCAAAA
*
4170533 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
4170552 TCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATT
*
4170571 TCGCGTTGCGATTTTTATT
1 TCGCGTTGCGATTTTCATT
4170590 TCGCGGTTGCGATTTTCATT
1 TCGC-GTTGCGATTTTCATT
* *
4170610 TCGCGTTGTGATTGTC---
1 TCGCGTTGCGATTTTCATT
* **
4170626 T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
4170643 TCGCGTTGCGA--TTC---
1 TCGCGTTGCGATTTTCATT
* **
4170657 TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATT
*
4170676 TCCGCGTTGCGATTCTCATT
1 T-CGCGTTGCGATTTTCATT
*
4170696 ATCTCGTTGCGATTTTCATT
1 -TCGCGTTGCGATTTTCATT
4170716 TC
1 TC
4170718 AACCAAAAGA
Statistics
Matches: 136, Mismatches: 17, Indels: 26
0.76 0.09 0.15
Matches are distributed among these distances:
14 19 0.14
15 1 0.01
16 3 0.02
17 3 0.02
18 1 0.01
19 59 0.43
20 49 0.36
21 1 0.01
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (19 bp):
TCGCGTTGCGATTTTCATT
Found at i:4170610 original size:39 final size:38
Alignment explanation
Indices: 4170533--4170717 Score: 165
Period size: 33 Copynumber: 5.1 Consensus size: 38
4170523 GAAACCAAAA
*
4170533 TCGCATTGCGATTTTCATTTCGCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
*
4170571 TCGCGTTGCGATTTTTATTTCGCGGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCATTTCGC-GTTGCGATTTTCATT
* * * **
4170610 TCGCGTTGTGATTGTC---T-G-GTCGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* **
4170643 TCGCGTTGCGA--TTC---TCTCGTTGCGATAGTCATT
1 TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
* *
4170676 TCCGCGTTGCGATTCTCATTATCTCGTTGCGATTTTCATT
1 T-CGCGTTGCGATTTTCATT-TCGCGTTGCGATTTTCATT
4170716 TC
1 TC
4170718 AACCAAAAGA
Statistics
Matches: 122, Mismatches: 15, Indels: 19
0.78 0.10 0.12
Matches are distributed among these distances:
31 3 0.02
33 37 0.30
34 10 0.08
35 1 0.01
36 3 0.02
38 21 0.17
39 29 0.24
40 18 0.15
ACGTcount: A:0.12, C:0.22, G:0.22, T:0.44
Consensus pattern (38 bp):
TCGCGTTGCGATTTTCATTTCGCGTTGCGATTTTCATT
Found at i:4172765 original size:42 final size:42
Alignment explanation
Indices: 4172705--4172827 Score: 122
Period size: 42 Copynumber: 2.9 Consensus size: 42
4172695 GCCCGACTCA
* * *
4172705 CCTATCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * *
4172747 CCTATCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCC
1 CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
* * ** * *
4172789 ACTGTCATCGTTGAAGAGGTCC-CTCCCACCATTCAAGAG
1 CCTATCATCCCTCAAGA-GTCCACTCCCACCGTTCAAGAG
4172828 CCCGATTCAC
Statistics
Matches: 66, Mismatches: 14, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
42 62 0.94
43 4 0.06
ACGTcount: A:0.23, C:0.37, G:0.18, T:0.23
Consensus pattern (42 bp):
CCTATCATCCCTCAAGAGTCCACTCCCACCGTTCAAGAGGCC
Found at i:4172785 original size:21 final size:21
Alignment explanation
Indices: 4172761--4172827 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
4172751 TCATTCCTCG
4172761 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
4172782 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
4172803 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
4172824 AGAG
1 AGAG
4172828 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:4174206 original size:14 final size:14
Alignment explanation
Indices: 4174187--4174222 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
4174177 ATTGTTTAAT
4174187 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
4174201 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
4174215 TGATTTGT
1 TGATTTGT
4174223 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:4174423 original size:19 final size:19
Alignment explanation
Indices: 4174401--4174551 Score: 80
Period size: 19 Copynumber: 8.7 Consensus size: 19
4174391 CGAAATTAAA
4174401 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
4174420 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
4174435 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
4174453 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
4174467 TTAGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
4174486 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
*
4174501 -TCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* ** *
4174519 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
4174538 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
4174552 GGACATTAAG
Statistics
Matches: 95, Mismatches: 21, Indels: 31
0.65 0.14 0.21
Matches are distributed among these distances:
14 28 0.29
16 6 0.06
17 6 0.06
19 45 0.47
20 10 0.11
ACGTcount: A:0.15, C:0.23, G:0.21, T:0.42
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:4174447 original size:33 final size:32
Alignment explanation
Indices: 4174405--4174531 Score: 193
Period size: 33 Copynumber: 3.9 Consensus size: 32
4174395 ATTAAATTCG
4174405 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATT-CCT
**
4174438 CGTTGCGATTTTCATTTCGCATTGCGAAATT-AG
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCT
4174471 CGTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTC-CT
4174504 CGTTGCGATTTTCATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
4174532 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
33 80 0.93
35 3 0.03
ACGTcount: A:0.15, C:0.23, G:0.20, T:0.43
Consensus pattern (32 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCT
Found at i:4174494 original size:66 final size:66
Alignment explanation
Indices: 4174398--4174530 Score: 248
Period size: 66 Copynumber: 2.0 Consensus size: 66
4174388 ACGCGAAATT
*
4174398 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
4174463 G
66 G
*
4174464 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
4174529 G
66 G
4174530 A
1 A
4174531 TAGTAATTTC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
66 65 1.00
ACGTcount: A:0.17, C:0.23, G:0.20, T:0.41
Consensus pattern (66 bp):
AAATTAGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:4176841 original size:12 final size:12
Alignment explanation
Indices: 4176824--4176848 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4176814 TCTTCGGGGA
4176824 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4176836 CTTTTTCTTCTT
1 CTTTTTCTTCTT
4176848 C
1 C
4176849 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:4178162 original size:20 final size:20
Alignment explanation
Indices: 4178137--4178214 Score: 129
Period size: 20 Copynumber: 3.9 Consensus size: 20
4178127 ATTCATTTGA
4178137 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
**
4178157 CTATCGCAATACGAAAATGG
1 CTATCGCAACGCGAAAATGG
4178177 CTATCGCAACGCGAAAATGG
1 CTATCGCAACGCGAAAATGG
*
4178197 CTATCGCAACGAGAAAAT
1 CTATCGCAACGCGAAAAT
4178215 CGCAATGCGA
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 53 1.00
ACGTcount: A:0.38, C:0.23, G:0.22, T:0.17
Consensus pattern (20 bp):
CTATCGCAACGCGAAAATGG
Found at i:4178257 original size:14 final size:14
Alignment explanation
Indices: 4178238--4178291 Score: 63
Period size: 14 Copynumber: 3.5 Consensus size: 14
4178228 GAAAATCGCA
4178238 TTGCGATTTTCTCG
1 TTGCGATTTTCTCG
4178252 TTGCGATTTTCATTTCG
1 TTGCGATTTTC---TCG
4178269 CATTGCGATTTTCTCG
1 --TTGCGATTTTCTCG
4178285 TTGCGAT
1 TTGCGAT
4178292 AGCCATTTCG
Statistics
Matches: 35, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
14 18 0.51
16 3 0.09
17 3 0.09
19 11 0.31
ACGTcount: A:0.11, C:0.20, G:0.20, T:0.48
Consensus pattern (14 bp):
TTGCGATTTTCTCG
Found at i:4178257 original size:33 final size:33
Alignment explanation
Indices: 4178220--4178290 Score: 88
Period size: 33 Copynumber: 2.2 Consensus size: 33
4178210 AAAATCGCAA
4178220 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
** ** **
4178253 TGCGATTTTCATTTCGCATTGCGATTTTCTCGT
1 TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
4178286 TGCGA
1 TGCGA
4178291 TAGCCATTTC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.20, G:0.21, T:0.39
Consensus pattern (33 bp):
TGCGAAATGAAAATCGCATTGCGATTTTCTCGT
Found at i:4178291 original size:33 final size:33
Alignment explanation
Indices: 4178233--4178310 Score: 120
Period size: 33 Copynumber: 2.4 Consensus size: 33
4178223 GAAATGAAAA
***
4178233 TCGCATTGCGATTTTCTCGTTGCGATTTTCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
4178266 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
1 TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
*
4178299 TCGCGTTGCGAT
1 TCGCATTGCGAT
4178311 AGTCTGTTTT
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 41 1.00
ACGTcount: A:0.13, C:0.23, G:0.22, T:0.42
Consensus pattern (33 bp):
TCGCATTGCGATTTTCTCGTTGCGATAGCCATT
Found at i:4178417 original size:14 final size:14
Alignment explanation
Indices: 4178398--4178434 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
4178388 CATCAATTAA
4178398 ACAAATCAACATTT
1 ACAAATCAACATTT
* *
4178412 ACAAATCATCTTTT
1 ACAAATCAACATTT
4178426 ACAAATCAA
1 ACAAATCAA
4178435 TTAAACAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACATTT
Found at i:4180255 original size:19 final size:19
Alignment explanation
Indices: 4180228--4180294 Score: 71
Period size: 19 Copynumber: 3.5 Consensus size: 19
4180218 GAAACTTAAA
4180228 ATCGCAACGCGAAATGACT
1 ATCGCAACGCGAAATGACT
* * *
4180247 ATCGTAACGTGGAAATGGCT
1 ATCGCAACG-CGAAATGACT
* **
4180267 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGACT
4180286 ATCGCAACG
1 ATCGCAACG
4180295 ACAAAATCGC
Statistics
Matches: 37, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
19 22 0.59
20 15 0.41
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (19 bp):
ATCGCAACGCGAAATGACT
Found at i:4180361 original size:14 final size:14
Alignment explanation
Indices: 4180342--4180399 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
4180332 TTTCATTTCG
4180342 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
4180356 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
4180372 CGCATTGCGATTTTGT
1 CG--TTGCGATTTTGT
4180388 CGTTGCGATTTT
1 CGTTGCGATTTT
4180400 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.10, C:0.17, G:0.24, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:4180406 original size:33 final size:33
Alignment explanation
Indices: 4180325--4180415 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
4180315 ACAAATCGCA
*
4180325 TTGCGATTTTCATTTCGCGTTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
4180358 TTGCGA-TTTCATTTCGCATTGCGATTTTGTCG
1 TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
4180390 TTGCGATTTTCATTTCGCATTGCGAT
1 TTGCGATTTTCATTTCGCATTGCGAT
4180416 AGCCATTTCC
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.12, C:0.19, G:0.22, T:0.47
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCATTGCGATTTTGTCG
Found at i:4180434 original size:20 final size:19
Alignment explanation
Indices: 4180400--4180454 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
4180390 TTGCGATTTT
*
4180400 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
*
4180419 CATTTCCGCGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
4180439 CATTTTCGTGTTGCGA
1 CA-TTTCGCGTTGCGA
4180455 AAGTAAACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
19 5 0.16
20 23 0.74
21 3 0.10
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.36
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:4180962 original size:18 final size:18
Alignment explanation
Indices: 4180936--4180980 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
4180926 GTCGATCAGA
*
4180936 TGATGGCTCTGGGTGAGG
1 TGATGGCTCTGGGCGAGG
*
4180954 TGATAGCTCTGGGCGAGG
1 TGATGGCTCTGGGCGAGG
4180972 TGATGGCTC
1 TGATGGCTC
4180981 CCGAAGTGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.13, C:0.16, G:0.44, T:0.27
Consensus pattern (18 bp):
TGATGGCTCTGGGCGAGG
Found at i:4182326 original size:20 final size:20
Alignment explanation
Indices: 4182301--4182354 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
4182291 AATAGTTTCT
4182301 GAAAATGAAAATCGCAACAC
1 GAAAATGAAAATCGCAACAC
** *
4182321 GAAAATGACTATCGCAACGC
1 GAAAATGAAAATCGCAACAC
*
4182341 GAAACT-AAAATCGC
1 GAAAATGAAAATCGC
4182355 GTTGCGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 6 0.21
20 22 0.79
ACGTcount: A:0.48, C:0.22, G:0.17, T:0.13
Consensus pattern (20 bp):
GAAAATGAAAATCGCAACAC
Found at i:4182614 original size:22 final size:22
Alignment explanation
Indices: 4182588--4182631 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
4182578 GATGGAGATA
4182588 GACGGATTTCGCCAGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
* *
4182610 GACGGATTTCGTCGGAGATGGG
1 GACGGATTTCGCCAGAGATGGG
4182632 TGAGAGAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.43, T:0.20
Consensus pattern (22 bp):
GACGGATTTCGCCAGAGATGGG
Found at i:4182844 original size:20 final size:20
Alignment explanation
Indices: 4182819--4182912 Score: 89
Period size: 20 Copynumber: 4.7 Consensus size: 20
4182809 GATTATGTAT
4182819 TATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4182839 TATCGCGTTGCGAAAGTAAG
1 TATCGCGTTGCGAAAGTCAG
* *** * *
4182859 TATCTCGTTGCGATTTTTTAT
1 TATCGCGTTGCGA-AAGTCAG
* *
4182880 TATCGCATTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
4182900 TATCGCATTGCGA
1 TATCGCGTTGCGA
4182913 TTTTCCCAAT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
20 47 0.78
21 13 0.22
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:4182913 original size:20 final size:20
Alignment explanation
Indices: 4182799--4182913 Score: 88
Period size: 20 Copynumber: 5.7 Consensus size: 20
4182789 CGCTTTGAAA
*
4182799 ATCGCATTGCGATTATGT-ATT
1 ATCGCATTGCGA-TA-GTCAGT
* *
4182820 ATCGCGTTGCGAAAGTCAGT
1 ATCGCATTGCGATAGTCAGT
* * *
4182840 ATCGCGTTGCGAAAGTAAGT
1 ATCGCATTGCGATAGTCAGT
* * ** * *
4182860 ATCTCGTTGCGATTTTTTATT
1 ATCGCATTGCGA-TAGTCAGT
4182881 ATCGCATTGCGATAGTCAGT
1 ATCGCATTGCGATAGTCAGT
4182901 ATCGCATTGCGAT
1 ATCGCATTGCGAT
4182914 TTTCCCAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 5
0.78 0.16 0.05
Matches are distributed among these distances:
19 2 0.03
20 50 0.66
21 24 0.32
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.36
Consensus pattern (20 bp):
ATCGCATTGCGATAGTCAGT
Found at i:4182931 original size:21 final size:21
Alignment explanation
Indices: 4182902--4182994 Score: 109
Period size: 20 Copynumber: 4.5 Consensus size: 21
4182892 ATAGTCAGTA
4182902 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* * **
4182923 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
4182943 TCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATTTTCCCAAT
* **
4182964 TCGCATTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTCCCAAT
4182984 TCGCATTGCGA
1 TCGCATTGCGA
4182995 ATTGGGAAAA
Statistics
Matches: 60, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
20 33 0.55
21 27 0.45
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCCAAT
Found at i:4182932 original size:41 final size:41
Alignment explanation
Indices: 4182841--4182975 Score: 130
Period size: 41 Copynumber: 3.3 Consensus size: 41
4182831 AAAGTCAGTA
* * * * ** *
4182841 TCGCGTTGCGAAAGTAAGTATCTCGTTGCGATTTT-TTATT
1 TCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
*
4182881 ATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 -TCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
* * **
4182923 TCGCGTTGCGAT-TTACTTATTCGCATTGCGATTTTCCCAAT
1 TCGCATTGCGATAGTAAGTA-TCGCATTGCGATTTTCCCAAT
4182964 TCGCATTGCGAT
1 TCGCATTGCGAT
4182976 TTACTTATTC
Statistics
Matches: 78, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 3 0.04
41 73 0.94
42 2 0.03
ACGTcount: A:0.20, C:0.21, G:0.20, T:0.39
Consensus pattern (41 bp):
TCGCATTGCGATAGTAAGTATCGCATTGCGATTTTCCCAAT
Found at i:4182976 original size:41 final size:41
Alignment explanation
Indices: 4182902--4182994 Score: 177
Period size: 41 Copynumber: 2.3 Consensus size: 41
4182892 ATAGTCAGTA
*
4182902 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTAT
4182943 TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTAT
1 TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTAT
4182984 TCGCATTGCGA
1 TCGCATTGCGA
4182995 ATTGGGAAAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.18, C:0.25, G:0.17, T:0.40
Consensus pattern (41 bp):
TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTAT
Found at i:4183009 original size:41 final size:41
Alignment explanation
Indices: 4182902--4183009 Score: 117
Period size: 41 Copynumber: 2.6 Consensus size: 41
4182892 ATAGTCAGTA
* * * * *
4182902 TCGCATTGCGATTTTCCCAATTCGCGTTGCGATTTACTTAT
1 TCGCATTGCGAATTGCCAAAATCGCATTGCGATTTACTTAT
* * * *
4182943 TCGCATTGCGATTTTCCCAATTCGCATTGCGATTTACTTAT
1 TCGCATTGCGAATTGCCAAAATCGCATTGCGATTTACTTAT
**
4182984 TCGCATTGCGAATTGGGAAAATCGCA
1 TCGCATTGCGAATTGCCAAAATCGCA
4183010 ACGATACTGT
Statistics
Matches: 60, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 60 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (41 bp):
TCGCATTGCGAATTGCCAAAATCGCATTGCGATTTACTTAT
Found at i:4186856 original size:34 final size:36
Alignment explanation
Indices: 4186818--4186892 Score: 102
Period size: 34 Copynumber: 2.1 Consensus size: 36
4186808 CAAAATAATT
4186818 GTAAATACAA-CAAACTTACAATAA-G-TATTAAATG
1 GTAAATACAATCAAA-TTACAATAACGATATTAAATG
*
4186852 GTAAATATAATCAAATTACAATAACTGATATTAAATG
1 GTAAATACAATCAAATTACAATAAC-GATATTAAATG
4186889 GTAA
1 GTAA
4186893 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 1, Indels: 5
0.86 0.02 0.12
Matches are distributed among these distances:
34 18 0.50
35 4 0.11
36 1 0.03
37 13 0.36
ACGTcount: A:0.52, C:0.09, G:0.09, T:0.29
Consensus pattern (36 bp):
GTAAATACAATCAAATTACAATAACGATATTAAATG
Found at i:4189224 original size:22 final size:21
Alignment explanation
Indices: 4189183--4189240 Score: 61
Period size: 22 Copynumber: 2.9 Consensus size: 21
4189173 TTAATTAAAT
4189183 AAAATATTAAAT-AAT--TAA
1 AAAATATTAAATAAATAATAA
*
4189201 AATA-ATTAAATAAATTAATAA
1 AAAATATTAAATAAA-TAATAA
4189222 AAAATATTAAATATAATAA
1 AAAATATTAAATA-AATAA
4189241 AATATACCTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
17 7 0.22
18 5 0.16
19 1 0.03
21 6 0.19
22 11 0.34
23 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTAAATAAATAATAA
Found at i:4198597 original size:6 final size:6
Alignment explanation
Indices: 4198580--4198664 Score: 84
Period size: 6 Copynumber: 14.0 Consensus size: 6
4198570 TTTTTACCGG
*
4198580 ATTTTAT ATTTTT ATTTTT A-TTGT ATTATTT ATTTTT -TTATTT ATTTTT
1 ATTTT-T ATTTTT ATTTTT ATTTTT ATT-TTT ATTTTT ATT-TTT ATTTTT
* * **
4198629 TTTTTT ATTATT ATTAAT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
4198665 TGTAGGCCCC
Statistics
Matches: 66, Mismatches: 8, Indels: 9
0.80 0.10 0.11
Matches are distributed among these distances:
5 6 0.09
6 48 0.73
7 12 0.18
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (6 bp):
ATTTTT
Found at i:4198613 original size:24 final size:22
Alignment explanation
Indices: 4198580--4198664 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 22
4198570 TTTTTACCGG
4198580 ATTTTATATTTTTATTTTTATTGT
1 ATTTT-TATTTTTATTTTTATT-T
4198604 ATTATTTATTTTT-TTATTTATTT
1 ATT-TTTATTTTTATT-TTTATTT
* *
4198627 -TTTTT-TTTATTATTATTA-AT
1 ATTTTTATTT-TTATTTTTATTT
4198647 ATTTTTATTTTTATTTTT
1 ATTTTTATTTTTATTTTT
4198665 TGTAGGCCCC
Statistics
Matches: 52, Mismatches: 3, Indels: 15
0.74 0.04 0.21
Matches are distributed among these distances:
20 4 0.08
21 20 0.38
22 7 0.13
23 3 0.06
24 16 0.31
25 2 0.04
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (22 bp):
ATTTTTATTTTTATTTTTATTT
Found at i:4198665 original size:34 final size:31
Alignment explanation
Indices: 4198580--4198665 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 31
4198570 TTTTTACCGG
4198580 ATTTTATATTTTTATTTTTATTGTATTATTTAT
1 ATTTT-TATTTTTATTTTT-TTGTATTATTTAT
* *
4198613 TTTTTTATTTATT-TTTTTTTTTATTATTATTAAT
1 ATTTTTATTT-TTATTTTTTTGTATTA-T-TT-AT
4198647 ATTTTTATTTTTATTTTTT
1 ATTTTTATTTTTATTTTTT
4198666 GTAGGCCCCA
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
31 7 0.16
32 11 0.24
33 10 0.22
34 17 0.38
ACGTcount: A:0.21, C:0.00, G:0.01, T:0.78
Consensus pattern (31 bp):
ATTTTTATTTTTATTTTTTTGTATTATTTAT
Found at i:4199962 original size:23 final size:23
Alignment explanation
Indices: 4199909--4199963 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
4199899 TTGCTCTCCC
* *
4199909 TGCATTTTTACTTTTACACTTTCT
1 TGCA-TTTTACTTTTACAATTCCT
**
4199933 TTAATTTTACTTTTACAATTCCT
1 TGCATTTTACTTTTACAATTCCT
4199956 TGCATTTT
1 TGCATTTT
4199964 TACATTTCGT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
23 23 0.92
24 2 0.08
ACGTcount: A:0.20, C:0.18, G:0.04, T:0.58
Consensus pattern (23 bp):
TGCATTTTACTTTTACAATTCCT
Found at i:4200042 original size:14 final size:15
Alignment explanation
Indices: 4200013--4200043 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
4200003 GTTTTTTACA
4200013 TTTTCATTTGGTTTT
1 TTTTCATTTGGTTTT
*
4200028 TTTTCTTTTGGTTTT
1 TTTTCATTTGGTTTT
4200043 T
1 T
4200044 AAATTTAATT
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:0.03, C:0.06, G:0.13, T:0.77
Consensus pattern (15 bp):
TTTTCATTTGGTTTT
Found at i:4200062 original size:19 final size:19
Alignment explanation
Indices: 4200040--4200080 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4200030 TTCTTTTGGT
*
4200040 TTTTAA-ATTTAATTTTTTA
1 TTTTAATATTT-ATTTATTA
4200059 TTTTAATATTTATTTATTA
1 TTTTAATATTTATTTATTA
4200078 TTT
1 TTT
4200081 CTTATTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 16 0.80
20 4 0.20
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTAATATTTATTTATTA
Found at i:4205106 original size:34 final size:37
Alignment explanation
Indices: 4205066--4205144 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 37
4205056 TGAGACAGTT
4205066 TCCCTTGAAACAAAATC-TTT-GAACAAA-TTTCGTC
1 TCCCTTGAAACAAAATCTTTTAGAACAAAGTTTCGTC
* ** *
4205100 TCCCTTGAGACAATTTCTTTTAGAACAAAGTTTTGTC
1 TCCCTTGAAACAAAATCTTTTAGAACAAAGTTTCGTC
*
4205137 TCTCTTGA
1 TCCCTTGA
4205145 GACAGTTTCC
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
34 14 0.38
35 3 0.08
36 7 0.19
37 13 0.35
ACGTcount: A:0.29, C:0.22, G:0.11, T:0.38
Consensus pattern (37 bp):
TCCCTTGAAACAAAATCTTTTAGAACAAAGTTTCGTC
Found at i:4205604 original size:6 final size:6
Alignment explanation
Indices: 4205588--4205667 Score: 65
Period size: 6 Copynumber: 12.8 Consensus size: 6
4205578 TTTGACCGGG
* *
4205588 TTTTATA TTTTTA TTTTTA TTGTATTA TTTATT- TATTTA TTTATT- TTATTA
1 TTTT-TA TTTTTA TTTTTA TT-T-TTA TTT-TTA TTTTTA TTT-TTA TTTTTA
* *
4205639 TTATTA TTATTA TTTTTA TTTTTA TTTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTT
4205668 TGTAGGCCCC
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
5 4 0.06
6 44 0.69
7 11 0.17
8 5 0.08
ACGTcount: A:0.23, C:0.00, G:0.01, T:0.76
Consensus pattern (6 bp):
TTTTTA
Found at i:4206955 original size:23 final size:24
Alignment explanation
Indices: 4206902--4206956 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 24
4206892 TTGCTCTCCC
*
4206902 TGCATTTTTACTTTTACACTTTCAT
1 TGCA-TTTTACTTTTACACATTCAT
* *
4206927 T-AATTTTACTTTTACA-ATTCCT
1 TGCATTTTACTTTTACACATTCAT
4206949 TGCATTTT
1 TGCATTTT
4206957 TACATTTCGT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
22 5 0.20
23 18 0.72
24 1 0.04
25 1 0.04
ACGTcount: A:0.22, C:0.18, G:0.04, T:0.56
Consensus pattern (24 bp):
TGCATTTTACTTTTACACATTCAT
Found at i:4207072 original size:19 final size:19
Alignment explanation
Indices: 4207034--4207074 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
4207024 CTCTTTTCGT
*
4207034 TTTTAAATTTATTTTTTTA
1 TTTTAAATTTATTTTATTA
4207053 TTTTAATATTTA-TTTATTA
1 TTTTAA-ATTTATTTTATTA
4207072 TTT
1 TTT
4207075 CTTATTTAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTAAATTTATTTTATTA
Found at i:4216656 original size:172 final size:172
Alignment explanation
Indices: 4216370--4216713 Score: 688
Period size: 172 Copynumber: 2.0 Consensus size: 172
4216360 AACCCTCCAA
4216370 ATCAATTATGTGAGGCTTGCATCAAAGGAAAGCAACATAGACAAAGCTTTGAAGTTGGTAGATCC
1 ATCAATTATGTGAGGCTTGCATCAAAGGAAAGCAACATAGACAAAGCTTTGAAGTTGGTAGATCC
4216435 TGGCGTGCCCGAAGACCGCTGGAGATAGTACACACATATATAGCTGGTCATTTTGACATACCATC
66 TGGCGTGCCCGAAGACCGCTGGAGATAGTACACACATATATAGCTGGTCATTTTGACATACCATC
4216500 ACTTGGAGGTAACAGATACTACCTAACTTTTATTGATGATTT
131 ACTTGGAGGTAACAGATACTACCTAACTTTTATTGATGATTT
4216542 ATCAATTATGTGAGGCTTGCATCAAAGGAAAGCAACATAGACAAAGCTTTGAAGTTGGTAGATCC
1 ATCAATTATGTGAGGCTTGCATCAAAGGAAAGCAACATAGACAAAGCTTTGAAGTTGGTAGATCC
4216607 TGGCGTGCCCGAAGACCGCTGGAGATAGTACACACATATATAGCTGGTCATTTTGACATACCATC
66 TGGCGTGCCCGAAGACCGCTGGAGATAGTACACACATATATAGCTGGTCATTTTGACATACCATC
4216672 ACTTGGAGGTAACAGATACTACCTAACTTTTATTGATGATTT
131 ACTTGGAGGTAACAGATACTACCTAACTTTTATTGATGATTT
4216714 TAGTAGGAAA
Statistics
Matches: 172, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
172 172 1.00
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.28
Consensus pattern (172 bp):
ATCAATTATGTGAGGCTTGCATCAAAGGAAAGCAACATAGACAAAGCTTTGAAGTTGGTAGATCC
TGGCGTGCCCGAAGACCGCTGGAGATAGTACACACATATATAGCTGGTCATTTTGACATACCATC
ACTTGGAGGTAACAGATACTACCTAACTTTTATTGATGATTT
Found at i:4219697 original size:13 final size:13
Alignment explanation
Indices: 4219679--4219704 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
4219669 AAACATGCAT
4219679 GAGGAAGGGGGAG
1 GAGGAAGGGGGAG
4219692 GAGGAAGGGGGAG
1 GAGGAAGGGGGAG
4219705 AGTAAAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.00, G:0.69, T:0.00
Consensus pattern (13 bp):
GAGGAAGGGGGAG
Found at i:4220607 original size:2 final size:2
Alignment explanation
Indices: 4220600--4220627 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4220590 TAAAGCTTGG
4220600 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA
4220628 AGAAGCTTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:4224170 original size:8 final size:8
Alignment explanation
Indices: 4224157--4224192 Score: 63
Period size: 8 Copynumber: 4.5 Consensus size: 8
4224147 GGTTTTATTC
4224157 ACATGCAT
1 ACATGCAT
4224165 ACATGCAT
1 ACATGCAT
*
4224173 ACATACAT
1 ACATGCAT
4224181 ACATGCAT
1 ACATGCAT
4224189 ACAT
1 ACAT
4224193 CACATCTCGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
8 26 1.00
ACGTcount: A:0.42, C:0.25, G:0.08, T:0.25
Consensus pattern (8 bp):
ACATGCAT
Found at i:4224181 original size:16 final size:16
Alignment explanation
Indices: 4224157--4224197 Score: 64
Period size: 16 Copynumber: 2.5 Consensus size: 16
4224147 GGTTTTATTC
*
4224157 ACATGCATACATGCAT
1 ACATACATACATGCAT
4224173 ACATACATACATGCAT
1 ACATACATACATGCAT
4224189 ACATCACAT
1 ACAT-ACAT
4224198 CTCGCTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 19 0.83
17 4 0.17
ACGTcount: A:0.41, C:0.27, G:0.07, T:0.24
Consensus pattern (16 bp):
ACATACATACATGCAT
Found at i:4227377 original size:30 final size:30
Alignment explanation
Indices: 4227343--4227405 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
4227333 GTTATATGAG
* * *
4227343 CTATGTGATAAAGGTATGGAAATGATGTGT
1 CTATGTGATAAAAGTATGGAAATAATATGT
4227373 CTATGTGATAAAAGTATGGAAATAATATGT
1 CTATGTGATAAAAGTATGGAAATAATATGT
4227403 CTA
1 CTA
4227406 CGCGATATGA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.38, C:0.05, G:0.24, T:0.33
Consensus pattern (30 bp):
CTATGTGATAAAAGTATGGAAATAATATGT
Found at i:4227683 original size:23 final size:22
Alignment explanation
Indices: 4227657--4227731 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 22
4227647 TGGCATTACG
4227657 GTGCAATTCTACGTGGCACTTC
1 GTGCAATTCTACGTGGCACTTC
* * *
4227679 AGTGCATTTCTATGCGGTC-CTTC
1 -GTGCAATTCTACGTGG-CACTTC
*
4227702 GGGACAAATTCTACGTGGCACTTC
1 GTG-C-AATTCTACGTGGCACTTC
4227726 GGTGCA
1 -GTGCA
4227732 TATTTATACG
Statistics
Matches: 39, Mismatches: 8, Indels: 10
0.68 0.14 0.18
Matches are distributed among these distances:
22 2 0.05
23 20 0.51
24 15 0.38
25 2 0.05
ACGTcount: A:0.19, C:0.25, G:0.25, T:0.31
Consensus pattern (22 bp):
GTGCAATTCTACGTGGCACTTC
Found at i:4229606 original size:51 final size:50
Alignment explanation
Indices: 4229519--4229639 Score: 134
Period size: 51 Copynumber: 2.4 Consensus size: 50
4229509 GTAAAGCGCT
* **
4229519 CCCCCTGCACCGCTCTATACAATGATTTGGCACCACGTGGGGTATAACGCA
1 CCCCCTGCACCGCGCTATACAATGAGCTGGCACCACGT-GGGTATAACGCA
** * * *
4229570 CCCCCTGCACCGCGCTATACGGTGAGCTGGCGCCACGTGGGTATAGCGCG
1 CCCCCTGCACCGCGCTATACAATGAGCTGGCACCACGTGGGTATAACGCA
* * *
4229620 GCCCCTGCAGCGTGCTATAC
1 CCCCCTGCACCGCGCTATAC
4229640 CTGTATATCT
Statistics
Matches: 59, Mismatches: 11, Indels: 1
0.83 0.15 0.01
Matches are distributed among these distances:
50 27 0.46
51 32 0.54
ACGTcount: A:0.18, C:0.36, G:0.27, T:0.19
Consensus pattern (50 bp):
CCCCCTGCACCGCGCTATACAATGAGCTGGCACCACGTGGGTATAACGCA
Found at i:4229842 original size:13 final size:14
Alignment explanation
Indices: 4229814--4229842 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
4229804 ATATTTTATA
4229814 ATATTTTTACTATT
1 ATATTTTTACTATT
4229828 ATATTTTTACT-TT
1 ATATTTTTACTATT
4229841 AT
1 AT
4229843 TTAATATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.66
Consensus pattern (14 bp):
ATATTTTTACTATT
Found at i:4235407 original size:51 final size:45
Alignment explanation
Indices: 4235295--4235417 Score: 147
Period size: 45 Copynumber: 2.6 Consensus size: 45
4235285 CCCTACGTGG
* *
4235295 CGTATAGCGCGCTGCAGGGGCCGCGCTATACCCACGTGACGCCAT
1 CGTATAGCGCGATGCAGGGGGCGCGCTATACCCACGTGACGCCAT
* *
4235340 CGTATAGCGCGGTGCAGGGGGCGCGCTATATCTCACGTGACGCCAAATCAT
1 CGTATAGCGCGATGCAGGGGGCGCGCTATA-CCCACGTGACG-C----CAT
*
4235391 CGTATAACGCGATGCAGGGGGCGCGCT
1 CGTATAGCGCGATGCAGGGGGCGCGCT
4235418 TTACTGCTAA
Statistics
Matches: 67, Mismatches: 5, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
45 28 0.42
46 10 0.15
47 1 0.01
51 28 0.42
ACGTcount: A:0.20, C:0.30, G:0.33, T:0.17
Consensus pattern (45 bp):
CGTATAGCGCGATGCAGGGGGCGCGCTATACCCACGTGACGCCAT
Found at i:4243414 original size:20 final size:20
Alignment explanation
Indices: 4243366--4243427 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 20
4243356 AACTTAAATC
*
4243366 AAAATAATTAAAATAA-ATAT
1 AAAATAATT-TAATAATATAT
4243386 AAAAT--TTTAATAATATAT
1 AAAATAATTTAATAATATAT
4243404 AAAATAATTT-AT-ATGATAT
1 AAAATAATTTAATAAT-ATAT
4243423 AAAAT
1 AAAAT
4243428 TAAATATCTA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
17 5 0.14
18 13 0.35
19 11 0.30
20 8 0.22
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (20 bp):
AAAATAATTTAATAATATAT
Found at i:4243491 original size:64 final size:64
Alignment explanation
Indices: 4243422--4243581 Score: 242
Period size: 64 Copynumber: 2.6 Consensus size: 64
4243412 TTATATGATA
*
4243422 TAAAATTAAATATCTATAATATAATATTAAAAATTAATATTTAATTTCTTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATTAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
* *
4243486 TAAAATT-AATATATATAATATAATATTAAAAAATTATTATTTAATTTATTTAAAAAATTAATAT
1 TAAAATTAAATATCTATAATATAATATT-AAAAATTAATATTTAATTTATTTAAAAAATTAATAT
4243550 TAAAATTAAA-ATC-A-AATATAATA-T-AAAATTAA
1 TAAAATTAAATATCTATAATATAATATTAAAAATTAA
4243582 ATATAAAACC
Statistics
Matches: 89, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
59 7 0.08
61 1 0.01
62 9 0.10
63 20 0.22
64 50 0.56
65 2 0.02
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (64 bp):
TAAAATTAAATATCTATAATATAATATTAAAAATTAATATTTAATTTATTTAAAAAATTAATAT
Found at i:4243521 original size:40 final size:37
Alignment explanation
Indices: 4243443--4243526 Score: 98
Period size: 40 Copynumber: 2.2 Consensus size: 37
4243433 ATCTATAATA
**
4243443 TAATATTAAAAATTAATATTTAATTTCTTTAAAAAAT
1 TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
4243480 TAATATT-AAAATTAATATATATAATATAATATTAAAAAAT
1 TAATATTAAAAATTAATAT-T-TAAT-TAAT-TTAAAAAAT
*
4243520 TATTATT
1 TAATATT
4243527 TAATTTATTT
Statistics
Matches: 40, Mismatches: 3, Indels: 5
0.83 0.06 0.10
Matches are distributed among these distances:
36 11 0.28
37 8 0.20
38 4 0.10
39 2 0.05
40 15 0.38
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (37 bp):
TAATATTAAAAATTAATATTTAATTAATTTAAAAAAT
Found at i:4243530 original size:26 final size:25
Alignment explanation
Indices: 4243477--4243550 Score: 73
Period size: 24 Copynumber: 3.0 Consensus size: 25
4243467 TTCTTTAAAA
*
4243477 AATTAATATT--AAAATTAATATATAT
1 AATTAATATTAAAAAATT-AT-TATTT
4243502 AATATAATATTAAAAAATTATTATTT
1 AAT-TAATATTAAAAAATTATTATTT
* *
4243528 AATTTAT-TTAAAAAATTAATATT
1 AATTAATATTAAAAAATTATTATT
4243551 AAAATTAAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
24 15 0.35
25 6 0.14
26 14 0.33
27 2 0.05
28 6 0.14
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTAATATTAAAAAATTATTATTT
Found at i:4243584 original size:12 final size:12
Alignment explanation
Indices: 4243539--4243589 Score: 54
Period size: 12 Copynumber: 4.3 Consensus size: 12
4243529 ATTTATTTAA
4243539 AAAATT-AATATT
1 AAAATTAAATA-T
4243551 AAAATTAAA-AT
1 AAAATTAAATAT
*
4243562 CAAA-TATAATAT
1 AAAATTA-AATAT
4243574 AAAATTAAATAT
1 AAAATTAAATAT
4243586 AAAA
1 AAAA
4243590 CCTCTTTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
10 2 0.06
11 6 0.18
12 21 0.64
13 4 0.12
ACGTcount: A:0.67, C:0.02, G:0.00, T:0.31
Consensus pattern (12 bp):
AAAATTAAATAT
Found at i:4246333 original size:31 final size:32
Alignment explanation
Indices: 4246298--4246367 Score: 88
Period size: 32 Copynumber: 2.2 Consensus size: 32
4246288 TTAACCTGTG
* *
4246298 GTGACCACATCTTAAT-TAAATAAAAATGAAA
1 GTGACCACATCTTAATAAAAATAAAAATAAAA
* **
4246329 GTGACAATGTCTTAATAAAAATAAAAATAAAA
1 GTGACCACATCTTAATAAAAATAAAAATAAAA
4246361 GTGACCA
1 GTGACCA
4246368 TATATTATGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 13 0.41
32 19 0.59
ACGTcount: A:0.53, C:0.11, G:0.11, T:0.24
Consensus pattern (32 bp):
GTGACCACATCTTAATAAAAATAAAAATAAAA
Found at i:4264555 original size:61 final size:61
Alignment explanation
Indices: 4264460--4264581 Score: 235
Period size: 61 Copynumber: 2.0 Consensus size: 61
4264450 GTTGAGCACC
4264460 TGATGAGTTATGACTTTTTGGGAAATGATGACGTGCGACAGCCTTAATATACAGTTAAAAA
1 TGATGAGTTATGACTTTTTGGGAAATGATGACGTGCGACAGCCTTAATATACAGTTAAAAA
*
4264521 TGATGAGTTATGACTTTTTGGGAAATGATGACGTGCGACAGCCTTAATATACGGTTAAAAA
1 TGATGAGTTATGACTTTTTGGGAAATGATGACGTGCGACAGCCTTAATATACAGTTAAAAA
4264582 AAGATGTTAC
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 60 1.00
ACGTcount: A:0.34, C:0.11, G:0.24, T:0.31
Consensus pattern (61 bp):
TGATGAGTTATGACTTTTTGGGAAATGATGACGTGCGACAGCCTTAATATACAGTTAAAAA
Found at i:4265032 original size:74 final size:74
Alignment explanation
Indices: 4264953--4265100 Score: 296
Period size: 74 Copynumber: 2.0 Consensus size: 74
4264943 TGGAACTAAT
4264953 TAAATCGAATGTTAATATATGTTAAGTTTGATCATCTAACACCGATAGTTTTTATGGGAAAAAGT
1 TAAATCGAATGTTAATATATGTTAAGTTTGATCATCTAACACCGATAGTTTTTATGGGAAAAAGT
4265018 GATAATTAC
66 GATAATTAC
4265027 TAAATCGAATGTTAATATATGTTAAGTTTGATCATCTAACACCGATAGTTTTTATGGGAAAAAGT
1 TAAATCGAATGTTAATATATGTTAAGTTTGATCATCTAACACCGATAGTTTTTATGGGAAAAAGT
4265092 GATAATTAC
66 GATAATTAC
4265101 ATATAAAGCA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 74 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.36
Consensus pattern (74 bp):
TAAATCGAATGTTAATATATGTTAAGTTTGATCATCTAACACCGATAGTTTTTATGGGAAAAAGT
GATAATTAC
Found at i:4268910 original size:76 final size:76
Alignment explanation
Indices: 4268830--4269074 Score: 192
Period size: 76 Copynumber: 3.1 Consensus size: 76
4268820 ATCTGTTAGA
4268830 AATATTACATTATTTTTAAGAAAATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAA
1 AATATTACATTATTTTTAAGAAAATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAA
4268895 TTGAAAAATAG
66 TTGAAAAATAG
* * * ** * * **
4268906 AATATTAAATGTA--ATTAA-AAAATTAAATTGAAATAATAAACAAAATACATTATTTTTTAA-T
1 AATATTACAT-TATTTTTAAGAAAA-TATATT-AAAT--T-ATTAAAGT---TTATATAATAAGT
* * * * ***
4268967 TGAATTTAATTTTCAATCTGTTAG
57 TTAA-CTAA-ATTGAA--AAATAG
4268991 AAATATTACATTATTTTTAAGAAAATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAA
1 -AATATTACATTATTTTTAAGAAAATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAA
4269056 ATTGAAAAATAG
65 ATTGAAAAATAG
4269068 AATATTA
1 AATATTA
4269075 AATGTAATTA
Statistics
Matches: 119, Mismatches: 32, Indels: 36
0.64 0.17 0.19
Matches are distributed among these distances:
74 4 0.03
75 9 0.08
76 20 0.17
77 5 0.04
78 1 0.01
79 9 0.08
80 11 0.09
81 8 0.07
82 11 0.09
83 9 0.08
84 1 0.01
85 5 0.04
86 13 0.11
87 9 0.08
88 4 0.03
ACGTcount: A:0.50, C:0.03, G:0.06, T:0.41
Consensus pattern (76 bp):
AATATTACATTATTTTTAAGAAAATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAA
TTGAAAAATAG
Found at i:4268962 original size:162 final size:163
Alignment explanation
Indices: 4268787--4269108 Score: 637
Period size: 162 Copynumber: 2.0 Consensus size: 163
4268777 TTCTCAAAAT
4268787 AATACATTATTTTTTAATTGAATTTAATTTTCAATCTGTTAGAAATATTACATTATTTTTAAGAA
1 AATACATTATTTTTTAATTGAATTTAATTTTCAATCTGTTAGAAATATTACATTATTTTTAAGAA
4268852 AATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAATTGAAAAATAGAATATTAAATG
66 AATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAATTGAAAAATAGAATATTAAATG
4268917 TAATT-AAAAAATTAAATTGAAATAATAAACAA
131 TAATTAAAAAAATTAAATTGAAATAATAAACAA
4268949 AATACATTATTTTTTAATTGAATTTAATTTTCAATCTGTTAGAAATATTACATTATTTTTAAGAA
1 AATACATTATTTTTTAATTGAATTTAATTTTCAATCTGTTAGAAATATTACATTATTTTTAAGAA
4269014 AATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAATTGAAAAATAGAATATTAAATG
66 AATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAATTGAAAAATAGAATATTAAATG
4269079 TAATTAAAAAAATTAAATTGAAATAATAAA
131 TAATTAAAAAAATTAAATTGAAATAATAAA
4269109 AAATTAAACG
Statistics
Matches: 159, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
162 135 0.85
163 24 0.15
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.41
Consensus pattern (163 bp):
AATACATTATTTTTTAATTGAATTTAATTTTCAATCTGTTAGAAATATTACATTATTTTTAAGAA
AATATATTAAATTATTAAAGTTTATATAATAAGTTTAACTAAATTGAAAAATAGAATATTAAATG
TAATTAAAAAAATTAAATTGAAATAATAAACAA
Found at i:4269095 original size:19 final size:21
Alignment explanation
Indices: 4269053--4269116 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 21
4269043 TAAGTTTAAC
* *
4269053 TAAATTGAAA-AATAGAATAT
1 TAAATTGAAATAATAAAAAAT
* *
4269073 TAAA-TGTAATTA-AAAAAAT
1 TAAATTGAAATAATAAAAAAT
4269092 TAAATTGAAATAATAAAAAAT
1 TAAATTGAAATAATAAAAAAT
4269113 TAAA
1 TAAA
4269117 CGTGGAAACT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
19 13 0.37
20 11 0.31
21 11 0.31
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (21 bp):
TAAATTGAAATAATAAAAAAT
Found at i:4274814 original size:21 final size:23
Alignment explanation
Indices: 4274788--4274837 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 23
4274778 TTGACCGGTC
4274788 TGACCCGA-CCGACC-CGACCAT
1 TGACCCGACCCGACCGCGACCAT
*
4274809 TGACCCGACCCGACCGTTGACCAT
1 TGACCCGACCCGACCG-CGACCAT
4274833 TGACC
1 TGACC
4274838 GTTGACTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
21 8 0.32
22 6 0.24
24 11 0.44
ACGTcount: A:0.22, C:0.44, G:0.20, T:0.14
Consensus pattern (23 bp):
TGACCCGACCCGACCGCGACCAT
Found at i:4274818 original size:17 final size:17
Alignment explanation
Indices: 4274796--4274830 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
4274786 TCTGACCCGA
4274796 CCGACCCGACCATTGAC
1 CCGACCCGACCATTGAC
*
4274813 CCGACCCGACCGTTGAC
1 CCGACCCGACCATTGAC
4274830 C
1 C
4274831 ATTGACCGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.20, C:0.49, G:0.20, T:0.11
Consensus pattern (17 bp):
CCGACCCGACCATTGAC
Found at i:4286674 original size:19 final size:20
Alignment explanation
Indices: 4286652--4286695 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
4286642 GAGAAAAGGT
4286652 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
4286671 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
4286691 AAAAG
1 AAAAG
4286696 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:4292959 original size:17 final size:16
Alignment explanation
Indices: 4292937--4292970 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
4292927 TAAAAACAGT
4292937 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
4292954 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
4292970 A
1 A
4292971 TCTTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:4293489 original size:24 final size:24
Alignment explanation
Indices: 4293445--4293491 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
4293435 ATAAAGAACC
*
4293445 AAAATAAACTTAAATATACCATTA
1 AAAATAAACTTAAACATACCATTA
*
4293469 AAAATAAAGTTTAAACA-ACCATT
1 AAAATAAA-CTTAAACATACCATT
4293492 CAACCAACCA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 14 0.70
25 6 0.30
ACGTcount: A:0.57, C:0.13, G:0.02, T:0.28
Consensus pattern (24 bp):
AAAATAAACTTAAACATACCATTA
Found at i:4296072 original size:11 final size:11
Alignment explanation
Indices: 4296056--4296091 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
4296046 AGTTGAATTC
4296056 TACTATAATAT
1 TACTATAATAT
4296067 TACTATAATAT
1 TACTATAATAT
4296078 TACTATAATAT
1 TACTATAATAT
4296089 TAC
1 TAC
4296092 AAAATTGAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.44, C:0.11, G:0.00, T:0.44
Consensus pattern (11 bp):
TACTATAATAT
Found at i:4296540 original size:28 final size:28
Alignment explanation
Indices: 4296488--4296541 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
4296478 AGTCTGTCAC
* * *
4296488 CTTCTCCTCTTTTTCATCCTTTTTTTCT
1 CTTCTCCTCTATTTCATCATCTTTTTCT
*
4296516 CTTCTCCTCTATTTCTTCATCTTTTT
1 CTTCTCCTCTATTTCATCATCTTTTT
4296542 TCCTTTTCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.06, C:0.31, G:0.00, T:0.63
Consensus pattern (28 bp):
CTTCTCCTCTATTTCATCATCTTTTTCT
Found at i:4297982 original size:20 final size:20
Alignment explanation
Indices: 4297888--4298256 Score: 458
Period size: 20 Copynumber: 18.4 Consensus size: 20
4297878 GATTTTCCAT
* ** *
4297888 AATCGCAACGCGAATATGAA
1 AATCGCAACGCGTATCCGTA
* *
4297908 AATCGCAACGCG-AACACATA
1 AATCGCAACGCGTATC-CGTA
4297928 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4297948 AATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
**
4297968 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGTATCCGTA
*
4297988 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4298008 TATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4298028 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
* *
4298048 AACCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4298068 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4298088 AATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
4298108 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4298128 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
4298148 AATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTA
*
4298168 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4298188 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4298208 AATCGCAACG-ATAATCCGTA
1 AATCGCAACGCGT-ATCCGTA
* * *
4298228 AATCGCAACGAGAATCTGTA
1 AATCGCAACGCGTATCCGTA
*
4298248 AATCACAAC
1 AATCGCAAC
4298257 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:4298969 original size:24 final size:24
Alignment explanation
Indices: 4298930--4298976 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
4298920 AAATTTGGTC
4298930 TTGGTCAATATCCGGACTTTGATA
1 TTGGTCAATATCCGGACTTTGATA
*
4298954 TTGGTCAATA-CACGGATTTTGAT
1 TTGGTCAATATC-CGGACTTTGAT
4298977 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:4299168 original size:12 final size:12
Alignment explanation
Indices: 4299151--4299175 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
4299141 ATATAATCCT
4299151 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4299163 GAAGAAGAAAAA
1 GAAGAAGAAAAA
4299175 G
1 G
4299176 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:4301471 original size:19 final size:19
Alignment explanation
Indices: 4301449--4301754 Score: 367
Period size: 19 Copynumber: 17.4 Consensus size: 19
4301439 CGGAAAATAC
*
4301449 AATCGCAACGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4301468 AATCCCAA--C---ATGAA
1 AATCGCAATGCGAAATGAA
4301482 AATCGCAATGCGGAAATGAA
1 AATCGCAATGC-GAAATGAA
*
4301502 AATCGCAA--CG--A-GAT
1 AATCGCAATGCGAAATGAA
4301516 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4301535 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4301554 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4301573 AATCGCAA--CG--A-GAG
1 AATCGCAATGCGAAATGAA
4301587 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
*
4301606 AATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAA
*
4301620 AATCGCAATGCGAAATTAA
1 AATCGCAATGCGAAATGAA
4301639 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4301658 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4301677 AATCGCAATGCGAAATG-A
1 AATCGCAATGCGAAATGAA
4301695 AATCGCAA--CGAAA-G--
1 AATCGCAATGCGAAATGAA
4301709 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4301728 AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAA
4301747 AATCGCAA
1 AATCGCAA
4301755 CGAGATAATC
Statistics
Matches: 251, Mismatches: 10, Indels: 52
0.80 0.03 0.17
Matches are distributed among these distances:
14 48 0.19
15 3 0.01
16 20 0.08
17 9 0.04
18 12 0.05
19 146 0.58
20 13 0.05
ACGTcount: A:0.47, C:0.18, G:0.21, T:0.14
Consensus pattern (19 bp):
AATCGCAATGCGAAATGAA
Found at i:4301536 original size:33 final size:33
Alignment explanation
Indices: 4301449--4301776 Score: 344
Period size: 33 Copynumber: 9.5 Consensus size: 33
4301439 CGGAAAATAC
* *
4301449 AATCGCAACGCGAAATGAAAATCCCAAC-ATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGA-GAA
*
4301482 AATCGCAATGCGGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGC-GAAATGAAAATCGCAACGAGAA
4301516 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
4301554 AATCGCAATGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
* *
4301587 AATCGCAATGCGAAATGAAAATCGCAACGACAG
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
*
4301620 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
4301658 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGA
1 AATCGCAATGCGAAATGAAAATCGCAA--CGAGA--A
4301695 AATCGCAA--CGAAA-G--AATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAA
*
4301728 AATCGCAATGCGAAATGAAAATCGCAACGAGAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA
4301761 AATCGCAATGCGAAAT
1 AATCGCAATGCGAAAT
4301777 TATAAACGCA
Statistics
Matches: 260, Mismatches: 13, Indels: 44
0.82 0.04 0.14
Matches are distributed among these distances:
32 12 0.05
33 113 0.43
34 33 0.13
35 17 0.07
36 6 0.02
37 11 0.04
38 68 0.26
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (33 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAA
Found at i:4301772 original size:52 final size:52
Alignment explanation
Indices: 4301516--4301776 Score: 258
Period size: 52 Copynumber: 4.9 Consensus size: 52
4301506 GCAACGAGAT
4301516 AATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
* *
4301573 AATCGCAA--CG--A-GAGAATCGCAATGCGAAATGAAAATCGCAA--CGACA-G--
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
*
4301620 AATCGCAATGCGAAATTAAAATCGCAATGCGAAATGAAAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAA--CG--A-GAAAATCGCAATGCGAAATGAA
4301677 AATCGCAATGCGAAATG-AAATCGCAACGA-AAGAATCGCAATGCGAAATGAA
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAA-AATCGCAATGCGAAATGAA
*
4301728 AATCGCAATGCGAAATGAAAATCGCAACGAGATAATCGCAATGCGAAAT
1 AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAAT
4301777 TATAAACGCA
Statistics
Matches: 184, Mismatches: 7, Indels: 31
0.83 0.03 0.14
Matches are distributed among these distances:
47 8 0.04
49 3 0.02
50 6 0.03
51 37 0.20
52 86 0.47
53 2 0.01
54 6 0.03
55 3 0.02
56 9 0.05
57 24 0.13
ACGTcount: A:0.46, C:0.18, G:0.21, T:0.15
Consensus pattern (52 bp):
AATCGCAATGCGAAATGAAAATCGCAACGAGAAAATCGCAATGCGAAATGAA
Found at i:4301892 original size:19 final size:19
Alignment explanation
Indices: 4301783--4301884 Score: 151
Period size: 19 Copynumber: 5.6 Consensus size: 19
4301773 AAATTATAAA
4301783 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4301802 CCGCATTGCGATTTTCATTT
1 -CGCATTGCGATTTTCATTT
*
4301822 CGCATTGCGA--TTC-TCT
1 CGCATTGCGATTTTCATTT
4301838 CG--TTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4301855 CGCATTGCGATTTTCATTT
1 CGCATTGCGATTTTCATTT
4301874 CGCATTGCGAT
1 CGCATTGCGAT
4301885 AGTCATTTTT
Statistics
Matches: 75, Mismatches: 2, Indels: 11
0.85 0.02 0.12
Matches are distributed among these distances:
14 6 0.08
16 7 0.09
17 7 0.09
19 36 0.48
20 19 0.25
ACGTcount: A:0.15, C:0.24, G:0.18, T:0.44
Consensus pattern (19 bp):
CGCATTGCGATTTTCATTT
Found at i:4302010 original size:14 final size:14
Alignment explanation
Indices: 4301991--4302027 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
4301981 CATCAATTAC
4301991 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
4302005 ACAAATCATCTTTT
1 ACAAATCAACTTTT
4302019 ACAAATCAA
1 ACAAATCAA
4302028 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.22, G:0.00, T:0.32
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:4304019 original size:14 final size:14
Alignment explanation
Indices: 4304000--4304056 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4303990 GCGAAATGAA
*
4304000 AATCGCAACGACAG
1 AATCGCAACGAAAG
4304014 AATCGCAATGCGAAATG
1 AATCGCAA--CGAAA-G
4304031 AAAATCGCAACGAAAG
1 --AATCGCAACGAAAG
4304047 AATCGCAACG
1 AATCGCAACG
4304057 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:4304027 original size:33 final size:33
Alignment explanation
Indices: 4303981--4304073 Score: 168
Period size: 33 Copynumber: 2.8 Consensus size: 33
4303971 GCGAAACCAA
*
4303981 AATCGCAACGCGAAATGAAAATCGCAACGACAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
*
4304014 AATCGCAATGCGAAATGAAAATCGCAACGAAAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAAAG
4304047 AATCGCAACGCGAAATGAAAATCGCAA
1 AATCGCAACGCGAAATGAAAATCGCAA
4304074 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:4304038 original size:19 final size:19
Alignment explanation
Indices: 4303944--4304078 Score: 128
Period size: 19 Copynumber: 7.6 Consensus size: 19
4303934 TAGTTTACTT
* *
4303944 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAA-TGAAAA
**
4303964 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAATGAAAA
4303983 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4304002 TCGCAA--CGACA-G--AA
1 TCGCAACGCGAAATGAAAA
*
4304016 TCGCAATGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
4304035 TCGCAA--CGAAA-G--AA
1 TCGCAACGCGAAATGAAAA
4304049 TCGCAACGCGAAATGAAAA
1 TCGCAACGCGAAATGAAAA
*
4304068 TCGCAATGCGA
1 TCGCAACGCGA
4304079 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:4304096 original size:19 final size:19
Alignment explanation
Indices: 4304074--4304202 Score: 125
Period size: 19 Copynumber: 7.3 Consensus size: 19
4304064 AAAATCGCAA
4304074 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4304093 TGCGATCTT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
4304107 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
*
4304126 TGCGATTCT-G--T--CGT
1 TGCGATTTTGGTTTCGCGT
**
4304140 TGCGATTTTCATTTCGCGT
1 TGCGATTTTGGTTTCGCGT
4304159 TGCGATTTTGGTTTCGCGT
1 TGCGATTTTGGTTTCGCGT
* *
4304178 TGCGATTTTAAGTTTCGTGT
1 TGCGATTTT-GGTTTCGCGT
4304198 TGCGA
1 TGCGA
4304203 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:4304116 original size:33 final size:33
Alignment explanation
Indices: 4304074--4304165 Score: 150
Period size: 33 Copynumber: 2.8 Consensus size: 33
4304064 AAAATCGCAA
4304074 TGCGATTTTGGTTTCGCGTTGCGA-TCTTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTC-TGTCGT
4304107 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
1 TGCGATTTTGGTTTCGCGTTGCGATTCTGTCGT
**
4304140 TGCGATTTTCATTTCGCGTTGCGATT
1 TGCGATTTTGGTTTCGCGTTGCGATT
4304166 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:4304418 original size:91 final size:93
Alignment explanation
Indices: 4304246--4304531 Score: 549
Period size: 93 Copynumber: 3.1 Consensus size: 93
4304236 TTGAATGGAT
4304246 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4304311 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4304339 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATA-TA-TTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
4304402 AGTTTAGCAGAATTGGCAGCAACCGAAC
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4304430 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
1 AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
*
4304495 AGTTTAGCAGAATTGGCAGCAACCGAAT
66 AGTTTAGCAGAATTGGCAGCAACCGAAC
4304523 AAATTTACT
1 AAATTTACT
4304532 AAGCAATCTA
Statistics
Matches: 190, Mismatches: 1, Indels: 4
0.97 0.01 0.02
Matches are distributed among these distances:
91 89 0.47
92 4 0.02
93 97 0.51
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.22
Consensus pattern (93 bp):
AAATTTACTTTCAACCAAAAGACAAAACAAAGACAAATACTATTTCACAGTGTTAAAGAATACAC
AGTTTAGCAGAATTGGCAGCAACCGAAC
Found at i:4306257 original size:14 final size:14
Alignment explanation
Indices: 4306238--4306294 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
4306228 TTGAAATGAA
4306238 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
4306252 AATCGCAACGCGAAATGAC
1 AATCGCAA--CG--A-GAG
4306271 AATCGCAACGAGAG
1 AATCGCAACGAGAG
4306285 AATCGCAACG
1 AATCGCAACG
4306295 CGAAATGAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.42, C:0.25, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:4306275 original size:33 final size:33
Alignment explanation
Indices: 4306230--4306311 Score: 155
Period size: 33 Copynumber: 2.5 Consensus size: 33
4306220 TCTTTTGGTT
4306230 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
*
4306263 GAAATGACAATCGCAACGAGAGAATCGCAACGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAACGC
4306296 GAAATGAAAATCGCAA
1 GAAATGAAAATCGCAA
4306312 TGCGATTTTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
33 47 1.00
ACGTcount: A:0.46, C:0.21, G:0.23, T:0.10
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAACGC
Found at i:4306276 original size:19 final size:19
Alignment explanation
Indices: 4306252--4306316 Score: 68
Period size: 19 Copynumber: 3.7 Consensus size: 19
4306242 GCAACGAGAG
*
4306252 AATCGCAACGCGAAATGAC
1 AATCGCAACGCGAAATGAA
*
4306271 AATCGCAA--CG--A-GAG
1 AATCGCAACGCGAAATGAA
4306285 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
*
4306304 AATCGCAATGCGA
1 AATCGCAACGCGA
4306317 TTTTGGTTTC
Statistics
Matches: 38, Mismatches: 3, Indels: 10
0.75 0.06 0.20
Matches are distributed among these distances:
14 10 0.26
15 1 0.03
16 2 0.05
17 2 0.05
18 1 0.03
19 22 0.58
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:4306347 original size:14 final size:14
Alignment explanation
Indices: 4306328--4306382 Score: 56
Period size: 14 Copynumber: 3.6 Consensus size: 14
4306318 TTTGGTTTCG
4306328 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
4306342 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
4306361 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
4306375 CGTTGCGA
1 CGTTGCGA
4306383 CAGTCATTCT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
14 18 0.53
16 3 0.09
17 3 0.09
19 10 0.29
ACGTcount: A:0.09, C:0.25, G:0.24, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:4306360 original size:33 final size:33
Alignment explanation
Indices: 4306312--4306382 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
4306302 AAAATCGCAA
**
4306312 TGCGATTTTGGTTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4306345 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
1 TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
4306378 TGCGA
1 TGCGA
4306383 CAGTCATTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.08, C:0.23, G:0.25, T:0.44
Consensus pattern (33 bp):
TGCGATTTTCATTTCGCGTTGCGATTCTCTCGT
Found at i:4306390 original size:33 final size:33
Alignment explanation
Indices: 4306323--4306404 Score: 119
Period size: 33 Copynumber: 2.5 Consensus size: 33
4306313 GCGATTTTGG
***
4306323 TTTCGCGTTGCGATTCTCTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
4306356 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
1 TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
*
4306389 TTCTCTCGTTGCGATT
1 TT-TCGCGTTGCGATT
4306405 TTCATTTATC
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
33 32 0.73
34 12 0.27
ACGTcount: A:0.10, C:0.26, G:0.22, T:0.43
Consensus pattern (33 bp):
TTTCGCGTTGCGATTCTCTCGTTGCGACAGTCA
Found at i:4306409 original size:20 final size:20
Alignment explanation
Indices: 4306335--4306423 Score: 75
Period size: 20 Copynumber: 4.8 Consensus size: 20
4306325 TCGCGTTGCG
4306335 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
4306355 ATT-TCGCGTTGCG------
1 ATTCTCTCGTTGCGATTTTC
***
4306368 ATTCTCTCGTTGCGACAGTC
1 ATTCTCTCGTTGCGATTTTC
4306388 ATTCTCTCGTTGCGATTTTC
1 ATTCTCTCGTTGCGATTTTC
*
4306408 ATTTATCTCGTTGCGA
1 A-TTCTCTCGTTGCGA
4306424 CTCTTCTGCA
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
13 3 0.05
14 9 0.16
19 9 0.16
20 21 0.38
21 13 0.24
ACGTcount: A:0.12, C:0.25, G:0.19, T:0.44
Consensus pattern (20 bp):
ATTCTCTCGTTGCGATTTTC
Found at i:4306545 original size:33 final size:33
Alignment explanation
Indices: 4306503--4306573 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
4306493 AATACTAACT
*
4306503 TGAAAATCGCAACGAGAGAATAGCAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
* *
4306536 TGAAAATCGCAACGACAGAATCGTAACGCGAAA
1 TGAAAATCGCAACGACAGAATAGCAACGCGAAA
4306569 TGAAA
1 TGAAA
4306574 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:4306807 original size:22 final size:22
Alignment explanation
Indices: 4306755--4306809 Score: 74
Period size: 22 Copynumber: 2.5 Consensus size: 22
4306745 TGGTTGTGAG
**
4306755 GGATTTCGCCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
**
4306777 GGAAATCTTCGGAGATGGGGAC
1 GGATTTCTTCGGAGATGGGGAC
4306799 GGATTTCTTCG
1 GGATTTCTTCG
4306810 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:4306980 original size:20 final size:20
Alignment explanation
Indices: 4306955--4307147 Score: 219
Period size: 20 Copynumber: 9.6 Consensus size: 20
4306945 CTTTAAATAT
4306955 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4306975 CGCGTTGCGATTTTATGTATTA
1 CGCGTTGCGA-TTTACGGA-TA
*
4306997 -TCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4307016 CGCGTTGCGATATACGGATA
1 CGCGTTGCGATTTACGGATA
* **
4307036 CGCATTGCGATTTACCCATA
1 CGCGTTGCGATTTACGGATA
4307056 CGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
*
4307076 CACGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATA
* *
4307096 CGCGTTGCGATTTATGTG-TT
1 CGCGTTGCGATTTACG-GATA
* ** *
4307116 CGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATA
4307136 CGCGTTGCGATT
1 CGCGTTGCGATT
4307148 ATGGAAAATC
Statistics
Matches: 146, Mismatches: 22, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
19 2 0.01
20 127 0.87
21 15 0.10
22 2 0.01
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (20 bp):
CGCGTTGCGATTTACGGATA
Found at i:4307142 original size:60 final size:60
Alignment explanation
Indices: 4306955--4307147 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
4306945 CTTTAAATAT
**
4306955 CGCGTTGCGATTTACGGATACGCGTTGCGATTTTATGTATTATCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGA-TTTATGTATTCGCGTTGCGATTTACGGATA
* * *** *
4307016 CGCGTTGCGATATACGGATACGCATTGCGATTTACCCATACGCGTTGCGATTTACGGATA
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
* * * ** *
4307076 CACGTTGCGATTTACGGATACGCGTTGCGATTTATGTGTTCGCGTTGCGATTTTCATATT
1 CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
4307136 CGCGTTGCGATT
1 CGCGTTGCGATT
4307148 ATGGAAAATC
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 83 0.75
61 28 0.25
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.35
Consensus pattern (60 bp):
CGCGTTGCGATTTACGGATACGCGTTGCGATTTATGTATTCGCGTTGCGATTTACGGATA
Found at i:4307228 original size:20 final size:20
Alignment explanation
Indices: 4307203--4307254 Score: 95
Period size: 20 Copynumber: 2.6 Consensus size: 20
4307193 AAGAATCGCG
*
4307203 TTGCGATTTTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4307223 TTGCGATTCTGGAAACTGAT
1 TTGCGATTCTGGAAACTGAT
4307243 TTGCGATTCTGG
1 TTGCGATTCTGG
4307255 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:4312357 original size:30 final size:30
Alignment explanation
Indices: 4312323--4312380 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
4312313 CATTTGTTTA
*
4312323 TTTTTT-AAAATGTTCATAT-TTCGTTTGTG
1 TTTTTTAAAAATGTTAATATCTT-GTTTGTG
*
4312352 TTTTTTAAAAATTTTAATATCTTGTTTGT
1 TTTTTTAAAAATGTTAATATCTTGTTTGT
4312381 TTATTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 17 0.68
31 2 0.08
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.60
Consensus pattern (30 bp):
TTTTTTAAAAATGTTAATATCTTGTTTGTG
Found at i:4312387 original size:29 final size:27
Alignment explanation
Indices: 4312314--4312387 Score: 69
Period size: 29 Copynumber: 2.6 Consensus size: 27
4312304 GTTCATTTCC
* *
4312314 ATTTGTTTATTTTTT-AAAATGTTCAT
1 ATTTGTTTGTTTTTTAAAAATGTTAAT
*
4312340 ATTTCGTTTGTGTTTTTTAAAAATTTTAAT
1 ATTT-G-TT-TGTTTTTTAAAAATGTTAAT
4312370 ATCTTGTTTGTTTATTTA
1 AT-TTGTTTGTTT-TTTA
4312388 TTTTTAAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
26 4 0.10
27 1 0.03
28 7 0.18
29 13 0.33
30 12 0.31
31 2 0.05
ACGTcount: A:0.24, C:0.04, G:0.09, T:0.62
Consensus pattern (27 bp):
ATTTGTTTGTTTTTTAAAAATGTTAAT
Done.