Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_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: 6915314
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 16 of 30
Found at i:3904503 original size:13 final size:13
Alignment explanation
Indices: 3904485--3904515 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
3904475 CATTAGTTGA
3904485 TGCTTGACTGATT
1 TGCTTGACTGATT
3904498 TGCTTGACTGATT
1 TGCTTGACTGATT
3904511 TGCTT
1 TGCTT
3904516 TACAAGGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.13, C:0.16, G:0.23, T:0.48
Consensus pattern (13 bp):
TGCTTGACTGATT
Found at i:3912859 original size:16 final size:17
Alignment explanation
Indices: 3912831--3912862 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
3912821 CATACAGGGA
3912831 CTAAAAGATAAATATCC
1 CTAAAAGATAAATATCC
3912848 CTAAAA-ATAAATATC
1 CTAAAAGATAAATATC
3912863 TTGCATGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.56, C:0.16, G:0.03, T:0.25
Consensus pattern (17 bp):
CTAAAAGATAAATATCC
Found at i:3915069 original size:32 final size:32
Alignment explanation
Indices: 3914999--3915072 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 32
3914989 CCAAAGGTGA
*
3914999 CCCTTGGGTAGGCTCTGAGGCCCCGATAAACT
1 CCCTTGGGTAGGCTCTCAGGCCCCGATAAACT
**
3915031 TTCTTGGGTAGGCTCTCAGGCCCC-A-AAGCACT
1 CCCTTGGGTAGGCTCTCAGGCCCCGATAA--ACT
3915063 CCCTTGGGTA
1 CCCTTGGGTA
3915073 AATCATGGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
30 2 0.06
31 1 0.03
32 32 0.91
ACGTcount: A:0.18, C:0.31, G:0.27, T:0.24
Consensus pattern (32 bp):
CCCTTGGGTAGGCTCTCAGGCCCCGATAAACT
Found at i:3921208 original size:15 final size:14
Alignment explanation
Indices: 3921182--3921222 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 14
3921172 ACTATATAAA
3921182 AAATAATATTTAAT
1 AAATAATATTTAAT
3921196 AAATAATTATTTAAT
1 AAATAA-TATTTAAT
3921211 ATTAATAATATT
1 A--AATAATATT
3921223 CATATAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.25
15 9 0.38
16 4 0.17
17 5 0.21
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (14 bp):
AAATAATATTTAAT
Found at i:3921488 original size:16 final size:17
Alignment explanation
Indices: 3921460--3921491 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
3921450 AAAGGCATTG
3921460 GATAAATAAATAAATAA
1 GATAAATAAATAAATAA
3921477 GATAAA-AAATAAATA
1 GATAAATAAATAAATA
3921492 TAAAAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
GATAAATAAATAAATAA
Found at i:3922426 original size:498 final size:497
Alignment explanation
Indices: 3921480--3922475 Score: 1974
Period size: 498 Copynumber: 2.0 Consensus size: 497
3921470 TAAATAAGAT
3921480 AAAAAATAAATATAAAAAGTGTTATAGTACTAGTACAACAGCCATACATATATACATATAAAATA
1 AAAAAATAAATATAAAAAGTGTTATAGTACTAGTACAACAGCCATACATATATACATATAAAATA
3921545 CTAATAACAAATAAAAAAAATTATTTCATATAAGAAAAAGTACAGGGACCAAATCAAAATTACAA
66 CTAATAACAAATAAAAAAAATTATTTCATATAAGAAAAAGTACAGGGACCAAATCAAAATTACAA
3921610 AAAAGTGCATGGGGCATCGAAGCATTTAACCTTAATATTTTCATAAATGGTTGTTAGAATAAATA
131 AAAAGTGCATGGGGCATCGAAGCATTTAACCTTAATATTTTCATAAATGGTTGTTAGAATAAATA
3921675 TTAAATAAATTTTAAGGACCTAAAGCATAAATATAGATATTTCCAATGCAACTAAAACAAGAGGA
196 TTAAATAAATTTTAAGGACCTAAAGCATAAATATAGATATTTCCAATGCAACTAAAACAAGAGGA
3921740 CTAAAATAAACCAATTATCAAATTAACAACCTAAATCAAACATTTAACCATAATACTTACATATG
261 CTAAAATAAACCAATTATCAAATTAACAACCTAAATCAAACATTTAACCATAATACTTACATATG
3921805 CACAATGACTAAAATGTAAAAACATAAACATTTGAACTTTGAAATTGTAAATATTTCATTGCATT
326 CACAATGACTAAAATGTAAAAACATAAACATTTGAACTTTGAAATTGTAAATATTTCATTGCATT
3921870 TCATGACCACGATAGAAGGTTACAAAGTATGAGGAACCTAAACAGATATTTGCCCCTAAAACCCA
391 TCATGACCACGATAGAAGGTTACAAAGTATGAGGAACCTAAACAGATATTTGCCCCTAAAACCCA
3921935 AAAACACGGGGAAGGTTAAGGTGAAACGACGTCGTGTTGAAG
456 AAAACACGGGGAAGGTTAAGGTGAAACGACGTCGTGTTGAAG
*
3921977 AAAATAATATATATAAAAAGTGTTATAGTACTAGTACAACAGCCATACATATATACATATAAAAT
1 AAAA-AATAAATATAAAAAGTGTTATAGTACTAGTACAACAGCCATACATATATACATATAAAAT
3922042 ACTAATAACAAATAAAAAAAATTATTTCATATAAGAAAAAGTACAGGGACCAAATCAAAATTACA
65 ACTAATAACAAATAAAAAAAATTATTTCATATAAGAAAAAGTACAGGGACCAAATCAAAATTACA
3922107 AAAAAGTGCATGGGGCATCGAAGCATTTAACCTTAATATTTTCATAAATGGTTGTTAGAATAAAT
130 AAAAAGTGCATGGGGCATCGAAGCATTTAACCTTAATATTTTCATAAATGGTTGTTAGAATAAAT
3922172 ATTAAATAAATTTTAAGGACCTAAAGCATAAATATAGATATTTCCAATGCAACTAAAACAAGAGG
195 ATTAAATAAATTTTAAGGACCTAAAGCATAAATATAGATATTTCCAATGCAACTAAAACAAGAGG
3922237 ACTAAAATAAACCAATTATCAAATTAACAACCTAAATCAAACATTTAACCATAATACTTACATAT
260 ACTAAAATAAACCAATTATCAAATTAACAACCTAAATCAAACATTTAACCATAATACTTACATAT
3922302 GCACAATGACTAAAATGTAAAAACATAAACATTTGAACTTTGAAATTGTAAATATTTCATTGCAT
325 GCACAATGACTAAAATGTAAAAACATAAACATTTGAACTTTGAAATTGTAAATATTTCATTGCAT
3922367 TTCATGACCACGATAGAAGGTTACAAAGTATGAGGAACCTAAACAGATATTTGCCCCTAAAACCC
390 TTCATGACCACGATAGAAGGTTACAAAGTATGAGGAACCTAAACAGATATTTGCCCCTAAAACCC
3922432 AAAAACACGGGGAAGGTTAAGGTGAAACGACGTCGTGTTGAAG
455 AAAAACACGGGGAAGGTTAAGGTGAAACGACGTCGTGTTGAAG
3922475 A
1 A
3922476 GCTCATTTAT
Statistics
Matches: 497, Mismatches: 1, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
497 4 0.01
498 493 0.99
ACGTcount: A:0.47, C:0.14, G:0.13, T:0.26
Consensus pattern (497 bp):
AAAAAATAAATATAAAAAGTGTTATAGTACTAGTACAACAGCCATACATATATACATATAAAATA
CTAATAACAAATAAAAAAAATTATTTCATATAAGAAAAAGTACAGGGACCAAATCAAAATTACAA
AAAAGTGCATGGGGCATCGAAGCATTTAACCTTAATATTTTCATAAATGGTTGTTAGAATAAATA
TTAAATAAATTTTAAGGACCTAAAGCATAAATATAGATATTTCCAATGCAACTAAAACAAGAGGA
CTAAAATAAACCAATTATCAAATTAACAACCTAAATCAAACATTTAACCATAATACTTACATATG
CACAATGACTAAAATGTAAAAACATAAACATTTGAACTTTGAAATTGTAAATATTTCATTGCATT
TCATGACCACGATAGAAGGTTACAAAGTATGAGGAACCTAAACAGATATTTGCCCCTAAAACCCA
AAAACACGGGGAAGGTTAAGGTGAAACGACGTCGTGTTGAAG
Found at i:3923855 original size:18 final size:17
Alignment explanation
Indices: 3923822--3923855 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
3923812 TTCTGGGCTT
*
3923822 ATTTTCAAATCAAAATG
1 ATTTTCAAACCAAAATG
3923839 ATTTTCAAAACCAAAAT
1 ATTTTC-AAACCAAAAT
3923856 ATGGCGTTGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.50, C:0.15, G:0.03, T:0.32
Consensus pattern (17 bp):
ATTTTCAAACCAAAATG
Found at i:3927163 original size:11 final size:11
Alignment explanation
Indices: 3927147--3927176 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
3927137 TGTATTTGAT
3927147 GAGCAAAAAGG
1 GAGCAAAAAGG
3927158 GAGCAAAAAGG
1 GAGCAAAAAGG
*
3927169 AAGCAAAA
1 GAGCAAAA
3927177 CCGATACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.30, T:0.00
Consensus pattern (11 bp):
GAGCAAAAAGG
Found at i:3928678 original size:2 final size:2
Alignment explanation
Indices: 3928673--3928723 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
3928663 TATATATATA
* *
3928673 TG TG TG TG TG TG TG TG TG TG TG TC TG TG TG TG TG TG TG TG TC
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
3928715 TG TG TG TG T
1 TG TG TG TG T
3928724 CTGTTTTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.00, C:0.04, G:0.45, T:0.51
Consensus pattern (2 bp):
TG
Found at i:3929255 original size:24 final size:25
Alignment explanation
Indices: 3929214--3929275 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
3929204 AATTGACATC
* * * *
3929214 AACACAATCAACATTAACTATCA-G
1 AACACAATTAATACTAACAATCACG
* *
3929238 AACACAATTAATACTAACAATTACT
1 AACACAATTAATACTAACAATCACG
3929263 AACACAATTAATA
1 AACACAATTAATA
3929276 TTTCCAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (25 bp):
AACACAATTAATACTAACAATCACG
Found at i:3929269 original size:25 final size:25
Alignment explanation
Indices: 3929238--3929313 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
3929228 TAACTATCAG
* *
3929238 AACACAATTAATACTAACAATTACT
1 AACACAATTAATATTAACAATTAAT
**
3929263 AACACAATTAATATTTCCAATTAAT
1 AACACAATTAATATTAACAATTAAT
*
3929288 AACACAATTAATATTCACAATTAAT
1 AACACAATTAATATTAACAATTAAT
3929313 A
1 A
3929314 TTCTTTGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (25 bp):
AACACAATTAATATTAACAATTAAT
Found at i:3929315 original size:13 final size:13
Alignment explanation
Indices: 3929240--3929316 Score: 79
Period size: 13 Copynumber: 6.1 Consensus size: 13
3929230 ACTATCAGAA
*
3929240 CACAATTAATACT
1 CACAATTAATATT
* * *
3929253 AACAATTACTA-A
1 CACAATTAATATT
3929265 CACAATTAATATTT
1 CACAATTAATA-TT
*
3929279 C-CAATTAATA-A
1 CACAATTAATATT
3929290 CACAATTAATATT
1 CACAATTAATATT
3929303 CACAATTAATATT
1 CACAATTAATATT
3929316 C
1 C
3929317 TTTGACCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.02
12 18 0.35
13 32 0.62
14 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CACAATTAATATT
Found at i:3929492 original size:17 final size:17
Alignment explanation
Indices: 3929454--3929505 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
3929444 GATTGTTTAA
* *
3929454 AATAAAATATTAATTCTG
1 AATAAAAAATTAAAT-TG
3929472 -ATAAAAAATTAAATTG
1 AATAAAAAATTAAATTG
3929488 AATAAAAATATATAAATT
1 AATAAAAA-AT-TAAATT
3929506 ATAGTCGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 2 0.07
19 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AATAAAAAATTAAATTG
Found at i:3932528 original size:19 final size:21
Alignment explanation
Indices: 3932504--3932561 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
3932494 GGACCTAGAC
3932504 CAAAATAAA-AAATAA-ATAA
1 CAAAATAAATAAATAATATAA
3932523 CAAAATAAATAAATAATATAA
1 CAAAATAAATAAATAATATAA
* *
3932544 TATAATAATATATAATAA
1 CAAAATAA-ATA-AATAA
3932562 GTGTAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.27
20 6 0.18
21 10 0.30
22 3 0.09
23 5 0.15
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (21 bp):
CAAAATAAATAAATAATATAA
Found at i:3932543 original size:13 final size:11
Alignment explanation
Indices: 3932506--3932545 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
3932496 ACCTAGACCA
3932506 AAATAAAAAAT
1 AAATAAAAAAT
3932517 AAATAACAAAAT
1 AAATAA-AAAAT
*
3932529 AAATAAATAAT
1 AAATAAAAAAT
3932540 ATAATA
1 A-AATA
3932546 TAATAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:3932711 original size:30 final size:29
Alignment explanation
Indices: 3932674--3932763 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
3932664 ACTAAATTTT
3932674 TCAAAACCGTTTTTTAAAAACTATATATTA
1 TCAAAACCG-TTTTTAAAAACTATATATTA
* * ** *
3932704 TCGAAACCATTTCAAAAAACTATATATGTTT
1 TCAAAACCGTTTTTAAAAACTATATA--TTA
*
3932735 TCAAAACAG-TTTTAAAAACTATATATTA
1 TCAAAACCGTTTTTAAAAACTATATATTA
3932763 T
1 T
3932764 ACGTTTTCAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
28 3 0.06
29 15 0.32
30 21 0.45
31 8 0.17
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (29 bp):
TCAAAACCGTTTTTAAAAACTATATATTA
Found at i:3932795 original size:36 final size:35
Alignment explanation
Indices: 3932726--3933053 Score: 437
Period size: 36 Copynumber: 9.3 Consensus size: 35
3932716 CAAAAAACTA
3932726 TATATGTTTTCAAAAC-AGTTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTA-TTTTAAAAACTATATAT
* *
3932761 TATACGTTTTCAAAACTATTTTAAAAAACTATATAC
1 TATATGTTTTCAAAACTATTTT-AAAAACTATATAT
3932797 TATATG-TTTCAAAACTATTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
* *
3932831 TATACGTTTTCAAAACTATTATTAAACACTATATAT
1 TATATGTTTTCAAAACTATT-TTAAAAACTATATAT
* * *
3932867 TATACGTTTTCAAAAATATTTTAAAAAACTATATAC
1 TATATGTTTTCAAAACTATTTT-AAAAACTATATAT
*
3932903 TATATGTTTTCAAAACCATTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
* * *
3932938 TATACGTTTTCAAAACTATTATTGAACACTATATAT
1 TATATGTTTTCAAAACTATT-TTAAAAACTATATAT
* *
3932974 TATATGTTTTCAAAATTATTTTAAAAAACTATATAC
1 TATATGTTTTCAAAACTATTTT-AAAAACTATATAT
**
3933010 TATATGTTTTC-AAACCGTTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
*
3933044 TATAAGTTTT
1 TATATGTTTT
3933054 TTAAAAATAC
Statistics
Matches: 259, Mismatches: 27, Indels: 15
0.86 0.09 0.05
Matches are distributed among these distances:
34 38 0.15
35 88 0.34
36 133 0.51
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (35 bp):
TATATGTTTTCAAAACTATTTTAAAAACTATATAT
Found at i:3932966 original size:107 final size:107
Alignment explanation
Indices: 3932726--3933053 Score: 538
Period size: 107 Copynumber: 3.1 Consensus size: 107
3932716 CAAAAAACTA
* * *
3932726 TATATGTTTTCAAAAC-AGTT-TTAAAAACTATATATTATACGTTTTCAAAACTATTTTAAAAAA
1 TATACGTTTTCAAAACTA-TTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAA
*
3932789 CTATATACTATATG-TTTCAAAACTATTTTAAAAACTATATAT
65 CTATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
3932831 TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
1 TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
3932896 TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
66 TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
* * *
3932938 TATACGTTTTCAAAACTATTATTGAACACTATATATTATATGTTTTCAAAATTATTTTAAAAAAC
1 TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
*
3933003 TATATACTATATGTTTTC-AAACCGTTTTAAAAACTATATAT
66 TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
*
3933044 TATAAGTTTT
1 TATACGTTTT
3933054 TTAAAAATAC
Statistics
Matches: 211, Mismatches: 9, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
105 17 0.08
106 87 0.41
107 107 0.51
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (107 bp):
TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
Found at i:3933381 original size:24 final size:25
Alignment explanation
Indices: 3933340--3933401 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
3933330 AATTGACATC
* * * *
3933340 AACACAATCAACATTAACTATCA-G
1 AACACAATTAATACTAACAATCACG
* *
3933364 AACACAATTAATACTAACAATTACT
1 AACACAATTAATACTAACAATCACG
3933389 AACACAATTAATA
1 AACACAATTAATA
3933402 TTTCCAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (25 bp):
AACACAATTAATACTAACAATCACG
Found at i:3933395 original size:25 final size:25
Alignment explanation
Indices: 3933364--3933439 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
3933354 TAACTATCAG
* *
3933364 AACACAATTAATACTAACAATTACT
1 AACACAATTAATATTAACAATTAAT
**
3933389 AACACAATTAATATTTCCAATTAAT
1 AACACAATTAATATTAACAATTAAT
*
3933414 AACACAATTAATATTCACAATTAAT
1 AACACAATTAATATTAACAATTAAT
3933439 A
1 A
3933440 TTCTTTGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (25 bp):
AACACAATTAATATTAACAATTAAT
Found at i:3933441 original size:13 final size:13
Alignment explanation
Indices: 3933366--3933442 Score: 79
Period size: 13 Copynumber: 6.1 Consensus size: 13
3933356 ACTATCAGAA
*
3933366 CACAATTAATACT
1 CACAATTAATATT
* * *
3933379 AACAATTACTA-A
1 CACAATTAATATT
3933391 CACAATTAATATTT
1 CACAATTAATA-TT
*
3933405 C-CAATTAATA-A
1 CACAATTAATATT
3933416 CACAATTAATATT
1 CACAATTAATATT
3933429 CACAATTAATATT
1 CACAATTAATATT
3933442 C
1 C
3933443 TTTGACCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.02
12 18 0.35
13 32 0.62
14 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CACAATTAATATT
Found at i:3936246 original size:25 final size:24
Alignment explanation
Indices: 3936218--3936326 Score: 71
Period size: 25 Copynumber: 4.3 Consensus size: 24
3936208 GGAGAAAAAC
*
3936218 AAATCAAAATAAAATAATAAATTAA
1 AAAT-AAAATAAAATAATAAAATAA
*
3936243 AAATAAGAATAAAA-GATAAAATAA
1 AAATAA-AATAAAATAATAAAATAA
* *
3936267 AATATAATATAATATAATAATAATAA
1 AA-ATAAAATAAAATAATAA-AATAA
* *
3936293 TAGTAAAAAGTAAAGATAGA-AAAAT-A
1 AAAT-AAAA-TAAA-ATA-ATAAAATAA
3936319 AAATAAAA
1 AAATAAAA
3936327 GAGAATAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
24 17 0.26
25 24 0.37
26 12 0.18
27 6 0.09
28 5 0.08
29 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.06, T:0.23
Consensus pattern (24 bp):
AAATAAAATAAAATAATAAAATAA
Found at i:3936255 original size:12 final size:12
Alignment explanation
Indices: 3936223--3936278 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
3936213 AAAACAAATC
*
3936223 AAAATAAAATAAT
1 AAAATAAAA-GAT
*
3936236 AAATTAAAA-AT
1 AAAATAAAAGAT
3936247 AAGAATAAAAGAT
1 AA-AATAAAAGAT
*
3936260 AAAATAAAATAT
1 AAAATAAAAGAT
*
3936272 AATATAA
1 AAAATAA
3936279 TATAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 4 0.11
12 21 0.57
13 12 0.32
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (12 bp):
AAAATAAAAGAT
Found at i:3938414 original size:84 final size:84
Alignment explanation
Indices: 3938268--3938451 Score: 260
Period size: 84 Copynumber: 2.2 Consensus size: 84
3938258 TGATTTTCCT
* * * * *
3938268 TCGAAGGTCTTTAGTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATAATGTGCCTTG
1 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
* *
3938333 GAGTTGAGCGTAGTCGAAC
66 GAGTTAAGCGTAGTCAAAC
* * * * *
3938352 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGTCTTGAGTTTTGCTGCAAATGATATGCCTTG
1 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
3938417 GAGTTAAGCGTAGTCAAAC
66 GAGTTAAGCGTAGTCAAAC
3938436 TCGAAGGTCTTTTGTT
1 TCGAAGGTCTTTTGTT
3938452 TCAAGAGAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.23, C:0.17, G:0.25, T:0.34
Consensus pattern (84 bp):
TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
GAGTTAAGCGTAGTCAAAC
Found at i:3938489 original size:37 final size:36
Alignment explanation
Indices: 3938448--3938551 Score: 151
Period size: 33 Copynumber: 2.9 Consensus size: 36
3938438 GAAGGTCTTT
*
3938448 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTGTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT-TG
* *
3938485 TGTTTCAAGAGAAACAATCTCAAAGG---CTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTG
3938518 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
3938552 CCAAGAGAAA
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
33 27 0.46
34 4 0.07
36 4 0.07
37 24 0.41
ACGTcount: A:0.31, C:0.11, G:0.17, T:0.41
Consensus pattern (36 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTG
Found at i:3938607 original size:67 final size:66
Alignment explanation
Indices: 3938518--3938732 Score: 181
Period size: 66 Copynumber: 3.2 Consensus size: 66
3938508 AGGCTTTTTG
* * * * *
3938518 TGTTTCAAGAGAAACAATTTCAAAGGTT-TTTTTTCCAAGAGAAATTGTCTCCAGGGAGGCAAAA
1 TGTTTCAAGAGAAACAATTTCAAAGGTTGGTGTTT-CAAGAGAAACTGTCTCAAGGGAGACAAAA
3938582 TTT
65 -TT
* *
3938585 TGTTTCAAGAGAATC-ATATTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
3938649 TT
65 TT
* ** * * *
3938651 TGTTT-AATGTA-AAAC-ATATTCAAA-ATATTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACA
1 TGTTTCAA-G-AGAAACAAT-TTCAAAGGT-TGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
3938712 AAATT
62 AAATT
* *
3938717 TTTTTCTAAAAGAAAC
1 TGTTTC-AAGAGAAAC
3938733 TGTCTCAAGG
Statistics
Matches: 123, Mismatches: 17, Indels: 16
0.79 0.11 0.10
Matches are distributed among these distances:
65 3 0.02
66 60 0.49
67 54 0.44
68 6 0.05
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (66 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
T
Found at i:3938872 original size:36 final size:36
Alignment explanation
Indices: 3938813--3938991 Score: 115
Period size: 36 Copynumber: 5.1 Consensus size: 36
3938803 TCAAAGTTTA
* * * * *
3938813 TGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
3938849 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * **
3938885 CATTTCAGGGGAAA-TGTTTTC-----A-AC--GTTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
* * * *
3938913 ATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
3938950 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAATCT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT-T
3938987 TGTTT
1 TGTTT
3938992 AAAAAAAATA
Statistics
Matches: 107, Mismatches: 24, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
28 2 0.02
29 14 0.13
30 3 0.03
31 1 0.01
34 1 0.01
35 3 0.03
36 75 0.70
37 8 0.07
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.30
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:3938921 original size:101 final size:102
Alignment explanation
Indices: 3938792--3938984 Score: 334
Period size: 101 Copynumber: 1.9 Consensus size: 102
3938782 TTGTTTCAAT
* * *
3938792 GGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATTTGTTTCAA
1 GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
3938857 GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
66 GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
*
3938894 GGAAA-TGTTTTCAACGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1 GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
*
3938958 GGGAAACTATCTCAAGAGAGATAAAAT
66 GGGAAACTATCTCAAGAGAGACAAAAT
3938985 CTTGTTTAAA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
101 81 0.94
102 5 0.06
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (102 bp):
GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
Found at i:3939077 original size:72 final size:72
Alignment explanation
Indices: 3939001--3939149 Score: 262
Period size: 72 Copynumber: 2.1 Consensus size: 72
3938991 TAAAAAAAAT
* * *
3939001 AATCTTGAGGGAAATAAATTTTCTTTCGAGTAAAAGAGTCTTAAGTGAGACAAGGTCTGTTTTAA
1 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
3939066 GAATGAC
66 GAATGAC
*
3939073 AATCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
1 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
3939138 GAATGAC
66 GAATGAC
3939145 AATCT
1 AATCT
3939150 CAAGTGAGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (72 bp):
AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
GAATGAC
Found at i:3939115 original size:36 final size:36
Alignment explanation
Indices: 3939003--3939117 Score: 90
Period size: 36 Copynumber: 3.2 Consensus size: 36
3938993 AAAAAAATAA
* * * *
3939003 TCTTGAGGGAAATAAATTTTCTTTCGAGTAAAAGAG
1 TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
* * * * * * * *
3939039 TCTTAAGTGAGACAAGGTC-TGTTTTAAG-AATGACAA
1 TCTTAAGGGAAATAA-ATCTTCTTTTGAGTAA-AACAG
3939075 TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
1 TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
3939111 TCTTAAG
1 TCTTAAG
3939118 TGAGACAAGG
Statistics
Matches: 55, Mismatches: 20, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
35 4 0.07
36 48 0.87
37 3 0.05
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (36 bp):
TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
Found at i:3945968 original size:81 final size:80
Alignment explanation
Indices: 3945862--3946672 Score: 1052
Period size: 81 Copynumber: 10.0 Consensus size: 80
3945852 TTCATTTATG
* * * * *
3945862 TCAAAGGCATATTAGCCTTTCATCTAATTTGCATAATTGACACCTTCATGTTC-AATACACAACT
1 TCAAAGGTAT-TTAACCTTTCATCTAACTGGCATAATTGACACCTTC-TG-TCAAATGCACAACT
*
3945926 AGGCCATTAATCTTTTAC
63 AGGCTATTAATCTTTTAC
* * * *
3945944 TCAAAGGTATTTAGCCTTTTATCTAACTGGCATAATTGATACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
3946009 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* *
3946025 TCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CCTTCTGTCAAATGCACAACTAG
3946090 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* * * * * *
3946106 TCAAAGCTATTTAACCTTTCATCAAACTGGCATAATCGACACATTTCTATCAAATTCACAGA-TA
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACA-ACTA
3946170 GGCTATTAATCTTTTAC
64 GGCTATTAATCTTTTAC
* * * * ** *
3946187 TCAAAGGTATTTAACATGTCATCTAATTGACATAATTGACACCTTTCTGTCAAATGCACTGCTAA
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
3946252 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* * *
3946268 TCAAATGTATTTAACCTTTCATCTAACTAGAATAATTGACACCTTTCTGTCAAATGCACAACTA-
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
* *
3946332 GCTTTTAATATTTTAC
65 GCTATTAATCTTTTAC
* * *
3946348 TCATAGGTATTTAACCTTTCATCTAACTCGCATAATTGACACCTTTCTTTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
*
3946413 GCTATTAATCGTTTAC
65 GCTATTAATCTTTTAC
* * * *
3946429 ACAAAGGTATTTAACCTTTCATCTAAATGGCATAATTGACACCTTCCTGTCACATGCACAACCAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT-CTGTCAAATGCACAACTAG
*
3946494 TCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* *
3946510 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAAGTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACAACTAG
3946575 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
** * * * *
3946591 TCAAAGGTATTTAAATTTTCATCTAACTGGTATTATTGACACATTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACAACTAG
*
3946656 GCTATTAATATTTTAC
65 GCTATTAATCTTTTAC
3946672 T
1 T
3946673 TTAGAACAGT
Statistics
Matches: 646, Mismatches: 73, Indels: 21
0.87 0.10 0.03
Matches are distributed among these distances:
80 78 0.12
81 552 0.85
82 16 0.02
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (80 bp):
TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTCTGTCAAATGCACAACTAGG
CTATTAATCTTTTAC
Found at i:3946923 original size:57 final size:57
Alignment explanation
Indices: 3946833--3947081 Score: 356
Period size: 57 Copynumber: 4.4 Consensus size: 57
3946823 AAATTCATAT
* * * *
3946833 AATTTCTT-AGTTTTCGCACATAAAGTGCCCATACGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
* *
3946889 AACTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTATTTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
* * * *
3946946 AATTTCTTAACTTTATGCACACAAAGTTCCCATACGAAAATTAATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
* * * *
3947003 AATTTCTTAACTTTTTGCACACAAAGTGACCATATGGAAATTCATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
*
3947060 AATTTCTTAACTTTATGCACAC
1 AATTTCTTAACTTTTTGCACAC
3947082 TTAGTGCCAT
Statistics
Matches: 173, Mismatches: 19, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
56 7 0.04
57 166 0.96
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.35
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
Found at i:3947982 original size:20 final size:22
Alignment explanation
Indices: 3947947--3947997 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
3947937 TGGCTCAATA
3947947 GTATCGATACCTCTAC-C-ATG
1 GTATCGATACCTCTACACTATG
3947967 GTATCGATA-CTACTACACTATG
1 GTATCGATACCT-CTACACTATG
*
3947989 GTACCGATA
1 GTATCGATA
3947998 ATACGGTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 1 0.04
22 11 0.41
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (22 bp):
GTATCGATACCTCTACACTATG
Found at i:3949964 original size:24 final size:25
Alignment explanation
Indices: 3949923--3949984 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
3949913 AATTGACATC
* * * *
3949923 AACACAATCAACATTAACTATCA-G
1 AACACAATTAATACTAACAATCACG
* *
3949947 AACACAATTAATACTAACAATTACT
1 AACACAATTAATACTAACAATCACG
3949972 AACACAATTAATA
1 AACACAATTAATA
3949985 TTTCCAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (25 bp):
AACACAATTAATACTAACAATCACG
Found at i:3949978 original size:25 final size:25
Alignment explanation
Indices: 3949947--3950022 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
3949937 TAACTATCAG
* *
3949947 AACACAATTAATACTAACAATTACT
1 AACACAATTAATATTAACAATTAAT
**
3949972 AACACAATTAATATTTCCAATTAAT
1 AACACAATTAATATTAACAATTAAT
*
3949997 AACACAATTAATATTCACAATTAAT
1 AACACAATTAATATTAACAATTAAT
3950022 A
1 A
3950023 TTCTTTGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (25 bp):
AACACAATTAATATTAACAATTAAT
Found at i:3950024 original size:13 final size:13
Alignment explanation
Indices: 3949949--3950025 Score: 79
Period size: 13 Copynumber: 6.1 Consensus size: 13
3949939 ACTATCAGAA
*
3949949 CACAATTAATACT
1 CACAATTAATATT
* * *
3949962 AACAATTACTA-A
1 CACAATTAATATT
3949974 CACAATTAATATTT
1 CACAATTAATA-TT
*
3949988 C-CAATTAATA-A
1 CACAATTAATATT
3949999 CACAATTAATATT
1 CACAATTAATATT
3950012 CACAATTAATATT
1 CACAATTAATATT
3950025 C
1 C
3950026 TTTGACCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.02
12 18 0.35
13 32 0.62
14 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CACAATTAATATT
Found at i:3950201 original size:17 final size:17
Alignment explanation
Indices: 3950163--3950214 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
3950153 GATTGTTTAA
* *
3950163 AATAAAATATTAATTCTG
1 AATAAAAAATTAAAT-TG
3950181 -ATAAAAAATTAAATTG
1 AATAAAAAATTAAATTG
3950197 AATAAAAATATATAAATT
1 AATAAAAA-AT-TAAATT
3950215 ATAGTCGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 2 0.07
19 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AATAAAAAATTAAATTG
Found at i:3953258 original size:19 final size:21
Alignment explanation
Indices: 3953234--3953291 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
3953224 GGACCTAGAC
3953234 CAAAATAAA-AAATAA-ATAA
1 CAAAATAAATAAATAATATAA
3953253 CAAAATAAATAAATAATATAA
1 CAAAATAAATAAATAATATAA
* *
3953274 TATAATAATATATAATAA
1 CAAAATAA-ATA-AATAA
3953292 GTGTAATAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.27
20 6 0.18
21 10 0.30
22 3 0.09
23 5 0.15
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (21 bp):
CAAAATAAATAAATAATATAA
Found at i:3953273 original size:13 final size:11
Alignment explanation
Indices: 3953236--3953275 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
3953226 ACCTAGACCA
3953236 AAATAAAAAAT
1 AAATAAAAAAT
3953247 AAATAACAAAAT
1 AAATAA-AAAAT
*
3953259 AAATAAATAAT
1 AAATAAAAAAT
3953270 ATAATA
1 A-AATA
3953276 TAATAATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.75, C:0.03, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATAAAAAAT
Found at i:3953404 original size:71 final size:71
Alignment explanation
Indices: 3953329--3953785 Score: 312
Period size: 71 Copynumber: 6.6 Consensus size: 71
3953319 ATATTATATG
* * *
3953329 TTTTTGAAAAATATTTTTAAAA-TATATATTATATGTTTTCAAAACCTTTTTAAAAAAAACCT-T
1 TTTTTCAAAAATATTTTAAAAACTATATATTATACGTTTTCAAAACC-TTTTAAAAAAAA-CTAT
3953392 ATACTAAA
64 ATACTAAA
* * * *
3953400 TTTTTCAAAACCGTTTTTTAAAAACTATATATTAT-CG------AAACCATTT-CAAAAAACTAT
1 TTTTTCAAAA--ATATTTTAAAAACTATATATTATACGTTTTCAAAACCTTTTAAAAAAAACTAT
3953457 ATA-T---
64 ATACTAAA
* * *
3953461 GTTTTCAAAACA-GTTTTAAAAACTATATATTATACGTTTTCAAAA-CTATTT-TAAAAAACTAT
1 TTTTTCAAAA-ATATTTTAAAAACTATATATTATACGTTTTCAAAACCT-TTTAAAAAAAACTAT
*
3953523 ATACTATA
64 ATACTAAA
* * ** *
3953531 TGTTTTCAAAACTATTTTAAAAACTATATATTATACGTTTTCAAAA-CTATTATTAAACACTATA
1 T-TTTTCAAAAATATTTTAAAAACTATATATTATACGTTTTCAAAACCTTTTAAAAAAAACTATA
* *
3953595 TATTATAC
65 TACTA-AA
* * *
3953603 GTTTTCAAAAATATTTTAAAAAACTATATACTATATGTTTTCAAAACCATTTT---AAAAACTAT
1 TTTTTCAAAAATATTTT-AAAAACTATATATTATACGTTTTCAAAACC-TTTTAAAAAAAACTAT
* *
3953665 ATATTATAC
64 ATACTA-AA
* * * * * **
3953674 GTTTTCAAAACTATTATTGAACACTATATATTATATGTTTTCAAAA--TTATTTTAAAAAACTAT
1 TTTTTCAAAAATATT-TTAAAAACTATATATTATACGTTTTCAAAACCTT-TTAAAAAAAACTAT
*
3953737 ATACTATA
64 ATACTAAA
*** *
3953745 TGTTTTCAAAACCGTTTTAAAAACTATATATTATAAGTTTT
1 T-TTTTCAAAAATATTTTAAAAACTATATATTATACGTTTT
3953786 TTAAAAAATA
Statistics
Matches: 317, Mismatches: 40, Indels: 58
0.76 0.10 0.14
Matches are distributed among these distances:
59 20 0.06
60 3 0.01
61 9 0.03
64 3 0.01
65 11 0.03
66 22 0.07
67 6 0.02
68 2 0.01
69 2 0.01
70 2 0.01
71 159 0.50
72 54 0.17
73 11 0.03
74 13 0.04
ACGTcount: A:0.43, C:0.11, G:0.04, T:0.42
Consensus pattern (71 bp):
TTTTTCAAAAATATTTTAAAAACTATATATTATACGTTTTCAAAACCTTTTAAAAAAAACTATAT
ACTAAA
Found at i:3953441 original size:30 final size:29
Alignment explanation
Indices: 3953404--3953493 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 29
3953394 ACTAAATTTT
3953404 TCAAAACCGTTTTTTAAAAACTATATATTA
1 TCAAAACCG-TTTTTAAAAACTATATATTA
* * ** *
3953434 TCGAAACCATTTCAAAAAACTATATATGTTT
1 TCAAAACCGTTTTTAAAAACTATATA--TTA
*
3953465 TCAAAACAG-TTTTAAAAACTATATATTA
1 TCAAAACCGTTTTTAAAAACTATATATTA
3953493 T
1 T
3953494 ACGTTTTCAA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
28 3 0.06
29 15 0.32
30 21 0.45
31 8 0.17
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (29 bp):
TCAAAACCGTTTTTAAAAACTATATATTA
Found at i:3953525 original size:36 final size:35
Alignment explanation
Indices: 3953456--3953785 Score: 455
Period size: 36 Copynumber: 9.3 Consensus size: 35
3953446 CAAAAAACTA
3953456 TATATGTTTTCAAAAC-AGTTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTA-TTTTAAAAACTATATAT
* *
3953491 TATACGTTTTCAAAACTATTTTAAAAAACTATATAC
1 TATATGTTTTCAAAACTATTTT-AAAAACTATATAT
3953527 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
* *
3953562 TATACGTTTTCAAAACTATTATTAAACACTATATAT
1 TATATGTTTTCAAAACTATT-TTAAAAACTATATAT
* * *
3953598 TATACGTTTTCAAAAATATTTTAAAAAACTATATAC
1 TATATGTTTTCAAAACTATTTT-AAAAACTATATAT
*
3953634 TATATGTTTTCAAAACCATTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
* * *
3953669 TATACGTTTTCAAAACTATTATTGAACACTATATAT
1 TATATGTTTTCAAAACTATT-TTAAAAACTATATAT
* *
3953705 TATATGTTTTCAAAATTATTTTAAAAAACTATATAC
1 TATATGTTTTCAAAACTATTTT-AAAAACTATATAT
**
3953741 TATATGTTTTCAAAACCGTTTTAAAAACTATATAT
1 TATATGTTTTCAAAACTATTTTAAAAACTATATAT
*
3953776 TATAAGTTTT
1 TATATGTTTT
3953786 TTAAAAAATA
Statistics
Matches: 262, Mismatches: 27, Indels: 12
0.87 0.09 0.04
Matches are distributed among these distances:
35 105 0.40
36 157 0.60
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (35 bp):
TATATGTTTTCAAAACTATTTTAAAAACTATATAT
Found at i:3953596 original size:107 final size:107
Alignment explanation
Indices: 3953456--3953785 Score: 556
Period size: 107 Copynumber: 3.1 Consensus size: 107
3953446 CAAAAAACTA
* * *
3953456 TATATGTTTTCAAAAC-AGTT-TTAAAAACTATATATTATACGTTTTCAAAACTATTTTAAAAAA
1 TATACGTTTTCAAAACTA-TTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAA
*
3953519 CTATATACTATATGTTTTCAAAACTATTTTAAAAACTATATAT
65 CTATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
3953562 TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
1 TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
3953627 TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
66 TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
* * *
3953669 TATACGTTTTCAAAACTATTATTGAACACTATATATTATATGTTTTCAAAATTATTTTAAAAAAC
1 TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
*
3953734 TATATACTATATGTTTTCAAAACCGTTTTAAAAACTATATAT
66 TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
*
3953776 TATAAGTTTT
1 TATACGTTTT
3953786 TTAAAAAATA
Statistics
Matches: 213, Mismatches: 9, Indels: 3
0.95 0.04 0.01
Matches are distributed among these distances:
106 17 0.08
107 196 0.92
ACGTcount: A:0.42, C:0.11, G:0.04, T:0.43
Consensus pattern (107 bp):
TATACGTTTTCAAAACTATTATTAAACACTATATATTATACGTTTTCAAAAATATTTTAAAAAAC
TATATACTATATGTTTTCAAAACCATTTTAAAAACTATATAT
Found at i:3954116 original size:24 final size:25
Alignment explanation
Indices: 3954075--3954136 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
3954065 AATTGACATC
* * * *
3954075 AACACAATCAACATTAACTATCA-G
1 AACACAATTAATACTAACAATCACG
* *
3954099 AACACAATTAATACTAACAATTACT
1 AACACAATTAATACTAACAATCACG
3954124 AACACAATTAATA
1 AACACAATTAATA
3954137 TTTCCAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (25 bp):
AACACAATTAATACTAACAATCACG
Found at i:3954130 original size:25 final size:25
Alignment explanation
Indices: 3954099--3954174 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
3954089 TAACTATCAG
* *
3954099 AACACAATTAATACTAACAATTACT
1 AACACAATTAATATTAACAATTAAT
**
3954124 AACACAATTAATATTTCCAATTAAT
1 AACACAATTAATATTAACAATTAAT
*
3954149 AACACAATTAATATTCACAATTAAT
1 AACACAATTAATATTAACAATTAAT
3954174 A
1 A
3954175 TTCTTTGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (25 bp):
AACACAATTAATATTAACAATTAAT
Found at i:3954176 original size:13 final size:13
Alignment explanation
Indices: 3954101--3954177 Score: 79
Period size: 13 Copynumber: 6.1 Consensus size: 13
3954091 ACTATCAGAA
*
3954101 CACAATTAATACT
1 CACAATTAATATT
* * *
3954114 AACAATTACTA-A
1 CACAATTAATATT
3954126 CACAATTAATATTT
1 CACAATTAATA-TT
*
3954140 C-CAATTAATA-A
1 CACAATTAATATT
3954151 CACAATTAATATT
1 CACAATTAATATT
3954164 CACAATTAATATT
1 CACAATTAATATT
3954177 C
1 C
3954178 TTTGACCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.02
12 18 0.35
13 32 0.62
14 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CACAATTAATATT
Found at i:3956983 original size:25 final size:24
Alignment explanation
Indices: 3956955--3957063 Score: 71
Period size: 25 Copynumber: 4.3 Consensus size: 24
3956945 GGAGAAAAAC
*
3956955 AAATCAAAATAAAATAATAAATTAA
1 AAAT-AAAATAAAATAATAAAATAA
*
3956980 AAATAAGAATAAAA-GATAAAATAA
1 AAATAA-AATAAAATAATAAAATAA
* *
3957004 AATATAATATAATATAATAATAATAA
1 AA-ATAAAATAAAATAATAA-AATAA
* *
3957030 TAGTAAAAAGTAAATATAGA-AAAAT-A
1 AAAT-AAAA-TAAA-ATA-ATAAAATAA
3957056 AAATAAAA
1 AAATAAAA
3957064 GAGAATAAAA
Statistics
Matches: 65, Mismatches: 11, Indels: 16
0.71 0.12 0.17
Matches are distributed among these distances:
24 17 0.26
25 24 0.37
26 12 0.18
27 6 0.09
28 5 0.08
29 1 0.02
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.24
Consensus pattern (24 bp):
AAATAAAATAAAATAATAAAATAA
Found at i:3956992 original size:12 final size:12
Alignment explanation
Indices: 3956960--3957015 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
3956950 AAAACAAATC
*
3956960 AAAATAAAATAAT
1 AAAATAAAA-GAT
*
3956973 AAATTAAAA-AT
1 AAAATAAAAGAT
3956984 AAGAATAAAAGAT
1 AA-AATAAAAGAT
*
3956997 AAAATAAAATAT
1 AAAATAAAAGAT
*
3957009 AATATAA
1 AAAATAA
3957016 TATAATAATA
Statistics
Matches: 37, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
11 4 0.11
12 21 0.57
13 12 0.32
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (12 bp):
AAAATAAAAGAT
Found at i:3957119 original size:32 final size:33
Alignment explanation
Indices: 3957058--3957120 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
3957048 GAAAAATAAA
3957058 ATAAAAGAGAATAAAAAGAGTATATATATATAC
1 ATAAAAGAGAATAAAAAGAGTATATATATATAC
*
3957091 ATAAAATGA-AATAAAATGA-TATATATATAT
1 ATAAAA-GAGAATAAAAAGAGTATATATATAT
3957121 TTATATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 11 0.39
33 15 0.54
34 2 0.07
ACGTcount: A:0.60, C:0.02, G:0.10, T:0.29
Consensus pattern (33 bp):
ATAAAAGAGAATAAAAAGAGTATATATATATAC
Found at i:3959157 original size:84 final size:84
Alignment explanation
Indices: 3959011--3959194 Score: 260
Period size: 84 Copynumber: 2.2 Consensus size: 84
3959001 TGATTTTCCT
* * * * *
3959011 TCGAAGGTCTTTGGTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATAATGTGCCTTG
1 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
* *
3959076 GAGTTGAGCGTAGTCGAAC
66 GAGTTAAGCGTAGTCAAAC
* * * * *
3959095 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGTCTTGAGTTTTGCTGCAAATGATATGCCTTG
1 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
3959160 GAGTTAAGCGTAGTCAAAC
66 GAGTTAAGCGTAGTCAAAC
3959179 TCGAAGGTCTTTTGTT
1 TCGAAGGTCTTTTGTT
3959195 TCAAGAGAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.34
Consensus pattern (84 bp):
TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
GAGTTAAGCGTAGTCAAAC
Found at i:3959234 original size:38 final size:37
Alignment explanation
Indices: 3959191--3959295 Score: 146
Period size: 33 Copynumber: 2.9 Consensus size: 37
3959181 GAAGGTCTTT
*
3959191 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTTGTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT-TG
* *
3959229 TGTTTCAAGAGAAACAATCTCAAAGG----CTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTTG
3959262 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
3959296 CCAAGAGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
33 27 0.47
34 4 0.07
37 3 0.05
38 24 0.41
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (37 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTTG
Found at i:3959268 original size:33 final size:32
Alignment explanation
Indices: 3959182--3959305 Score: 119
Period size: 33 Copynumber: 3.8 Consensus size: 32
3959172 GTCAAACTCG
* * *
3959182 AAGGTCTTT-TGTTTCAAGAGAAACATTTTCA
1 AAGGTTTTTGTGTTTCAAGAGAAACAATCTCA
3959213 AAGGTTTTTTTTTGTGTGTTTCAAGAGAAACAATCTCA
1 AAGG-----TTTT-TGTGTTTCAAGAGAAACAATCTCA
*
3959251 AAGGCTTTTTGTGTTTCAAGAGAAACAATTTCA
1 AAGG-TTTTTGTGTTTCAAGAGAAACAATCTCA
*
3959284 AAGGTTTTT-T-TTCCAAGAGAAA
1 AAGGTTTTTGTGTTTCAAGAGAAA
3959306 TTGTCTCCAG
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
30 11 0.14
31 5 0.06
32 5 0.06
33 27 0.34
34 4 0.05
36 3 0.04
37 1 0.01
38 24 0.30
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (32 bp):
AAGGTTTTTGTGTTTCAAGAGAAACAATCTCA
Found at i:3959351 original size:67 final size:66
Alignment explanation
Indices: 3959262--3959458 Score: 172
Period size: 66 Copynumber: 3.0 Consensus size: 66
3959252 AGGCTTTTTG
* * * * *
3959262 TGTTTCAAGAGAAACAATTTCAAAGGTT-TTTTTTCCAAGAGAAATTGTCTCCAGGGAGGCAAAA
1 TGTTTCAAGAGAAACAATTTCAAAGGTTGGTGTTT-CAAGAGAAACTGTCTCAAGGGAGACAAAA
3959326 TTT
65 -TT
* *
3959329 TGTTTCAAGAGAATC-ATATTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACGAAA
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA
3959393 TT
65 TT
* ** * * *
3959395 TGTTT-AATGTA-AAAC-ATATTCAAA-ATATTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACA
1 TGTTTCAA-G-AGAAACAAT-TTCAAAGGT-TGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACA
3959456 AAA
62 AAA
3959459 AATTTTTCTA
Statistics
Matches: 110, Mismatches: 15, Indels: 11
0.81 0.11 0.08
Matches are distributed among these distances:
65 3 0.03
66 53 0.48
67 50 0.45
68 4 0.04
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (66 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTGGTGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAAT
T
Found at i:3959616 original size:36 final size:36
Alignment explanation
Indices: 3959557--3959735 Score: 115
Period size: 36 Copynumber: 5.1 Consensus size: 36
3959547 TCAAAGTTTA
* * * * *
3959557 TGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
3959593 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** * * * * *
3959629 CATTTCAGGGGAAA-TGTTTTC-A-A-TG-----TTT
1 TGTTTCAAGGGAAACT-ATCTCAAGAGAGACAAAATT
* * * *
3959657 ATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATT
1 -TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
*
3959694 TGTTTCAAGGGAAACTATCTCAAGAGAGATAAAATCT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAAT-T
3959731 TGTTT
1 TGTTT
3959736 TAAAAAAAAT
Statistics
Matches: 106, Mismatches: 25, Indels: 23
0.69 0.16 0.15
Matches are distributed among these distances:
28 2 0.02
29 14 0.13
30 2 0.02
32 1 0.01
33 1 0.01
34 1 0.01
35 2 0.02
36 75 0.71
37 8 0.08
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:3959666 original size:101 final size:102
Alignment explanation
Indices: 3959536--3959728 Score: 334
Period size: 101 Copynumber: 1.9 Consensus size: 102
3959526 TTGTTTCAAT
* * *
3959536 GGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATTTGTTTCAA
1 GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
3959601 GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
66 GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
*
3959638 GGAAA-TGTTTTCAATGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
1 GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
*
3959702 GGGAAACTATCTCAAGAGAGATAAAAT
66 GGGAAACTATCTCAAGAGAGACAAAAT
3959729 CTTGTTTTAA
Statistics
Matches: 86, Mismatches: 5, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
101 81 0.94
102 5 0.06
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.30
Consensus pattern (102 bp):
GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
Found at i:3959823 original size:72 final size:72
Alignment explanation
Indices: 3959746--3959894 Score: 262
Period size: 72 Copynumber: 2.1 Consensus size: 72
3959736 TAAAAAAAAT
* * *
3959746 AATCTTGAGGGAAATAAATTTTCTTTCGAGTAAAAGAGTCTTAAGTGAGACAAGGTCTGTTTTAA
1 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
3959811 GAATGAC
66 GAATGAC
*
3959818 AATCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
1 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
3959883 GAATGAC
66 GAATGAC
3959890 AATCT
1 AATCT
3959895 CAAGTGAGAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
72 73 1.00
ACGTcount: A:0.37, C:0.11, G:0.20, T:0.32
Consensus pattern (72 bp):
AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAA
GAATGAC
Found at i:3959860 original size:36 final size:36
Alignment explanation
Indices: 3959748--3959862 Score: 90
Period size: 36 Copynumber: 3.2 Consensus size: 36
3959738 AAAAAAATAA
* * * *
3959748 TCTTGAGGGAAATAAATTTTCTTTCGAGTAAAAGAG
1 TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
* * * * * * * *
3959784 TCTTAAGTGAGACAAGGTC-TGTTTTAAG-AATGACAA
1 TCTTAAGGGAAATAA-ATCTTCTTTTGAGTAA-AACAG
3959820 TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
1 TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
3959856 TCTTAAG
1 TCTTAAG
3959863 TGAGACAAGG
Statistics
Matches: 55, Mismatches: 20, Indels: 8
0.66 0.24 0.10
Matches are distributed among these distances:
35 4 0.07
36 48 0.87
37 3 0.05
ACGTcount: A:0.37, C:0.10, G:0.20, T:0.33
Consensus pattern (36 bp):
TCTTAAGGGAAATAAATCTTCTTTTGAGTAAAACAG
Found at i:3964777 original size:37 final size:37
Alignment explanation
Indices: 3964735--3964809 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
3964725 AATGAAACTC
3964735 AAATCAAAACATTAGTGCAATTATTTACAAGAAATCA
1 AAATCAAAACATTAGTGCAATTATTTACAAGAAATCA
3964772 AAATCAAAACATTAGTGCAATTATTTACAAGAAATCA
1 AAATCAAAACATTAGTGCAATTATTTACAAGAAATCA
3964809 A
1 A
3964810 TAAAACGTTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.52, C:0.13, G:0.08, T:0.27
Consensus pattern (37 bp):
AAATCAAAACATTAGTGCAATTATTTACAAGAAATCA
Found at i:3965755 original size:2 final size:2
Alignment explanation
Indices: 3965748--3965776 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
3965738 AAAATGAATA
3965748 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
3965777 ATTAACTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:3965983 original size:2 final size:2
Alignment explanation
Indices: 3965971--3966011 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
3965961 TATTTTGATA
*
3965971 AT AT TT 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 AT AT A
3966012 AGGATTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:3966733 original size:51 final size:51
Alignment explanation
Indices: 3966672--3966810 Score: 154
Period size: 51 Copynumber: 2.7 Consensus size: 51
3966662 TAAAGTTATC
* *
3966672 ATATATATATATTTATAACTATT-ATATTTATTATTATTTTACTATTAACGT
1 ATATAAATATATTTATAACTATTGATA-CTATTATTATTTTACTATTAACGT
* ** * *
3966723 ATATAAATATATTTTTCTCTTTTGCTACTATTATTATTTTACTATTAACGT
1 ATATAAATATATTTATAACTATTGATACTATTATTATTTTACTATTAACGT
* ** * *
3966774 ATATAAATATATTTTTCTCTTTTGCTACTATTATTAT
1 ATATAAATATATTTATAACTATTGATACTATTATTAT
3966811 CATTATATGT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 78 0.98
52 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55
Consensus pattern (51 bp):
ATATAAATATATTTATAACTATTGATACTATTATTATTTTACTATTAACGT
Found at i:3966735 original size:26 final size:26
Alignment explanation
Indices: 3966706--3966788 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
3966696 TATTTATTAT
3966706 TATTTTACTATTAACGTATATAAATA
1 TATTTTACTATTAACGTATATAAATA
* * ** *
3966732 TATTTTTCTCTT-TTGCTACTAT-TAT-
1 TATTTTACTATTAACG-TA-TATAAATA
3966757 TATTTTACTATTAACGTATATAAATA
1 TATTTTACTATTAACGTATATAAATA
3966783 TATTTT
1 TATTTT
3966789 TCTCTTTTGC
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 3 0.07
25 15 0.36
26 21 0.50
27 3 0.07
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTTTACTATTAACGTATATAAATA
Found at i:3966839 original size:51 final size:50
Alignment explanation
Indices: 3966700--3966815 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 50
3966690 CTATTATATT
*
3966700 TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
1 TATTATTATATTACTATTAAC-TATATAAATATATTTTTCTCTTTTGCTAC
*
3966751 TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
1 TATTATTATATTACTATTAAC-TATATAAATATATTTTTCTCTTTTGCTAC
3966802 TATTATTATCATTA
1 TATTATTAT-ATTA
3966816 TATGTATATT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 60 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.55
Consensus pattern (50 bp):
TATTATTATATTACTATTAACTATATAAATATATTTTTCTCTTTTGCTAC
Found at i:3970364 original size:22 final size:21
Alignment explanation
Indices: 3970346--3970393 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
3970336 GAAAAGAAGT
3970346 AAAAAAGGAAAAAACAAGAAC
1 AAAAAAGGAAAAAACAAGAAC
* * *
3970367 AAAAAAAGAAAGAACAAAGATC
1 AAAAAAGGAAAAAAC-AAGAAC
3970389 AAAAA
1 AAAAA
3970394 GAAAAGGGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 13 0.57
22 10 0.43
ACGTcount: A:0.77, C:0.08, G:0.12, T:0.02
Consensus pattern (21 bp):
AAAAAAGGAAAAAACAAGAAC
Found at i:3970372 original size:21 final size:22
Alignment explanation
Indices: 3970324--3970393 Score: 70
Period size: 22 Copynumber: 3.1 Consensus size: 22
3970314 CAAAAAGGGC
* *
3970324 AAAAAGAAAAAAGAAAAGAAGTAA
1 AAAAAGAAAAAA-CAAAGAA-CAA
*
3970348 AAAAGGAAAAAAC-AAGAACAA
1 AAAAAGAAAAAACAAAGAACAA
* *
3970369 AAAAAGAAAGAACAAAGATCAA
1 AAAAAGAAAAAACAAAGAACAA
3970391 AAA
1 AAA
3970394 GAAAAGGGGA
Statistics
Matches: 39, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
21 13 0.33
22 15 0.38
24 11 0.28
ACGTcount: A:0.77, C:0.06, G:0.14, T:0.03
Consensus pattern (22 bp):
AAAAAGAAAAAACAAAGAACAA
Found at i:3970399 original size:21 final size:20
Alignment explanation
Indices: 3970347--3970399 Score: 54
Period size: 22 Copynumber: 2.5 Consensus size: 20
3970337 AAAAGAAGTA
3970347 AAAAAGGAAAA-AACAAGAAC
1 AAAAA-GAAAAGAACAAGAAC
* *
3970367 AAAAAAAGAAAGAACAAAGATC
1 AAAAAGA-AAAGAAC-AAGAAC
3970389 AAAAAGAAAAG
1 AAAAAGAAAAG
3970400 GGGACAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
19 1 0.04
20 8 0.30
21 7 0.26
22 11 0.41
ACGTcount: A:0.75, C:0.08, G:0.15, T:0.02
Consensus pattern (20 bp):
AAAAAGAAAAGAACAAGAAC
Found at i:3971029 original size:22 final size:22
Alignment explanation
Indices: 3971001--3971044 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
3970991 AGCTACCCCA
3971001 TCAAACC-TTTGAGCATCAAATG
1 TCAAACCATTT-AGCATCAAATG
3971023 TCAAACCATTTAGCATCAAATG
1 TCAAACCATTTAGCATCAAATG
3971045 AACAAAAATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 18 0.86
23 3 0.14
ACGTcount: A:0.39, C:0.23, G:0.11, T:0.27
Consensus pattern (22 bp):
TCAAACCATTTAGCATCAAATG
Found at i:3971486 original size:18 final size:18
Alignment explanation
Indices: 3971463--3971498 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
3971453 TCAACATCAA
* *
3971463 ATATTGGGGCATTTTTGG
1 ATATTGAGGCATCTTTGG
3971481 ATATTGAGGCATCTTTGG
1 ATATTGAGGCATCTTTGG
3971499 GGATTCAACA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.08, G:0.31, T:0.42
Consensus pattern (18 bp):
ATATTGAGGCATCTTTGG
Found at i:3972101 original size:36 final size:36
Alignment explanation
Indices: 3971993--3972117 Score: 169
Period size: 36 Copynumber: 3.4 Consensus size: 36
3971983 ATTGAAAACA
* *
3971993 TTTCCCTTGAAATAAATTTCGTCTCTCTTGAGATAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
* * * *
3972029 TTTCCCTTGGAACTAAGTTTTGTCTCTCTTAAGACAG
1 TTTCCCTTGAAAC-AAATTTCGTCTCTCTTGAGACAG
* *
3972066 TTTCTCTTGAAACAAATTTCGTCTATCTTGAGACAG
1 TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
3972102 TTTCCCTTGAAACAAA
1 TTTCCCTTGAAACAAA
3972118 ATCTTTGAAT
Statistics
Matches: 75, Mismatches: 13, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
36 45 0.60
37 30 0.40
ACGTcount: A:0.26, C:0.21, G:0.14, T:0.39
Consensus pattern (36 bp):
TTTCCCTTGAAACAAATTTCGTCTCTCTTGAGACAG
Found at i:3972179 original size:65 final size:65
Alignment explanation
Indices: 3972075--3972249 Score: 224
Period size: 65 Copynumber: 2.6 Consensus size: 65
3972065 GTTTCTCTTG
* * **
3972075 AAACAAATTTCGTCTATCTTGAGACAGTTTCCCTTGAAACAAAATCTTTGAATTTATTTCCCCTA
1 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
* *
3972140 AAACAAATTTCGTCTCTCTTGAGACAGTTACTCTTGAAACACAAAATCTTCAAATTTATTTCCCT
1 AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTG-AA-ACAAAATCTTCAAATTTATTTCCCC
3972205 TA
64 TA
* * * * *
3972207 AAACATAATTTTGTTTCCCTTGAGACCGTTTCTCATGAAACAA
1 AAACA-AATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAA
3972250 CATATATCTT
Statistics
Matches: 95, Mismatches: 12, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
65 33 0.35
66 6 0.06
67 31 0.33
68 25 0.26
ACGTcount: A:0.33, C:0.22, G:0.09, T:0.36
Consensus pattern (65 bp):
AAACAAATTTCGTCTCTCTTGAGACAGTTTCTCTTGAAACAAAATCTTCAAATTTATTTCCCCTA
Found at i:3973014 original size:105 final size:104
Alignment explanation
Indices: 3972853--3973302 Score: 683
Period size: 105 Copynumber: 4.3 Consensus size: 104
3972843 GCCATCCGCG
* * * *
3972853 ATTTCAACTCCACGACGGAGGATATCGTGGCACTCGAGACAACGCAAGTTCAACTTCACGACGAA
1 ATTTCAACTTCACAACGAAGGATAT--TGG-ACTCCAGACAACGCAAGTTCAACTTCACGACGAA
*
3972918 GGGACCGCTGCTTGTCAACAACAACTTCTCAATTTCAGAGCCA
63 GGGACCGCTGCTTGTCAACAACAACTT-TCAATCTCAGAGCCA
*
3972961 ATTTCAACTTCACAACGAAGGATATTGGACTTCAGACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
*
3973026 ACCGCTGCTTGTCAACAACAACTTTCCAATCGCAGAGCCA
66 ACCGCTGCTTGTCAACAACAACTTT-CAATCTCAGAGCCA
*
3973066 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
* *
3973131 ACCGCTGCTTGTCAACAACAACTTCCCAATCTCGGAGCCA
66 ACCGCTGCTTGTCAACAACAACTT-TCAATCTCAGAGCCA
*
3973171 ATTTCAACTTCACAACGAAGGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGG
1 ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
**
3973236 ACCGCTGCTTGTCAACAA-AA-TTTC-AT-TCAGATTCA
66 ACCGCTGCTTGTCAACAACAACTTTCAATCTCAGAGCCA
* *
3973271 ATTTCAACTTCACGACGGAGGATATTGGACTC
1 ATTTCAACTTCACAACGAAGGATATTGGACTC
3973303 TGAACAATGC
Statistics
Matches: 320, Mismatches: 20, Indels: 12
0.91 0.06 0.03
Matches are distributed among these distances:
100 36 0.11
101 2 0.01
102 1 0.00
103 2 0.01
104 3 0.01
105 251 0.78
106 3 0.01
108 22 0.07
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.22
Consensus pattern (104 bp):
ATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGG
ACCGCTGCTTGTCAACAACAACTTTCAATCTCAGAGCCA
Found at i:3974641 original size:51 final size:51
Alignment explanation
Indices: 3974580--3974718 Score: 154
Period size: 51 Copynumber: 2.7 Consensus size: 51
3974570 TAAAGTTATC
* *
3974580 ATATATATATATTTATAACTATT-ATATTTATTATTATTTTACTATTAACGT
1 ATATAAATATATTTATAACTATTGATA-CTATTATTATTTTACTATTAACGT
* ** * *
3974631 ATATAAATATATTTTTCTCTTTTGCTACTATTATTATTTTACTATTAACGT
1 ATATAAATATATTTATAACTATTGATACTATTATTATTTTACTATTAACGT
* ** * *
3974682 ATATAAATATATTTTTCTCTTTTGCTACTATTATTAT
1 ATATAAATATATTTATAACTATTGATACTATTATTAT
3974719 CATTATATGT
Statistics
Matches: 80, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 78 0.98
52 2 0.03
ACGTcount: A:0.32, C:0.09, G:0.03, T:0.55
Consensus pattern (51 bp):
ATATAAATATATTTATAACTATTGATACTATTATTATTTTACTATTAACGT
Found at i:3974643 original size:26 final size:26
Alignment explanation
Indices: 3974614--3974696 Score: 82
Period size: 26 Copynumber: 3.2 Consensus size: 26
3974604 TATTTATTAT
3974614 TATTTTACTATTAACGTATATAAATA
1 TATTTTACTATTAACGTATATAAATA
* * ** *
3974640 TATTTTTCTCTT-TTGCTACTAT-TAT-
1 TATTTTACTATTAACG-TA-TATAAATA
3974665 TATTTTACTATTAACGTATATAAATA
1 TATTTTACTATTAACGTATATAAATA
3974691 TATTTT
1 TATTTT
3974697 TCTCTTTTGC
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
24 3 0.07
25 15 0.36
26 21 0.50
27 3 0.07
ACGTcount: A:0.33, C:0.10, G:0.04, T:0.54
Consensus pattern (26 bp):
TATTTTACTATTAACGTATATAAATA
Found at i:3974747 original size:51 final size:50
Alignment explanation
Indices: 3974608--3974723 Score: 187
Period size: 51 Copynumber: 2.3 Consensus size: 50
3974598 CTATTATATT
*
3974608 TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
1 TATTATTATATTACTATTAAC-TATATAAATATATTTTTCTCTTTTGCTAC
*
3974659 TATTATTATTTTACTATTAACGTATATAAATATATTTTTCTCTTTTGCTAC
1 TATTATTATATTACTATTAAC-TATATAAATATATTTTTCTCTTTTGCTAC
3974710 TATTATTATCATTA
1 TATTATTAT-ATTA
3974724 TATGTATATT
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
51 60 0.95
52 3 0.05
ACGTcount: A:0.30, C:0.11, G:0.03, T:0.55
Consensus pattern (50 bp):
TATTATTATATTACTATTAACTATATAAATATATTTTTCTCTTTTGCTAC
Found at i:3974867 original size:16 final size:16
Alignment explanation
Indices: 3974846--3974879 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
3974836 CATGTATTTA
3974846 TATTATATTACATTAT
1 TATTATATTACATTAT
* *
3974862 TATTATTTTACTTTAT
1 TATTATATTACATTAT
3974878 TA
1 TA
3974880 AATTATTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATATTACATTAT
Found at i:3976854 original size:81 final size:80
Alignment explanation
Indices: 3976748--3977557 Score: 1070
Period size: 81 Copynumber: 10.0 Consensus size: 80
3976738 TTCATTTATG
* * * * *
3976748 TCAAAGGCATATTAGCCTTTCATCTAATTTGCATAATTGACACCTTCATGTTC-AATACACAACT
1 TCAAAGGTAT-TTAACCTTTCATCTAACTGGCATAATTGACACCTTC-TG-TCAAATGCACAACT
*
3976812 AGGCCATTAATCTTTTAC
63 AGGCTATTAATCTTTTAC
* * * *
3976830 TCAAAGGTATTTAGCCTTTTATCTAACTGGCATAATTGATACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
3976895 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* *
3976911 TCAAAGCTATTTAACCTTTCATCTAACTGGCATAATTGACATCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACA-CCTTCTGTCAAATGCACAACTAG
3976976 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* * * * * *
3976992 TCAAAGCTATTTAACCTTTCATCAAACTGGCATAATCGACACATTTCTATCAAATTCACAGA-TA
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACA-ACTA
3977056 GGCTATTAATCTTTTAC
64 GGCTATTAATCTTTTAC
* * * * ** *
3977073 TCAAAGGTATTTAACATGTCATCTAATTGACATAATTGACACCTTTCTGTCAAATGCACTGCTAA
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
3977138 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* * *
3977154 TCAAATGTA-TTAACCTTTCATCTAACTAGAATAATTGACACCTTTCTGTCAAATGCACAACTA-
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
* *
3977217 GCTTTTAATATTTTAC
65 GCTATTAATCTTTTAC
* * *
3977233 TCATAGGTATTTAACCTTTCATCTAACTCGCATAATTGACACCTTTCTTTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACC-TTCTGTCAAATGCACAACTAG
*
3977298 GCTATTAATCGTTTAC
65 GCTATTAATCTTTTAC
* * *
3977314 ACAAAGGTATTTAACCTTTCATCTAAATGGCATAATTGACACCTTCCTGTCACATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTT-CTGTCAAATGCACAACTAG
*
3977379 TCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
* *
3977395 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAAGTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACAACTAG
3977460 GCTATTAATCTTTTAC
65 GCTATTAATCTTTTAC
** * *
3977476 TCAAAGGTATTTAAATTTTCATCTAACTGGCATTATTGACACATTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACAC-CTTCTGTCAAATGCACAACTAG
*
3977541 GCTATTAATATTTTAC
65 GCTATTAATCTTTTAC
3977557 T
1 T
3977558 TTAGAACAGT
Statistics
Matches: 648, Mismatches: 69, Indels: 23
0.88 0.09 0.03
Matches are distributed among these distances:
79 21 0.03
80 102 0.16
81 509 0.79
82 16 0.02
ACGTcount: A:0.32, C:0.21, G:0.10, T:0.37
Consensus pattern (80 bp):
TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTCTGTCAAATGCACAACTAGG
CTATTAATCTTTTAC
Found at i:3977808 original size:57 final size:57
Alignment explanation
Indices: 3977718--3977966 Score: 365
Period size: 57 Copynumber: 4.4 Consensus size: 57
3977708 AAATTCATAT
* * * *
3977718 AATTTCTT-AGTTTTCGCACATAAAGTGCCCATACGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
* *
3977774 AACTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTATTTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
* * *
3977831 AATTTCTTAACTTTATGCACACAAAGTTCCCATACGAAAATTCATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
* * * *
3977888 AATTTCTTAACTTTTTGCACACAAAGTGACCATATGGAAATTCATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
*
3977945 AATTTCTTAACTTTATGCACAC
1 AATTTCTTAACTTTTTGCACAC
3977967 TTAGTGCCAT
Statistics
Matches: 175, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
56 7 0.04
57 168 0.96
ACGTcount: A:0.37, C:0.19, G:0.09, T:0.35
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTAATTATG
Found at i:3978868 original size:20 final size:22
Alignment explanation
Indices: 3978833--3978883 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
3978823 TGGCTCAATA
3978833 GTATCGATACCTCTAC-C-ATG
1 GTATCGATACCTCTACACTATG
3978853 GTATCGATA-CTACTACACTATG
1 GTATCGATACCT-CTACACTATG
*
3978875 GTACCGATA
1 GTATCGATA
3978884 ATACGGTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 2 0.07
20 13 0.48
21 1 0.04
22 11 0.41
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (22 bp):
GTATCGATACCTCTACACTATG
Found at i:3980309 original size:2 final size:2
Alignment explanation
Indices: 3980302--3980341 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
3980292 CATTCAAGTA
* *
3980302 AT AT AT AT AT AT AT GT AT AT AT AT AT AT GT 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
3980342 GTTTTTTTAC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (2 bp):
AT
Found at i:3980322 original size:14 final size:14
Alignment explanation
Indices: 3980303--3980341 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
3980293 ATTCAAGTAA
3980303 TATATATATATATG
1 TATATATATATATG
3980317 TATATATATATATG
1 TATATATATATATG
3980331 TATATATATAT
1 TATATATATAT
3980342 GTTTTTTTAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (14 bp):
TATATATATATATG
Found at i:3980872 original size:24 final size:25
Alignment explanation
Indices: 3980831--3980892 Score: 63
Period size: 24 Copynumber: 2.5 Consensus size: 25
3980821 AATTGACATC
* * * *
3980831 AACACAATCAACATTAACTATCA-G
1 AACACAATTAATACTAACAATCACG
* *
3980855 AACACAATTAATACTAACAATTACT
1 AACACAATTAATACTAACAATCACG
3980880 AACACAATTAATA
1 AACACAATTAATA
3980893 TTTCCAATTA
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.53, C:0.21, G:0.02, T:0.24
Consensus pattern (25 bp):
AACACAATTAATACTAACAATCACG
Found at i:3980886 original size:25 final size:25
Alignment explanation
Indices: 3980855--3980930 Score: 107
Period size: 25 Copynumber: 3.0 Consensus size: 25
3980845 TAACTATCAG
* *
3980855 AACACAATTAATACTAACAATTACT
1 AACACAATTAATATTAACAATTAAT
**
3980880 AACACAATTAATATTTCCAATTAAT
1 AACACAATTAATATTAACAATTAAT
*
3980905 AACACAATTAATATTCACAATTAAT
1 AACACAATTAATATTAACAATTAAT
3980930 A
1 A
3980931 TTCTTTGACC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 45 1.00
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (25 bp):
AACACAATTAATATTAACAATTAAT
Found at i:3980932 original size:13 final size:13
Alignment explanation
Indices: 3980857--3980933 Score: 79
Period size: 13 Copynumber: 6.1 Consensus size: 13
3980847 ACTATCAGAA
*
3980857 CACAATTAATACT
1 CACAATTAATATT
* * *
3980870 AACAATTACTA-A
1 CACAATTAATATT
3980882 CACAATTAATATTT
1 CACAATTAATA-TT
*
3980896 C-CAATTAATA-A
1 CACAATTAATATT
3980907 CACAATTAATATT
1 CACAATTAATATT
3980920 CACAATTAATATT
1 CACAATTAATATT
3980933 C
1 C
3980934 TTTGACCACT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
11 1 0.02
12 18 0.35
13 32 0.62
14 1 0.02
ACGTcount: A:0.48, C:0.18, G:0.00, T:0.34
Consensus pattern (13 bp):
CACAATTAATATT
Found at i:3981109 original size:17 final size:17
Alignment explanation
Indices: 3981071--3981122 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
3981061 GATTGTTTAA
* *
3981071 AATAAAATATTAATTCTG
1 AATAAAAAATTAAAT-TG
3981089 -ATAAAAAATTAAATTG
1 AATAAAAAATTAAATTG
3981105 AATAAAAATATATAAATT
1 AATAAAAA-AT-TAAATT
3981123 ATAGTCGTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
16 2 0.07
17 19 0.66
18 2 0.07
19 6 0.21
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (17 bp):
AATAAAAAATTAAATTG
Found at i:3983750 original size:12 final size:11
Alignment explanation
Indices: 3983718--3983811 Score: 57
Period size: 11 Copynumber: 8.1 Consensus size: 11
3983708 AATATAAAAT
*
3983718 AATAAATTAAA
1 AATAAAATAAA
3983729 AATAAGAATAAA
1 AATAA-AATAAA
3983741 AGATAAAAT-AA
1 A-ATAAAATAAA
* *
3983752 AATATAAT-AT
1 AATAAAATAAA
* *
3983762 AATATAATAAT
1 AATAAAATAAA
*
3983773 AATAATAGTAAA
1 AATAA-AATAAA
3983785 AAGTAAAGATAGAAA
1 AA-TAAA-AT--AAA
3983800 AATAAAATAAA
1 AATAAAATAAA
3983811 A
1 A
3983812 GAGAATAAAA
Statistics
Matches: 68, Mismatches: 7, Indels: 16
0.75 0.08 0.18
Matches are distributed among these distances:
10 15 0.22
11 18 0.26
12 16 0.24
13 10 0.15
14 4 0.06
15 5 0.07
ACGTcount: A:0.70, C:0.00, G:0.06, T:0.23
Consensus pattern (11 bp):
AATAAAATAAA
Found at i:3983865 original size:2 final size:2
Alignment explanation
Indices: 3983858--3983888 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
3983848 AATAAAAATG
*
3983858 AT AT AT AT AT AT AT AT AT TT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
3983889 ACATAATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
AT
Found at i:3984538 original size:25 final size:24
Alignment explanation
Indices: 3984510--3984637 Score: 80
Period size: 25 Copynumber: 5.0 Consensus size: 24
3984500 GGAGAAAAAC
*
3984510 AAATCAAAATAAAATAATAAATTAA
1 AAAT-AAAATAAAATAATAAAATAA
*
3984535 AAATAAGAATAAAA-GATAAAATAA
1 AAATAA-AATAAAATAATAAAATAA
* *
3984559 AATATAATATAATATAATAATAATAA
1 AA-ATAAAATAAAATAATAA-AATAA
* *
3984585 TAGTAAAAAGTAAAGATAGA-AAAATAA
1 AAAT-AAAA-TAAA-ATA-ATAAAATAA
* * *
3984612 AAATAAAAGAGAATAAAAAAAGTAA
1 AAATAAAATAAAATAATAAAA-TAA
3984637 A
1 A
3984638 TATATATACA
Statistics
Matches: 80, Mismatches: 13, Indels: 20
0.71 0.12 0.18
Matches are distributed among these distances:
23 1 0.01
24 24 0.30
25 26 0.32
26 13 0.16
27 10 0.12
28 5 0.06
29 1 0.01
ACGTcount: A:0.71, C:0.01, G:0.07, T:0.21
Consensus pattern (24 bp):
AAATAAAATAAAATAATAAAATAA
Found at i:3984612 original size:21 final size:20
Alignment explanation
Indices: 3984588--3984637 Score: 59
Period size: 19 Copynumber: 2.5 Consensus size: 20
3984578 ATAATAATAG
*
3984588 TAAAAAGTAAAGATAGAAAAA
1 TAAAAAGTAAA-AGAGAAAAA
*
3984609 TAAAAA-TAAAAGAGAATAA
1 TAAAAAGTAAAAGAGAAAAA
3984628 -AAAAAGTAAA
1 TAAAAAGTAAA
3984638 TATATATACA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
18 5 0.19
19 11 0.42
20 4 0.15
21 6 0.23
ACGTcount: A:0.74, C:0.00, G:0.12, T:0.14
Consensus pattern (20 bp):
TAAAAAGTAAAAGAGAAAAA
Found at i:3984615 original size:6 final size:6
Alignment explanation
Indices: 3984510--3984619 Score: 55
Period size: 6 Copynumber: 17.3 Consensus size: 6
3984500 GGAGAAAAAC
* *
3984510 AAATCA AAAT-A AAATAA TAAATTAA AAATAA GAATAA AAGAT-A AAATAA
1 AAATAA AAATAA AAATAA -AAA-TAA AAATAA AAATAA AA-ATAA AAATAA
* * * * *
3984559 AATATAA TATAAT-A TAATAA TAATAA TAGTAA AAAGTAA AGATAGAA
1 AA-ATAA -A-AATAA AAATAA AAATAA AAATAA AAA-TAA A-A-ATAA
3984606 AAATAA AAATAA AA
1 AAATAA AAATAA AA
3984620 GAGAATAAAA
Statistics
Matches: 84, Mismatches: 8, Indels: 24
0.72 0.07 0.21
Matches are distributed among these distances:
5 10 0.12
6 44 0.52
7 18 0.21
8 10 0.12
9 2 0.02
ACGTcount: A:0.71, C:0.01, G:0.05, T:0.23
Consensus pattern (6 bp):
AAATAA
Found at i:3984673 original size:2 final size:2
Alignment explanation
Indices: 3984666--3984712 Score: 76
Period size: 2 Copynumber: 23.5 Consensus size: 2
3984656 AATAAAAATG
* *
3984666 AT AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AA 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
3984708 AT AT A
1 AT AT A
3984713 ACATAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:3986732 original size:84 final size:84
Alignment explanation
Indices: 3986586--3986769 Score: 260
Period size: 84 Copynumber: 2.2 Consensus size: 84
3986576 TGATTTTCCT
** * * * *
3986586 TCGAAGGTCTTCGGTTGGCAGATAGCCCTTCTTGACTTAAGCTATGCTGCAAATAATGTGCCTTG
1 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
* *
3986651 GAGTTGAGCGTAGTCGAAC
66 GAGTTAAGCGTAGTCAAAC
* * * *
3986670 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGTCTTGAGTTATGCTGCAAATGATATGCCTTG
1 TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
3986735 GAGTTAAGCGTAGTCAAAC
66 GAGTTAAGCGTAGTCAAAC
3986754 TCGAAGGTCTTTTGTT
1 TCGAAGGTCTTTTGTT
3986770 TCAAGAGAAA
Statistics
Matches: 88, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
84 88 1.00
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (84 bp):
TCGAAGGTCTTTTGTTGGAAGATAACCCTTCTAGACTTAAGCTATGCTGCAAATAATATGCCTTG
GAGTTAAGCGTAGTCAAAC
Found at i:3986809 original size:38 final size:37
Alignment explanation
Indices: 3986766--3986870 Score: 146
Period size: 33 Copynumber: 2.9 Consensus size: 37
3986756 GAAGGTCTTT
*
3986766 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTTTTGTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTT-TG
* *
3986804 TGTTTCAAGAGAAACAATCTCAAAGG----CTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTTG
3986837 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
3986871 CCAAGAGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
33 27 0.47
34 4 0.07
37 3 0.05
38 24 0.41
ACGTcount: A:0.30, C:0.10, G:0.17, T:0.42
Consensus pattern (37 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTTTG
Found at i:3986843 original size:33 final size:32
Alignment explanation
Indices: 3986757--3986880 Score: 119
Period size: 33 Copynumber: 3.8 Consensus size: 32
3986747 GTCAAACTCG
* * *
3986757 AAGGTCTTT-TGTTTCAAGAGAAACATTTTCA
1 AAGGTTTTTGTGTTTCAAGAGAAACAATCTCA
3986788 AAGGTTTTTTTTTGTGTGTTTCAAGAGAAACAATCTCA
1 AAGG-----TTTT-TGTGTTTCAAGAGAAACAATCTCA
*
3986826 AAGGCTTTTTGTGTTTCAAGAGAAACAATTTCA
1 AAGG-TTTTTGTGTTTCAAGAGAAACAATCTCA
*
3986859 AAGGTTTTT-T-TTCCAAGAGAAA
1 AAGGTTTTTGTGTTTCAAGAGAAA
3986881 TTGTCTCCTG
Statistics
Matches: 80, Mismatches: 6, Indels: 15
0.79 0.06 0.15
Matches are distributed among these distances:
30 11 0.14
31 5 0.06
32 5 0.06
33 27 0.34
34 4 0.05
36 3 0.04
37 1 0.01
38 24 0.30
ACGTcount: A:0.32, C:0.11, G:0.18, T:0.39
Consensus pattern (32 bp):
AAGGTTTTTGTGTTTCAAGAGAAACAATCTCA
Found at i:3986961 original size:67 final size:66
Alignment explanation
Indices: 3986837--3987051 Score: 165
Period size: 67 Copynumber: 3.2 Consensus size: 66
3986827 AGGCTTTTTG
* * * ** *
3986837 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTCCAAGAGAAATTGTCTCCTGGGAGGCAAAAT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTGTGTTTCCAAGAGAAACTGTCTCAAGGGAGACAAAA-
3986902 TT
65 TT
* *
3986904 TGTTTCAAGAGAATC-ATATTCAAAGGTTGGTGTTT-CAAGAGAAACTGTCTCAAGGGAGACGAA
1 TGTTTCAAGAGAAACAAT-TTCAAAGGTT-GTGTTTCCAAGAGAAACTGTCTCAAGGGAGACAAA
3986967 ATT
64 ATT
** * * * *
3986970 TGTTT-AATGTA-AAAC-ATATTCAAAATATTTTGTTT-CAAGGGAAACCGTCTCAAGAGAGACA
1 TGTTTCAA-G-AGAAACAAT-TTC-AAAGGTTGTGTTTCCAAGAGAAACTGTCTCAAGGGAGACA
3987031 AAACTT
62 AAA-TT
*
3987037 T-TTTCTAAAAGAAAC
1 TGTTTC-AAGAGAAAC
3987052 TGTGTCAAGG
Statistics
Matches: 122, Mismatches: 17, Indels: 18
0.78 0.11 0.11
Matches are distributed among these distances:
65 2 0.02
66 53 0.43
67 61 0.50
68 6 0.05
ACGTcount: A:0.37, C:0.13, G:0.19, T:0.32
Consensus pattern (66 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTGTGTTTCCAAGAGAAACTGTCTCAAGGGAGACAAAAT
T
Found at i:3987191 original size:36 final size:36
Alignment explanation
Indices: 3987132--3987217 Score: 100
Period size: 36 Copynumber: 2.4 Consensus size: 36
3987122 TCAAAGTTTA
* * * * *
3987132 TGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
3987168 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
** *
3987204 CATTTCAGGGGAAA
1 TGTTTCAAGGGAAA
3987218 TGTTTTCAAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
36 42 1.00
ACGTcount: A:0.40, C:0.12, G:0.22, T:0.27
Consensus pattern (36 bp):
TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATT
Found at i:3987241 original size:101 final size:102
Alignment explanation
Indices: 3987111--3987303 Score: 316
Period size: 101 Copynumber: 1.9 Consensus size: 102
3987101 TTGTTTCAAT
* * *
3987111 GGAAACTGTTTTCAAAGTTTATGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATTTGTTTCAA
1 GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
*
3987176 GGGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
66 GAGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
* *
3987213 GGAAA-TGTTTTCAATGTTTATATTTCAAGAGAAACTGTCTCAATGGAGACAAAATTTGTTTCAA
1 GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
*
3987277 GAGAAACTATCTCAAGAGAGATAAAAT
66 GAGAAACTATCTCAAGAGAGACAAAAT
3987304 CTTGTTTTAA
Statistics
Matches: 84, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 79 0.94
102 5 0.06
ACGTcount: A:0.39, C:0.11, G:0.19, T:0.31
Consensus pattern (102 bp):
GGAAACTGTTTTCAAAGTTTATATTTCAAGAGAAACTGTCTCAAGGGAGACAAAATTTGTTTCAA
GAGAAACTATCTCAAGAGAGACAAAATTCATTTCAGG
Found at i:3987282 original size:36 final size:37
Alignment explanation
Indices: 3987235--3987310 Score: 111
Period size: 36 Copynumber: 2.1 Consensus size: 37
3987225 AATGTTTATA
*
3987235 TTTCAAGAGAAACTGTCTCAATG-GAGACAAAAT-TTG
1 TTTCAAGAGAAACTATCTCAA-GAGAGACAAAATCTTG
*
3987271 TTTCAAGAGAAACTATCTCAAGAGAGATAAAATCTTG
1 TTTCAAGAGAAACTATCTCAAGAGAGACAAAATCTTG
3987308 TTT
1 TTT
3987311 TAAAAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
35 1 0.03
36 29 0.81
37 6 0.17
ACGTcount: A:0.39, C:0.13, G:0.17, T:0.30
Consensus pattern (37 bp):
TTTCAAGAGAAACTATCTCAAGAGAGACAAAATCTTG
Found at i:3987405 original size:72 final size:72
Alignment explanation
Indices: 3987320--3987468 Score: 235
Period size: 72 Copynumber: 2.1 Consensus size: 72
3987310 TTAAAAAAAT
* * * * *
3987320 AATCTTGAGGGAAATAAATTTTCTTTCGAGTAAAAGAGTCTTAAGTGAGACAAGGTCTATTTTAA
1 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAATCTTAAGTGAGAAAAGGTCTATTTTAA
3987385 GAATCAC
66 GAATCAC
*
3987392 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAATCTTAAGTGAGAAAAGGTCTGTTTTAA
1 AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAATCTTAAGTGAGAAAAGGTCTATTTTAA
*
3987457 GAATGAC
66 GAATCAC
3987464 AATCT
1 AATCT
3987469 CAAGTGAGAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
72 70 1.00
ACGTcount: A:0.39, C:0.11, G:0.18, T:0.32
Consensus pattern (72 bp):
AATCTTAAGGGAAATAAATCTTCTTTCGAGTAAAACAATCTTAAGTGAGAAAAGGTCTATTTTAA
GAATCAC
Found at i:3987430 original size:36 final size:36
Alignment explanation
Indices: 3987315--3987436 Score: 97
Period size: 36 Copynumber: 3.4 Consensus size: 36
3987305 TTGTTTTAAA
* * *
3987315 AAAATAATCTTGAGGGAAATAAATTTTCTTTCGAGT
1 AAAACAATCTTAAGGGAAATAAATCTTCTTTCGAGT
* * * * * * *
3987351 AAAAGAGTCTTAAGTGAGACAAGGTCTAT-TTT-AAG-
1 AAAACAATCTTAAGGGAAATAA-ATCT-TCTTTCGAGT
*
3987386 AATCACAATCTTAAGGGAAATAAATCTTCTTTCGAGT
1 AA-AACAATCTTAAGGGAAATAAATCTTCTTTCGAGT
3987423 AAAACAATCTTAAG
1 AAAACAATCTTAAG
3987437 TGAGAAAAGG
Statistics
Matches: 62, Mismatches: 18, Indels: 12
0.67 0.20 0.13
Matches are distributed among these distances:
34 1 0.02
35 8 0.13
36 45 0.73
37 7 0.11
38 1 0.02
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.31
Consensus pattern (36 bp):
AAAACAATCTTAAGGGAAATAAATCTTCTTTCGAGT
Found at i:3987466 original size:36 final size:35
Alignment explanation
Indices: 3987358--3987477 Score: 102
Period size: 36 Copynumber: 3.3 Consensus size: 35
3987348 AGTAAAAGAG
* *
3987358 TCTTAAGTGAGACAAGGTCTATTTTAAGAATCACAA
1 TCTTAAGTGAGAAAAGGTCT-TTTTAAGAATAACAA
** *
3987394 TCTTAAG-G-GAAATAAATCTTCTTTCGAGTAA-AACAA
1 TCTTAAGTGAGAAA-AGGTCTT-TTT-AAG-AATAACAA
*
3987430 TCTTAAGTGAGAAAAGGTCTGTTTTAAGAATGACAA
1 TCTTAAGTGAGAAAAGGTCT-TTTTAAGAATAACAA
*
3987466 TCTCAAGTGAGA
1 TCTTAAGTGAGA
3987478 TGAATCATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 16
0.72 0.11 0.17
Matches are distributed among these distances:
34 4 0.06
35 10 0.15
36 37 0.56
37 10 0.15
38 5 0.08
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.30
Consensus pattern (35 bp):
TCTTAAGTGAGAAAAGGTCTTTTTAAGAATAACAA
Found at i:3996021 original size:20 final size:20
Alignment explanation
Indices: 3995975--3996032 Score: 64
Period size: 19 Copynumber: 2.8 Consensus size: 20
3995965 ATTCCCCTGT
3995975 GGGGAATCGGTTCCCTTCAAAG
1 GGGGAATC-GTTCCC-TCAAAG
*
3995997 GGGGAATCGTTCCCTC-ATG
1 GGGGAATCGTTCCCTCAAAG
*
3996016 GGGGGATCGATTCCCTC
1 GGGGAATCG-TTCCCTC
3996033 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 10 0.30
20 9 0.27
21 6 0.18
22 8 0.24
ACGTcount: A:0.17, C:0.26, G:0.33, T:0.24
Consensus pattern (20 bp):
GGGGAATCGTTCCCTCAAAG
Found at i:3996030 original size:41 final size:41
Alignment explanation
Indices: 3995954--3996031 Score: 97
Period size: 41 Copynumber: 1.9 Consensus size: 41
3995944 ACAGAACCCC
* *
3995954 AGGGGGTATCGATTCCCCTGTGGGGAATCGGTTCCCTTCAA
1 AGGGGGAATCGATTCCCCTGTGGGGAATCGATTCCCTTCAA
*
3995995 AGGGGGAATCG-TTCCCTCATG-GGGGGATCGATTCCCT
1 AGGGGGAATCGATTCCC-C-TGTGGGGAATCGATTCCCT
3996032 CTGCACCAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 5 0.16
41 25 0.78
42 2 0.06
ACGTcount: A:0.17, C:0.24, G:0.33, T:0.26
Consensus pattern (41 bp):
AGGGGGAATCGATTCCCCTGTGGGGAATCGATTCCCTTCAA
Found at i:3998486 original size:16 final size:17
Alignment explanation
Indices: 3998458--3998489 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
3998448 AGTGGGATTG
3998458 GATAAATAAATAAATAA
1 GATAAATAAATAAATAA
3998475 GATAAA-AAATAAATA
1 GATAAATAAATAAATA
3998490 TAAAAAGTGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.72, C:0.00, G:0.06, T:0.22
Consensus pattern (17 bp):
GATAAATAAATAAATAA
Found at i:3998574 original size:4 final size:4
Alignment explanation
Indices: 3998565--3998596 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
3998555 TTACAAATAA
3998565 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
3998597 TATTTCATAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:3999627 original size:81 final size:81
Alignment explanation
Indices: 3999481--4000211 Score: 982
Period size: 81 Copynumber: 9.0 Consensus size: 81
3999471 TTCATTTATG
* * * * * *
3999481 TCAAAGGCATATTAGCCTTTCATCTAATTTGCATAATTGACACC-TTCATGTCCAATACACAGCT
1 TCAAAGGTAT-TTAACCTTTCATCTAACTGGCATAATTGACACCTTTC-TGTCAAATGCACAGCT
*
3999545 AGGCCATTAATCTTTTAC
64 AGGCTATTAATCTTTTAC
* * * ** *
3999563 TCAAAGGTATTTAGCCTTTTATCTAACTGTCATAATTGTTACCTTTCTATCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
*
3999628 GCTATTAATATTTTAC
66 GCTATTAATCTTTTAC
* * * *
3999644 TCAAAGCTATTTAACCTTTCATCAAACTGGCATAATTGACATCTTTCTGTCAAATGCACAACTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
3999709 GCTATTAATCTTTTAC
66 GCTATTAATCTTTTAC
* * * * * * *
3999725 TCAAAGGTATTTAACCTTTCATCAAACTGACATAATCGACACATTTCTATCAAATTCATAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
3999790 GCTATTAATCTTTTAC
66 GCTATTAATCTTTTAC
* * * *
3999806 TCAAAGGTATTTAACATGTCATCCAATTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
*
3999871 GCTTTTAATCTTTTAC
66 GCTATTAATCTTTTAC
* ** *
3999887 GCAAATATATTTAACCTTTCATCTAACTGGAATAATTGACACCTTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
*
3999952 GCTATTAATATTTTAC
66 GCTATTAATCTTTTAC
* * *
3999968 TCATAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCCT-TCAAATGCACAACTA
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTT-CTGTCAAATGCACAGCTA
* *
4000032 GGGTATTAATCGTTTAC
65 GGCTATTAATCTTTTAC
* *
4000049 ACAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACATTTCTGTCAAATGCACAAG-TA
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCAC-AGCTA
*
4000113 TGCTATTAATCTTTTAC
65 GGCTATTAATCTTTTAC
* * *
4000130 TCAAAGGTATTTAACTTTTCATCTAACTGGCATTATTGACACATTTCTGTCAAATGCACAGCTAG
1 TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
*
4000195 GCTATTAATATTTTAC
66 GCTATTAATCTTTTAC
4000211 T
1 T
4000212 TTAGAACAGT
Statistics
Matches: 570, Mismatches: 74, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
80 4 0.01
81 551 0.97
82 15 0.03
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.37
Consensus pattern (81 bp):
TCAAAGGTATTTAACCTTTCATCTAACTGGCATAATTGACACCTTTCTGTCAAATGCACAGCTAG
GCTATTAATCTTTTAC
Found at i:4000459 original size:57 final size:57
Alignment explanation
Indices: 4000372--4000620 Score: 356
Period size: 57 Copynumber: 4.4 Consensus size: 57
4000362 AAATTCATAT
* * *
4000372 AATTTCTT-AGTTTTTGCACATAAAGTGCCCATATGGAAATTCATAAACTAATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* *
4000428 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGAAAATTCATAAACTATTTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* * * *
4000485 AATTTCTTAACTTTATGCACACAAAGTTCCCATACGGAAATTCATAAGCTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
* * * * *
4000542 AATTTCTTAACTTTTTGCGCACAAAGTGACCATATGGAAATTTATAAACTTATTATG
1 AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
*
4000599 AATTTCTTAACTTTATGCACAC
1 AATTTCTTAACTTTTTGCACAC
4000621 TTAGTGCCAT
Statistics
Matches: 172, Mismatches: 20, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
56 8 0.05
57 164 0.95
ACGTcount: A:0.35, C:0.17, G:0.10, T:0.37
Consensus pattern (57 bp):
AATTTCTTAACTTTTTGCACACAAAGTGCCCATACGGAAATTCATAAACTAATTATG
Found at i:4001511 original size:20 final size:22
Alignment explanation
Indices: 4001486--4001536 Score: 63
Period size: 20 Copynumber: 2.4 Consensus size: 22
4001476 TGGCTCAATA
4001486 GTATCGATAGC-ACTAC-C-ATG
1 GTATCGATA-CTACTACACTATG
4001506 GTATCGATACTACTACACTATG
1 GTATCGATACTACTACACTATG
*
4001528 GTACCGATA
1 GTATCGATA
4001537 ATACGGTATC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
19 1 0.04
20 14 0.52
21 1 0.04
22 11 0.41
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.27
Consensus pattern (22 bp):
GTATCGATACTACTACACTATG
Found at i:4002703 original size:114 final size:114
Alignment explanation
Indices: 4002491--4002717 Score: 350
Period size: 114 Copynumber: 2.0 Consensus size: 114
4002481 AGGGAGAGAA
* *
4002491 CCCTTTCGAGCCTCACTGCCTTTCACTTCAAATGACCTAAAATATGGTTGTTCTCAACTCAATTT
1 CCCTCTCGAGCCTCACTGCCTTTCACTTCAAACGACCTAAAATATGGTTGTTCTCAACTCAATTT
*
4002556 AACCTGATTTAGAACCCCGAAATACCCTCCTTTATATTTCCCTCACGAG
66 AACCTGATTTAGAACCCCCAAATACCCTCCTTTATATTTCCCTCACGAG
* **
4002605 CCCTCTCGAGCCTCGTCT-CCTTTCACTTCAAACGACCTAAAATATGGTTGTTCTCAA-TGCCGT
1 CCCTCTCGAGCCTC-ACTGCCTTTCACTTCAAACGACCTAAAATATGGTTGTTCTCAACT-CAAT
* *
4002668 TTAACCTGATTTAGAACCCCCAAATACCTTTCTTTATATTTCCCTCACGA
64 TTAACCTGATTTAGAACCCCCAAATACCCTCCTTTATATTTCCCTCACGA
4002718 ATACCTCCTT
Statistics
Matches: 103, Mismatches: 8, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
113 1 0.01
114 100 0.97
115 2 0.02
ACGTcount: A:0.25, C:0.31, G:0.11, T:0.33
Consensus pattern (114 bp):
CCCTCTCGAGCCTCACTGCCTTTCACTTCAAACGACCTAAAATATGGTTGTTCTCAACTCAATTT
AACCTGATTTAGAACCCCCAAATACCCTCCTTTATATTTCCCTCACGAG
Found at i:4006445 original size:123 final size:124
Alignment explanation
Indices: 4006293--4006539 Score: 487
Period size: 123 Copynumber: 2.0 Consensus size: 124
4006283 AGGTTGAATT
4006293 GTGAATGGCTCTTTAGTTGTGAAGTCGGGTCCATCTTGATGTAACATAGAGCTGAATGAGATCGA
1 GTGAATGGCTCTTTAGTTGTGAAGTCGGGTCCATCTTGATGTAACATAGAGCTGAATGAGATCGA
4006358 ACTCGAAAACTTCTG-TGATAGCTAGCTTTTCTCGACTTAAGCTATGCTGCTTGAAAAC
66 ACTCGAAAACTTCTGTTGATAGCTAGCTTTTCTCGACTTAAGCTATGCTGCTTGAAAAC
4006416 GTGAATGGCTCTTTAGTTGTGAAGTCGGGTCCATCTTGATGTAACATAGAGCTGAATGAGATCGA
1 GTGAATGGCTCTTTAGTTGTGAAGTCGGGTCCATCTTGATGTAACATAGAGCTGAATGAGATCGA
4006481 ACTCGAAAACTTCTGTTGATAGCTAGCTTTTCTCGACTTAAGCTATGCTGCTTGAAAAC
66 ACTCGAAAACTTCTGTTGATAGCTAGCTTTTCTCGACTTAAGCTATGCTGCTTGAAAAC
4006540 AGTTCATTGT
Statistics
Matches: 123, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
123 80 0.65
124 43 0.35
ACGTcount: A:0.27, C:0.18, G:0.23, T:0.32
Consensus pattern (124 bp):
GTGAATGGCTCTTTAGTTGTGAAGTCGGGTCCATCTTGATGTAACATAGAGCTGAATGAGATCGA
ACTCGAAAACTTCTGTTGATAGCTAGCTTTTCTCGACTTAAGCTATGCTGCTTGAAAAC
Found at i:4006946 original size:37 final size:35
Alignment explanation
Indices: 4006896--4006999 Score: 149
Period size: 33 Copynumber: 3.0 Consensus size: 35
4006886 GAAGGTCTTT
*
4006896 TGTTTCAAGAGAAACATTTTCAAAGGTTTTTTGTGTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTT-T-TG
* *
4006933 TGTTTCAAGAGAAACAATCTCAAAGG--CTTTTTG
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTG
4006966 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
1 TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTT
4007000 TCAAGAGAAA
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
33 27 0.45
34 1 0.02
35 8 0.13
37 24 0.40
ACGTcount: A:0.31, C:0.11, G:0.18, T:0.40
Consensus pattern (35 bp):
TGTTTCAAGAGAAACAATTTCAAAGGTTTTTTTTG
Found at i:4006973 original size:33 final size:32
Alignment explanation
Indices: 4006887--4007009 Score: 144
Period size: 33 Copynumber: 3.8 Consensus size: 32
4006877 GTCGAACTCG
* *
4006887 AAGGTCTTT-TGTTTCAAGAGAAACATTTTCA
1 AAGGTTTTTGTGTTTCAAGAGAAACAATTTCA
*
4006918 AAGGTTTTTTGTGTGTGTTTCAAGAGAAACAATCTCA
1 AAGG---TTT-T-TGTGTTTCAAGAGAAACAATTTCA
4006955 AAGGCTTTTTGTGTTTCAAGAGAAACAATTTCA
1 AAGG-TTTTTGTGTTTCAAGAGAAACAATTTCA
4006988 AAGGTTTTT-T-TTTCAAGAGAAA
1 AAGGTTTTTGTGTTTCAAGAGAAA
4007010 TTGTCTCCAG
Statistics
Matches: 81, Mismatches: 5, Indels: 13
0.82 0.05 0.13
Matches are distributed among these distances:
30 12 0.15
31 5 0.06
32 5 0.06
33 27 0.33
34 3 0.04
35 4 0.05
36 1 0.01
37 24 0.30
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.38
Consensus pattern (32 bp):
AAGGTTTTTGTGTTTCAAGAGAAACAATTTCA
Found at i:4007150 original size:66 final size:67
Alignment explanation
Indices: 4006966--4007180 Score: 224
Period size: 67 Copynumber: 3.2 Consensus size: 67
4006956 AGGCTTTTTG
* * * * *
4006966 TGTTTCAAGAGAAACA-ATTTCAAAGGTTTTTTTTTCAAGAGAAATTGTCTCCAGGGAGGCAAAA
1 TGTTTAAAGAGAAACATA-TTCAAAAGTTTTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAA
4007030 TTT
65 TTT
* * ** *
4007033 TGTTTCAAGAGAATCATATTCAAAAGTTGGTGTTTCAAGAGAAATTGTCTCAAGGGAGACGAAAT
1 TGTTTAAAGAGAAACATATTCAAAAGTTTTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAAT
4007098 TT
66 TT
* ** *
4007100 T-TTTAAAGTA-AAACATATTCAAAA-TATTTTGTTTCAAGGGAAACCGTCTCAAGAGAGACAAA
1 TGTTTAAAG-AGAAACATATTCAAAAGT-TTTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAA
*
4007162 ACTT
64 ATTT
4007166 TGTTCTAAA-AGAAAC
1 TGTT-TAAAGAGAAAC
4007181 TGTCTCAAAG
Statistics
Matches: 124, Mismatches: 18, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
65 1 0.01
66 53 0.43
67 65 0.52
68 5 0.04
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (67 bp):
TGTTTAAAGAGAAACATATTCAAAAGTTTTTGTTTCAAGAGAAATTGTCTCAAGGGAGACAAAAT
TT
Found at i:4007311 original size:36 final size:36
Alignment explanation
Indices: 4007261--4007383 Score: 156
Period size: 36 Copynumber: 3.4 Consensus size: 36
4007251 TCAAAGTTTA
* * * *
4007261 TGTTTCAAGAGAAATTGTTTCAAGGGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
4007297 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
* * *
4007333 TGTTTGAAGGGAAACTATCTCAAGAGAGACAAACTT
1 TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
** *
4007369 CATTTCAGGGGAAAT
1 TGTTTCAAGGGAAAT
4007384 GTTTTCAATG
Statistics
Matches: 75, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 75 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (36 bp):
TGTTTCAAGGGAAATTATCTCAAGAGAGACAAAATT
Found at i:4007521 original size:36 final size:36
Alignment explanation
Indices: 4007481--4007599 Score: 96
Period size: 36 Copynumber: 3.3 Consensus size: 36
4007471 TGTTTTAAAA
4007481 AAAACAATCTTGAGGGAAATAAATTTTCTTTCGAGT
1 AAAACAATCTTGAGGGAAATAAATTTTCTTTCGAGT
* * * * * ** * * **
4007517 AAAACAGTCTTAAGTGAGACAAGGTCTGTTTTAAG-
1 AAAACAATCTTGAGGGAAATAAATTTTCTTTCGAGT
* *
4007552 AATGACAATCTTGAGGGAAATAAATCTTCTTTCGAGT
1 AA-AACAATCTTGAGGGAAATAAATTTTCTTTCGAGT
*
4007589 AAAACAGTCTT
1 AAAACAATCTT
4007600 AAGTGAGACA
Statistics
Matches: 55, Mismatches: 26, Indels: 4
0.65 0.31 0.05
Matches are distributed among these distances:
35 2 0.04
36 51 0.93
37 2 0.04
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.31
Consensus pattern (36 bp):
AAAACAATCTTGAGGGAAATAAATTTTCTTTCGAGT
Found at i:4007560 original size:72 final size:72
Alignment explanation
Indices: 4007484--4007621 Score: 258
Period size: 72 Copynumber: 1.9 Consensus size: 72
4007474 TTTAAAAAAA
*
4007484 ACAATCTTGAGGGAAATAAATTTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTT
1 ACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTT
4007549 AAGAATG
66 AAGAATG
*
4007556 ACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTTTGTTTT
1 ACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTT
4007621 A
66 A
4007622 GTTTGTTTTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
72 64 1.00
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.33
Consensus pattern (72 bp):
ACAATCTTGAGGGAAATAAATCTTCTTTCGAGTAAAACAGTCTTAAGTGAGACAAGGTCTGTTTT
AAGAATG
Found at i:4012862 original size:5 final size:5
Alignment explanation
Indices: 4012847--4012936 Score: 51
Period size: 5 Copynumber: 17.2 Consensus size: 5
4012837 ATCATAAATT
* * * *
4012847 AATAA ATTAA AATAA AATAA GATAA AAGAA AAT-A AATAA TAATAA GAGTAAA
1 AATAA AATAA AATAA AATAA AATAA AATAA AATAA AATAA -AATAA -AAT-AA
*
4012899 AAGTAA AGATAGAA AATAA AATAA AA-GA AAT-A AATAA A
1 AA-TAA A-AT--AA AATAA AATAA AATAA AATAA AATAA A
4012937 CAGTGAATAT
Statistics
Matches: 66, Mismatches: 10, Indels: 18
0.70 0.11 0.19
Matches are distributed among these distances:
4 11 0.17
5 34 0.52
6 12 0.18
7 6 0.09
8 3 0.05
ACGTcount: A:0.72, C:0.00, G:0.09, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:4013957 original size:161 final size:164
Alignment explanation
Indices: 4013692--4014016 Score: 629
Period size: 161 Copynumber: 2.0 Consensus size: 164
4013682 CTTCGAGGCA
4013692 ATGAGGAAGAAGATAACACATGCAAGCCAAAAACACGACATGCAAAGAAGGTACTTTTTATTTGG
1 ATGAGGAAGAAGATAACACATGCAAGCCAAAAACACGACATGCAAAGAAGGTACTTTTTATTTGG
4013757 AATCTAGTTTTCGCAGATTACAAGCTTTTTTTTCACTTGATTTCCTCGCAAAATCTCTC-GT-AT
66 AATCTAGTTTTCGCAGATTACAAGCTTTTTTTTCACTTGATTTCCTCGCAAAATCTCTCGGTAAT
4013820 CTCTCGTA-TACTTGTGAATATTGTGTGTATATC
131 CTCTCGTATTACTTGTGAATATTGTGTGTATATC
4013853 ATGAGGAAGAAGATAACACATGCAAGCCAAAAACACGACATGCAAAGAAGGTACTTTTTATTTGG
1 ATGAGGAAGAAGATAACACATGCAAGCCAAAAACACGACATGCAAAGAAGGTACTTTTTATTTGG
4013918 AATCTAGTTTTCGCAGATTACAAGCTTTTTTTTCACTTGATTTCCTCGCAAAATCTCTCGGTAAT
66 AATCTAGTTTTCGCAGATTACAAGCTTTTTTTTCACTTGATTTCCTCGCAAAATCTCTCGGTAAT
4013983 CTCTCGTATTACTTGTGAATATTGTGTGTATATC
131 CTCTCGTATTACTTGTGAATATTGTGTGTATATC
4014017 GTGTAAAAAA
Statistics
Matches: 161, Mismatches: 0, Indels: 3
0.98 0.00 0.02
Matches are distributed among these distances:
161 124 0.77
162 2 0.01
163 10 0.06
164 25 0.16
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (164 bp):
ATGAGGAAGAAGATAACACATGCAAGCCAAAAACACGACATGCAAAGAAGGTACTTTTTATTTGG
AATCTAGTTTTCGCAGATTACAAGCTTTTTTTTCACTTGATTTCCTCGCAAAATCTCTCGGTAAT
CTCTCGTATTACTTGTGAATATTGTGTGTATATC
Found at i:4014034 original size:56 final size:56
Alignment explanation
Indices: 4013967--4014081 Score: 230
Period size: 56 Copynumber: 2.1 Consensus size: 56
4013957 ATTTCCTCGC
4013967 AAAATCTCTCGGTAATCTCTCGTATTACTTGTGAATATTGTGTGTATATCGTGTAA
1 AAAATCTCTCGGTAATCTCTCGTATTACTTGTGAATATTGTGTGTATATCGTGTAA
4014023 AAAATCTCTCGGTAATCTCTCGTATTACTTGTGAATATTGTGTGTATATCGTGTAA
1 AAAATCTCTCGGTAATCTCTCGTATTACTTGTGAATATTGTGTGTATATCGTGTAA
4014079 AAA
1 AAA
4014082 CACCCCCTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 59 1.00
ACGTcount: A:0.29, C:0.14, G:0.17, T:0.40
Consensus pattern (56 bp):
AAAATCTCTCGGTAATCTCTCGTATTACTTGTGAATATTGTGTGTATATCGTGTAA
Found at i:4015474 original size:19 final size:19
Alignment explanation
Indices: 4015450--4015491 Score: 75
Period size: 19 Copynumber: 2.2 Consensus size: 19
4015440 ATATCGATAT
*
4015450 TGATGTGGAAGTCGATCTG
1 TGATGTGGAAGTCGACCTG
4015469 TGATGTGGAAGTCGACCTG
1 TGATGTGGAAGTCGACCTG
4015488 TGAT
1 TGAT
4015492 AGGCGATAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.21, C:0.12, G:0.36, T:0.31
Consensus pattern (19 bp):
TGATGTGGAAGTCGACCTG
Found at i:4018800 original size:30 final size:31
Alignment explanation
Indices: 4018741--4018830 Score: 85
Period size: 30 Copynumber: 3.0 Consensus size: 31
4018731 TTTCAACTTG
* * * * * *
4018741 ACCCCTAAATTTTAGATAGAATACTAATTTG
1 ACCCATAAACTTTACATAAAATATTAATTTA
*
4018772 A-CCTTAAACTTTACATAAAATATTAATTTA
1 ACCCATAAACTTTACATAAAATATTAATTTA
* *
4018802 ACCCATAAACTTTATAT-AAATATCAATTT
1 ACCCATAAACTTTACATAAAATATTAATTT
4018831 TCCAATCAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
30 35 0.71
31 14 0.29
ACGTcount: A:0.43, C:0.16, G:0.03, T:0.38
Consensus pattern (31 bp):
ACCCATAAACTTTACATAAAATATTAATTTA
Done.