Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_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: 10425128
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 37 of 51
Found at i:7184250 original size:39 final size:39
Alignment explanation
Indices: 7184185--7184276 Score: 112
Period size: 39 Copynumber: 2.3 Consensus size: 39
7184175 GAAAGTTAAA
* ** * ** *
7184185 ATCGCAACACGAAAATGACTATCGCAACGCGAATTTGACT
1 ATCGCAACGCG-AAATGAAAATCGCAACACGAAAATCACT
7184225 ATCGCAACGCGAAATGAAAATCGCAACACGAAAATCACT
1 ATCGCAACGCGAAATGAAAATCGCAACACGAAAATCACT
7184264 ATCGCAACGCGAA
1 ATCGCAACGCGAA
7184277 TTTGACTATC
Statistics
Matches: 45, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 35 0.78
40 10 0.22
ACGTcount: A:0.41, C:0.26, G:0.17, T:0.15
Consensus pattern (39 bp):
ATCGCAACGCGAAATGAAAATCGCAACACGAAAATCACT
Found at i:7184885 original size:20 final size:20
Alignment explanation
Indices: 7184860--7184907 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
7184850 TGTATTATCG
*
7184860 CGTTGCGATAGTCAGAATCA
1 CGTTGCGATAGTCAAAATCA
*
7184880 CGTTGCGATAGTCAAAATCG
1 CGTTGCGATAGTCAAAATCA
7184900 CGTTGCGA
1 CGTTGCGA
7184908 ATCTGGAAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (20 bp):
CGTTGCGATAGTCAAAATCA
Found at i:7184957 original size:19 final size:19
Alignment explanation
Indices: 7184933--7184969 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
7184923 TGCGATACTG
* *
7184933 GAGATCGCGTTGTGATTTA
1 GAGATCGCATTGCGATTTA
7184952 GAGATCGCATTGCGATTT
1 GAGATCGCATTGCGATTT
7184970 TGTTAGTCAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (19 bp):
GAGATCGCATTGCGATTTA
Found at i:7194268 original size:194 final size:195
Alignment explanation
Indices: 7193926--7194317 Score: 635
Period size: 194 Copynumber: 2.0 Consensus size: 195
7193916 TATTCGATTT
*
7193926 GTATTTTACAACTCGATTTGAACTTTAAATTTTTTTCAAGTCAAGTTTATAAAACTACTACTCGA
1 GTATTTTACAACTCAATTTGAACTTTAAATTTTTTTCAAGTCAAGTTTATAAAACTACTACTCGA
* * *
7193991 AGTCAATTTGAGTTGAGTTGAAAAAATCGATTTTTAAATTGAGCCGAGTTTTATTCACCCTAATC
66 AGTCAATTTGAGTTGAATTAAAAAAATCGATTTTTAAATTAAGCCGAGTTTTATTCACCCTAATC
*
7194056 GTGGTGAAGAATTACAAAATTGGACAGGTGACATAAACTTACAATGTTTTAGGTAGTTAAAAAGA
131 GTGGTGAAGAAATACAAAATTGGACAGGTGACATAAACTTACAATGTTTTAGGTAGTTAAAAAGA
* *
7194121 GTATTTTACAACTCAATTTGAACTTTAAA-TTTTTTCAAGTCAAGTTTATGAAACTACTACTCTA
1 GTATTTTACAACTCAATTTGAACTTTAAATTTTTTTCAAGTCAAGTTTATAAAACTACTACTCGA
** *
7194185 AGTCAATTTGAGTTGAATTAAAAAAATTTATTTTTTAAATTAAGTCGAGTTTTATTCACCCTAAT
66 AGTCAATTTGAGTTGAATTAAAAAAATCGA-TTTTTAAATTAAGCCGAGTTTTATTCACCCTAAT
* * * *
7194250 CGT-GTGAAGAAATACAAAATTGGACATGTGACATAAATTTAGAGTGTTTTAGGTAGTTAAAAAG
130 CGTGGTGAAGAAATACAAAATTGGACAGGTGACATAAACTTACAATGTTTTAGGTAGTTAAAAAG
7194314 A
195 A
7194315 GTA
1 GTA
7194318 ATTCAAACTC
Statistics
Matches: 182, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
194 119 0.65
195 63 0.35
ACGTcount: A:0.37, C:0.11, G:0.15, T:0.37
Consensus pattern (195 bp):
GTATTTTACAACTCAATTTGAACTTTAAATTTTTTTCAAGTCAAGTTTATAAAACTACTACTCGA
AGTCAATTTGAGTTGAATTAAAAAAATCGATTTTTAAATTAAGCCGAGTTTTATTCACCCTAATC
GTGGTGAAGAAATACAAAATTGGACAGGTGACATAAACTTACAATGTTTTAGGTAGTTAAAAAGA
Found at i:7195464 original size:28 final size:27
Alignment explanation
Indices: 7195380--7195480 Score: 123
Period size: 28 Copynumber: 3.6 Consensus size: 27
7195370 TATTTTCATC
*
7195380 TAAATATTTAAAATATTTTT-TTAAAA
1 TAAATATTTAAAATATTTTTATCAAAA
*
7195406 TAAATATCTAAAATTATCTTTTAGTCAAAA
1 TAAATATTTAAAA-TAT-TTTTA-TCAAAA
*
7195436 TAAGTATTTAAAATATTTTTAATCAAAA
1 TAAATATTTAAAATATTTTT-ATCAAAA
*
7195464 TAAATACTTAAAATATT
1 TAAATATTTAAAATATT
7195481 AATTTTTTTC
Statistics
Matches: 64, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
26 12 0.19
27 3 0.05
28 29 0.45
29 4 0.06
30 16 0.25
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.44
Consensus pattern (27 bp):
TAAATATTTAAAATATTTTTATCAAAA
Found at i:7197211 original size:24 final size:22
Alignment explanation
Indices: 7197183--7197228 Score: 65
Period size: 24 Copynumber: 2.0 Consensus size: 22
7197173 GGGAGGACAA
*
7197183 AAATAAATTATCAATAAAATATAT
1 AAATAAAATATC--TAAAATATAT
7197207 AAATAAAATATCTAAAATATAT
1 AAATAAAATATCTAAAATATAT
7197229 GCTAATTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 10 0.48
24 11 0.52
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATAAAATATCTAAAATATAT
Found at i:7197292 original size:16 final size:16
Alignment explanation
Indices: 7197271--7197303 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7197261 TTTCACTCAT
7197271 TCCCCTTCT-ATCCATC
1 TCCCCTT-TGATCCATC
7197287 TCCCCTTTGATCCATC
1 TCCCCTTTGATCCATC
7197303 T
1 T
7197304 TTGCGAATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 1 0.06
16 15 0.94
ACGTcount: A:0.12, C:0.45, G:0.03, T:0.39
Consensus pattern (16 bp):
TCCCCTTTGATCCATC
Found at i:7197803 original size:6 final size:7
Alignment explanation
Indices: 7197788--7197813 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
7197778 TTTAATACTG
7197788 TTTTATT
1 TTTTATT
7197795 TTTTATT
1 TTTTATT
7197802 TTTTATT
1 TTTTATT
7197809 TTTTA
1 TTTTA
7197814 ATGTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:7199431 original size:14 final size:14
Alignment explanation
Indices: 7199414--7199460 Score: 53
Period size: 14 Copynumber: 3.4 Consensus size: 14
7199404 TAATTTTATC
7199414 TTTATAACATATTT
1 TTTATAACATATTT
*
7199428 TTTAT-A-ATTTTAT
1 TTTATAACATATT-T
7199441 ATTTATAACATATTT
1 -TTTATAACATATTT
7199456 TTTAT
1 TTTAT
7199461 CTTTATAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 8
0.73 0.05 0.22
Matches are distributed among these distances:
12 4 0.15
13 2 0.07
14 15 0.56
15 2 0.07
16 4 0.15
ACGTcount: A:0.34, C:0.04, G:0.00, T:0.62
Consensus pattern (14 bp):
TTTATAACATATTT
Found at i:7199432 original size:20 final size:20
Alignment explanation
Indices: 7199407--7199483 Score: 57
Period size: 19 Copynumber: 3.5 Consensus size: 20
7199397 TTTTTAATAA
7199407 TTTTATCTTTATAACATATTT
1 TTTTATCTTTATAACATA-TT
*
7199428 TTTATAATTTTATATTTATAACATATT
1 TTT-T-ATCTT-TA--TA--ACATATT
*
7199455 TTTTATCTTTATAATAT-TT
1 TTTTATCTTTATAACATATT
7199474 TTTTATCTTT
1 TTTTATCTTT
7199484 TGACACATTT
Statistics
Matches: 46, Mismatches: 3, Indels: 16
0.71 0.05 0.25
Matches are distributed among these distances:
19 12 0.26
20 3 0.07
21 3 0.07
22 3 0.07
23 4 0.09
24 4 0.09
25 4 0.09
26 3 0.07
27 5 0.11
28 5 0.11
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (20 bp):
TTTTATCTTTATAACATATT
Found at i:7199436 original size:28 final size:28
Alignment explanation
Indices: 7199395--7199460 Score: 114
Period size: 28 Copynumber: 2.3 Consensus size: 28
7199385 CTATTTTTTA
*
7199395 ATTTTTTAATAATTTTATCTTTATAACAT
1 ATTTTTT-ATAATTTTATATTTATAACAT
7199424 ATTTTTTATAATTTTATATTTATAACAT
1 ATTTTTTATAATTTTATATTTATAACAT
7199452 ATTTTTTAT
1 ATTTTTTAT
7199461 CTTTATAATA
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
28 29 0.81
29 7 0.19
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.62
Consensus pattern (28 bp):
ATTTTTTATAATTTTATATTTATAACAT
Found at i:7199471 original size:18 final size:21
Alignment explanation
Indices: 7199435--7199483 Score: 68
Period size: 19 Copynumber: 2.5 Consensus size: 21
7199425 TTTTTTATAA
*
7199435 TTTTATATTTATAACATA-TT
1 TTTTATCTTTATAACATATTT
7199455 TTTTATCTTTAT-A-ATATTT
1 TTTTATCTTTATAACATATTT
7199474 TTTTATCTTT
1 TTTTATCTTT
7199484 TGACACATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 3 0.11
19 13 0.48
20 11 0.41
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTATCTTTATAACATATTT
Found at i:7199475 original size:19 final size:20
Alignment explanation
Indices: 7199435--7199483 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
7199425 TTTTTTATAA
*
7199435 TTTTATATTTATAACATATT
1 TTTTATCTTTATAACATATT
*
7199455 TTTTATCTTTATAATAT-TT
1 TTTTATCTTTATAACATATT
7199474 TTTTATCTTT
1 TTTTATCTTT
7199484 TGACACATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 12 0.44
20 15 0.56
ACGTcount: A:0.27, C:0.06, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTATCTTTATAACATATT
Found at i:7201504 original size:23 final size:23
Alignment explanation
Indices: 7201451--7201498 Score: 87
Period size: 23 Copynumber: 2.1 Consensus size: 23
7201441 ACTTTAGCTT
*
7201451 TTGCTTTTCTTTCTTTTTCCCTA
1 TTGCTTTTCTCTCTTTTTCCCTA
7201474 TTGCTTTTCTCTCTTTTTCCCTA
1 TTGCTTTTCTCTCTTTTTCCCTA
7201497 TT
1 TT
7201499 TTTTTTAGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.04, C:0.27, G:0.04, T:0.65
Consensus pattern (23 bp):
TTGCTTTTCTCTCTTTTTCCCTA
Found at i:7202850 original size:16 final size:17
Alignment explanation
Indices: 7202829--7202860 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
7202819 ATCTCATAAA
7202829 TCTCTAAATCT-AAATC
1 TCTCTAAATCTCAAATC
7202845 TCTCTAAATCTCAAAT
1 TCTCTAAATCTCAAAT
7202861 ACTTAAACTC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.38, C:0.25, G:0.00, T:0.38
Consensus pattern (17 bp):
TCTCTAAATCTCAAATC
Found at i:7204201 original size:15 final size:14
Alignment explanation
Indices: 7204151--7204202 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
7204141 TTATATTAAA
*
7204151 TATTTATGTAATAT
1 TATTTATATAATAT
* *
7204165 TATTTTTATTAAATAA
1 TATTTATA-T-AATAT
7204181 TATTTATATAATTAT
1 TATTTATATAA-TAT
7204196 TATTTAT
1 TATTTAT
7204203 TTAGAATTAT
Statistics
Matches: 30, Mismatches: 5, Indels: 5
0.75 0.12 0.12
Matches are distributed among these distances:
14 8 0.27
15 11 0.37
16 11 0.37
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (14 bp):
TATTTATATAATAT
Found at i:7204363 original size:16 final size:15
Alignment explanation
Indices: 7204342--7204381 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
7204332 ATTAATGTTG
7204342 ATATTTTTTTATGCTA
1 ATATTTTTTT-TGCTA
7204358 ATA-TTTTTTTGCTA
1 ATATTTTTTTTGCTA
7204372 ATATTTTTTT
1 ATATTTTTTT
7204382 GCATATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.35
15 12 0.52
16 3 0.13
ACGTcount: A:0.23, C:0.05, G:0.05, T:0.68
Consensus pattern (15 bp):
ATATTTTTTTTGCTA
Found at i:7204370 original size:14 final size:14
Alignment explanation
Indices: 7204346--7204383 Score: 67
Period size: 14 Copynumber: 2.6 Consensus size: 14
7204336 ATGTTGATAT
7204346 TTTTTTATGCTAATA
1 TTTTTT-TGCTAATA
7204361 TTTTTTTGCTAATA
1 TTTTTTTGCTAATA
7204375 TTTTTTTGC
1 TTTTTTTGC
7204384 ATATCAAACT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
14 17 0.74
15 6 0.26
ACGTcount: A:0.18, C:0.08, G:0.08, T:0.66
Consensus pattern (14 bp):
TTTTTTTGCTAATA
Found at i:7204985 original size:12 final size:13
Alignment explanation
Indices: 7204952--7204989 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
7204942 TAAATACATA
7204952 ATATATTTAATAT
1 ATATATTTAATAT
*
7204965 ATTTATTTAATAT
1 ATATATTTAATAT
7204978 A-ATATTTAATAT
1 ATATATTTAATAT
7204990 TATTAGTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 10 0.43
13 13 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATATATTTAATAT
Found at i:7208448 original size:18 final size:19
Alignment explanation
Indices: 7208414--7208454 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
7208404 TCATTTTAAT
*
7208414 TTATTTTTATTTGT-AAAA
1 TTATTTTTATATGTAAAAA
7208432 TTATTTTTAGTAT-TAAAAA
1 TTATTTTTA-TATGTAAAAA
7208451 TTAT
1 TTAT
7208455 ACCACGTGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.37, C:0.00, G:0.05, T:0.59
Consensus pattern (19 bp):
TTATTTTTATATGTAAAAA
Found at i:7229677 original size:31 final size:31
Alignment explanation
Indices: 7229583--7229690 Score: 103
Period size: 31 Copynumber: 3.5 Consensus size: 31
7229573 AGTCGAGGGT
* *
7229583 TTTACCTATG-TCTTTCGAGACATATGGACAG
1 TTTACCTAGGTTCTTT-GGGACATATGGACAG
* * ** *
7229614 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
*
7229645 TTTACCTAGGTTCTTTGGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGGACATATGGACAG
* *
7229676 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
7229691 ATGACCTGGA
Statistics
Matches: 63, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
30 13 0.21
31 47 0.75
32 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (31 bp):
TTTACCTAGGTTCTTTGGGACATATGGACAG
Found at i:7232940 original size:18 final size:17
Alignment explanation
Indices: 7232917--7232953 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
7232907 AAAAGAAGAA
*
7232917 CATCGAATGCCTTTGATG
1 CATCGAATGCATTT-ATG
7232935 CATCGAATGCATTTATG
1 CATCGAATGCATTTATG
7232952 CA
1 CA
7232954 CGATGCACAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (17 bp):
CATCGAATGCATTTATG
Found at i:7233705 original size:144 final size:147
Alignment explanation
Indices: 7233512--7233801 Score: 525
Period size: 149 Copynumber: 2.0 Consensus size: 147
7233502 GGTATGTGAC
7233512 AGAGAAAGAACAAGTGATACGAAATGTATAAATAAATGCCCATAG-TAT-ATACGAGAGC-TAGG
1 AGAGAAAGAACAAGTGATACGAAATGTATAAATAAATGCCCATAGATATGATACGAGAGCATAGG
7233574 TATAGTTGGCATGCCAAGAGTCGAGGGTTTTACCTATGTCTTTTCGAGACATATGAACAGTATAC
66 TATAGTTGGCATGCCAAGAGTCGAGGGTTTTACCTATGTC-TTTCGAGACATATGAACAGTATAC
7233639 CTATGTTCTAAGGAAAGA
130 CTATGTTCTAAGGAAAGA
7233657 AGAGAAAGAACAAGTGATACG-AATGTATAAATAAATGCCCATAGTATATGATACGAGAGCTATA
1 AGAGAAAGAACAAGTGATACGAAATGTATAAATAAATGCCCATAG-ATATGATACGAGAGC-ATA
7233721 GGTATAGTTGGCATGCCAAGAGTCGAGGGTTTTACCTATGTCTTTCGAGACATATGAACAGTATA
64 GGTATAGTTGGCATGCCAAGAGTCGAGGGTTTTACCTATGTCTTTCGAGACATATGAACAGTATA
7233786 CCTATGTTCTAAGGAA
129 CCTATGTTCTAAGGAA
7233802 CATATGGACA
Statistics
Matches: 140, Mismatches: 0, Indels: 7
0.95 0.00 0.05
Matches are distributed among these distances:
144 23 0.16
145 21 0.15
146 3 0.02
147 10 0.07
148 39 0.28
149 44 0.31
ACGTcount: A:0.37, C:0.14, G:0.23, T:0.27
Consensus pattern (147 bp):
AGAGAAAGAACAAGTGATACGAAATGTATAAATAAATGCCCATAGATATGATACGAGAGCATAGG
TATAGTTGGCATGCCAAGAGTCGAGGGTTTTACCTATGTCTTTCGAGACATATGAACAGTATACC
TATGTTCTAAGGAAAGA
Found at i:7233840 original size:30 final size:30
Alignment explanation
Indices: 7233751--7233857 Score: 92
Period size: 31 Copynumber: 3.5 Consensus size: 30
7233741 AGTCGAGGGT
* *
7233751 TTTACCTATG-TCTTTCGAGACATATGAACAG
1 TTTACCTAGGTTCTTT-G-GACATATGGACAG
* * **
7233782 TATACCTATGTTCTAAGGAACATATGGACAG
1 TTTACCTAGGTTCTTTGG-ACATATGGACAG
*
7233813 TTTACCTAGGTTCTTTGGACCTATGGACAG
1 TTTACCTAGGTTCTTTGGACATATGGACAG
* *
7233843 -TTGCCGAGGTTCTTT
1 TTTACCTAGGTTCTTT
7233858 ATGACCTCTG
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
29 13 0.21
30 12 0.19
31 35 0.56
32 3 0.05
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (30 bp):
TTTACCTAGGTTCTTTGGACATATGGACAG
Found at i:7233864 original size:30 final size:29
Alignment explanation
Indices: 7233804--7233878 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 29
7233794 CTAAGGAACA
*
7233804 TATGGACAGTTTACCTAGGTTCTTTGGACC
1 TATGGACAG-TTACCGAGGTTCTTTGGACC
* *
7233834 TATGGACAGTTGCCGAGGTTCTTTATGACC
1 TATGGACAGTTACCGAGGTTCTTT-GGACC
* *
7233864 TCTGGATAGTTACCG
1 TATGGACAGTTACCG
7233879 GGGTCTGTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 13 0.34
30 25 0.66
ACGTcount: A:0.20, C:0.20, G:0.25, T:0.35
Consensus pattern (29 bp):
TATGGACAGTTACCGAGGTTCTTTGGACC
Found at i:7245776 original size:16 final size:16
Alignment explanation
Indices: 7245755--7245787 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
7245745 GCATACACAG
7245755 GAATTTGGTTGGTATA
1 GAATTTGGTTGGTATA
7245771 GAATTTGGTTGGTATA
1 GAATTTGGTTGGTATA
7245787 G
1 G
7245788 TTTTGTGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.00, G:0.33, T:0.42
Consensus pattern (16 bp):
GAATTTGGTTGGTATA
Found at i:7247678 original size:40 final size:40
Alignment explanation
Indices: 7247630--7247710 Score: 135
Period size: 40 Copynumber: 2.0 Consensus size: 40
7247620 AACAATTTGC
*
7247630 ATTTGAATGTTGAATAATTAATGAAGTTCCAGGTTGCAGA
1 ATTTGAATGTTGAATAATTAATGAAGTTCCAGCTTGCAGA
* *
7247670 ATTTGAATGTTGAATGATTAATGAAGTTCCTGCTTGCAGA
1 ATTTGAATGTTGAATAATTAATGAAGTTCCAGCTTGCAGA
7247710 A
1 A
7247711 CCTATCTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.33, C:0.09, G:0.22, T:0.36
Consensus pattern (40 bp):
ATTTGAATGTTGAATAATTAATGAAGTTCCAGCTTGCAGA
Found at i:7252780 original size:19 final size:20
Alignment explanation
Indices: 7252742--7252782 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 20
7252732 CACATGACAT
* *
7252742 TTTTTAAATTATTTTCTTAA
1 TTTTAAAATTATTATCTTAA
7252762 TTTTAAAATTATTAT-TTAA
1 TTTTAAAATTATTATCTTAA
7252781 TT
1 TT
7252783 AAGTTTATTC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 6 0.32
20 13 0.68
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAAAATTATTATCTTAA
Found at i:7253217 original size:25 final size:23
Alignment explanation
Indices: 7253189--7253242 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
7253179 GTTAAATAAT
7253189 TATTTATGTAATTTATAAAAATTAA
1 TATTTAT-TAATTT-TAAAAATTAA
* *
7253214 TATTAATTTATTTTAAAAATTAA
1 TATTTATTAATTTTAAAAATTAA
*
7253237 AATTTA
1 TATTTA
7253243 CAATAGAATA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 14 0.56
24 5 0.20
25 6 0.24
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TATTTATTAATTTTAAAAATTAA
Found at i:7255291 original size:3 final size:3
Alignment explanation
Indices: 7255285--7255323 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
7255275 GATTAACGGG
* *
7255285 GAA GAA GAA GAT GAC GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
7255324 TGGGATGCTA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.62, C:0.03, G:0.33, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:7257513 original size:23 final size:23
Alignment explanation
Indices: 7257481--7257560 Score: 117
Period size: 23 Copynumber: 3.5 Consensus size: 23
7257471 TTCTGAAACA
7257481 TTCTTCTTCTTTCATAGACATGT
1 TTCTTCTTCTTTCATAGACATGT
*
7257504 TTCTTGTTCTTTCATAGACATGT
1 TTCTTCTTCTTTCATAGACATGT
*
7257527 TTCTTCTTCTTTCATAAATCAT-T
1 TTCTTCTTCTTTCATAGA-CATGT
*
7257550 TTCTTATTCTT
1 TTCTTCTTCTT
7257561 CTTCCATAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
23 49 0.94
24 3 0.06
ACGTcount: A:0.17, C:0.20, G:0.06, T:0.56
Consensus pattern (23 bp):
TTCTTCTTCTTTCATAGACATGT
Found at i:7257579 original size:23 final size:23
Alignment explanation
Indices: 7257553--7257602 Score: 82
Period size: 23 Copynumber: 2.2 Consensus size: 23
7257543 AATCATTTTC
7257553 TTATTCTTCTTCCATAAACCCAT
1 TTATTCTTCTTCCATAAACCCAT
* *
7257576 TTATTCTTCTTGCATAAACTCAT
1 TTATTCTTCTTCCATAAACCCAT
7257599 TTAT
1 TTAT
7257603 CCTTTTTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.26, C:0.24, G:0.02, T:0.48
Consensus pattern (23 bp):
TTATTCTTCTTCCATAAACCCAT
Found at i:7257585 original size:26 final size:26
Alignment explanation
Indices: 7257527--7257586 Score: 68
Period size: 26 Copynumber: 2.3 Consensus size: 26
7257517 ATAGACATGT
* * *
7257527 TTCTTCTTCTTTCATAAATCATTTTC
1 TTCTTCTTCTTCCATAAACCATTTTA
*
7257553 TTATTCTTCTTCCATAAACCCA-TTTA
1 TTCTTCTTCTTCCATAAA-CCATTTTA
7257579 TTCTTCTT
1 TTCTTCTT
7257587 GCATAAACTC
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
26 26 0.93
27 2 0.07
ACGTcount: A:0.20, C:0.25, G:0.00, T:0.55
Consensus pattern (26 bp):
TTCTTCTTCTTCCATAAACCATTTTA
Found at i:7263956 original size:2 final size:2
Alignment explanation
Indices: 7263951--7263976 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
7263941 AAGAAAAAAC
7263951 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
7263977 AGCAGCTAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7265330 original size:21 final size:21
Alignment explanation
Indices: 7265306--7265358 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
7265296 ATTCTGACTA
7265306 TCGCATTGCGA-TTTCTCAAAT
1 TCGCATTGCGATTTTC-CAAAT
* *
7265327 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
7265348 TCGCAATGCGA
1 TCGCATTGCGA
7265359 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:7265373 original size:20 final size:20
Alignment explanation
Indices: 7265348--7265434 Score: 104
Period size: 20 Copynumber: 4.3 Consensus size: 20
7265338 TTTTCCTAAT
7265348 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
* * ** *
7265368 TCGCAACGCAAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
7265389 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
7265409 TCGCAATGCGAAT-CTGTAAA
1 TCGCAATGCGAATAC-GTAAA
7265429 TCGCAA
1 TCGCAA
7265435 CGAGATTCTG
Statistics
Matches: 55, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
19 1 0.02
20 39 0.71
21 15 0.27
ACGTcount: A:0.39, C:0.21, G:0.20, T:0.21
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:7265444 original size:20 final size:20
Alignment explanation
Indices: 7265363--7265444 Score: 60
Period size: 20 Copynumber: 4.0 Consensus size: 20
7265353 ATGCGAATAC
*
7265363 GTAAATCGCAACGCA-AATTT
1 GTAAATCGCAACG-AGAATCT
* * *
7265383 GGAAAATCGCAATGCGAATAC-
1 -GTAAATCGCAACGAGAAT-CT
* *
7265404 GTAAATCGCAATGCGAATCT
1 GTAAATCGCAACGAGAATCT
*
7265424 GTAAATCGCAACGAGATTCT
1 GTAAATCGCAACGAGAATCT
7265444 G
1 G
7265445 ACTATCGCAA
Statistics
Matches: 50, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
19 1 0.02
20 35 0.70
21 14 0.28
ACGTcount: A:0.38, C:0.20, G:0.21, T:0.22
Consensus pattern (20 bp):
GTAAATCGCAACGAGAATCT
Found at i:7266328 original size:24 final size:24
Alignment explanation
Indices: 7266296--7266349 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
7266286 TTATTCGAAA
7266296 TTTGATCTTGGTAAATACCCGGAC
1 TTTGATCTTGGTAAATACCCGGAC
* * *
7266320 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTAAATACCCGGAC
7266344 TTTGAT
1 TTTGAT
7266350 GATTTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.22, C:0.17, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTAAATACCCGGAC
Found at i:7267907 original size:364 final size:368
Alignment explanation
Indices: 7267184--7267923 Score: 1308
Period size: 364 Copynumber: 2.0 Consensus size: 368
7267174 TATCAAAACA
*
7267184 GATAGAGATGGACGCTTTGAGTTGATGTTTATCGCCATTGGTGCTGCGGTTAGTAAATCAATATA
1 GATAGAGATGGACGCTTTGAGTTGATGTTTAT---CATTGGTGCTGCGATTAGTAAATCAATATA
* *
7267249 ATTTTGTTGACTCATTTTTGTTAGTTACATGTATTTAACATTTAAATGATTATATTTCTTGTGCA
63 ATTTTGTTGACTCATTTTTGTTAGTTACATGCATTTAACATTTAAATGATTATATTTCTTATGCA
7267314 TATGATTTTGTAGATTCGTTCGTTTATTAATTGCATGCGCCCAGTTATTATAGTTGACGGAGCAC
128 TATGATTTTGTAGATTCGTTCGTTTATTAATTGCATGCGCCCAGTTATTATAGTTGACGGAGCAC
7267379 ATTTAAAAGGTCGATACCTTGGAGTAAACTTATTAGCAGTAGCCATGGATGCTAACAATGGGATA
193 ATTTAAAAGGTCGATACCTTGGAGTAAACTTATTAGCAGTAGCCATGGATGCTAACAATGGGATA
7267444 CTGCCAATAGCTTACGGGGTTGGCAAATCTGAAACCTCTGATTCATGGACATGGTTTATGGGGCA
258 CTGCCAATAGCTTACGGGGTTGGCAAATCTGAAACCTCTGATTCATGGACATGGTTTATGGGGCA
7267509 TCTTAGGGATTGCATAGGTCCTATTAGCAATATGACAATCATATCC
323 TCTTAGGGATTGCATAGGTCCTATTAGCAATATGACAATCATATCC
* * *
7267555 GATAGAGATGGACGCTTTGAGTTGCTG-TT-T-A-TGGTGTTGCGATTAGTAAATCAATTTAATT
1 GATAGAGATGGACGCTTTGAGTTGATGTTTATCATTGGTGCTGCGATTAGTAAATCAATATAATT
* *
7267616 TTGTTGACTCATTTTTGTTAGTTACATGCATTTCACATTTAAATGATTATATTTCTTATGTATAT
66 TTGTTGACTCATTTTTGTTAGTTACATGCATTTAACATTTAAATGATTATATTTCTTATGCATAT
7267681 GATTTTGTAGATTCGTTCGTTTATTAATTGCATGCGCCCAGTTATTATAGTTGACGGAGCACATT
131 GATTTTGTAGATTCGTTCGTTTATTAATTGCATGCGCCCAGTTATTATAGTTGACGGAGCACATT
*
7267746 TAAAAGGTCGATACCTTGGAGTAAACTTATTAGTAGTAGCCATGGATGCTAACAATGGGATACTG
196 TAAAAGGTCGATACCTTGGAGTAAACTTATTAGCAGTAGCCATGGATGCTAACAATGGGATACTG
* *
7267811 CCAATAGCTTATGGGGTTGGCAAATTTGAAACCTCTGATTCATGGACATGGTTTATGGGGCATCT
261 CCAATAGCTTACGGGGTTGGCAAATCTGAAACCTCTGATTCATGGACATGGTTTATGGGGCATCT
* *
7267876 TAGGGATTGCATAGGTCCTATTAGTAATATGACAATCATATCT
326 TAGGGATTGCATAGGTCCTATTAGCAATATGACAATCATATCC
7267919 GATAG
1 GATAG
7267924 GGCAAACTCA
Statistics
Matches: 356, Mismatches: 13, Indels: 7
0.95 0.03 0.02
Matches are distributed among these distances:
364 326 0.92
365 1 0.00
369 1 0.00
370 2 0.01
371 26 0.07
ACGTcount: A:0.28, C:0.14, G:0.22, T:0.37
Consensus pattern (368 bp):
GATAGAGATGGACGCTTTGAGTTGATGTTTATCATTGGTGCTGCGATTAGTAAATCAATATAATT
TTGTTGACTCATTTTTGTTAGTTACATGCATTTAACATTTAAATGATTATATTTCTTATGCATAT
GATTTTGTAGATTCGTTCGTTTATTAATTGCATGCGCCCAGTTATTATAGTTGACGGAGCACATT
TAAAAGGTCGATACCTTGGAGTAAACTTATTAGCAGTAGCCATGGATGCTAACAATGGGATACTG
CCAATAGCTTACGGGGTTGGCAAATCTGAAACCTCTGATTCATGGACATGGTTTATGGGGCATCT
TAGGGATTGCATAGGTCCTATTAGCAATATGACAATCATATCC
Found at i:7269389 original size:20 final size:20
Alignment explanation
Indices: 7269358--7269424 Score: 98
Period size: 20 Copynumber: 3.4 Consensus size: 20
7269348 CAACAACAAA
*
7269358 ATCGCAACGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
*
7269378 AGCGCAATGCGAAAATGACT
1 ATCGCAATGCGAAAATGACT
**
7269398 ATCGCAATGCGAATTTGACT
1 ATCGCAATGCGAAAATGACT
7269418 ATCGCAA
1 ATCGCAA
7269425 CGAGAGAATC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.37, C:0.22, G:0.21, T:0.19
Consensus pattern (20 bp):
ATCGCAATGCGAAAATGACT
Found at i:7269479 original size:20 final size:20
Alignment explanation
Indices: 7269450--7269540 Score: 113
Period size: 20 Copynumber: 4.8 Consensus size: 20
7269440 GCGATTTTCA
*
7269450 TTTCGTATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
7269470 TTTCGCATTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
7269490 TTTCGCATTGCGAT--TC--
1 TTTCGCATTGCGATAGTCAT
*
7269506 TCTCG--TTGCGATAGTCAT
1 TTTCGCATTGCGATAGTCAT
*
7269524 TTTCGCGTTGCGATAGT
1 TTTCGCATTGCGATAGT
7269541 AAACTATTAT
Statistics
Matches: 62, Mismatches: 3, Indels: 12
0.81 0.04 0.16
Matches are distributed among these distances:
14 7 0.11
16 6 0.10
18 6 0.10
20 43 0.69
ACGTcount: A:0.16, C:0.20, G:0.22, T:0.42
Consensus pattern (20 bp):
TTTCGCATTGCGATAGTCAT
Found at i:7271438 original size:20 final size:20
Alignment explanation
Indices: 7271413--7271462 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
7271403 CTAAATCTTT
7271413 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
7271433 AAATCGCAACACGAAAATGA
1 AAATCGCAACACGAAAATGA
**
7271453 CTATCGCAAC
1 AAATCGCAAC
7271463 GCAAGAATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.50, C:0.24, G:0.14, T:0.12
Consensus pattern (20 bp):
AAATCGCAACACGAAAATGA
Found at i:7271492 original size:33 final size:34
Alignment explanation
Indices: 7271434--7271507 Score: 98
Period size: 33 Copynumber: 2.2 Consensus size: 34
7271424 CGAAAATGAA
**
7271434 AATCGCAACACGAAAATGACTATCGCAACG-CAAG
1 AATCGCAACACGAAAATGAAAATCGCAACGAC-AG
*
7271468 AATCGCAACGCG-AAATGAAAATCGCAACGACAG
1 AATCGCAACACGAAAATGAAAATCGCAACGACAG
7271501 AATCGCA
1 AATCGCA
7271508 TTGCAATAGT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
33 24 0.67
34 12 0.33
ACGTcount: A:0.45, C:0.26, G:0.19, T:0.11
Consensus pattern (34 bp):
AATCGCAACACGAAAATGAAAATCGCAACGACAG
Found at i:7271893 original size:22 final size:22
Alignment explanation
Indices: 7271832--7271893 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
7271822 TGACCGTGAA
* *
7271832 TGATTTCGTCGGAAATGGAGAC
1 TGATTTCGTCGGAGATGGGGAC
*
7271854 TGATATCGTC---G-TGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
7271872 TGATTTCGTCGGAGATGGGGAC
1 TGATTTCGTCGGAGATGGGGAC
7271894 GGATGTTGCC
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
18 15 0.47
21 1 0.03
22 16 0.50
ACGTcount: A:0.21, C:0.15, G:0.37, T:0.27
Consensus pattern (22 bp):
TGATTTCGTCGGAGATGGGGAC
Found at i:7272097 original size:20 final size:20
Alignment explanation
Indices: 7272072--7272183 Score: 161
Period size: 20 Copynumber: 5.5 Consensus size: 20
7272062 GCTATGTAAA
7272072 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
7272092 TCGCATTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
7272112 TCGCATTGCGATTTACGTAA
1 TCGCATTGCGATTTACGTAT
* **
7272132 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGA-TTTACGTAT
*
7272153 TCGCGTTGCGATTTACGTAT
1 TCGCATTGCGATTTACGTAT
*
7272173 TCGTATTGCGA
1 TCGCATTGCGA
7272184 ATTAGGAAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
20 65 0.81
21 15 0.19
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (20 bp):
TCGCATTGCGATTTACGTAT
Found at i:7272127 original size:40 final size:41
Alignment explanation
Indices: 7272072--7272183 Score: 163
Period size: 41 Copynumber: 2.8 Consensus size: 41
7272062 GCTATGTAAA
**
7272072 TCGCATTGCGATTTACGTATTCGCATTGCGA-TTTACGTAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTACAAAT
* *
7272112 TCGCATTGCGATTTACGTAATCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTACGTATTCGCATTGCGATTTTACAAAT
* *
7272153 TCGCGTTGCGATTTACGTATTCGTATTGCGA
1 TCGCATTGCGATTTACGTATTCGCATTGCGA
7272184 ATTAGGAAAA
Statistics
Matches: 64, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 30 0.47
41 34 0.53
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (41 bp):
TCGCATTGCGATTTACGTATTCGCATTGCGATTTTACAAAT
Found at i:7272167 original size:61 final size:60
Alignment explanation
Indices: 7272070--7272183 Score: 174
Period size: 61 Copynumber: 1.9 Consensus size: 60
7272060 GCGCTATGTA
**
7272070 AATCGCATTGCGATTTACGTATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
1 AATCGCATTGCGATTTACAAATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
* * *
7272130 AATCGCATTGCGATTTTCCAAATTCGCGTTGCGATTTACGTATTCGTATTGCGA
1 AATCGCATTGCGA-TTTACAAATTCGCATTGCGATTTACGTATTCGCATTGCGA
7272184 ATTAGGAAAA
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
60 13 0.27
61 35 0.73
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (60 bp):
AATCGCATTGCGATTTACAAATTCGCATTGCGATTTACGTATTCGCATTGCGATTTACGT
Found at i:7272206 original size:21 final size:21
Alignment explanation
Indices: 7272180--7272225 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
7272170 TATTCGTATT
7272180 GCGAATTAGGAAAATCGCAAC
1 GCGAATTAGGAAAATCGCAAC
* * *
7272201 GCGAATTTGGGAAATCGCAAT
1 GCGAATTAGGAAAATCGCAAC
7272222 GCGA
1 GCGA
7272226 TAGTCAGAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.17
Consensus pattern (21 bp):
GCGAATTAGGAAAATCGCAAC
Found at i:7273040 original size:29 final size:28
Alignment explanation
Indices: 7272958--7273045 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 28
7272948 TTTGAATATC
*
7272958 AAAAGTTACAAAATGGTCCTCAACTA-T
1 AAAAGTTACAAAATGGTCCTCGACTATT
* ** *
7272985 AAAGAGTTGCTTTATTGAGTCTCTCGACTATT
1 AAA-AGTTAC-AAAATG-GTC-CTCGACTATT
7273017 AAAAGTTACAAAATGGTCACTCGACTATT
1 AAAAGTTACAAAATGGTC-CTCGACTATT
7273046 TATTATGTTA
Statistics
Matches: 46, Mismatches: 10, Indels: 8
0.72 0.16 0.12
Matches are distributed among these distances:
27 3 0.07
28 5 0.11
29 16 0.35
30 6 0.13
31 12 0.26
32 4 0.09
ACGTcount: A:0.36, C:0.17, G:0.15, T:0.32
Consensus pattern (28 bp):
AAAAGTTACAAAATGGTCCTCGACTATT
Found at i:7283001 original size:22 final size:21
Alignment explanation
Indices: 7282959--7283001 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
7282949 ATATAAAAAA
*
7282959 TTATTTTTTATTAAATATTTT
1 TTATTTTGTATTAAATATTTT
*
7282980 TTATATTTGTATTTAAT-TTTT
1 TTAT-TTTGTATTAAATATTTT
7283001 T
1 T
7283002 AAATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (21 bp):
TTATTTTGTATTAAATATTTT
Found at i:7287160 original size:339 final size:339
Alignment explanation
Indices: 7286538--7287192 Score: 1078
Period size: 339 Copynumber: 1.9 Consensus size: 339
7286528 TTTGTGAGGT
*
7286538 TAGAAAGTCACTTGAAGAGGCATTGTCATTGGCAGAAAATAAAATTTCACTTCTTATCAGTGAGA
1 TAGAAAGTCACTTGAAGAGGCATTGTCACTGGCAGAAAATAAAATTTCACTTCTTATCAGTGAGA
* *
7286603 AAGAGGAGGTTCAAGGTAGCAGAGCTGCTTCAGAGATGGAAATGGAGAAACTGAGAGAGGAAGGC
66 AAGAGGAGGTTCAAGGTAGCAGAGCTGATTCAGAGATCGAAATGGAGAAACTGAGAGAGGAAGGC
* * *
7286668 GCTATTCAGGCTAGCAAACTCTCAGAGGCGTATAACACTATAAAGTCACTAGAAAGTGCACTTTC
131 GCTATTCAAGCTAGCAAACTCTCAGAGGCATATAACACTATAAAGTCACTAGAAAGTGAACTTTC
* * * * *
7286733 TCAGGCAGAGATGAGTGTTGCTTCATTAACTGAACAATGTAACAATTCACAAGTGGAAATAACAA
196 TCAGGCAGAGACGACTGTCGCTTCATTAACTGAACAAAGTAACAATTCACAACTGGAAATAACAA
* * *
7286798 ACTTGGAGAATGAGCTGAAGAAACTAAAAGATGGAACTGAGATCCAGGCTAGGGAGTTGGCTAAT
261 ACTTGGAGAATGAGCTAAAGAAACTAAAAGATGAAACCGAGATCCAGGCTAGGGAGTTGGCTAAT
7286863 GTTGAGATCCAGGC
326 GTTGAGATCCAGGC
*
7286877 TAGAAAGTCACTTGAAGAGGCATTGTCACTGGCAGAAAATAAAATTTCACTTCTTATCCGTGAGA
1 TAGAAAGTCACTTGAAGAGGCATTGTCACTGGCAGAAAATAAAATTTCACTTCTTATCAGTGAGA
*
7286942 AAGAGGAGGTTCAAGGTAGCATAGCTGATTCAGAGA-CGACAATGGAGAAACTGAGAGAGGAAGG
66 AAGAGGAGGTTCAAGGTAGCAGAGCTGATTCAGAGATCGA-AATGGAGAAACTGAGAGAGGAAGG
* * * *
7287006 TGCTATTCAAGCTAGCAGACTCTCTGAGGCATATAACACTATAAAGTCACTTGAAAGTGAACTTT
130 CGCTATTCAAGCTAGCAAACTCTCAGAGGCATATAACACTATAAAGTCACTAGAAAGTGAACTTT
* * *
7287071 CTCAGGCGGAGACGACTGTCGCTTCATTAACTGAACAAAGTAACAATTCACAACTGGAAATGACC
195 CTCAGGCAGAGACGACTGTCGCTTCATTAACTGAACAAAGTAACAATTCACAACTGGAAATAACA
*
7287136 AACTTGGATAATGAGCTAAAGAAACTAAAAGATGAAACCGAGATCCAGGCTAGGGAG
260 AACTTGGAGAATGAGCTAAAGAAACTAAAAGATGAAACCGAGATCCAGGCTAGGGAG
7287193 CTAGCTGATG
Statistics
Matches: 291, Mismatches: 24, Indels: 2
0.92 0.08 0.01
Matches are distributed among these distances:
338 2 0.01
339 289 0.99
ACGTcount: A:0.37, C:0.16, G:0.25, T:0.22
Consensus pattern (339 bp):
TAGAAAGTCACTTGAAGAGGCATTGTCACTGGCAGAAAATAAAATTTCACTTCTTATCAGTGAGA
AAGAGGAGGTTCAAGGTAGCAGAGCTGATTCAGAGATCGAAATGGAGAAACTGAGAGAGGAAGGC
GCTATTCAAGCTAGCAAACTCTCAGAGGCATATAACACTATAAAGTCACTAGAAAGTGAACTTTC
TCAGGCAGAGACGACTGTCGCTTCATTAACTGAACAAAGTAACAATTCACAACTGGAAATAACAA
ACTTGGAGAATGAGCTAAAGAAACTAAAAGATGAAACCGAGATCCAGGCTAGGGAGTTGGCTAAT
GTTGAGATCCAGGC
Found at i:7299235 original size:6 final size:6
Alignment explanation
Indices: 7299219--7299283 Score: 53
Period size: 6 Copynumber: 10.7 Consensus size: 6
7299209 ATATATATTA
* * * *
7299219 TAAATTT TAAATT TAAACT CAAA-T TAAATTT TAAATT TAAACT CAAA-T
1 TAAA-TT TAAATT TAAATT TAAATT TAAA-TT TAAATT TAAATT TAAATT
7299267 TAAATT ATAAATT TAAA
1 TAAATT -TAAATT TAAA
7299284 GTGAAATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 9
0.76 0.10 0.14
Matches are distributed among these distances:
5 8 0.17
6 25 0.52
7 15 0.31
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (6 bp):
TAAATT
Found at i:7299290 original size:24 final size:24
Alignment explanation
Indices: 7299219--7299283 Score: 121
Period size: 24 Copynumber: 2.7 Consensus size: 24
7299209 ATATATATTA
7299219 TAAATTTTAAATTTAAACTCAAAT
1 TAAATTTTAAATTTAAACTCAAAT
7299243 TAAATTTTAAATTTAAACTCAAAT
1 TAAATTTTAAATTTAAACTCAAAT
*
7299267 TAAATTATAAATTTAAA
1 TAAATTTTAAATTTAAA
7299284 GTGAAATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 40 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (24 bp):
TAAATTTTAAATTTAAACTCAAAT
Found at i:7302994 original size:16 final size:16
Alignment explanation
Indices: 7302973--7303018 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 16
7302963 ACCCGAATTG
*
7302973 AAGCAACCGGAACCAA
1 AAGCAACCCGAACCAA
*
7302989 AAGCAACCCGAATCAA
1 AAGCAACCCGAACCAA
* *
7303005 AATCAACACGAACC
1 AAGCAACCCGAACC
7303019 GAATTTAACC
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.04
Consensus pattern (16 bp):
AAGCAACCCGAACCAA
Found at i:7303421 original size:75 final size:75
Alignment explanation
Indices: 7303271--7303480 Score: 251
Period size: 75 Copynumber: 2.8 Consensus size: 75
7303261 CAAAGCCAAA
* * * * **
7303271 AATTACAGATTGCTCAGAGGGAACCGATTCCCCCCCATAGGAGGAACCGATTCCCCCCTGAATGG
1 AATTCCAGAATGCTCGGAGGGAACCGATT--CCCCCATAGGAGGAACCGATTCCCCCCTAAACAG
7303336 TTTGGCTCCGAG
64 TTTGGCTCCGAG
* *
7303348 ATTTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACATTT
1 AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
* * *
7303413 TTGTTCCGAT
66 TGGCTCCGAG
* * * *
7303423 AATTCCAGTATGCTCGGAGGGAACCGATCCCCCCCA-AGGGGGTACCGATTCCCCCCTA
1 AATTCCAGAATGCTCGGAGGGAACCGAT-TCCCCCATAGGAGGAACCGATTCCCCCCTA
7303481 TTCAACGGTC
Statistics
Matches: 116, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
75 85 0.73
76 6 0.05
77 25 0.22
ACGTcount: A:0.24, C:0.31, G:0.23, T:0.21
Consensus pattern (75 bp):
AATTCCAGAATGCTCGGAGGGAACCGATTCCCCCATAGGAGGAACCGATTCCCCCCTAAACAGTT
TGGCTCCGAG
Found at i:7309284 original size:21 final size:23
Alignment explanation
Indices: 7309260--7309310 Score: 70
Period size: 23 Copynumber: 2.3 Consensus size: 23
7309250 AGAGAATCGA
7309260 TCCCCCCCTG-A-GGGAACCGAT
1 TCCCCCCCTGAAGGGGAACCGAT
**
7309281 TCCCCCTTTGAAGGGGAACCGAT
1 TCCCCCCCTGAAGGGGAACCGAT
7309304 TCCCCCC
1 TCCCCCC
7309311 ACAGGGGAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 8 0.32
22 1 0.04
23 16 0.64
ACGTcount: A:0.18, C:0.43, G:0.22, T:0.18
Consensus pattern (23 bp):
TCCCCCCCTGAAGGGGAACCGAT
Found at i:7309318 original size:21 final size:21
Alignment explanation
Indices: 7309292--7309331 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
7309282 CCCCCTTTGA
*
7309292 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
7309313 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
7309332 TGGGGTTCTG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:7312037 original size:75 final size:75
Alignment explanation
Indices: 7311947--7312114 Score: 210
Period size: 75 Copynumber: 2.2 Consensus size: 75
7311937 TTGCTCAGAG
* ** * *
7311947 GGAACCGATTCCCCCCTGAATGGTTTGGCTCCGAGATTTCCAGAATGCTCGGAGGGAACCGATTC
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAGGGAACCGATCC
*
7312012 CCCCATAGGA
66 CCCCACAGGA
* * * * *
7312022 GGAACCGATTCCCCCCTAAACATTTTTGTTCCGAGAATTCCAGTATGCTCGGAGGGAACTGATCC
1 GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAGGGAACCGATCC
* *
7312087 CCCCCCAGGG
66 CCCCACAGGA
*
7312097 GGTACCGATTCCCCCCTA
1 GGAACCGATTCCCCCCTA
7312115 TTCAACGGTC
Statistics
Matches: 79, Mismatches: 14, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 79 1.00
ACGTcount: A:0.22, C:0.32, G:0.24, T:0.22
Consensus pattern (75 bp):
GGAACCGATTCCCCCCTAAACAGTTTGGCTCCGAGAATTCCAGAATGCTCGGAGGGAACCGATCC
CCCCACAGGA
Found at i:7312972 original size:23 final size:24
Alignment explanation
Indices: 7312938--7313023 Score: 61
Period size: 23 Copynumber: 3.5 Consensus size: 24
7312928 TATGTTACTT
7312938 ATAATAAA-AATATTAAATTTATA
1 ATAATAAATAATATTAAATTTATA
* ** *
7312961 ATAA-AAATAATATAAAACAACTAAA
1 ATAATAAATAATAT-TAA-ATTTATA
* *
7312986 ACAAAGTAAATAATATTAGATTTATA
1 A-TAA-TAAATAATATTAAATTTATA
7313012 ATAA-AAATAATA
1 ATAATAAATAATA
7313024 GAAAGTTTAG
Statistics
Matches: 46, Mismatches: 11, Indels: 12
0.67 0.16 0.17
Matches are distributed among these distances:
22 3 0.07
23 17 0.37
24 2 0.04
25 7 0.15
26 7 0.15
27 1 0.02
28 9 0.20
ACGTcount: A:0.64, C:0.03, G:0.02, T:0.30
Consensus pattern (24 bp):
ATAATAAATAATATTAAATTTATA
Found at i:7318531 original size:40 final size:40
Alignment explanation
Indices: 7318464--7318575 Score: 109
Period size: 40 Copynumber: 2.8 Consensus size: 40
7318454 AAATGACCAA
* * **
7318464 CAAATTCGCAACGCGAACTCCAATTTCGCAACTC-AGTTTC
1 CAAATTCGCAACACGAATTTTAATTTCGCAACTCGA-TTTC
** ** * *
7318504 CAAATTCGCAATGCGAATTTTCTTTTCGTAACTCGATTTT
1 CAAATTCGCAACACGAATTTTAATTTCGCAACTCGATTTC
*
7318544 CGAATTCGCAACACGAATTTTAATTTCGCAAC
1 CAAATTCGCAACACGAATTTTAATTTCGCAAC
7318576 AGGTTTTAGT
Statistics
Matches: 57, Mismatches: 14, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 56 0.98
41 1 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.32
Consensus pattern (40 bp):
CAAATTCGCAACACGAATTTTAATTTCGCAACTCGATTTC
Found at i:7318573 original size:20 final size:19
Alignment explanation
Indices: 7318548--7318595 Score: 62
Period size: 18 Copynumber: 2.5 Consensus size: 19
7318538 GATTTTCGAA
7318548 TTCGCAACACGAATTTTAAT
1 TTCGCAACACG-ATTTTAAT
* *
7318568 TTCGCAACA-GGTTTTAGT
1 TTCGCAACACGATTTTAAT
7318586 TTCGCAACAC
1 TTCGCAACAC
7318596 AAATGTTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 15 0.60
19 1 0.04
20 9 0.36
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (19 bp):
TTCGCAACACGATTTTAAT
Found at i:7318751 original size:14 final size:15
Alignment explanation
Indices: 7318732--7318769 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
7318722 TCCCCATCTC
7318732 TAATTTTTTT-TACA
1 TAATTTTTTTCTACA
*
7318746 TAATTTTATTTCTATA
1 TAATTTT-TTTCTACA
7318762 TAATTTTT
1 TAATTTTT
7318770 CAATGATTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 7 0.33
15 4 0.19
16 10 0.48
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (15 bp):
TAATTTTTTTCTACA
Found at i:7319555 original size:24 final size:24
Alignment explanation
Indices: 7319523--7319576 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
7319513 GTATTCGAAA
7319523 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
7319547 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
7319571 TTTGAT
1 TTTGAT
7319577 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:7321879 original size:29 final size:29
Alignment explanation
Indices: 7321841--7321897 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
7321831 CTTATCAGAT
* *
7321841 TGTTGTGATTGTTGCGAAAGTCAAATTCA
1 TGTTGCGATTGTTACGAAAGTCAAATTCA
7321870 TGTTGCGATTGTTACGAAAGTCAAATTC
1 TGTTGCGATTGTTACGAAAGTCAAATTC
7321898 GAAACGCGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.23, T:0.37
Consensus pattern (29 bp):
TGTTGCGATTGTTACGAAAGTCAAATTCA
Found at i:7321906 original size:29 final size:29
Alignment explanation
Indices: 7321847--7321906 Score: 68
Period size: 29 Copynumber: 2.1 Consensus size: 29
7321837 AGATTGTTGT
* ***
7321847 GATTGTTGCGAAAGTCAAATTCATGTTGC
1 GATTGTTACGAAAGTCAAATTCATAACGC
7321876 GATTGTTACGAAAGTCAAATTCGA-AACGC
1 GATTGTTACGAAAGTCAAATTC-ATAACGC
7321905 GA
1 GA
7321907 AATCGCAATG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
29 25 0.96
30 1 0.04
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (29 bp):
GATTGTTACGAAAGTCAAATTCATAACGC
Found at i:7323386 original size:21 final size:21
Alignment explanation
Indices: 7323360--7323473 Score: 95
Period size: 21 Copynumber: 5.4 Consensus size: 21
7323350 GTGAATCGGG
* *
7323360 CTCTTGAACGGTGGGAGAGAC
1 CTCTTGAACGGTGGGAGGGGC
** ***
7323381 CTCTTGAACAATAACAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
7323402 CTCTTGAACGGTGGGAGGGGC
1 CTCTTGAACGGTGGGAGGGGC
**
7323423 CTCTTGAA-GGATGATAGGGGC
1 CTCTTGAACGG-TGGGAGGGGC
* * *
7323444 CTCTTGAACGATAGGAGAGGC
1 CTCTTGAACGGTGGGAGGGGC
*
7323465 ATCTTGAAC
1 CTCTTGAAC
7323474 AATGACAGGT
Statistics
Matches: 71, Mismatches: 20, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
20 2 0.03
21 68 0.96
22 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.34, T:0.21
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGC
Found at i:7323426 original size:42 final size:42
Alignment explanation
Indices: 7323360--7323482 Score: 165
Period size: 42 Copynumber: 2.9 Consensus size: 42
7323350 GTGAATCGGG
* *
7323360 CTCTTGAACGGTGGGAGAGACCTCTTGAACAATAACAGGGGC
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACAATGACAGGGGC
* ** *
7323402 CTCTTGAACGGTGGGAGGGGCCTCTTGAAGGATGATAGGGGC
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACAATGACAGGGGC
* * *
7323444 CTCTTGAACGATAGGAGAGGCATCTTGAACAATGACAGG
1 CTCTTGAACGGTGGGAGAGGCCTCTTGAACAATGACAGG
7323483 TGAATCGGGC
Statistics
Matches: 68, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 68 1.00
ACGTcount: A:0.27, C:0.19, G:0.34, T:0.20
Consensus pattern (42 bp):
CTCTTGAACGGTGGGAGAGGCCTCTTGAACAATGACAGGGGC
Found at i:7324077 original size:33 final size:33
Alignment explanation
Indices: 7324040--7324139 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 33
7324030 GCTCGATGAT
7324040 GTGATGGAATAGGTGATGACTCTCGTTGTGGAG
1 GTGATGGAATAGGTGATGACTCTCGTTGTGGAG
* * ** * * *
7324073 GTGATGG--T-GGAGAAGAGACTCG--AT-AAT
1 GTGATGGAATAGGTGATGACTCTCGTTGTGGAG
7324100 GTGATGGAATAGGTGATGACTCTCGTTGTGGAG
1 GTGATGGAATAGGTGATGACTCTCGTTGTGGAG
7324133 GTGATGG
1 GTGATGG
7324140 CTCTGGGTGT
Statistics
Matches: 47, Mismatches: 14, Indels: 12
0.64 0.19 0.16
Matches are distributed among these distances:
27 8 0.17
28 1 0.02
29 1 0.02
30 20 0.43
31 1 0.02
32 1 0.02
33 15 0.32
ACGTcount: A:0.24, C:0.08, G:0.40, T:0.28
Consensus pattern (33 bp):
GTGATGGAATAGGTGATGACTCTCGTTGTGGAG
Found at i:7324139 original size:60 final size:60
Alignment explanation
Indices: 7324010--7324139 Score: 224
Period size: 60 Copynumber: 2.2 Consensus size: 60
7324000 CGCCTATCAT
* * *
7324010 GAGGTGATGATGGAGAAAAGGCTCGATGATGTGATGGAATAGGTGATGACTCTCGTTGTG
1 GAGGTGATGGTGGAGAAAAGACTCGATAATGTGATGGAATAGGTGATGACTCTCGTTGTG
*
7324070 GAGGTGATGGTGGAGAAGAGACTCGATAATGTGATGGAATAGGTGATGACTCTCGTTGTG
1 GAGGTGATGGTGGAGAAAAGACTCGATAATGTGATGGAATAGGTGATGACTCTCGTTGTG
7324130 GAGGTGATGG
1 GAGGTGATGG
7324140 CTCTGGGTGT
Statistics
Matches: 66, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
60 66 1.00
ACGTcount: A:0.26, C:0.08, G:0.40, T:0.26
Consensus pattern (60 bp):
GAGGTGATGGTGGAGAAAAGACTCGATAATGTGATGGAATAGGTGATGACTCTCGTTGTG
Found at i:7325980 original size:22 final size:22
Alignment explanation
Indices: 7325938--7325982 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
7325928 GGATTTCGCT
* * *
7325938 GGAGATGGGGATATATTTCGTC
1 GGAGATGGGGACAGATGTCGTC
7325960 GGAGATGGGGACAGATGTCGTC
1 GGAGATGGGGACAGATGTCGTC
7325982 G
1 G
7325983 TAGAGAGTGA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.22, C:0.11, G:0.42, T:0.24
Consensus pattern (22 bp):
GGAGATGGGGACAGATGTCGTC
Found at i:7326178 original size:20 final size:20
Alignment explanation
Indices: 7326134--7326178 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
7326124 CGCACTTTGT
* *
7326134 GAATTTGACTTTTGTGTTAT
1 GAATTTGACTTATGTGTTAC
* *
7326154 AAATTTGACTTATGTGTTGC
1 GAATTTGACTTATGTGTTAC
7326174 GAATT
1 GAATT
7326179 ACAGATTCGC
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.24, C:0.07, G:0.20, T:0.49
Consensus pattern (20 bp):
GAATTTGACTTATGTGTTAC
Found at i:7328412 original size:21 final size:21
Alignment explanation
Indices: 7328386--7328432 Score: 94
Period size: 21 Copynumber: 2.2 Consensus size: 21
7328376 GTTTCCAGAT
7328386 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
7328407 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACTTCGACTA
7328428 TCGCA
1 TCGCA
7328433 TTACGATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (21 bp):
TCGCAACGCGAACTTCGACTA
Found at i:7328492 original size:21 final size:21
Alignment explanation
Indices: 7328428--7328492 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
7328418 ACTTCGACTA
* * *
7328428 TCGCATTACGA-TTTACATAT
1 TCGCATTGCGATTTTCCAAAT
** * *
7328448 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATTTTCCAAAT
7328469 TCGCATTGCGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
7328490 TCG
1 TCG
7328493 ACTATCGCAA
Statistics
Matches: 33, Mismatches: 11, Indels: 1
0.73 0.24 0.02
Matches are distributed among these distances:
20 10 0.30
21 23 0.70
ACGTcount: A:0.25, C:0.22, G:0.18, T:0.35
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:7328552 original size:90 final size:90
Alignment explanation
Indices: 7328399--7328570 Score: 317
Period size: 90 Copynumber: 1.9 Consensus size: 90
7328389 CAACGCGAAC
7328399 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTACGATTTACATATTCGCATTGCGATAGTC
1 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTACGATTTACATATTCGCATTGCGATAGTC
*
7328464 GAAGTTCGCATTGCGATTTTCCAAA
66 CAAGTTCGCATTGCGATTTTCCAAA
* *
7328489 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTTCGATAGTC
1 TTCGACTATCGCAACGCGAACTTCGACTATCGCATTACGATTTACATATTCGCATTGCGATAGTC
7328554 CAAGTTCGCATTGCGAT
66 CAAGTTCGCATTGCGAT
7328571 AGTCGAAGTT
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.26, C:0.25, G:0.18, T:0.31
Consensus pattern (90 bp):
TTCGACTATCGCAACGCGAACTTCGACTATCGCATTACGATTTACATATTCGCATTGCGATAGTC
CAAGTTCGCATTGCGATTTTCCAAA
Found at i:7328564 original size:111 final size:111
Alignment explanation
Indices: 7328386--7328681 Score: 438
Period size: 111 Copynumber: 2.7 Consensus size: 111
7328376 GTTTCCAGAT
** * * *
7328386 TCGCAACGCGAACTTCGACTATCGCAACGCGAACTT-CGACTA-TCGCATTACGAT-TTACATA-
1 TCGCAACGCGAACTTCGACTATCGCATTGCG-ATTTAC-A-TATTCGCATTACGATAGTCCA-AG
7328447 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGACTA
62 TTCGCATTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGACTA
*
7328497 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTTCGATAGTCCAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTACGATAGTCCAAGTTCG
*
7328562 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTTCCAAATTCGACTA
66 CATTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGACTA
* *
7328608 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGTTCG
1 TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTACGATAGTCCAAGTTCG
*
7328673 CGTTGCGAT
66 CATTGCGAT
7328682 TATTCCAAAT
Statistics
Matches: 171, Mismatches: 10, Indels: 8
0.90 0.05 0.04
Matches are distributed among these distances:
109 2 0.01
110 16 0.09
111 153 0.89
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (111 bp):
TCGCAACGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTACGATAGTCCAAGTTCG
CATTGCGATAGTCGAAGTTCGCATTGCGATTTTCCAAATTCGACTA
Found at i:7328603 original size:21 final size:21
Alignment explanation
Indices: 7328537--7328591 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
7328527 GATTTACATA
*
7328537 TTCGCATTTCGATAGTCCAAG
1 TTCGCATTGCGATAGTCCAAG
*
7328558 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCCAAG
*
7328579 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
7328592 TTTCCAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.20, C:0.22, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCCAAG
Found at i:7328604 original size:90 final size:90
Alignment explanation
Indices: 7328420--7328693 Score: 274
Period size: 90 Copynumber: 3.0 Consensus size: 90
7328410 CAACGCGAAC
* * **
7328420 TTCGACTATCGCATTACGATTTACATATTCGCATTGCGATAGTCGAAGTTCGCATTGCGATTTTC
1 TTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
* * *** * *
7328485 CAAATTCGAC-TAT-CGCA-ACGCGAAC
66 GAAGTTCG-CGT-TGCG-ATTTTCCAAA
*
7328510 TTCGACTATCGCATTGCGATTTACATATTCGCATTTCGATAGTCCAAGTTCGCATTGCGATAGTC
1 TTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
7328575 GAAGTTCGCGTTGCGATTTTCCAAA
66 GAAGTTCGCGTTGCGATTTTCCAAA
** * * *
7328600 TTCGACTATCGCAACGCGAACTT-CGACTA-TCGCATTGCGAT-TTACATA-TTCGCATTGCGAT
1 TTCGACTATCGCATTGCG-ATTTAC-A-TATTCGCATTGCGATAGTCCA-AGTTCGCATTGCGAT
7328661 AGTCGAAGTTCGCGTTGCGATTATTCCAAA
62 AGTCGAAGTTCGCGTTGCGATT-TTCCAAA
7328691 TTC
1 TTC
7328694 ATTGCGATAG
Statistics
Matches: 158, Mismatches: 18, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
89 3 0.02
90 127 0.80
91 26 0.16
92 2 0.01
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (90 bp):
TTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCAAGTTCGCATTGCGATAGTC
GAAGTTCGCGTTGCGATTTTCCAAA
Found at i:7328678 original size:21 final size:21
Alignment explanation
Indices: 7328648--7328722 Score: 82
Period size: 21 Copynumber: 3.6 Consensus size: 21
7328638 GATTTACATA
7328648 TTCGCATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
* * * *
7328669 TTCGCGTTGCGATTATTCCAAA
1 TTCGCATTGCGA-TAGTCGAAG
7328691 TT--CATTGCGATAGTCGAAG
1 TTCGCATTGCGATAGTCGAAG
*
7328710 TTCGCGTTGCGAT
1 TTCGCATTGCGAT
7328723 TTATTCCAAA
Statistics
Matches: 42, Mismatches: 9, Indels: 6
0.74 0.16 0.11
Matches are distributed among these distances:
19 8 0.19
20 7 0.17
21 19 0.45
22 8 0.19
ACGTcount: A:0.21, C:0.20, G:0.25, T:0.33
Consensus pattern (21 bp):
TTCGCATTGCGATAGTCGAAG
Found at i:7328679 original size:41 final size:39
Alignment explanation
Indices: 7328629--7328725 Score: 131
Period size: 41 Copynumber: 2.4 Consensus size: 39
7328619 ACTTCGACTA
* *
7328629 TCGCATTGCGATTTACATATTCGCATTGCGATAGTCGAAGT
1 TCGCGTTGCGATTTACAAATT--CATTGCGATAGTCGAAGT
*
7328670 TCGCGTTGCGATTATTCCAAATTCATTGCGATAGTCGAAGT
1 TCGCGTTGCGA-T-TTACAAATTCATTGCGATAGTCGAAGT
7328711 TCGCGTTGCGATTTA
1 TCGCGTTGCGATTTA
7328726 TTCCAAATTC
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
39 2 0.04
40 1 0.02
41 39 0.78
42 1 0.02
43 7 0.14
ACGTcount: A:0.23, C:0.20, G:0.23, T:0.35
Consensus pattern (39 bp):
TCGCGTTGCGATTTACAAATTCATTGCGATAGTCGAAGT
Found at i:7328745 original size:42 final size:41
Alignment explanation
Indices: 7328652--7328747 Score: 165
Period size: 41 Copynumber: 2.3 Consensus size: 41
7328642 TACATATTCG
7328652 CATTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
1 CATTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
7328693 CATTGCGATAGTCGAAGTTCGCGTTGCGATTTATTCCAAATT
1 CATTGCGATAGTCGAAGTTCGCGTTGCGA-TTATTCCAAATT
* *
7328735 CGTTGTGATAGTC
1 CATTGCGATAGTC
7328748 CAAAATCGCA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
41 29 0.56
42 23 0.44
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
CATTGCGATAGTCGAAGTTCGCGTTGCGATTATTCCAAATT
Found at i:7329360 original size:6 final size:6
Alignment explanation
Indices: 7329349--7329373 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
7329339 CCGTCTCGTC
7329349 TCGTGG TCGTGG TCGTGG TCGTGG T
1 TCGTGG TCGTGG TCGTGG TCGTGG T
7329374 AATACGTGTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.48, T:0.36
Consensus pattern (6 bp):
TCGTGG
Found at i:7329524 original size:42 final size:42
Alignment explanation
Indices: 7329462--7329682 Score: 390
Period size: 42 Copynumber: 5.3 Consensus size: 42
7329452 TGCAATTTTA
*
7329462 GACTATCGCAAC-ATATTTGGAATAAATCGCAACGCGAACTTC
1 GACTATCGCAACGA-ATTTGGAATAAATCGCAACGCGAACTTG
*
7329504 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
*
7329546 GACTATCACAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
*
7329588 GACTATCGCAACGAACTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
7329630 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
7329672 GACTATCGCAA
1 GACTATCGCAA
7329683 TGCGAATATG
Statistics
Matches: 171, Mismatches: 7, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
42 170 0.99
43 1 0.01
ACGTcount: A:0.36, C:0.23, G:0.20, T:0.21
Consensus pattern (42 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCGAACTTG
Found at i:7333815 original size:13 final size:15
Alignment explanation
Indices: 7333782--7333820 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
7333772 CTAATGGGCA
7333782 AAGTTTTGAAAAACT
1 AAGTTTTGAAAAACT
*
7333797 ATG-TTTGAAAAAC-
1 AAGTTTTGAAAAACT
7333810 AAGTTTTGAAA
1 AAGTTTTGAAA
7333821 TTAATATGCG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 2 0.10
14 17 0.81
15 2 0.10
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.33
Consensus pattern (15 bp):
AAGTTTTGAAAAACT
Found at i:7334316 original size:22 final size:21
Alignment explanation
Indices: 7334289--7334374 Score: 73
Period size: 22 Copynumber: 3.9 Consensus size: 21
7334279 CCAGAACCCC
*
7334289 CAGGGGGTATCGATTCCCCTA
1 CAGGGGGAATCGATTCCCCTA
*
7334310 CATGGGGGAATCGGTTCCCCTTCA
1 CA-GGGGGAATCGATTCCCC-T-A
* * *
7334334 AAGGGGGGAATCGATTCCTCTT
1 CA-GGGGGAATCGATTCCCCTA
*
7334356 CAGGAGGGTATCGATTCCC
1 CAGG-GGGAATCGATTCCC
7334375 TCTGCACTAA
Statistics
Matches: 51, Mismatches: 10, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
21 4 0.08
22 28 0.55
23 2 0.04
24 17 0.33
ACGTcount: A:0.20, C:0.26, G:0.30, T:0.24
Consensus pattern (21 bp):
CAGGGGGAATCGATTCCCCTA
Found at i:7342665 original size:26 final size:26
Alignment explanation
Indices: 7342636--7342690 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
7342626 AATGACGCGC
* *
7342636 AATGAGCGTCATAAATGCACGTTATA
1 AATGAGCGTCATAAACGCACGTCATA
*
7342662 AATGAGTGTCATAAACGCACGTCATA
1 AATGAGCGTCATAAACGCACGTCATA
7342688 AAT
1 AAT
7342691 TCATGACGCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.40, C:0.16, G:0.18, T:0.25
Consensus pattern (26 bp):
AATGAGCGTCATAAACGCACGTCATA
Found at i:7342685 original size:13 final size:13
Alignment explanation
Indices: 7342642--7342690 Score: 55
Period size: 13 Copynumber: 3.8 Consensus size: 13
7342632 GCGCAATGAG
7342642 CGTCATAAATGCA
1 CGTCATAAATGCA
*
7342655 CGTTATAAATG-A
1 CGTCATAAATGCA
* *
7342667 GTGTCATAAACGCA
1 -CGTCATAAATGCA
7342681 CGTCATAAAT
1 CGTCATAAAT
7342691 TCATGACGCA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
12 1 0.04
13 26 0.93
14 1 0.04
ACGTcount: A:0.39, C:0.18, G:0.16, T:0.27
Consensus pattern (13 bp):
CGTCATAAATGCA
Found at i:7344236 original size:25 final size:24
Alignment explanation
Indices: 7344189--7344240 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
7344179 CTAATTATCG
* *
7344189 TATATTATTATATGATATCTTTTGT
1 TATATCATTATAAGATATCTTTT-T
7344214 TATATCATTATAAGATA-CATTTTT
1 TATATCATTATAAGATATC-TTTTT
7344238 TAT
1 TAT
7344241 TATTATTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 5 0.21
25 19 0.79
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.56
Consensus pattern (24 bp):
TATATCATTATAAGATATCTTTTT
Found at i:7354438 original size:16 final size:16
Alignment explanation
Indices: 7354401--7354436 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
7354391 CACCCTAAAA
7354401 ATTTTAAATATCATTT
1 ATTTTAAATATCATTT
*
7354417 ATTTTAAATAT-TTTT
1 ATTTTAAATATCATTT
7354432 ATTTT
1 ATTTT
7354437 TATTGATAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTTAAATATCATTT
Found at i:7354547 original size:2 final size:2
Alignment explanation
Indices: 7354540--7354615 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
7354530 ACACTTTTAT
7354540 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7354582 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7354616 CAATATTTTA
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7369376 original size:21 final size:21
Alignment explanation
Indices: 7369352--7369398 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
7369342 ACTTGTATTA
*
7369352 ATTTATTA-AAAATCAATAATT
1 ATTT-TTATAAAATCAATAATC
*
7369373 ATTTTTATTAAATCAATAATC
1 ATTTTTATAAAATCAATAATC
7369394 ATTTT
1 ATTTT
7369399 GGATATAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 3 0.13
21 20 0.87
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (21 bp):
ATTTTTATAAAATCAATAATC
Found at i:7369670 original size:19 final size:20
Alignment explanation
Indices: 7369637--7369695 Score: 93
Period size: 19 Copynumber: 3.0 Consensus size: 20
7369627 ATTATGTAGC
*
7369637 AAAATTAATATTTTTGATAA
1 AAAAATAATATTTTTGATAA
7369657 AAAAATAATATTTTTGAT-A
1 AAAAATAATATTTTTGATAA
*
7369676 AAAAATAATATTTTAGATAA
1 AAAAATAATATTTTTGATAA
7369696 CGATTTATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
19 18 0.50
20 18 0.50
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
AAAAATAATATTTTTGATAA
Found at i:7370122 original size:60 final size:61
Alignment explanation
Indices: 7370004--7370132 Score: 158
Period size: 60 Copynumber: 2.1 Consensus size: 61
7369994 CTTTTTAAAT
* * * * *
7370004 ATTCTAATTTCATCCCTAAATTATGACTCTTATTCTAAATTAGTCCTTAAAATCTTGAA-C
1 ATTCCAATTTAATCCCCAAACTATGACTCTCATTCTAAATTAGTCCTTAAAATCTTGAATC
*
7370064 ATTCCAATTTAATCCCCAAACTATGACTCTCATTCTAAATTAGT-C-TACAAACTTTTGAATC
1 ATTCCAATTTAATCCCCAAACTATGACTCTCATTCTAAATTAGTCCTTA-AAA-TCTTGAATC
7370125 -TTCCAATT
1 ATTCCAATT
7370133 CCATCCAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
58 2 0.03
59 4 0.07
60 53 0.88
61 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.05, T:0.40
Consensus pattern (61 bp):
ATTCCAATTTAATCCCCAAACTATGACTCTCATTCTAAATTAGTCCTTAAAATCTTGAATC
Found at i:7371108 original size:2 final size:2
Alignment explanation
Indices: 7371101--7371140 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
7371091 AATTCATGTG
7371101 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
7371141 GAGAGAGAGA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7371629 original size:17 final size:17
Alignment explanation
Indices: 7371588--7371632 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
7371578 CCCTACTTGA
7371588 TTAAATATTTAATAAAT
1 TTAAATATTTAATAAAT
** **
7371605 TTTTATATTTTTTAAAT
1 TTAAATATTTAATAAAT
7371622 TTAAATATTTA
1 TTAAATATTTA
7371633 TTTTTATATC
Statistics
Matches: 21, Mismatches: 7, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATATTTAATAAAT
Found at i:7374925 original size:26 final size:25
Alignment explanation
Indices: 7374896--7374955 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
7374886 TCTTAATTTA
7374896 TTATGAGAAAAAAAATAATCTCTAAC
1 TTATGA-AAAAAAAATAATCTCTAAC
* *
7374922 TTATGATAAAAAAATAATCTTTAAC
1 TTATGAAAAAAAAATAATCTCTAAC
7374947 TTA-GAAAAA
1 TTATGAAAAA
7374956 TATTTTCATT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
24 5 0.16
25 20 0.65
26 6 0.19
ACGTcount: A:0.55, C:0.08, G:0.07, T:0.30
Consensus pattern (25 bp):
TTATGAAAAAAAAATAATCTCTAAC
Found at i:7374925 original size:29 final size:28
Alignment explanation
Indices: 7374884--7374949 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 28
7374874 TACAAAAGCT
*
7374884 TCTCTTAATTTATTATGAGAAAAAAAATAA
1 TCTC-TAACTTATTATGA-AAAAAAAATAA
*
7374914 TCTCTAAC---TTATGATAAAAAAATAA
1 TCTCTAACTTATTATGAAAAAAAAATAA
*
7374939 TCTTTAACTTA
1 TCTCTAACTTA
7374950 GAAAAATATT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
25 17 0.57
26 6 0.20
29 3 0.10
30 4 0.13
ACGTcount: A:0.47, C:0.11, G:0.05, T:0.38
Consensus pattern (28 bp):
TCTCTAACTTATTATGAAAAAAAAATAA
Found at i:7375371 original size:21 final size:21
Alignment explanation
Indices: 7375331--7375371 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7375321 TTAAAAAAGG
* **
7375331 AAAAATTTAAAAATGGTTAAT
1 AAAAATTGAAAAATAATTAAT
7375352 AAAAATTGAAAAATAATTAA
1 AAAAATTGAAAAATAATTAA
7375372 CGTCTATTGG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.29
Consensus pattern (21 bp):
AAAAATTGAAAAATAATTAAT
Found at i:7375868 original size:2 final size:2
Alignment explanation
Indices: 7375861--7375902 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7375851 TATTTCATAA
7375861 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7375903 TCGTAAATTA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7382477 original size:60 final size:60
Alignment explanation
Indices: 7382351--7382468 Score: 159
Period size: 60 Copynumber: 2.0 Consensus size: 60
7382341 AACCATTTCG
* * *
7382351 TAACTTTTAATAGTCGAGAGACTCAACAAAGCAACTCCCTATAGTCGAGGTATCATTTTA
1 TAACTTTTAATAGTCGAAAGACTCAACAAAACAACTCCCTATAATCGAGGTATCATTTTA
* *
7382411 TAACTTTTAATAGTCGAAAGACTCAATAAAACAA-TATCCTATAATCAGAGG-ATCATTT
1 TAACTTTTAATAGTCGAAAGACTCAACAAAACAACT-CCCTATAATC-GAGGTATCATTT
7382469 GTGTACTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
59 1 0.02
60 46 0.90
61 4 0.08
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.31
Consensus pattern (60 bp):
TAACTTTTAATAGTCGAAAGACTCAACAAAACAACTCCCTATAATCGAGGTATCATTTTA
Found at i:7383112 original size:60 final size:60
Alignment explanation
Indices: 7383038--7383155 Score: 137
Period size: 60 Copynumber: 2.0 Consensus size: 60
7383028 CACCCCAACC
* ** ** *
7383038 ATGACTCTCGTTCTAAAATAGTCCTTAAACTTTTGAACATTTTGATTTTATCCCTAAACT
1 ATGACCCTCGTTCTAAAATAGTCCCCAAACTTTTGAACATTTCAATTTCATCCCTAAACT
* * * * *
7383098 ATGACCCTCTTTCTAAATTGGTCCCCAAGCTTTTGAATATTTCAATTTCATCCCTAAA
1 ATGACCCTCGTTCTAAAATAGTCCCCAAACTTTTGAACATTTCAATTTCATCCCTAAA
7383156 TTCATCCAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
60 47 1.00
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (60 bp):
ATGACCCTCGTTCTAAAATAGTCCCCAAACTTTTGAACATTTCAATTTCATCCCTAAACT
Found at i:7383431 original size:60 final size:64
Alignment explanation
Indices: 7383288--7383434 Score: 146
Period size: 60 Copynumber: 2.4 Consensus size: 64
7383278 GTTTGGAATG
* * *
7383288 AAATTAGAATGTTTAAAAAATTTTGGGGGACTAAATTATAGAATGAATGTTATAGTCTGGGGATA
1 AAATTAGAAT-ATTAAAAAAGTTTGGGGGACTAAATTATAGAATGAATGTTATAGTCTAGGGATA
** * * *
7383353 AAATT-GAA-ATGTTCAAAAGTTT-GTGGACT-AA-TGTAGAATGATTGTTATAGT-TAAGGGAT
1 AAATTAGAATAT-TAAAAAAGTTTGGGGGACTAAATTATAGAATGAATGTTATAGTCT-AGGGAT
7383412 -
64 A
7383412 AAATTAGAATATTAAAAAAGTTT
1 AAATTAGAATATTAAAAAAGTTT
7383435 AAGGATTAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 13
0.75 0.11 0.14
Matches are distributed among these distances:
59 6 0.09
60 35 0.51
61 4 0.06
62 7 0.10
63 8 0.12
64 3 0.04
65 5 0.07
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (64 bp):
AAATTAGAATATTAAAAAAGTTTGGGGGACTAAATTATAGAATGAATGTTATAGTCTAGGGATA
Found at i:7383506 original size:33 final size:33
Alignment explanation
Indices: 7383459--7383521 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
7383449 AATGAAGTCA
7383459 TACTTTAAGGACATGTCATACAATTAACTCTCT
1 TACTTTAAGGACATGTCATACAATTAACTCTCT
* * *
7383492 TACTTTGAGTACATGTGATACAATTAACTC
1 TACTTTAAGGACATGTCATACAATTAACTC
7383522 AACATAATAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.33, C:0.19, G:0.11, T:0.37
Consensus pattern (33 bp):
TACTTTAAGGACATGTCATACAATTAACTCTCT
Found at i:7384773 original size:14 final size:14
Alignment explanation
Indices: 7384756--7384803 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
7384746 CTTGAAATCA
7384756 TAAATCTTAAATTT
1 TAAATCTTAAATTT
* **
7384770 TAAAACCAAAATTT
1 TAAATCTTAAATTT
*
7384784 TAAATATTAAATCTT
1 TAAATCTTAAAT-TT
7384799 TAAAT
1 TAAAT
7384804 TTAGATAATA
Statistics
Matches: 26, Mismatches: 7, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
14 19 0.73
15 7 0.27
ACGTcount: A:0.50, C:0.08, G:0.00, T:0.42
Consensus pattern (14 bp):
TAAATCTTAAATTT
Found at i:7386298 original size:16 final size:17
Alignment explanation
Indices: 7386271--7386313 Score: 61
Period size: 16 Copynumber: 2.5 Consensus size: 17
7386261 CCTCGTATTG
7386271 TTTCTGTTTTATTTAATA
1 TTTCT-TTTTATTTAATA
*
7386289 TTT-TTTTTATTTATTA
1 TTTCTTTTTATTTAATA
7386305 TTTCTTTTT
1 TTTCTTTTT
7386314 TCATTTTCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 14 0.61
17 6 0.26
18 3 0.13
ACGTcount: A:0.16, C:0.05, G:0.02, T:0.77
Consensus pattern (17 bp):
TTTCTTTTTATTTAATA
Found at i:7386429 original size:31 final size:32
Alignment explanation
Indices: 7386363--7386432 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
7386353 ACTTCACTCA
* *
7386363 ATTTTATTATTTAATTGTTTTTTCTTTATTCAT
1 ATTTT-TTATTTAATTGTTTTTACTTTATTAAT
*
7386396 ATTTTTTATTTAATT-TTTTTAGTTT-TCTAAT
1 ATTTTTTATTTAATTGTTTTTACTTTAT-TAAT
7386427 ATTTTT
1 ATTTTT
7386433 CTCTCTCATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
30 1 0.03
31 17 0.52
32 10 0.30
33 5 0.15
ACGTcount: A:0.21, C:0.04, G:0.03, T:0.71
Consensus pattern (32 bp):
ATTTTTTATTTAATTGTTTTTACTTTATTAAT
Found at i:7386506 original size:31 final size:30
Alignment explanation
Indices: 7386464--7386527 Score: 78
Period size: 31 Copynumber: 2.1 Consensus size: 30
7386454 TTTAGTTAGT
*
7386464 TTTATTATTTTT-TTT-TTGGTTTATTTAATA
1 TTTATTATTTTTATTTATT--TTTATCTAATA
7386494 TTTATTTATTTTTATTTATTTTTATCTAATA
1 TTTA-TTATTTTTATTTATTTTTATCTAATA
7386525 TTT
1 TTT
7386528 TTAACTTTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
30 4 0.13
31 21 0.70
32 3 0.10
33 2 0.07
ACGTcount: A:0.22, C:0.02, G:0.03, T:0.73
Consensus pattern (30 bp):
TTTATTATTTTTATTTATTTTTATCTAATA
Found at i:7386509 original size:10 final size:10
Alignment explanation
Indices: 7386453--7386518 Score: 57
Period size: 10 Copynumber: 6.6 Consensus size: 10
7386443 TGATTTACTA
* *
7386453 TTTTAGTTAG
1 TTTTATTTAT
7386463 TTTTA-TTAT
1 TTTTATTTAT
7386472 TTTT-TTT-T
1 TTTTATTTAT
7386480 TGGTTTATTTAAT
1 T--TTTATTT-AT
*
7386493 ATTTATTTAT
1 TTTTATTTAT
7386503 TTTTATTTAT
1 TTTTATTTAT
7386513 TTTTAT
1 TTTTAT
7386519 CTAATATTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 12
0.76 0.05 0.19
Matches are distributed among these distances:
8 2 0.04
9 9 0.19
10 25 0.53
11 10 0.21
13 1 0.02
ACGTcount: A:0.20, C:0.00, G:0.06, T:0.74
Consensus pattern (10 bp):
TTTTATTTAT
Found at i:7387241 original size:28 final size:29
Alignment explanation
Indices: 7387179--7387241 Score: 76
Period size: 27 Copynumber: 2.2 Consensus size: 29
7387169 AACAAGTTGG
7387179 AAAATATTTATATATTTTCTTTAAAAAATT
1 AAAA-ATTTATATATTTTCTTTAAAAAATT
* * *
7387209 -TAAATTTATA-ATTTTTTTTACAAAATT
1 AAAAATTTATATATTTTCTTTAAAAAATT
7387236 AAAAAT
1 AAAAAT
7387242 ATAAAAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
27 15 0.54
28 11 0.39
29 2 0.07
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (29 bp):
AAAAATTTATATATTTTCTTTAAAAAATT
Found at i:7393546 original size:24 final size:25
Alignment explanation
Indices: 7393519--7393569 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
7393509 TGACAATACA
7393519 CTATA-GGTTTTAGTTTGAAGCTGT
1 CTATAGGGTTTTAGTTTGAAGCTGT
7393543 CTATAGGGTTTTAGTTTGAAGCTGT
1 CTATAGGGTTTTAGTTTGAAGCTGT
7393568 CT
1 CT
7393570 CTTTTATCAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.20, C:0.10, G:0.25, T:0.45
Consensus pattern (25 bp):
CTATAGGGTTTTAGTTTGAAGCTGT
Found at i:7398787 original size:13 final size:13
Alignment explanation
Indices: 7398750--7398778 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
7398740 GAGAGGTCGT
7398750 CATGCAGACGAGC
1 CATGCAGACGAGC
7398763 CATGCAGACGAGC
1 CATGCAGACGAGC
7398776 CAT
1 CAT
7398779 AGCATCGAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.31, G:0.28, T:0.10
Consensus pattern (13 bp):
CATGCAGACGAGC
Found at i:7398825 original size:29 final size:29
Alignment explanation
Indices: 7398788--7398908 Score: 183
Period size: 29 Copynumber: 4.2 Consensus size: 29
7398778 TAGCATCGAG
* **
7398788 AGGTCGCCATGCAGTCTGGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
7398817 AGGTCGCCATGTAGTCCCGGTGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7398846 AGGTCGCCATGTAGTCCCGGCGACCTTGT
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
*
7398875 AGGTCGCCATATAGTCCCGGCGACC-T-T
1 AGGTCGCCATGTAGTCCCGGCGACCTTGT
7398902 AGGTCGC
1 AGGTCGC
7398909 TCCTAGCTCA
Statistics
Matches: 86, Mismatches: 6, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
27 8 0.09
28 1 0.01
29 77 0.90
ACGTcount: A:0.15, C:0.30, G:0.31, T:0.24
Consensus pattern (29 bp):
AGGTCGCCATGTAGTCCCGGCGACCTTGT
Found at i:7398946 original size:26 final size:26
Alignment explanation
Indices: 7398917--7398970 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
7398907 GCTCCTAGCT
*
7398917 CACGAGACCATGCATGCACTTGCAGC
1 CACGAGACCATGCATGCACTTACAGC
*
7398943 CACGATACCATGCATGCACTTACAGC
1 CACGAGACCATGCATGCACTTACAGC
7398969 CA
1 CA
7398971 AGATTCCAGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.30, C:0.35, G:0.19, T:0.17
Consensus pattern (26 bp):
CACGAGACCATGCATGCACTTACAGC
Found at i:7399014 original size:26 final size:26
Alignment explanation
Indices: 7398977--7399035 Score: 109
Period size: 26 Copynumber: 2.2 Consensus size: 26
7398967 GCCAAGATTC
7398977 CAGCTCACGAGACCATGCATGCACTTG
1 CAGC-CACGAGACCATGCATGCACTTG
7399004 CAGCCACGAGACCATGCATGCACTTG
1 CAGCCACGAGACCATGCATGCACTTG
7399030 CAGCCA
1 CAGCCA
7399036 AGATTCCTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.27, C:0.36, G:0.22, T:0.15
Consensus pattern (26 bp):
CAGCCACGAGACCATGCATGCACTTG
Found at i:7399018 original size:65 final size:65
Alignment explanation
Indices: 7398913--7399042 Score: 242
Period size: 65 Copynumber: 2.0 Consensus size: 65
7398903 GGTCGCTCCT
*
7398913 AGCTCACGAGACCATGCATGCACTTGCAGCCACGATACCATGCATGCACTTACAGCCAAGATTCC
1 AGCTCACGAGACCATGCATGCACTTGCAGCCACGAGACCATGCATGCACTTACAGCCAAGATTCC
*
7398978 AGCTCACGAGACCATGCATGCACTTGCAGCCACGAGACCATGCATGCACTTGCAGCCAAGATTCC
1 AGCTCACGAGACCATGCATGCACTTGCAGCCACGAGACCATGCATGCACTTACAGCCAAGATTCC
7399043 TTCACGTGCT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
65 63 1.00
ACGTcount: A:0.28, C:0.34, G:0.20, T:0.18
Consensus pattern (65 bp):
AGCTCACGAGACCATGCATGCACTTGCAGCCACGAGACCATGCATGCACTTACAGCCAAGATTCC
Found at i:7399513 original size:46 final size:48
Alignment explanation
Indices: 7399450--7399541 Score: 136
Period size: 46 Copynumber: 2.0 Consensus size: 48
7399440 TTATATAGTT
*
7399450 AAAAAATAATTAATTAGTTTGT-TTTGTT-AATAGTT-AGTTATATAA
1 AAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAA
*
7399495 AAAAAATTATTTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
1 AAAAAA-TAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATAT
7399542 TTGTTTGTTG
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
45 6 0.15
46 15 0.37
47 5 0.12
48 7 0.17
49 8 0.20
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.47
Consensus pattern (48 bp):
AAAAAATAATTAATTAGTTTGTGTTAGTTAAATAGTTAAGTTATATAA
Found at i:7399647 original size:34 final size:34
Alignment explanation
Indices: 7399582--7399663 Score: 109
Period size: 34 Copynumber: 2.5 Consensus size: 34
7399572 TTAGTTAGTA
*
7399582 AGTTTATTAG-TAG-TATATTATAATAAAAAAAT
1 AGTTTATTAGTTAGTTTTATTATAATAAAAAAAT
7399614 AGTTTATTAGTTAGTTTTAGTTAT-ATAAAAAAAT
1 AGTTTATTAGTTAGTTTTA-TTATAATAAAAAAAT
*
7399648 ATTTTATTAGTT-GTTT
1 AGTTTATTAGTTAGTTT
7399664 AAGGGTTTAG
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
32 10 0.22
33 7 0.16
34 24 0.53
35 4 0.09
ACGTcount: A:0.40, C:0.00, G:0.11, T:0.49
Consensus pattern (34 bp):
AGTTTATTAGTTAGTTTTATTATAATAAAAAAAT
Found at i:7399736 original size:16 final size:16
Alignment explanation
Indices: 7399704--7399750 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
7399694 TTTAAAAAGT
*
7399704 TTAGTTTGTTAGT-TTA
1 TTAGTTTATTA-TATTA
7399720 TTAGTTTATTATATTA
1 TTAGTTTATTATATTA
*
7399736 TAAG-TTATTATATTA
1 TTAGTTTATTATATTA
7399751 AAGTTTAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.30, C:0.00, G:0.11, T:0.60
Consensus pattern (16 bp):
TTAGTTTATTATATTA
Found at i:7399745 original size:15 final size:14
Alignment explanation
Indices: 7399725--7399755 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 14
7399715 GTTTATTAGT
7399725 TTATTATATTATAAG
1 TTATTATATTA-AAG
7399740 TTATTATATTAAAG
1 TTATTATATTAAAG
7399754 TT
1 TT
7399756 TAGTGTTGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.31
15 11 0.69
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTATTATATTAAAG
Found at i:7401919 original size:17 final size:17
Alignment explanation
Indices: 7401897--7401929 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
7401887 CAATGATTTT
*
7401897 TAGTATCAAATCATTAC
1 TAGTATCAAATAATTAC
7401914 TAGTATCAAATAATTA
1 TAGTATCAAATAATTA
7401930 AATATTTAGT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.45, C:0.12, G:0.06, T:0.36
Consensus pattern (17 bp):
TAGTATCAAATAATTAC
Found at i:7401946 original size:24 final size:22
Alignment explanation
Indices: 7401914--7401982 Score: 77
Period size: 22 Copynumber: 3.0 Consensus size: 22
7401904 AAATCATTAC
7401914 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
* *
7401936 TAGTAAATCAACTATTTTAAATCA-T
1 TAGT--ATCAAATA-ATTAAAT-ATT
7401961 TAGTATCAAATAATTAAATATT
1 TAGTATCAAATAATTAAATATT
7401983 AACAATAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
21 1 0.03
22 11 0.29
23 7 0.18
24 7 0.18
25 11 0.29
26 1 0.03
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.41
Consensus pattern (22 bp):
TAGTATCAAATAATTAAATATT
Done.