Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_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: 4970990
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 14 of 21
Found at i:3175307 original size:20 final size:20
Alignment explanation
Indices: 3175278--3175315 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
3175268 ACCCTTTTGA
*
3175278 CCGACCCGACCCAGTTTGGG
1 CCGACACGACCCAGTTTGGG
*
3175298 CCGACACGACCCGGTTTG
1 CCGACACGACCCAGTTTG
3175316 ACCAACATGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.16, C:0.39, G:0.29, T:0.16
Consensus pattern (20 bp):
CCGACACGACCCAGTTTGGG
Found at i:3177231 original size:116 final size:118
Alignment explanation
Indices: 3177082--3177296 Score: 292
Period size: 116 Copynumber: 1.8 Consensus size: 118
3177072 ATTTTCTTTT
* ** *
3177082 GAAAGCTAAAATAGACTTGGAAAATAAAAATGAAATGTTGAAAAAGGAGTTAGAGCTTTTAAAAA
1 GAAAACTAAAATAGACTTGGAAAATAAAAATGAAATAATGAAAAAGGAGTTAGAGATTTTAAAAA
* *
3177147 TGAAATGTGAAA-TCTTTGAAAAA-AAATTTTTGAACTAAACAAACTTCTTCTA
66 TGAAATGTGAAAGT-ATTGAAAAAGAAAATTTTGAACTAAACAAACTTCTTCTA
* * * * *
3177199 GAAAACTAAAATGGA-TTTGAAAATCAAAATGAAATAATGAAGAAGGATTTAGAGATTTTAAAAA
1 GAAAACTAAAATAGACTTGGAAAATAAAAATGAAATAATGAAAAAGGAGTTAGAGATTTTAAAAA
*
3177263 TGAAATTTGAAAGTATTGAAAAAGAAAATTTTGA
66 TGAAATGTGAAAGTATTGAAAAAGAAAATTTTGA
3177297 TTTGAAAGTT
Statistics
Matches: 84, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
116 61 0.73
117 23 0.27
ACGTcount: A:0.51, C:0.05, G:0.16, T:0.28
Consensus pattern (118 bp):
GAAAACTAAAATAGACTTGGAAAATAAAAATGAAATAATGAAAAAGGAGTTAGAGATTTTAAAAA
TGAAATGTGAAAGTATTGAAAAAGAAAATTTTGAACTAAACAAACTTCTTCTA
Found at i:3178343 original size:16 final size:16
Alignment explanation
Indices: 3178318--3178348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
3178308 AGAGGATTGC
*
3178318 CAAAGCTAAAATTTGA
1 CAAAGATAAAATTTGA
3178334 CAAAGATAAAATTTG
1 CAAAGATAAAATTTG
3178349 TGATGTATGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.10, G:0.13, T:0.26
Consensus pattern (16 bp):
CAAAGATAAAATTTGA
Found at i:3185371 original size:15 final size:15
Alignment explanation
Indices: 3185351--3185391 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
3185341 GAAAATCAAG
* *
3185351 AATAAAGATTAAGAT
1 AATAAAGAATAAGAC
3185366 AATAAAGAATAAGAC
1 AATAAAGAATAAGAC
3185381 AATAAA-AATAA
1 AATAAAGAATAA
3185392 ATAAAGACGA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 5 0.21
15 19 0.79
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (15 bp):
AATAAAGAATAAGAC
Found at i:3197099 original size:12 final size:12
Alignment explanation
Indices: 3197082--3197107 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
3197072 CGAGTTTGCC
3197082 TTTTTCATTTGA
1 TTTTTCATTTGA
3197094 TTTTTCATTTGA
1 TTTTTCATTTGA
3197106 TT
1 TT
3197108 ATCAATATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.08, G:0.08, T:0.69
Consensus pattern (12 bp):
TTTTTCATTTGA
Found at i:3198008 original size:13 final size:13
Alignment explanation
Indices: 3197990--3198033 Score: 70
Period size: 13 Copynumber: 3.4 Consensus size: 13
3197980 GCAATGTGCA
*
3197990 TCATAAATACGTG
1 TCATAAATGCGTG
3198003 TCATAAATGCGTG
1 TCATAAATGCGTG
*
3198016 TCATAAATGCGCG
1 TCATAAATGCGTG
3198029 TCATA
1 TCATA
3198034 GATGTATGAC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (13 bp):
TCATAAATGCGTG
Found at i:3207463 original size:18 final size:19
Alignment explanation
Indices: 3207428--3207470 Score: 70
Period size: 18 Copynumber: 2.3 Consensus size: 19
3207418 TGAATAGATA
*
3207428 AATAAATATATAAATAATG
1 AATAAAAATATAAATAATG
3207447 AATAAAAATAT-AATAATG
1 AATAAAAATATAAATAATG
3207465 AATAAA
1 AATAAA
3207471 GTAGATAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 13 0.57
19 10 0.43
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (19 bp):
AATAAAAATATAAATAATG
Found at i:3208116 original size:25 final size:25
Alignment explanation
Indices: 3208067--3208116 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
3208057 AGCATTGTGA
*
3208067 AAAGAAAATATGAGAGAAAATAAAG
1 AAAGAAAATATGAGAGAAAAGAAAG
3208092 AAAG-AAATATG-GAGATAAAGGAAAG
1 AAAGAAAATATGAGAGA-AAA-GAAAG
3208117 TAGAACTTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 4 0.18
24 10 0.45
25 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.24, T:0.12
Consensus pattern (25 bp):
AAAGAAAATATGAGAGAAAAGAAAG
Found at i:3209565 original size:46 final size:46
Alignment explanation
Indices: 3209510--3209824 Score: 508
Period size: 46 Copynumber: 6.9 Consensus size: 46
3209500 TTACCATTTC
*
3209510 CCATAAGCTCGTAAGCTTATTTTAGCAATATACTTACCATTTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
*
3209556 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATCTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
*
3209602 CCATAAGATCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
* * *
3209648 CCATAAGCTAGTAAGCTTATTTTACCAATACACTTTCCATTTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
*
3209694 CCATAAGCTCGTAAGCTTA-TTTACCAATATATTTACCA-TTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
*
3209738 GCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
* * * *
3209784 CCATAAGTTCTTAAGCTTATTTTACCAATACACTTGCCATT
1 CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATT
3209825 ATTCTATAAC
Statistics
Matches: 248, Mismatches: 19, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
44 24 0.10
45 34 0.14
46 190 0.77
ACGTcount: A:0.35, C:0.21, G:0.07, T:0.37
Consensus pattern (46 bp):
CCATAAGCTCGTAAGCTTATTTTACCAATATACTTACCATTTAATA
Found at i:3210024 original size:61 final size:61
Alignment explanation
Indices: 3209915--3210029 Score: 158
Period size: 61 Copynumber: 1.9 Consensus size: 61
3209905 GTAGTACTAA
* *
3209915 ACCTGCACTAAGCTTACGCCATAGTGCTAATCCAGATATGACACATAAGGTCGTGCCCACC
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGTCGTGCCCACC
* * * * * *
3209976 ACCTACACTAAGCTTACGCTATAGTGGTACTCCGGACATGATATATAAGGTCGT
1 ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGTCGT
3210030 ATCCACCTTT
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
61 46 1.00
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.24
Consensus pattern (61 bp):
ACCTACACTAAGCTTACGCCATAGTGCTAATCCAGACATGACACATAAGGTCGTGCCCACC
Found at i:3213620 original size:6 final size:5
Alignment explanation
Indices: 3213613--3213678 Score: 53
Period size: 5 Copynumber: 12.2 Consensus size: 5
3213603 CATTTTTTTC
* *
3213613 TCTTT CTCTTTT TCTTT TCTTT TCTTT T-TTT TCCATT TCTTT TTTTT
1 TCTTT -TCT-TT TCTTT TCTTT TCTTT TCTTT T-CTTT TCTTT TCTTT
3213660 TCGTTTT TCTTTT TCTTT T
1 TC--TTT TC-TTT TCTTT T
3213679 TATTCTCTCG
Statistics
Matches: 51, Mismatches: 4, Indels: 11
0.77 0.06 0.17
Matches are distributed among these distances:
4 4 0.08
5 25 0.49
6 15 0.29
7 7 0.14
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.79
Consensus pattern (5 bp):
TCTTT
Found at i:3213624 original size:16 final size:16
Alignment explanation
Indices: 3213605--3213673 Score: 56
Period size: 16 Copynumber: 4.3 Consensus size: 16
3213595 TCATCTATCA
3213605 TTTTTTTCTC-TTTCTC
1 TTTTTTT-TCATTTCTC
3213621 TTTTTCTTTTC-TTT-TC
1 -TTTT-TTTTCATTTCTC
3213637 TTTTTTTTCCATTTCT-
1 TTTTTTTT-CATTTCTC
* *
3213653 TTTTTTTTCGTTTTTC
1 TTTTTTTTCATTTCTC
3213669 TTTTT
1 TTTTT
3213674 CTTTTTATTC
Statistics
Matches: 45, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
14 4 0.09
15 10 0.22
16 18 0.40
17 10 0.22
18 3 0.07
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (16 bp):
TTTTTTTTCATTTCTC
Found at i:3213626 original size:14 final size:13
Alignment explanation
Indices: 3213607--3213693 Score: 52
Period size: 14 Copynumber: 6.4 Consensus size: 13
3213597 ATCTATCATT
3213607 TTTTTCTCTTTCTC
1 TTTTTCT-TTTCTC
*
3213621 TTTTTCTTTTCTT
1 TTTTTCTTTTCTC
*
3213634 TTCTTTTTTTTC-C
1 TT-TTTCTTTTCTC
* *
3213647 ATTTCTTTTTTTTTC
1 -TTT-TTCTTTTCTC
3213662 GTTTTTCTTTT-TC
1 -TTTTTCTTTTCTC
* *
3213675 TTTTTATTCTCTC
1 TTTTTCTTTTCTC
3213688 GTTTTT
1 -TTTTT
3213694 TTGTTTTTTT
Statistics
Matches: 59, Mismatches: 8, Indels: 12
0.75 0.10 0.15
Matches are distributed among these distances:
12 8 0.14
13 12 0.20
14 35 0.59
15 4 0.07
ACGTcount: A:0.02, C:0.18, G:0.02, T:0.77
Consensus pattern (13 bp):
TTTTTCTTTTCTC
Found at i:3213641 original size:31 final size:31
Alignment explanation
Indices: 3213606--3213673 Score: 77
Period size: 31 Copynumber: 2.2 Consensus size: 31
3213596 CATCTATCAT
*
3213606 TTTTTTCT-CTTTCTCTTTTTCTTTTC-TTTTC
1 TTTTTTCTCCATT-TCTTTTT-TTTTCGTTTTC
*
3213637 TTTTTTTTCCATTTCTTTTTTTTTCGTTTTTC
1 TTTTTTCTCCATTTCTTTTTTTTTCG-TTTTC
3213669 TTTTT
1 TTTTT
3213674 CTTTTTATTC
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
30 5 0.16
31 14 0.44
32 13 0.41
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (31 bp):
TTTTTTCTCCATTTCTTTTTTTTTCGTTTTC
Found at i:3213641 original size:32 final size:31
Alignment explanation
Indices: 3213605--3213673 Score: 86
Period size: 32 Copynumber: 2.1 Consensus size: 31
3213595 TCATCTATCA
*
3213605 TTTTTTTCTCTTTCTCTTTTTCTTTTC-TTTTCT
1 TTTTTTTC-CATT-TCTTTTT-TTTTCGTTTTCT
3213638 TTTTTTTCCATTTCTTTTTTTTTCGTTTTTCT
1 TTTTTTTCCATTTCTTTTTTTTTCG-TTTTCT
3213670 TTTT
1 TTTT
3213674 CTTTTTATTC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
30 5 0.15
31 7 0.21
32 13 0.39
33 8 0.24
ACGTcount: A:0.01, C:0.17, G:0.01, T:0.80
Consensus pattern (31 bp):
TTTTTTTCCATTTCTTTTTTTTTCGTTTTCT
Found at i:3213666 original size:23 final size:26
Alignment explanation
Indices: 3213640--3213693 Score: 69
Period size: 23 Copynumber: 2.2 Consensus size: 26
3213630 TCTTTTCTTT
3213640 TTTTTCCATTTCTTTTT-TT-T-TCG
1 TTTTTCCATTTCTTTTTATTCTCTCG
**
3213663 TTTTTCTTTTTCTTTTTATTCTCTCG
1 TTTTTCCATTTCTTTTTATTCTCTCG
3213689 TTTTT
1 TTTTT
3213694 TTGTTTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 15 0.58
24 2 0.08
25 1 0.04
26 8 0.31
ACGTcount: A:0.04, C:0.17, G:0.04, T:0.76
Consensus pattern (26 bp):
TTTTTCCATTTCTTTTTATTCTCTCG
Found at i:3213679 original size:6 final size:6
Alignment explanation
Indices: 3213607--3213679 Score: 55
Period size: 6 Copynumber: 11.8 Consensus size: 6
3213597 ATCTATCATT
*
3213607 TTTTTC TCTTTCTC TTTTTC -TTTTC -TTTTC TTTTTT TTCCATTTC -TTTT-
1 TTTTTC T-TTT-TC TTTTTC TTTTTC TTTTTC TTTTTC TT---TTTC TTTTTC
3213656 TTTTTC GTTTTTC TTTTTC TTTTT
1 TTTTTC -TTTTTC TTTTTC TTTTT
3213680 ATTCTCTCGT
Statistics
Matches: 56, Mismatches: 2, Indels: 18
0.74 0.03 0.24
Matches are distributed among these distances:
5 17 0.30
6 20 0.36
7 12 0.21
8 4 0.07
9 3 0.05
ACGTcount: A:0.01, C:0.18, G:0.01, T:0.79
Consensus pattern (6 bp):
TTTTTC
Found at i:3215940 original size:13 final size:13
Alignment explanation
Indices: 3215922--3215953 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
3215912 TTATGAATAT
*
3215922 TGAACAGTACTAG
1 TGAACAGTACCAG
3215935 TGAACAGTACCAG
1 TGAACAGTACCAG
3215948 TGAACA
1 TGAACA
3215954 ATGAACAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.41, C:0.19, G:0.22, T:0.19
Consensus pattern (13 bp):
TGAACAGTACCAG
Found at i:3216055 original size:21 final size:21
Alignment explanation
Indices: 3216031--3216072 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
3216021 AAAATTGTGT
*
3216031 ATCGATGCACTGCTACATTGC
1 ATCGATGCACTACTACATTGC
3216052 ATCGATGCACTACTACATTGC
1 ATCGATGCACTACTACATTGC
3216073 TGCTACAGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.29, G:0.17, T:0.29
Consensus pattern (21 bp):
ATCGATGCACTACTACATTGC
Found at i:3216531 original size:46 final size:46
Alignment explanation
Indices: 3216465--3216790 Score: 482
Period size: 46 Copynumber: 7.2 Consensus size: 46
3216455 TATATAATCT
* *
3216465 CTTACCA-TT-ATCCCATAAGCTCGTAAGCTTATTTTACCAATATG
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
3216509 CTTACCATTTAATACCATAAGCTCGTAAGCTTAATTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
3216555 CTTACCGTTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
** * *
3216601 CTTACCATTTAATATAATAAGCTCGTAAGCTTATTTTACCGATACA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
* *
3216647 CTTACCATTTCATACCATAAGATCGTAAGCTTATTTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
* * *
3216693 TTTACCATTTAA-A--ATAAGCTCATAAGTTTATTTTACCAATATA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
3216736 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATACA
1 CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
*
3216782 CTTGCCATT
1 CTTACCATT
3216791 ATTCCATAAC
Statistics
Matches: 251, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
43 38 0.15
44 8 0.03
45 3 0.01
46 202 0.80
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.37
Consensus pattern (46 bp):
CTTACCATTTAATACCATAAGCTCGTAAGCTTATTTTACCAATATA
Found at i:3216542 original size:22 final size:22
Alignment explanation
Indices: 3216517--3216587 Score: 58
Period size: 22 Copynumber: 3.1 Consensus size: 22
3216507 TGCTTACCAT
3216517 TTAATACCATAAGCTCGTAAGC
1 TTAATACCATAAGCTCGTAAGC
* *
3216539 TTAATTTACCAATATA-CT--TACCGT
1 TTAA--TACC-ATA-AGCTCGTA-AGC
3216563 TTAATACCATAAGCTCGTAAGC
1 TTAATACCATAAGCTCGTAAGC
3216585 TTA
1 TTA
3216588 TTTTACCAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
20 1 0.03
21 5 0.14
22 12 0.32
23 4 0.11
24 9 0.24
25 5 0.14
26 1 0.03
ACGTcount: A:0.35, C:0.21, G:0.10, T:0.34
Consensus pattern (22 bp):
TTAATACCATAAGCTCGTAAGC
Found at i:3216549 original size:24 final size:24
Alignment explanation
Indices: 3216521--3216595 Score: 61
Period size: 24 Copynumber: 3.2 Consensus size: 24
3216511 TACCATTTAA
3216521 TACCATAAGCTCGTAAGCTTAATT
1 TACCATAAGCTCGTAAGCTTAATT
* *
3216545 TACCAATATA-CT--TACCGTTTAA--
1 TACC-ATA-AGCTCGTA-AGCTTAATT
*
3216567 TACCATAAGCTCGTAAGCTTATTT
1 TACCATAAGCTCGTAAGCTTAATT
3216591 TACCA
1 TACCA
3216596 ATATACTTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 16
0.64 0.08 0.27
Matches are distributed among these distances:
20 1 0.03
21 5 0.13
22 8 0.21
23 4 0.11
24 14 0.37
25 5 0.13
26 1 0.03
ACGTcount: A:0.33, C:0.23, G:0.09, T:0.35
Consensus pattern (24 bp):
TACCATAAGCTCGTAAGCTTAATT
Found at i:3223948 original size:195 final size:193
Alignment explanation
Indices: 3223619--3224010 Score: 750
Period size: 195 Copynumber: 2.0 Consensus size: 193
3223609 ATGCCATCTT
3223619 GATTTTAATTCGGAGTACAAAGAGTCATTTGACATTTTAAAGGAAAAGGTTATTTCAGCTCCATC
1 GATTTTAATTCGGAGTACAAAGAGTCATTTGACATTTTAAAGGAAAAGGTTATTTCAGCTCCATC
3223684 ATTCAGCCAAAATTAAAACTACCCCTTCGAGCTTATGTGTAATGTTATACCCCAAATATCGGGTC
66 ATTCAGCCAAAATTAAAACTACCCCTTCGAGCTTATGTGTAATGTTATACCCCAAATATCGGGTC
3223749 AGTGACTATAGTAAAAGGATTTAAAAA-TGGTGGGTTAATTTGAGTAAATTGAAAAGTAAAAA
131 AGTGACTATAGTAAAAGGATTTAAAAATTGGTGGGTTAATTTGAGTAAATTGAAAAGTAAAAA
3223811 GATTTTAATTCGGAGTACAAAGAGTCATTTGACATTTTAAAGGAAAAGGTTATTTCAGCTCCCAT
1 GATTTTAATTCGGAGTACAAAGAGTCATTTGACATTTTAAAGGAAAAGGTTATTTCAGCT-CCAT
3223876 CATTCAGCCATAAAATTAAAACTACCCCTTCGAGCTTATGTGTAATGTTATACCCCAAATATCGG
65 CATTCAGCC--AAAATTAAAACTACCCCTTCGAGCTTATGTGTAATGTTATACCCCAAATATCGG
3223941 GTCAGTGACTATAGTAAAAGGATTTAAAAATTGGTGGGTTAATTTGAGTAAATTGAAAAGTAAAA
128 GTCAGTGACTATAGTAAAAGGATTTAAAAATTGGTGGGTTAATTTGAGTAAATTGAAAAGTAAAA
3224006 A
193 A
3224007 GATT
1 GATT
3224011 GATTTAGGAA
Statistics
Matches: 196, Mismatches: 0, Indels: 4
0.98 0.00 0.02
Matches are distributed among these distances:
192 60 0.31
193 13 0.07
195 84 0.43
196 39 0.20
ACGTcount: A:0.37, C:0.14, G:0.18, T:0.31
Consensus pattern (193 bp):
GATTTTAATTCGGAGTACAAAGAGTCATTTGACATTTTAAAGGAAAAGGTTATTTCAGCTCCATC
ATTCAGCCAAAATTAAAACTACCCCTTCGAGCTTATGTGTAATGTTATACCCCAAATATCGGGTC
AGTGACTATAGTAAAAGGATTTAAAAATTGGTGGGTTAATTTGAGTAAATTGAAAAGTAAAAA
Found at i:3224094 original size:21 final size:21
Alignment explanation
Indices: 3224061--3224111 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
3224051 AATAATGAAC
*
3224061 TATCAATACCGTTTAAAGAAG
1 TATCGATACCGTTTAAAGAAG
*
3224082 TATCGATATCGTTTAAAGAAG
1 TATCGATACCGTTTAAAGAAG
3224103 TATCGATAC
1 TATCGATAC
3224112 TGAGGTGTAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (21 bp):
TATCGATACCGTTTAAAGAAG
Found at i:3224127 original size:20 final size:20
Alignment explanation
Indices: 3224102--3224153 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
3224092 GTTTAAAGAA
*
3224102 GTATCGATACTGAG-GTGTAG
1 GTATCGATACTGAGAG-GAAG
* *
3224122 GTATCGACACTAAGAGGAAG
1 GTATCGATACTGAGAGGAAG
3224142 GTATCGATACTG
1 GTATCGATACTG
3224154 TAGTAAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
20 25 0.96
21 1 0.04
ACGTcount: A:0.31, C:0.13, G:0.31, T:0.25
Consensus pattern (20 bp):
GTATCGATACTGAGAGGAAG
Found at i:3224617 original size:54 final size:53
Alignment explanation
Indices: 3224536--3224744 Score: 271
Period size: 54 Copynumber: 3.9 Consensus size: 53
3224526 TACTATTGGC
3224536 ACTATGTGTG-AAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCAGA
1 ACTATGTGTGCAAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTC-GA
* * *
3224589 ACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATTTTTGC
1 ACTATGTGTGCAAACCATGGAATTCATAATGAGTTTGTGAATTACCA-TTTCGA
* * * * *
3224643 ACTATGTATACAATCCATGGAATTCATAATGAGATGGTGAATTACCATTTCGA
1 ACTATGTGTGCAAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCGA
* * *
3224696 CACTA--TGTGCAAACCATAGAATTCATAATTAGTTTGTAAATTACCATTT
1 -ACTATGTGTGCAAACCATGGAATTCATAATGAGTTTGTGAATTACCATTT
3224745 TGGCACTTAG
Statistics
Matches: 135, Mismatches: 18, Indels: 7
0.84 0.11 0.04
Matches are distributed among these distances:
52 36 0.27
53 14 0.10
54 82 0.61
55 3 0.02
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.35
Consensus pattern (53 bp):
ACTATGTGTGCAAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCGA
Found at i:3224751 original size:106 final size:106
Alignment explanation
Indices: 3224531--3224751 Score: 313
Period size: 106 Copynumber: 2.1 Consensus size: 106
3224521 ATATGTACTA
* * *
3224531 TTGGCACTATGTGTGAAACCATGGAATTCATAATGAGTTTGTGAATTACCATTTCAGAACTATGT
1 TTGGCACTATGTATGAAACCATGGAATTCATAATGAGATGGTGAATTACCATTTCAGAACTA-GT
* * *
3224596 GTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
65 GTGCAAACCATAGAATTCATAATGAGTTTGTAAATTACCATT
*
3224638 TTTGCACTATGTAT-ACAATCCATGGAATTCATAATGAGATGGTGAATTACCATTTC-GACACTA
1 TTGGCACTATGTATGA-AA-CCATGGAATTCATAATGAGATGGTGAATTACCATTTCAGA-ACTA
*
3224701 -TGTGCAAACCATAGAATTCATAATTAGTTTGTAAATTACCATT
63 GTGTGCAAACCATAGAATTCATAATGAGTTTGTAAATTACCATT
3224744 TTGGCACT
1 TTGGCACT
3224752 TAGGTGCAAC
Statistics
Matches: 102, Mismatches: 9, Indels: 7
0.86 0.08 0.06
Matches are distributed among these distances:
106 47 0.46
107 16 0.16
108 39 0.38
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.35
Consensus pattern (106 bp):
TTGGCACTATGTATGAAACCATGGAATTCATAATGAGATGGTGAATTACCATTTCAGAACTAGTG
TGCAAACCATAGAATTCATAATGAGTTTGTAAATTACCATT
Found at i:3228885 original size:18 final size:18
Alignment explanation
Indices: 3228841--3228878 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
3228831 GTATGAATAT
*
3228841 CAGTAAGTGAAGGCTGAA
1 CAGTAAGTGAAAGCTGAA
3228859 CAGTAAGTGAAAGCTGAA
1 CAGTAAGTGAAAGCTGAA
3228877 CA
1 CA
3228879 TCAAGTGCCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.13, G:0.29, T:0.16
Consensus pattern (18 bp):
CAGTAAGTGAAAGCTGAA
Found at i:3231612 original size:54 final size:54
Alignment explanation
Indices: 3231530--3231749 Score: 368
Period size: 54 Copynumber: 4.1 Consensus size: 54
3231520 ATGTGTACTA
3231530 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
1 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
3231584 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
1 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
* * * * *
3231638 TTGTCACTATTTGTGCAACCCATGAAATTCATAATGAGTTTGTGAATTACCAAT
1 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
* * *
3231692 TCGACACTATGTGTGCAAACCAAGGAATTCATAATGAGTTTGTGAATTACCATT
1 TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
3231746 TCGG
1 TCGG
3231750 GACTTAGGTG
Statistics
Matches: 153, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 153 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (54 bp):
TCGGCACTATGTGTGCAACCCATGGAATTCATAATGAGTTTGTGAATTACCATT
Found at i:3236247 original size:9 final size:10
Alignment explanation
Indices: 3236217--3236253 Score: 56
Period size: 10 Copynumber: 3.7 Consensus size: 10
3236207 GGACCAGTAC
3236217 AAACCGGAAA
1 AAACCGGAAA
* *
3236227 AAATCGAAAA
1 AAACCGGAAA
3236237 AAACCGGAAA
1 AAACCGGAAA
3236247 AAACCGG
1 AAACCGG
3236254 GATTTTTGTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.59, C:0.19, G:0.19, T:0.03
Consensus pattern (10 bp):
AAACCGGAAA
Found at i:3236540 original size:14 final size:14
Alignment explanation
Indices: 3236521--3236548 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
3236511 AAGTGAAAGA
3236521 ATAGTTATATAATT
1 ATAGTTATATAATT
3236535 ATAGTTATATAATT
1 ATAGTTATATAATT
3236549 TTGTTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (14 bp):
ATAGTTATATAATT
Found at i:3241246 original size:31 final size:31
Alignment explanation
Indices: 3241211--3241319 Score: 103
Period size: 31 Copynumber: 3.4 Consensus size: 31
3241201 CAGTCGTTGT
3241211 TGGTAATTCCTTGTATAGGTTCAGCACCGAC
1 TGGTAATTCCTTGTATAGGTTCAGCACCGAC
* * ** *
3241242 TGGTAATTCCTATCTCTGGTAGGTTCAGTTTCTGA-
1 TGGTAATTCC--T-TGT-ATAGGTTCAG-CACCGAC
* *
3241277 TGGTAATTCCTTGTATATGTTCAACACCGAC
1 TGGTAATTCCTTGTATAGGTTCAGCACCGAC
3241308 TGGTAATTCCTT
1 TGGTAATTCCTT
3241320 ATGGACCTAA
Statistics
Matches: 60, Mismatches: 12, Indels: 12
0.71 0.14 0.14
Matches are distributed among these distances:
30 3 0.05
31 29 0.48
32 2 0.03
33 2 0.03
34 2 0.03
35 19 0.32
36 3 0.05
ACGTcount: A:0.21, C:0.20, G:0.20, T:0.39
Consensus pattern (31 bp):
TGGTAATTCCTTGTATAGGTTCAGCACCGAC
Found at i:3241299 original size:66 final size:66
Alignment explanation
Indices: 3241189--3241318 Score: 199
Period size: 66 Copynumber: 2.0 Consensus size: 66
3241179 GGTAAAAAGA
* *
3241189 CTCTGGCAGGTTCAGTCGTTGTTGGTAATTCCTTGTATAGGTTCAGCACCGACTGGTAATTCCTA
1 CTCTGGCAGGTTCAGTCGTTGATGGTAATTCCTTGTATAGGTTCAACACCGACTGGTAATTCCTA
3241254 T
66 T
* * *
3241255 CTCTGGTAGGTTCAGT-TTCTGATGGTAATTCCTTGTATATGTTCAACACCGACTGGTAATTCCT
1 CTCTGGCAGGTTCAGTCGT-TGATGGTAATTCCTTGTATAGGTTCAACACCGACTGGTAATTCCT
3241319 TATGGACCTA
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
65 1 0.02
66 57 0.98
ACGTcount: A:0.19, C:0.21, G:0.22, T:0.38
Consensus pattern (66 bp):
CTCTGGCAGGTTCAGTCGTTGATGGTAATTCCTTGTATAGGTTCAACACCGACTGGTAATTCCTA
T
Found at i:3250367 original size:42 final size:43
Alignment explanation
Indices: 3250283--3250368 Score: 120
Period size: 42 Copynumber: 2.0 Consensus size: 43
3250273 GCTCGACTCT
* **
3250283 CTATTTTGTTTTAAAAACAAATTTCCTCAACGAAGTTGCCAAG
1 CTATTTTGTTTTAAAAACAAATGTCCTCAACGAAGTCCCCAAG
* *
3250326 CTATTTT-TTTTAAAAACAAATGTCCTCAATGGAGTCCCCAAG
1 CTATTTTGTTTTAAAAACAAATGTCCTCAACGAAGTCCCCAAG
3250368 C
1 C
3250369 AATGATAGAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
42 31 0.82
43 7 0.18
ACGTcount: A:0.34, C:0.21, G:0.12, T:0.34
Consensus pattern (43 bp):
CTATTTTGTTTTAAAAACAAATGTCCTCAACGAAGTCCCCAAG
Found at i:3252115 original size:21 final size:20
Alignment explanation
Indices: 3252089--3252134 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
3252079 ATCGAAAAAA
3252089 TATTA-TTAACAAAATTATTAT
1 TATTATTTAA-AAAATTA-TAT
*
3252110 TATTATTTTAAAAATTATAT
1 TATTATTTAAAAAATTATAT
3252130 TATTA
1 TATTA
3252135 CATTTTGTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 8 0.35
21 12 0.52
22 3 0.13
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
TATTATTTAAAAAATTATAT
Found at i:3253355 original size:20 final size:20
Alignment explanation
Indices: 3253325--3253370 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
3253315 CCTATGTTTT
3253325 ATTTA-TTTTATT-TTTTGCA
1 ATTTAGTTTTATTATTTT-CA
*
3253344 CTTTAGTTTTATTATTTTCA
1 ATTTAGTTTTATTATTTTCA
3253364 ATTTAGT
1 ATTTAGT
3253371 CACTGATATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 4 0.17
20 15 0.65
21 4 0.17
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.65
Consensus pattern (20 bp):
ATTTAGTTTTATTATTTTCA
Found at i:3259618 original size:37 final size:37
Alignment explanation
Indices: 3259537--3259664 Score: 120
Period size: 36 Copynumber: 3.5 Consensus size: 37
3259527 CAAAGTGTAT
* * * *
3259537 TCTCGCTAGAGACAATTTT-TCTTAAAAAC-CATTTTT
1 TCTCGCTTGAGACAGTTTTCTC-TAAAAACAAATTTTG
3259573 TCAT-GCTTGAGACAGTTTTCTCTAAAAACAAATTTTG
1 TC-TCGCTTGAGACAGTTTTCTCTAAAAACAAATTTTG
* * *
3259610 TCTCGCTTGAGACA-ATTTCTCTCAAAACATATTTTG
1 TCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTTG
* * *
3259646 TATCGCTTGATATAGTTTT
1 TCTCGCTTGAGACAGTTTT
3259665 ACATTGAGAT
Statistics
Matches: 76, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
36 53 0.70
37 23 0.30
ACGTcount: A:0.29, C:0.18, G:0.12, T:0.41
Consensus pattern (37 bp):
TCTCGCTTGAGACAGTTTTCTCTAAAAACAAATTTTG
Found at i:3259728 original size:36 final size:37
Alignment explanation
Indices: 3259691--3259761 Score: 99
Period size: 37 Copynumber: 1.9 Consensus size: 37
3259681 TTCAAATTTA
3259691 TTTCACTTAAAACAAA-ATTGATCTCACTTGAGATTAT
1 TTTCACTTAAAACAAACATTG-TCTCACTTGAGATTAT
** *
3259728 TTTTTCTTAAAACAAACTTTGTCTCACTTGAGAT
1 TTTCACTTAAAACAAACATTGTCTCACTTGAGAT
3259762 AGTCTTCCTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
37 27 0.90
38 3 0.10
ACGTcount: A:0.34, C:0.17, G:0.08, T:0.41
Consensus pattern (37 bp):
TTTCACTTAAAACAAACATTGTCTCACTTGAGATTAT
Found at i:3259921 original size:37 final size:36
Alignment explanation
Indices: 3259856--3259926 Score: 88
Period size: 37 Copynumber: 1.9 Consensus size: 36
3259846 AATTTCAAAG
*
3259856 TTGTTTTACTTAAAACAAAATTAATCTCATTTGATA
1 TTGTTTTACTTAAAACAAAATTAATCTCACTTGATA
* * **
3259892 TTGTTTTTCTTAAACACAAATTTTGTCTCACTTGA
1 TTGTTTTACTTAAA-ACAAAATTAATCTCACTTGA
3259927 GACAGTTCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 13 0.45
37 16 0.55
ACGTcount: A:0.32, C:0.14, G:0.07, T:0.46
Consensus pattern (36 bp):
TTGTTTTACTTAAAACAAAATTAATCTCACTTGATA
Found at i:3260101 original size:29 final size:30
Alignment explanation
Indices: 3260044--3260121 Score: 115
Period size: 29 Copynumber: 2.6 Consensus size: 30
3260034 TTTGTCTCTC
* *
3260044 TTGAGA-CAGTTTCTCTTGAAATACCCATCT
1 TTGAGATC-GTTTCCCTTGAAACACCCATCT
3260074 TTGAGATCGTTTCCCTTGAAACA-CCATCT
1 TTGAGATCGTTTCCCTTGAAACACCCATCT
3260103 TTGAGATCGTTTCCCTTGA
1 TTGAGATCGTTTCCCTTGA
3260122 GACGATTTCT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
29 25 0.56
30 19 0.42
31 1 0.02
ACGTcount: A:0.23, C:0.24, G:0.15, T:0.37
Consensus pattern (30 bp):
TTGAGATCGTTTCCCTTGAAACACCCATCT
Found at i:3260162 original size:45 final size:44
Alignment explanation
Indices: 3260074--3260166 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
3260064 ATACCCATCT
*
3260074 TTGAGATCGTTTCCCTTGAAACACCATCTTTGAGATCGTTTCCC
1 TTGAGATCGTTTCCCTTGAAACACAATCTTTGAGATCGTTTCCC
* *
3260118 TTGAGA-CGATTTCTCTTGAAACACAAATCTTTGAG-TGTGTTTCCC
1 TTGAGATCG-TTTCCCTTGAAACAC-AATCTTTGAGAT-CGTTTCCC
3260163 TTGA
1 TTGA
3260167 AATAAAGTTT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.05
44 21 0.49
45 20 0.47
ACGTcount: A:0.23, C:0.23, G:0.17, T:0.38
Consensus pattern (44 bp):
TTGAGATCGTTTCCCTTGAAACACAATCTTTGAGATCGTTTCCC
Found at i:3260204 original size:37 final size:37
Alignment explanation
Indices: 3260156--3260280 Score: 112
Period size: 37 Copynumber: 3.4 Consensus size: 37
3260146 CTTTGAGTGT
* *
3260156 GTTTCCCTTGAAATAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
* * *** * *
3260193 GTTTCTATTGAAACAAAATTAAAAT-T-TTTTGAGTA-T
1 GTTTCCATTGAAACAAAGTT-TTGTCTCTCTTGAG-ACA
*
3260229 GTTTCCCTTGAAACAAAGTTTTGTCTCTCTTGAGACA
1 GTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
*
3260266 GTTTCCCTTGAAACA
1 GTTTCCATTGAAACA
3260281 CCAATTTTTG
Statistics
Matches: 66, Mismatches: 17, Indels: 10
0.71 0.18 0.11
Matches are distributed among these distances:
35 1 0.02
36 25 0.38
37 39 0.59
38 1 0.02
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (37 bp):
GTTTCCATTGAAACAAAGTTTTGTCTCTCTTGAGACA
Found at i:3260299 original size:67 final size:67
Alignment explanation
Indices: 3260117--3260345 Score: 293
Period size: 73 Copynumber: 3.3 Consensus size: 67
3260107 GATCGTTTCC
* * *
3260117 CTTGAGACGATTTCTCTTGAAACACAAATCTTTGAGTGTGTTTCCCTTGAAATAAAGTTTTGTCT
1 CTTGAGACGATTTCTCTTGAAACACAAATTTTTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCT
3260182 CT
66 CT
* *
3260184 CTTGAGAC-AGTTTCTATTGAAACAAAATTAAAATTTTTTGAGTATGTTTCCCTTGAAACAAAGT
1 CTTGAGACGA-TTTCTCTTGAAAC---A--CAAA-TTTTTGAGTATGTTTCCCTTGAAACAAAGT
3260248 TTTGTCTCT
59 TTTGTCTCT
* * *
3260257 CTTGAGAC-AGTTTCCCTTGAAACACCAATTTTTGAGTTTGTTTCCCTTGAAACAAA-TTTTGTC
1 CTTGAGACGA-TTTCTCTTGAAACACAAATTTTTGAGTATGTTTCCCTTGAAACAAAGTTTTGTC
3260320 TCT
65 TCT
3260323 CTTGAGACGATTTCTCTTGAAAC
1 CTTGAGACGATTTCTCTTGAAAC
3260346 CATCATCCCT
Statistics
Matches: 143, Mismatches: 11, Indels: 17
0.84 0.06 0.10
Matches are distributed among these distances:
66 31 0.22
67 48 0.34
68 2 0.01
70 2 0.01
72 3 0.02
73 57 0.40
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.40
Consensus pattern (67 bp):
CTTGAGACGATTTCTCTTGAAACACAAATTTTTGAGTATGTTTCCCTTGAAACAAAGTTTTGTCT
CT
Found at i:3260715 original size:134 final size:131
Alignment explanation
Indices: 3260347--3260708 Score: 424
Period size: 131 Copynumber: 2.7 Consensus size: 131
3260337 TCTTGAAACC
* * * * *
3260347 ATCATCCCTAAAGATGGTCTATCGTCCTCATCACGTAGGAACCA-TGTCATCTACCGACCAGACC
1 ATCATCCCTAAAGATGGACTATCATCCTCATCACGTAGGAA-CAGTGTCATCCACTGACCATACC
* * * * ***
3260411 TCCTCATCATGTAGGAGTTGTGTCACCATTAGATAACAAGTCATCCTCATCATGTAGGAATTGTG
65 TCCTCATCACGTAGGAGTTGTGTCACCCTTAGATAACCAGTCATCCTCATCACGTAGGAACCATG
3260476 TT
130 TT
* * *
3260478 ATCATCCCTAAAGATGGACTATCATCCTTATCACGTAGGAACCGTGTCATCCCCAT-ACCATACC
1 ATCATCCCTAAAGATGGACTATCATCCTCATCACGTAGGAACAGTGTCATCCAC-TGACCATACC
* * * * * *
3260542 TCCTTATCACATAGGAGTTGTGTTACCCCTAGATAACCAGTCATCTTCATCGCGTAGGAACCATG
65 TCCTCATCACGTAGGAGTTGTGTCACCCTTAGATAACCAGTCATCCTCATCACGTAGGAACCATG
3260607 TT
130 TT
* * *
3260609 ATCACCCTCCCTAAAGAT-GACTTGTCATCGTCATCGCGTAGGAACAGTGTCATCCACTGACCAT
1 ATCA---TCCCTAAAGATGGAC-TATCATCCTCATCACGTAGGAACAGTGTCATCCACTGACCAT
*
3260673 ATCTCCTCATCACGTAGGAGTTGTGTCACCCTTAGA
62 ACCTCCTCATCACGTAGGAGTTGTGTCACCCTTAGA
3260709 CGACCAGAAC
Statistics
Matches: 192, Mismatches: 32, Indels: 11
0.82 0.14 0.05
Matches are distributed among these distances:
130 1 0.01
131 111 0.58
133 4 0.02
134 76 0.40
ACGTcount: A:0.27, C:0.28, G:0.17, T:0.28
Consensus pattern (131 bp):
ATCATCCCTAAAGATGGACTATCATCCTCATCACGTAGGAACAGTGTCATCCACTGACCATACCT
CCTCATCACGTAGGAGTTGTGTCACCCTTAGATAACCAGTCATCCTCATCACGTAGGAACCATGT
T
Found at i:3260939 original size:3 final size:3
Alignment explanation
Indices: 3260894--3260921 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
3260884 GGTCCAAAAA
3260894 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT T
3260922 TTAACAATTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:3261110 original size:31 final size:31
Alignment explanation
Indices: 3261074--3261146 Score: 119
Period size: 31 Copynumber: 2.4 Consensus size: 31
3261064 TGCTGCAACA
* *
3261074 CCATGCCCTGTCACCCCATCGCATGCCACCT
1 CCATGCCCTGTCACCCCATCACACGCCACCT
*
3261105 CCATGCCCTATCACCCCATCACACGCCACCT
1 CCATGCCCTGTCACCCCATCACACGCCACCT
3261136 CCATGCCCTGT
1 CCATGCCCTGT
3261147 TAACAAGCAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.18, C:0.52, G:0.11, T:0.19
Consensus pattern (31 bp):
CCATGCCCTGTCACCCCATCACACGCCACCT
Found at i:3261963 original size:22 final size:22
Alignment explanation
Indices: 3261937--3261984 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
3261927 TCTATGTTAG
3261937 GCGTGTTTTACATTTTGGTCAT
1 GCGTGTTTTACATTTTGGTCAT
3261959 GCGTGTTTTACATTTTGGTCAT
1 GCGTGTTTTACATTTTGGTCAT
3261981 GCGT
1 GCGT
3261985 AATGACTTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.12, C:0.15, G:0.25, T:0.48
Consensus pattern (22 bp):
GCGTGTTTTACATTTTGGTCAT
Found at i:3267952 original size:8 final size:9
Alignment explanation
Indices: 3267938--3267985 Score: 57
Period size: 8 Copynumber: 5.4 Consensus size: 9
3267928 AACATCACAA
3267938 AAATAAAAT
1 AAATAAAAT
3267947 -AAT-AAAT
1 AAATAAAAT
3267954 AAATAAAAT
1 AAATAAAAT
3267963 GAAATAAAAAT
1 -AAAT-AAAAT
3267974 AAAT-AAAT
1 AAATAAAAT
3267982 AAAT
1 AAAT
3267986 GTGTATACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
7 4 0.11
8 14 0.40
9 4 0.11
10 8 0.23
11 5 0.14
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (9 bp):
AAATAAAAT
Found at i:3267975 original size:20 final size:21
Alignment explanation
Indices: 3267937--3267984 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
3267927 GAACATCACA
3267937 AAAATAAAATAATAAATAAAT
1 AAAATAAAATAATAAATAAAT
*
3267958 AAAATGAAATAA-AAATAAAT
1 AAAATAAAATAATAAATAAAT
3267978 -AAATAAA
1 AAAATAAA
3267985 TGTGTATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 8 0.32
21 11 0.44
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATAAAATAATAAATAAAT
Found at i:3269668 original size:3 final size:3
Alignment explanation
Indices: 3269660--3269702 Score: 52
Period size: 3 Copynumber: 14.0 Consensus size: 3
3269650 TAATTTATAT
*
3269660 TAA TAA TAA AAA TGAA -AA TAA TAA TAA TAA TAA TAA TAGA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
3269703 AAAGCGGCTG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 2 0.06
3 28 0.80
4 5 0.14
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:3269850 original size:201 final size:203
Alignment explanation
Indices: 3269505--3269909 Score: 751
Period size: 201 Copynumber: 2.0 Consensus size: 203
3269495 CAGAAGTGAG
*
3269505 GCGGCTGGAGCAGAGAAGGAAAAACCCTAGAGTTAGGGTTTTGTTAGGCCTGGGTTGTAATCGGG
1 GCGGCTGGAGCAGAGAAGGAAAAACCCTAGAGTTAGGGTTTTGTTAGGCCTGGGATGTAATCGGG
* *
3269570 AATGGGTTGAGAGATCCGGGCTTCATGGTTAATTGGGCTTGTAATATGATATTGGGCTTCAAATG
66 AATAGGTTGAGAGATCCGAGCTTCATGGTTAATTGGGCTTGTAATATGATATTGGGCTTCAAATG
3269635 GCCTGCTCAAGAATGTAATTTATATTAATAATAAAAATGAAAATAATAATAAT-A-ATAATAATA
131 GCCTGCTCAAGAATGTAATTTATATTAATAATAAAAATGAAAATAATAATAATAATATAATAATA
3269698 GATAAAAA
196 GATAAAAA
*
3269706 GCGGCTGGAGCAGAGAAGGTAAAACCCTAGAGTTAGGGTTTTGTTAGGCCTGGGATGTAATCGGG
1 GCGGCTGGAGCAGAGAAGGAAAAACCCTAGAGTTAGGGTTTTGTTAGGCCTGGGATGTAATCGGG
3269771 AATAGGTTGAGAGATCCGAGCTTCATGGTTAATTGGGCTTGTAATATGATATTGGGCTTCAAATG
66 AATAGGTTGAGAGATCCGAGCTTCATGGTTAATTGGGCTTGTAATATGATATTGGGCTTCAAATG
3269836 GCCTGCTCAAGAATGTAATTTATATTAATAATAAAAATGAAAATAATAATAATAATTATAATAAT
131 GCCTGCTCAAGAATGTAATTTATATTAATAATAAAAATGAAAATAATAATAATAA-TATAATAAT
3269901 AGATAAAAA
195 AGATAAAAA
3269910 TAGATAGAAA
Statistics
Matches: 197, Mismatches: 4, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
201 179 0.91
202 1 0.01
204 17 0.09
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (203 bp):
GCGGCTGGAGCAGAGAAGGAAAAACCCTAGAGTTAGGGTTTTGTTAGGCCTGGGATGTAATCGGG
AATAGGTTGAGAGATCCGAGCTTCATGGTTAATTGGGCTTGTAATATGATATTGGGCTTCAAATG
GCCTGCTCAAGAATGTAATTTATATTAATAATAAAAATGAAAATAATAATAATAATATAATAATA
GATAAAAA
Found at i:3269869 original size:3 final size:3
Alignment explanation
Indices: 3269861--3269911 Score: 50
Period size: 3 Copynumber: 16.7 Consensus size: 3
3269851 TAATTTATAT
* *
3269861 TAA TAA TAA AAA TGAA -AA TAA TAA TAA TAA TTA TAA TAA TAGA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA-A TAA
*
3269907 AAA TA
1 TAA TA
3269912 GATAGAAAAG
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
2 2 0.05
3 32 0.82
4 5 0.13
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:3269884 original size:18 final size:18
Alignment explanation
Indices: 3269861--3269910 Score: 64
Period size: 18 Copynumber: 2.7 Consensus size: 18
3269851 TAATTTATAT
3269861 TAATAATAAAAATGAAAA
1 TAATAATAAAAATGAAAA
* * *
3269879 TAATAATAATAATTATAA
1 TAATAATAAAAATGAAAA
3269897 TAATAGATAAAAAT
1 TAATA-ATAAAAAT
3269911 AGATAGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 20 0.74
19 7 0.26
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (18 bp):
TAATAATAAAAATGAAAA
Found at i:3271387 original size:15 final size:15
Alignment explanation
Indices: 3271367--3271434 Score: 109
Period size: 15 Copynumber: 4.5 Consensus size: 15
3271357 TCCTTTATTT
*
3271367 ATTTTTTCTTTTTTC
1 ATTTTTTCATTTTTC
*
3271382 TCTTTTTTCATTTTTC
1 -ATTTTTTCATTTTTC
3271398 ATTTTTTCATTTTTC
1 ATTTTTTCATTTTTC
3271413 ATTTTTTCATTTTTC
1 ATTTTTTCATTTTTC
3271428 ATTTTTT
1 ATTTTTT
3271435 TTCTATTTCT
Statistics
Matches: 49, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
15 36 0.73
16 13 0.27
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (15 bp):
ATTTTTTCATTTTTC
Found at i:3271403 original size:8 final size:8
Alignment explanation
Indices: 3271367--3271434 Score: 90
Period size: 7 Copynumber: 8.9 Consensus size: 8
3271357 TCCTTTATTT
3271367 ATTTTTTC
1 ATTTTTTC
3271375 -TTTTTTC
1 ATTTTTTC
*
3271382 TCTTTTTTC
1 -ATTTTTTC
3271391 A-TTTTTC
1 ATTTTTTC
3271398 ATTTTTTC
1 ATTTTTTC
3271406 A-TTTTTC
1 ATTTTTTC
3271413 ATTTTTTC
1 ATTTTTTC
3271421 A-TTTTTC
1 ATTTTTTC
3271428 ATTTTTT
1 ATTTTTT
3271435 TTCTATTTCT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
7 28 0.52
8 19 0.35
9 7 0.13
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.76
Consensus pattern (8 bp):
ATTTTTTC
Found at i:3281630 original size:5 final size:5
Alignment explanation
Indices: 3281616--3281645 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
3281606 TCTATTCTAC
3281616 ATAAA A-AAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
3281646 AAGGAGTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (5 bp):
ATAAA
Found at i:3282925 original size:4 final size:4
Alignment explanation
Indices: 3282907--3282954 Score: 55
Period size: 4 Copynumber: 12.0 Consensus size: 4
3282897 AACATCACAA
*
3282907 AAAT AAA- ATAAT AAAT AAAT AAAAT GAA- AAAT AAAT AAAT AAAT AAAT
1 AAAT AAAT A-AAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
3282955 GTGTATACTA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
3 3 0.08
4 30 0.79
5 5 0.13
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:3282928 original size:16 final size:17
Alignment explanation
Indices: 3282907--3282954 Score: 66
Period size: 16 Copynumber: 3.0 Consensus size: 17
3282897 AACATCACAA
3282907 AAATAAAAT-AATAAAT
1 AAATAAAATAAATAAAT
*
3282923 AAATAAAATGAA-AAAT
1 AAATAAAATAAATAAAT
3282939 AAAT-AAATAAATAAAT
1 AAATAAAATAAATAAAT
3282955 GTGTATACTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
15 6 0.21
16 21 0.72
17 2 0.07
ACGTcount: A:0.75, C:0.00, G:0.02, T:0.23
Consensus pattern (17 bp):
AAATAAAATAAATAAAT
Found at i:3282941 original size:20 final size:21
Alignment explanation
Indices: 3282906--3282953 Score: 73
Period size: 20 Copynumber: 2.4 Consensus size: 21
3282896 GAACATCACA
3282906 AAAATAAAATAATAAATAAAT
1 AAAATAAAATAATAAATAAAT
*
3282927 AAAATGAAA-AATAAATAAAT
1 AAAATAAAATAATAAATAAAT
3282947 -AAATAAA
1 AAAATAAA
3282954 TGTGTATACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 6 0.24
20 11 0.44
21 8 0.32
ACGTcount: A:0.77, C:0.00, G:0.02, T:0.21
Consensus pattern (21 bp):
AAAATAAAATAATAAATAAAT
Found at i:3284438 original size:3 final size:3
Alignment explanation
Indices: 3284430--3284486 Score: 71
Period size: 3 Copynumber: 18.7 Consensus size: 3
3284420 TAATTTATAT
*
3284430 TAA TAA TAA AAA TGAA -AA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA T-AA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
*
3284475 TAGA TAA AAA TA
1 TA-A TAA TAA TA
3284487 GATAGAAAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
2 2 0.04
3 40 0.85
4 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.04, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:3285376 original size:18 final size:18
Alignment explanation
Indices: 3285353--3285392 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
3285343 GGAGAACATG
3285353 TTGTCGTTGTTTGTGTTC
1 TTGTCGTTGTTTGTGTTC
3285371 TTGTCGTTGTTTGTGTTC
1 TTGTCGTTGTTTGTGTTC
3285389 TTGT
1 TTGT
3285393 GAAAGAAGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.00, C:0.10, G:0.28, T:0.62
Consensus pattern (18 bp):
TTGTCGTTGTTTGTGTTC
Found at i:3286964 original size:7 final size:7
Alignment explanation
Indices: 3286954--3287008 Score: 50
Period size: 7 Copynumber: 8.6 Consensus size: 7
3286944 AGAAAACCAC
3286954 AATAAAT
1 AATAAAT
3286961 AATAAAT
1 AATAAAT
3286968 -ATATAAT
1 AATA-AAT
3286975 AATAAAT
1 AATAAAT
3286982 -AT--AT
1 AATAAAT
3286986 AATAAAT
1 AATAAAT
*
3286993 AAT-ACT
1 AATAAAT
3286999 -ATAAAT
1 AATAAAT
3287005 AATA
1 AATA
3287009 TAACTATAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 14
0.71 0.04 0.25
Matches are distributed among these distances:
4 2 0.05
5 4 0.10
6 9 0.23
7 21 0.54
8 3 0.08
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (7 bp):
AATAAAT
Found at i:3287001 original size:15 final size:14
Alignment explanation
Indices: 3286965--3287145 Score: 92
Period size: 15 Copynumber: 12.6 Consensus size: 14
3286955 ATAAATAATA
3286965 AATATATAAT-AAT
1 AATATATAATAAAT
3286978 AAATATATAATAAAT
1 -AATATATAATAAAT
3286993 AATACTATAAATAATAT
1 AATA-TAT-AATAA-AT
* *
3287010 AA-CTATAATATAT
1 AATATATAATAAAT
3287023 AATATATAA-AAAT
1 AATATATAATAAAT
*
3287036 ATATTCTATAATAAAT
1 A-A-TATATAATAAAT
3287052 -ATAATAATAATAAAT
1 AAT-AT-ATAATAAAT
*
3287067 -ATCATATACTAAAT
1 AAT-ATATAATAAAT
* *
3287081 -ATACATATATACTAT
1 AATATATA-ATA-AAT
*
3287096 AATATATATCTAATAT
1 AATATATA-ATAA-AT
3287112 AATAT-TAAT--AT
1 AATATATAATAAAT
*
3287123 AATATATTATAATAT
1 AATATATAATAA-AT
*
3287138 AACATATA
1 AATATATA
3287146 TATACTATGT
Statistics
Matches: 131, Mismatches: 18, Indels: 35
0.71 0.10 0.19
Matches are distributed among these distances:
11 7 0.05
12 3 0.02
13 13 0.10
14 39 0.30
15 40 0.31
16 25 0.19
17 4 0.03
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (14 bp):
AATATATAATAAAT
Found at i:3287001 original size:29 final size:29
Alignment explanation
Indices: 3286965--3287175 Score: 129
Period size: 29 Copynumber: 7.3 Consensus size: 29
3286955 ATAAATAATA
3286965 AATATATAATAATA-AATATATAATAAAT
1 AATATATAATAATATAATATATAATAAAT
* *
3286993 AATACTATAAATAATATAA-CTATAATATAT
1 AATA-TAT-AATAATATAATATATAATAAAT
* * *
3287023 AATATATAAAAATATATTCTATAATAAAT
1 AATATATAATAATATAATATATAATAAAT
3287052 -ATA-ATAATAATA-AATATCATATACTAAAT
1 AATATATAATAATATAATAT-ATA-A-TAAAT
* * *
3287081 -ATACATATATACTATAATATAT-AT--CT
1 AATATATA-ATAATATAATATATAATAAAT
* *
3287107 AATATAATATTAATATAATATATTATAATAT
1 AATAT-ATAATAATATAATATATAATAA-AT
* * *
3287138 AACATATATATACTAT-GTA-ATAATAATAT
1 AATATATA-ATAATATAATATATAATAA-AT
*
3287167 ACTATATAA
1 AATATATAA
3287176 AGAGCATCAT
Statistics
Matches: 145, Mismatches: 21, Indels: 34
0.73 0.10 0.17
Matches are distributed among these distances:
26 4 0.03
27 26 0.18
28 23 0.16
29 40 0.28
30 28 0.19
31 19 0.13
32 5 0.03
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (29 bp):
AATATATAATAATATAATATATAATAAAT
Found at i:3287003 original size:37 final size:38
Alignment explanation
Indices: 3286957--3287145 Score: 120
Period size: 37 Copynumber: 4.8 Consensus size: 38
3286947 AAACCACAAT
3286957 AAATAATAAATATATAATAATA-AATATATAATAAATAA
1 AAAT-ATAAATATATAATAATATAATATATAATAAATAA
* * *
3286995 TACTATAAATA-AT-ATAACTATAATATATAATATATAA
1 AAATATAAATATATAATAA-TATAATATATAATAAATAA
* * *
3287032 AAATAT-ATTCTATAATAAATATAATA-ATAATAAATATC
1 AAATATAAATATATAAT-AATATAATATATAATAAATA-A
* * *
3287070 ATATACTAAATATACATATATACTATAATATATATCTAATATAA
1 AAATA-TAAATAT--ATA-ATAATATAATATATA-ATAA-ATAA
* *
3287114 TATTAATAT-AATATATTATAATATAACATATA
1 -A--AATATAAATATATAATAATATAATATATA
3287146 TATACTATGT
Statistics
Matches: 115, Mismatches: 19, Indels: 30
0.70 0.12 0.18
Matches are distributed among these distances:
35 4 0.03
36 6 0.05
37 37 0.32
38 15 0.13
39 3 0.03
40 3 0.03
42 24 0.21
43 7 0.06
44 3 0.03
45 9 0.08
46 1 0.01
47 3 0.03
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.38
Consensus pattern (38 bp):
AAATATAAATATATAATAATATAATATATAATAAATAA
Found at i:3287018 original size:44 final size:43
Alignment explanation
Indices: 3286955--3287149 Score: 138
Period size: 44 Copynumber: 4.4 Consensus size: 43
3286945 GAAAACCACA
*
3286955 ATAAATAATAAATATATAATAATAAATATATAATAAATAATACT
1 ATAAATAATATA-ATATAATAATAAATATATAATAAATAATACT
*
3286999 ATAAATAATATAACTATAAT-ATATAATATATAA-AAATATATTCT
1 ATAAATAATATAA-TATAATAATA-AATATATAATAAATA-ATACT
3287043 AT-AATAA-AT-ATAATAATAATAAATATCATATACTAAAT-ATAC-
1 ATAAATAATATAAT-ATAATAATAAATAT-ATA-A-TAAATAATACT
* * *
3287085 ATATATACTATAATATATATCTAATATAATAT-TAATATAAT-ATATT
1 ATAAATAATATAATATA-A--TAATA-AATATATAATA-AATAATACT
*
3287131 ATAATATAACATATATATA
1 ATAA-ATAATATA-ATATA
3287150 CTATGTAATA
Statistics
Matches: 122, Mismatches: 9, Indels: 36
0.73 0.05 0.22
Matches are distributed among these distances:
40 1 0.01
41 11 0.09
42 10 0.08
43 21 0.17
44 39 0.32
45 14 0.11
46 5 0.04
47 11 0.09
48 10 0.08
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.38
Consensus pattern (43 bp):
ATAAATAATATAATATAATAATAAATATATAATAAATAATACT
Found at i:3287074 original size:51 final size:49
Alignment explanation
Indices: 3286968--3287138 Score: 123
Period size: 51 Copynumber: 3.4 Consensus size: 49
3286958 AATAATAAAT
* * * * *
3286968 ATATAATA-ATAAATATATAATA-AATAATACTATAAATAATATAACTATAA
1 ATATAATATATAAAAATAT-ATACTATAATA-AATATATAATATAA-TATTA
* *
3287018 TATATAATATATAAAAATATATTCTATAATAAATATAATAATAATAA-ATATC
1 -ATATAATATATAAAAATATATACTATAATAAATAT-ATAAT-ATAATAT-TA
* * * * * *
3287070 ATATACTAAATATACATATATACTATAATATATATCTAATATAATATTA
1 ATATAATATATAAAAATATATACTATAATAAATATATAATATAATATTA
* *
3287119 ATATAATATATTATAATATA
1 ATATAATATATAAAAATATA
3287139 ACATATATAT
Statistics
Matches: 93, Mismatches: 21, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
49 19 0.20
50 6 0.06
51 44 0.47
52 20 0.22
53 4 0.04
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (49 bp):
ATATAATATATAAAAATATATACTATAATAAATATATAATATAATATTA
Found at i:3287112 original size:16 final size:16
Alignment explanation
Indices: 3286959--3287175 Score: 137
Period size: 16 Copynumber: 13.2 Consensus size: 16
3286949 ACCACAATAA
3286959 ATAATA-AATATATA-
1 ATAATATAATATATAT
3286973 ATAATA-AATATATA-
1 ATAATATAATATATAT
*
3286987 ATAA-ATAATACTATAA
1 ATAATATAATA-TATAT
3287003 ATAATATAACTATAATAT
1 ATAATATAA-TAT-ATAT
* *
3287021 ATAATATATAAAAATAT
1 ATAATATA-ATATATAT
** *
3287038 ATTCTATAATAAATAT
1 ATAATATAATATATAT
3287054 AATAATAATAAATATCATAT
1 -ATAAT-AT-AATAT-ATAT
*
3287074 ACTAA-AT-ATACATAT
1 A-TAATATAATATATAT
*
3287089 ATACTATAATATATAT
1 ATAATATAATATATAT
*
3287105 CTAATATAATAT-TAAT
1 ATAATATAATATAT-AT
*
3287121 ATAATATATTATA-AT
1 ATAATATAATATATAT
*
3287136 ATAACATATATATACTAT
1 ATAATATA-ATATA-TAT
*
3287154 GTAATAATAATATACTAT
1 ATAAT-ATAATATA-TAT
3287172 ATAA
1 ATAA
3287176 AGAGCATCAT
Statistics
Matches: 162, Mismatches: 21, Indels: 36
0.74 0.10 0.16
Matches are distributed among these distances:
13 1 0.01
14 24 0.15
15 21 0.13
16 47 0.29
17 18 0.11
18 35 0.22
19 9 0.06
20 7 0.04
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (16 bp):
ATAATATAATATATAT
Found at i:3287135 original size:10 final size:10
Alignment explanation
Indices: 3286955--3287172 Score: 109
Period size: 11 Copynumber: 21.3 Consensus size: 10
3286945 GAAAACCACA
3286955 ATAA-ATAAT
1 ATAATATAAT
3286964 A-AATAT-AT
1 ATAATATAAT
*
3286972 AATAATAAATAT
1 -ATAATATA-AT
3286984 ATAATA-AAT
1 ATAATATAAT
*
3286993 AATACTATAA-
1 -ATAATATAAT
3287003 ATAATATAACT
1 ATAATATAA-T
3287014 ATAATAT-AT
1 ATAATATAAT
3287023 A-ATATATAA-
1 ATA-ATATAAT
*
3287032 A-AATATATTCT
1 ATAATATA--AT
3287043 ATAATA-AAT
1 ATAATATAAT
3287052 ATAATAATAAT
1 ATAAT-ATAAT
*
3287063 A-AATATCAT
1 ATAATATAAT
*
3287072 ATACTA-AAT
1 ATAATATAAT
3287081 ATACATATATACT
1 ATA-ATATA-A-T
3287094 ATAATATATAT
1 ATAATATA-AT
*
3287105 CTAATATAAT
1 ATAATATAAT
3287115 ATTAATATAAT
1 A-TAATATAAT
*
3287126 ATATTATAAT
1 ATAATATAAT
*
3287136 ATAACATATAT
1 ATAATATA-AT
*
3287147 ATACTATGTAAT
1 ATA--ATATAAT
*
3287159 AATAATATACT
1 -ATAATATAAT
3287170 ATA
1 ATA
3287173 TAAAGAGCAT
Statistics
Matches: 164, Mismatches: 18, Indels: 53
0.70 0.08 0.23
Matches are distributed among these distances:
8 10 0.06
9 38 0.23
10 40 0.24
11 50 0.30
12 16 0.10
13 10 0.06
ACGTcount: A:0.56, C:0.05, G:0.00, T:0.38
Consensus pattern (10 bp):
ATAATATAAT
Found at i:3287148 original size:21 final size:21
Alignment explanation
Indices: 3287003--3287149 Score: 67
Period size: 21 Copynumber: 6.9 Consensus size: 21
3286993 AATACTATAA
* *
3287003 ATAATATAACTATAATATATA
1 ATAATATAAATATAATATATT
3287024 AT-ATAT-AA-A-AATATATT
1 ATAATATAAATATAATATATT
* *
3287041 CT-ATAATAAATATAATA-ATA
1 ATAAT-ATAAATATAATATATT
* *
3287061 ATAAATATCATATACTAA-ATATAC
1 AT-AATAT-AAATA-TAATATAT-T
* *
3287085 ATATATACTATAATATATATCTAAT
1 ATA-ATA-TA-AATATA-ATATATT
*
3287110 ATAATATTAATATAATATATT
1 ATAATATAAATATAATATATT
3287131 ATAATATAACATAT-ATATA
1 ATAATATAA-ATATAATATA
3287150 CTATGTAATA
Statistics
Matches: 95, Mismatches: 15, Indels: 32
0.67 0.11 0.23
Matches are distributed among these distances:
17 10 0.11
18 3 0.03
19 3 0.03
20 8 0.08
21 26 0.27
22 17 0.18
23 7 0.07
24 11 0.12
25 8 0.08
26 2 0.02
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.39
Consensus pattern (21 bp):
ATAATATAAATATAATATATT
Found at i:3291453 original size:10 final size:8
Alignment explanation
Indices: 3291425--3291620 Score: 138
Period size: 7 Copynumber: 24.9 Consensus size: 8
3291415 AAAAATAATA
3291425 ATATACTAT
1 ATATA-TAT
3291434 AT-TATAT
1 ATATATAT
3291441 ATACTATACT
1 ATA-TATA-T
3291451 ATACTATAT
1 ATA-TATAT
3291460 A-ATATA-
1 ATATATAT
3291466 ATATAT-T
1 ATATATAT
3291473 ATATA-AT
1 ATATATAT
3291480 A-ATATACT
1 ATATATA-T
3291488 ATAGTATACT
1 ATA-TATA-T
3291498 ATACTATAT
1 ATA-TATAT
3291507 AT-TATAT
1 ATATATAT
3291514 A-ATATAT
1 ATATATAT
3291521 ATATATAT
1 ATATATAT
3291529 ATA-ATAT
1 ATATATAT
3291536 ACTATACTAT
1 A-TATA-TAT
3291546 ATAT-TAT
1 ATATATAT
3291553 ATA-ATAT
1 ATATATAT
3291560 A-ATATACT
1 ATATATA-T
3291568 ATACTATAT
1 ATA-TATAT
3291577 ACTATATA-
1 A-TATATAT
3291585 ATATA-AT
1 ATATATAT
*
3291592 ATATATGT
1 ATATATAT
3291600 A-ATATACT
1 ATATATA-T
3291608 ATATA-AT
1 ATATATAT
3291615 A-ATATA
1 ATATATA
3291621 ATAAATGTGT
Statistics
Matches: 158, Mismatches: 3, Indels: 54
0.73 0.01 0.25
Matches are distributed among these distances:
6 9 0.06
7 67 0.42
8 24 0.15
9 26 0.16
10 32 0.20
ACGTcount: A:0.48, C:0.07, G:0.01, T:0.44
Consensus pattern (8 bp):
ATATATAT
Found at i:3291453 original size:12 final size:11
Alignment explanation
Indices: 3291422--3291620 Score: 156
Period size: 12 Copynumber: 17.1 Consensus size: 11
3291412 TCAAAAAATA
3291422 ATAATATACTAT
1 ATAATATA-TAT
*
3291434 ATTATATATACT
1 ATAATATATA-T
*
3291446 ATACTATACTAT
1 ATAATATA-TAT
3291458 ATAATATA-AT
1 ATAATATATAT
*
3291468 ATATTATATA-
1 ATAATATATAT
3291478 ATAATATACTAT
1 ATAATATA-TAT
3291490 AGTATACTATACTAT
1 A-TA-A-TATA-TAT
*
3291505 ATATTATATAAT
1 ATAATATAT-AT
3291517 ATATATATATAT
1 ATA-ATATATAT
3291529 ATAATATACTAT
1 ATAATATA-TAT
3291541 ACT-ATATATTAT
1 A-TAATATA-TAT
3291553 ATAATATA-AT
1 ATAATATATAT
*
3291563 ATACTATACTAT
1 ATAATATA-TAT
*
3291575 ATACTATATAAT
1 ATAATATAT-AT
3291587 ATAATATATAT
1 ATAATATATAT
*
3291598 GTAATATACTAT
1 ATAATATA-TAT
3291610 ATAATA-ATAT
1 ATAATATATAT
3291620 A
1 A
3291621 ATAAATGTGT
Statistics
Matches: 157, Mismatches: 13, Indels: 36
0.76 0.06 0.17
Matches are distributed among these distances:
10 29 0.18
11 23 0.15
12 83 0.53
13 10 0.06
14 3 0.02
15 9 0.06
ACGTcount: A:0.49, C:0.07, G:0.01, T:0.44
Consensus pattern (11 bp):
ATAATATATAT
Found at i:3291458 original size:29 final size:28
Alignment explanation
Indices: 3291419--3291623 Score: 185
Period size: 29 Copynumber: 7.2 Consensus size: 28
3291409 CTATCAAAAA
*
3291419 ATAATA-A-TATACTATATTATATATACT
1 ATAATATACTATACTATA-TATATATAAT
* *
3291446 ATACTATACTATA-TAATATAATATATTAT
1 ATAATATACTATACT-ATAT-ATATATAAT
*
3291475 ATAATA-A-TATACTATAGTATACTATACT
1 ATAATATACTATACTATA-TATA-TATAAT
*
3291503 AT-ATATTA-TATAATATATATATAT-AT
1 ATAATA-TACTATACTATATATATATAAT
3291529 ATAATATACTATACTATATATTATATAAT
1 ATAATATACTATACTATATA-TATATAAT
3291558 ATAATATACTATACTATATACTATATAAT
1 ATAATATACTATACTATATA-TATATAAT
*
3291587 ATAATATA-TATGTAATATACTATATAATAAT
1 ATAATATACTA--TACTATA-TATAT-ATAAT
3291618 ATAATA
1 ATAATA
3291624 AATGTGTTCG
Statistics
Matches: 150, Mismatches: 11, Indels: 30
0.79 0.06 0.16
Matches are distributed among these distances:
26 5 0.03
27 34 0.23
28 23 0.15
29 66 0.44
30 9 0.06
31 13 0.09
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.43
Consensus pattern (28 bp):
ATAATATACTATACTATATATATATAAT
Found at i:3291565 original size:5 final size:5
Alignment explanation
Indices: 3291422--3291623 Score: 130
Period size: 5 Copynumber: 40.2 Consensus size: 5
3291412 TCAAAAAATA
* * * * *
3291422 ATAAT ATACT ATATT AT-AT ATACT ATACT ATACTAT ATAAT ATAAT ATATT
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA--AT ATAAT ATAAT ATAAT
* * * * *
3291473 AT-AT AATAAT ATACT ATAGT ATACT ATACT AT-AT ATTAT ATAAT ATATAT
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATA-AT
* * * * *
3291523 ATATAT ATAAT ATACT ATACT AT-AT ATTAT ATAAT ATAAT ATACT ATACT
1 ATA-AT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
3291573 AT-AT ACT-AT ATAAT ATAAT ATATAT GTAAT ATACT AT-AT AATAAT
1 ATAAT A-TAAT ATAAT ATAAT ATA-AT ATAAT ATAAT ATAAT -ATAAT
3291618 ATAAT A
1 ATAAT A
3291624 AATGTGTTCG
Statistics
Matches: 163, Mismatches: 21, Indels: 26
0.78 0.10 0.12
Matches are distributed among these distances:
4 14 0.09
5 126 0.77
6 19 0.12
7 4 0.02
ACGTcount: A:0.49, C:0.06, G:0.01, T:0.44
Consensus pattern (5 bp):
ATAAT
Found at i:3296105 original size:18 final size:18
Alignment explanation
Indices: 3296045--3296112 Score: 70
Period size: 18 Copynumber: 3.8 Consensus size: 18
3296035 AAAACCGAAA
*
3296045 TCGGATTTTCGGTTCGGT
1 TCGGTTTTTCGGTTCGGT
*
3296063 TTGGTTTTT---TTAACGGT
1 TCGGTTTTTCGGTT--CGGT
3296080 TCGAGTTTTTCGGTTCGGT
1 TCG-GTTTTTCGGTTCGGT
3296099 TCGGTTTTTCGGTT
1 TCGGTTTTTCGGTT
3296113 TTTCAATAAA
Statistics
Matches: 41, Mismatches: 3, Indels: 12
0.73 0.05 0.21
Matches are distributed among these distances:
15 2 0.05
17 6 0.15
18 24 0.59
19 7 0.17
21 2 0.05
ACGTcount: A:0.06, C:0.13, G:0.29, T:0.51
Consensus pattern (18 bp):
TCGGTTTTTCGGTTCGGT
Found at i:3296265 original size:25 final size:25
Alignment explanation
Indices: 3296237--3296286 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
3296227 AAATGAAGCC
3296237 TTTAAAGCCAAACCGAACCGAACCG
1 TTTAAAGCCAAACCGAACCGAACCG
3296262 TTTAAAGCCAAACCGAACCGAACCG
1 TTTAAAGCCAAACCGAACCGAACCG
3296287 AACCATTTTA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.32, G:0.16, T:0.12
Consensus pattern (25 bp):
TTTAAAGCCAAACCGAACCGAACCG
Found at i:3297436 original size:17 final size:17
Alignment explanation
Indices: 3297416--3297448 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
3297406 CACTTTCTAA
3297416 TTGT-AAATATGATTGTT
1 TTGTGAAAT-TGATTGTT
3297433 TTGTGAAATTGATTGT
1 TTGTGAAATTGATTGT
3297449 ATAAAATGCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.27, C:0.00, G:0.21, T:0.52
Consensus pattern (17 bp):
TTGTGAAATTGATTGTT
Found at i:3297792 original size:41 final size:42
Alignment explanation
Indices: 3297627--3297784 Score: 173
Period size: 41 Copynumber: 3.9 Consensus size: 42
3297617 GGAAGTTTAC
* * *
3297627 TGGATTCATCC-TTCGAGGTGAATTTCACTTCGGATTATCGG
1 TGGATTCACCCTTTCGAGATGAATTTCACTTCGGATTATCAG
* * *
3297668 TGGATTTA-CCTTTTGAGATGAATTTCAATTCGGATTATCAG
1 TGGATTCACCCTTTCGAGATGAATTTCACTTCGGATTATCAG
** * *
3297709 TGGA-TCACCCTTTC-AGATGAATTTCACTTTAGAATATTAG
1 TGGATTCACCCTTTCGAGATGAATTTCACTTCGGATTATCAG
* *
3297749 TGGATTCA-CCATTCGAGATGAATTTCACTTTGGATT
1 TGGATTCACCCTTTCGAGATGAATTTCACTTCGGATT
3297785 CTTAGTGGCT
Statistics
Matches: 98, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
40 34 0.35
41 64 0.65
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (42 bp):
TGGATTCACCCTTTCGAGATGAATTTCACTTCGGATTATCAG
Found at i:3300737 original size:210 final size:212
Alignment explanation
Indices: 3300373--3300795 Score: 832
Period size: 210 Copynumber: 2.0 Consensus size: 212
3300363 TGTTTACGTT
3300373 GACATGATATTTATGTCATTTATTATATATTTGATATATTCTAAATATGGCAAAGTTTGAATATA
1 GACATGATATTTATGTCATTTATTATATATTTGATATATTCTAAATATGGCAAAGTTTGAATATA
3300438 AAACGCATTGATCATTGGTTATTATATATGATGTTTATTAAGAAAGTTATTTTGGGTATGAACTG
66 AAACGCATTGATCATTGGTTATTATATATGATGTTTATTAAGAAAGTTATTTTGGGTATGAACTG
3300503 CCCAAATGTTAAATTATGATAATATACTTTGCCATAGATAAACAAAATATACTATATGCCCAAGT
131 CCCAAATGTTAAATTATGATAATATACTTTGCCATAGATAAACAAAATATACTATATGCCCAAGT
3300568 AAGTCATTGAGGGAGAG
196 AAGTCATTGAGGGAGAG
3300585 GACATGATATTTATGTCATTT-TTATATATTTGATATATTCTAAATATGGCAAAGTTTGAATAT-
1 GACATGATATTTATGTCATTTATTATATATTTGATATATTCTAAATATGGCAAAGTTTGAATATA
3300648 AAACGCATTGATCATTGGTTATTATATATGATGTTTATTAAGAAAGTTATTTTGGGTATGAACTG
66 AAACGCATTGATCATTGGTTATTATATATGATGTTTATTAAGAAAGTTATTTTGGGTATGAACTG
3300713 CCCAAATGTTAAATTATGATAATATACTTTGCCATAGATAAACAAAATATACTATATGCCCAAGT
131 CCCAAATGTTAAATTATGATAATATACTTTGCCATAGATAAACAAAATATACTATATGCCCAAGT
3300778 AAGTCATTGAGGGAGAG
196 AAGTCATTGAGGGAGAG
3300795 G
1 G
3300796 GTAAAGTTGG
Statistics
Matches: 211, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
210 148 0.70
211 42 0.20
212 21 0.10
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.37
Consensus pattern (212 bp):
GACATGATATTTATGTCATTTATTATATATTTGATATATTCTAAATATGGCAAAGTTTGAATATA
AAACGCATTGATCATTGGTTATTATATATGATGTTTATTAAGAAAGTTATTTTGGGTATGAACTG
CCCAAATGTTAAATTATGATAATATACTTTGCCATAGATAAACAAAATATACTATATGCCCAAGT
AAGTCATTGAGGGAGAG
Found at i:3303417 original size:34 final size:32
Alignment explanation
Indices: 3303322--3303419 Score: 97
Period size: 34 Copynumber: 2.8 Consensus size: 32
3303312 TTTTGAAAAC
*
3303322 ATATATATAATAAATAGTTTTTGAAAACATTTTTGA
1 ATATATATAAT--ATA-TTTTTGAAAATA-TTTTGA
* *
3303358 ACATATATAATATATGGTTTGAAAATATTTTGAA
1 ATATATATAATATAT-TTTTGAAAATATTTTG-A
*
3303392 ATATATATAATATTATTTTTTAAAATAT
1 ATATATATAATA-TATTTTTGAAAATAT
3303420 AATTCCATTT
Statistics
Matches: 53, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
33 6 0.11
34 34 0.64
35 3 0.06
36 10 0.19
ACGTcount: A:0.45, C:0.02, G:0.07, T:0.46
Consensus pattern (32 bp):
ATATATATAATATATTTTTGAAAATATTTTGA
Found at i:3303773 original size:24 final size:24
Alignment explanation
Indices: 3303728--3303773 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
3303718 TTAAATAGAT
*
3303728 GATAGTATTTCAATTATGATTTAG
1 GATAGTATTTCAAATATGATTTAG
* * *
3303752 GATATTATTTTAAATATTATTT
1 GATAGTATTTCAAATATGATTT
3303774 TATTTTATCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (24 bp):
GATAGTATTTCAAATATGATTTAG
Found at i:3304653 original size:32 final size:30
Alignment explanation
Indices: 3304553--3304655 Score: 82
Period size: 32 Copynumber: 3.2 Consensus size: 30
3304543 TTCTTTCTGA
*
3304553 AATTTAATATTTTCTTCATTTATTTTATTTTTT
1 AATTTAA-AATTTCTT-ATTTA-TTTATTTTTT
* * * **
3304586 ATTTTAACATTTCTTATATA-ACATTTTTT
1 AATTTAAAATTTCTTATTTATTTATTTTTT
3304615 AAAATTTAAAATTTCCTTATTTGATTTATTTTTT
1 --AATTTAAAATTT-CTTATTT-ATTTATTTTTT
3304649 AATTTAA
1 AATTTAA
3304656 TTTTATGTGA
Statistics
Matches: 54, Mismatches: 11, Indels: 11
0.71 0.14 0.14
Matches are distributed among these distances:
29 7 0.13
31 14 0.26
32 19 0.35
33 7 0.13
34 7 0.13
ACGTcount: A:0.31, C:0.07, G:0.01, T:0.61
Consensus pattern (30 bp):
AATTTAAAATTTCTTATTTATTTATTTTTT
Found at i:3310598 original size:87 final size:87
Alignment explanation
Indices: 3310477--3310785 Score: 453
Period size: 86 Copynumber: 3.6 Consensus size: 87
3310467 AAGAACATTT
* * * *
3310477 CACATAGCTTTCCCATG-ATGGGAGTAATCCAAAGATCATCTCACTTGGTTTAGACCCGTGAAGG
1 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACCCGTGAAGG
*
3310541 GGAACCTTCCTGAGGAATATAC
66 GGAACCTACCTGAGGAATATAC
*
3310563 CACATGGCTTTCCCATTAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACCCGTGAAGG
1 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACCCGTGAAGG
*
3310628 GGAACC-ACCTAAGGAATATAC
66 GGAACCTACCTGAGGAATATAC
* * * ***
3310649 CACATGACTTTCCCGTGAAGGGGAGTCATCCAAAGTTCATCTCACTTGGTTCAGACCTACGAAGG
1 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACCCGTGAAGG
*
3310714 GGAA-ATACCTGAGGAATATAC
66 GGAACCTACCTGAGGAATATAC
* *
3310735 CACATGGCTTTTCCGTGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTT
1 CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTT
3310786 TAGAACCAAT
Statistics
Matches: 202, Mismatches: 19, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
86 152 0.75
87 50 0.25
ACGTcount: A:0.29, C:0.24, G:0.23, T:0.25
Consensus pattern (87 bp):
CACATGGCTTTCCCATGAAGGGGAGTCATCCAAAGATCATCTCACTTGGTTCAGACCCGTGAAGG
GGAACCTACCTGAGGAATATAC
Found at i:3312539 original size:44 final size:42
Alignment explanation
Indices: 3312489--3312584 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
3312479 CTACCTCCTC
3312489 ATGTGATGGATTCAAACAAAGTGTTGATGCTGATCCAACTCCAT
1 ATGTGATGGA-TCAAA-AAAGTGTTGATGCTGATCCAACTCCAT
* * * * * *
3312533 ATGTGATGGATGAGAAAAGTGTTGGTGTTGTTCCAACTCCTT
1 ATGTGATGGATCAAAAAAGTGTTGATGCTGATCCAACTCCAT
3312575 ATGTGATGGA
1 ATGTGATGGA
3312585 AACGAGCTAA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
42 33 0.72
43 3 0.07
44 10 0.22
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.32
Consensus pattern (42 bp):
ATGTGATGGATCAAAAAAGTGTTGATGCTGATCCAACTCCAT
Found at i:3312863 original size:91 final size:91
Alignment explanation
Indices: 3312593--3312863 Score: 373
Period size: 91 Copynumber: 3.0 Consensus size: 91
3312583 GAAACGAGCT
* *
3312593 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCACTCT-TCAGATGAGTTCTTCTCATTA
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCT-TGTCGGATGAGTTCTTCTCATTA
* * ***
3312657 TGAACTCTCCATTGGAAATGTTCAGCC
65 TGAACTCTCCACTGGAAATGTTGATAA
* * * *
3312684 AAGGTTGAACAAGTTCTTCTCATTATGAATTTCTTCTCCCTCGTTGGATGAGTTCTTCTCAATAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTCGGATGAGTTCTTCTCATTAT
* *
3312749 GAACTCCCCACTAGAAATGTTGATAA
66 GAACTCTCCACTGGAAATGTTGATAA
* *
3312775 AAGGTTGAACAAGTTCTTTTTATTATGAACTTCTTCTCCCTTGTCGGATGAGTTCTTCTCATTAT
1 AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTCGGATGAGTTCTTCTCATTAT
* *
3312840 GAACTCTTCACTGGAAATATTGAT
66 GAACTCTCCACTGGAAATGTTGAT
3312864 CCACCTCATT
Statistics
Matches: 156, Mismatches: 23, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
91 156 1.00
ACGTcount: A:0.26, C:0.21, G:0.15, T:0.38
Consensus pattern (91 bp):
AAGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTCCCTTGTCGGATGAGTTCTTCTCATTAT
GAACTCTCCACTGGAAATGTTGATAA
Found at i:3314147 original size:5 final size:5
Alignment explanation
Indices: 3314137--3314224 Score: 75
Period size: 5 Copynumber: 18.8 Consensus size: 5
3314127 GAACCTCTCA
* *
3314137 TTTTC TTTTC TTTTTC TTTTTC TTAT- TTTTC TTTT- TTAT- TTTTC -TTTC
1 TTTTC TTTTC -TTTTC -TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC
*
3314185 TTTTC TTTTC -TTT- TTTTC TTTTT TTTTC -TTT- TTTTC TTTT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTTC TTTT
3314225 TCTTCTTAAG
Statistics
Matches: 69, Mismatches: 6, Indels: 16
0.76 0.07 0.18
Matches are distributed among these distances:
4 25 0.36
5 33 0.48
6 11 0.16
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTC
Found at i:3314153 original size:6 final size:6
Alignment explanation
Indices: 3314137--3314228 Score: 72
Period size: 6 Copynumber: 16.2 Consensus size: 6
3314127 GAACCTCTCA
* * *
3314137 TTTTC- TTTTCT TTTTCT TTTTCT TATT-T TTCT-T TTTTAT TTTTC-
1 TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT TTTTCT
* *
3314181 -TTTC- TTTTCT TTTCTTT TTTTCT TTTT-T TTTCTTT TTTTCT TTTTCT
1 TTTTCT TTTTCT TTT-TCT TTTTCT TTTTCT TTT-TCT TTTTCT TTTTCT
3314228 T
1 T
3314229 CTTAAGTGTA
Statistics
Matches: 72, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
4 4 0.06
5 20 0.28
6 39 0.54
7 9 0.12
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTCT
Found at i:3314157 original size:1 final size:1
Alignment explanation
Indices: 3314137--3314225 Score: 52
Period size: 1 Copynumber: 89.0 Consensus size: 1
3314127 GAACCTCTCA
* * * * * * * * * * *
3314137 TTTTCTTTTCTTTTTCTTTTTCTTATTTTTCTTTTTTATTTTTCTTTCTTTTCTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
* * *
3314202 CTTTTTTTTTCTTTTTTTCTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTT
3314226 CTTCTTAAGT
Statistics
Matches: 60, Mismatches: 28, Indels: 0
0.68 0.32 0.00
Matches are distributed among these distances:
1 60 1.00
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (1 bp):
T
Found at i:3314167 original size:9 final size:8
Alignment explanation
Indices: 3314137--3314231 Score: 86
Period size: 8 Copynumber: 10.9 Consensus size: 8
3314127 GAACCTCTCA
3314137 TTTTCTTT
1 TTTTCTTT
3314145 TCTTT-TTCT
1 T-TTTCTT-T
3314154 TTTTCTTAT
1 TTTTCTT-T
3314163 TTTTCTTT
1 TTTTCTTT
3314171 TTTAT-TTT
1 TTT-TCTTT
3314179 TCTTTCTTTT
1 T-TTTC-TTT
3314189 CTTTTCTTT
1 -TTTTCTTT
3314198 TTTTCTTTTT
1 TTTTC--TTT
3314208 TTTTCTTT
1 TTTTCTTT
3314216 TTTTCTTT
1 TTTTCTTT
3314224 TTCTTCTT
1 TT-TTCTT
3314232 AAGTGTAATA
Statistics
Matches: 75, Mismatches: 1, Indels: 21
0.77 0.01 0.22
Matches are distributed among these distances:
8 33 0.44
9 26 0.35
10 15 0.20
11 1 0.01
ACGTcount: A:0.02, C:0.15, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTCTTT
Found at i:3314178 original size:22 final size:21
Alignment explanation
Indices: 3314142--3314228 Score: 97
Period size: 22 Copynumber: 4.0 Consensus size: 21
3314132 TCTCATTTTC
3314142 TTTTC-TTTTTCTTTTTCTTAT
1 TTTTCTTTTTTCTTTTTCTT-T
*
3314163 TTTTCTTTTTTATTTTTCTTT
1 TTTTCTTTTTTCTTTTTCTTT
3314184 CTTTTCTTTTCTT-TTTTTCTTTTT
1 -TTTTCTTTT-TTCTTTTTC--TTT
3314208 TTTTCTTTTTTTCTTTTTCTT
1 TTTTC-TTTTTTCTTTTTCTT
3314229 CTTAAGTGTA
Statistics
Matches: 58, Mismatches: 1, Indels: 13
0.81 0.01 0.18
Matches are distributed among these distances:
21 6 0.10
22 30 0.52
23 9 0.16
24 13 0.22
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (21 bp):
TTTTCTTTTTTCTTTTTCTTT
Found at i:3314179 original size:28 final size:26
Alignment explanation
Indices: 3314137--3314225 Score: 103
Period size: 26 Copynumber: 3.4 Consensus size: 26
3314127 GAACCTCTCA
*
3314137 TTTTC-TTTTCTTTTTCTTTTTCTTAT
1 TTTTCTTTTTTTTTTTCTTTTTCTT-T
*
3314163 TTTTCTTTTTTATTTTTCTTTCTT-TTC
1 TTTTCTTTTTT-TTTTTCTTT-TTCTTT
3314190 TTTTCTTTTTTTCTTTT-TTTTTCTTT
1 TTTTCTTTTTTT-TTTTCTTTTTCTTT
3314216 TTTTCTTTTT
1 TTTTCTTTTT
3314226 CTTCTTAAGT
Statistics
Matches: 55, Mismatches: 3, Indels: 10
0.81 0.04 0.15
Matches are distributed among these distances:
25 2 0.04
26 21 0.38
27 19 0.35
28 11 0.20
29 2 0.04
ACGTcount: A:0.02, C:0.13, G:0.00, T:0.84
Consensus pattern (26 bp):
TTTTCTTTTTTTTTTTCTTTTTCTTT
Found at i:3331902 original size:107 final size:106
Alignment explanation
Indices: 3331778--3332011 Score: 264
Period size: 107 Copynumber: 2.2 Consensus size: 106
3331768 ATCACTACAT
*
3331778 ATGACCAAAATGCAAAAACATACTTA-AATAAGAGGGACTAAA-AATCAAATATTCC-AATAAAT
1 ATGACCAAAATGCAAAAACATAC-TAGAATAAGAGGGACTAAACAA-CAAATA-ACCTAATAAAT
3331840 AATAACAT-C-CATGAAAAAGGAGTAAATA-ACATATTTGGTCCTCAG
63 -ATAACATACGCATG-AAAAGG-GTAAATAGACAT-TTTGGTCCTCAG
* * * * *
3331885 ATGACCAAAGTGTAAAAACATGCTAGAATATGAGGGATTAAACAACAAATAACCTAATAAATATA
1 ATGACCAAAATGCAAAAACATACTAGAATAAGAGGGACTAAACAACAAATAACCTAATAAATATA
* * *
3331950 CCATACGCATGAAAAGGGTAAATAGCCATTTTGGTCCTCAC
66 ACATACGCATGAAAAGGGTAAATAGACATTTTGGTCCTCAG
3331991 ATGTGACCAAAATGCAAAAAC
1 A--TGACCAAAATGCAAAAAC
3332012 GCGCTAAACT
Statistics
Matches: 108, Mismatches: 11, Indels: 15
0.81 0.08 0.11
Matches are distributed among these distances:
106 29 0.27
107 57 0.53
108 22 0.20
ACGTcount: A:0.48, C:0.16, G:0.14, T:0.22
Consensus pattern (106 bp):
ATGACCAAAATGCAAAAACATACTAGAATAAGAGGGACTAAACAACAAATAACCTAATAAATATA
ACATACGCATGAAAAGGGTAAATAGACATTTTGGTCCTCAG
Found at i:3335180 original size:35 final size:35
Alignment explanation
Indices: 3335060--3335181 Score: 99
Period size: 35 Copynumber: 3.5 Consensus size: 35
3335050 GAAGATACTA
* **
3335060 CATATAACATCACCATCTTCCATCACCATTTTCTTG
1 CATATAACATCACCATCTTCCATCTCCA-TTTCACG
* * * *
3335096 CCTATAACATCACCAT-TTCCAT-TACCGTTGCACAC
1 CATATAACATCACCATCTTCCATCT-CCATTTCAC-G
* *
3335131 CA-ATATCATTACCATCTTCCATCTCCATTTCACG
1 CATATAACATCACCATCTTCCATCTCCATTTCACG
3335165 CATATATA-ATCACCATC
1 CATATA-ACATCACCATC
3335182 CCATTATCAT
Statistics
Matches: 65, Mismatches: 15, Indels: 13
0.70 0.16 0.14
Matches are distributed among these distances:
34 16 0.25
35 33 0.51
36 16 0.25
ACGTcount: A:0.30, C:0.34, G:0.03, T:0.33
Consensus pattern (35 bp):
CATATAACATCACCATCTTCCATCTCCATTTCACG
Found at i:3335564 original size:7 final size:6
Alignment explanation
Indices: 3335544--3335584 Score: 55
Period size: 6 Copynumber: 6.7 Consensus size: 6
3335534 TAAAAGCAAC
* *
3335544 AAAAGA AAAAGA AAGAAGA AAAACA AAAAGA GAAAGA AAAA
1 AAAAGA AAAAGA AA-AAGA AAAAGA AAAAGA AAAAGA AAAA
3335585 TACTCCTATA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.80, C:0.02, G:0.17, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:3340845 original size:35 final size:35
Alignment explanation
Indices: 3340763--3340848 Score: 102
Period size: 35 Copynumber: 2.5 Consensus size: 35
3340753 AGTTACTACT
* *
3340763 ATAACATCACCATCTTCATCACCATTTTCACGCCT
1 ATAACATCACCATCTTCATCACCATTTGCACGCCA
* *
3340798 ATAACATCACCATCTTCCATTACCA-TTGCATGCCA
1 ATAACATCACCATCTT-CATCACCATTTGCACGCCA
* *
3340833 ATATCATTACCATCTT
1 ATAACATCACCATCTT
3340849 TCGTCTTCAT
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
35 37 0.84
36 7 0.16
ACGTcount: A:0.30, C:0.34, G:0.03, T:0.33
Consensus pattern (35 bp):
ATAACATCACCATCTTCATCACCATTTGCACGCCA
Found at i:3348284 original size:127 final size:126
Alignment explanation
Indices: 3348126--3348378 Score: 391
Period size: 127 Copynumber: 2.0 Consensus size: 126
3348116 TCATTTTCCT
*
3348126 CCAATATTGCCGCCCACCTCCATTGGCTAAGTTCAATCTTTCCATTACATATCTATCTTTTATCT
1 CCAATATTGCCGCCCACCTCAATTGGCTAAGTTCAATCTTTCCATTACATATCTATCTTTTATCT
* * *
3348191 TTATGTATTCTTATATTTATTTTATCCATCTCTTTTATTACCCTTATTTTTTTTCATTTTTTA
66 TTATATATTATTATATTTATTTTATACATCTCTTTTATTACCCTTA--TTTTTTCATTTTTTA
* * *
3348254 CCAATATTGTCG-CTACCTCAATTGGCTAAGTTTAATCTTTCCATTACATATCTATCTTTTATCT
1 CCAATATTGCCGCCCACCTCAATTGGCTAAGTTCAATCTTTCCATTACATATCTATCTTTTATCT
* **
3348318 TTATATATTATTATCTTTATTTTATACATCTCTTTTATTATTCTTATTTTTTCATTTTTTA
66 TTATATATTATTATATTTATTTTATACATCTCTTTTATTACCCTTATTTTTTCATTTTTTA
3348379 GTCTTTGTTT
Statistics
Matches: 115, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
125 15 0.13
127 89 0.77
128 11 0.10
ACGTcount: A:0.23, C:0.20, G:0.04, T:0.53
Consensus pattern (126 bp):
CCAATATTGCCGCCCACCTCAATTGGCTAAGTTCAATCTTTCCATTACATATCTATCTTTTATCT
TTATATATTATTATATTTATTTTATACATCTCTTTTATTACCCTTATTTTTTCATTTTTTA
Found at i:3380935 original size:25 final size:26
Alignment explanation
Indices: 3380907--3380956 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 26
3380897 AACCATAATA
3380907 TGATTAAAGTAAAG-AAAGAAAACAT
1 TGATTAAAGTAAAGCAAAGAAAACAT
*
3380932 TGATTAAAGTGAAGCAAAGAAAACA
1 TGATTAAAGTAAAGCAAAGAAAACA
3380957 AAGTAAGTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 13 0.57
26 10 0.43
ACGTcount: A:0.58, C:0.06, G:0.18, T:0.18
Consensus pattern (26 bp):
TGATTAAAGTAAAGCAAAGAAAACAT
Found at i:3381921 original size:15 final size:14
Alignment explanation
Indices: 3381901--3381930 Score: 51
Period size: 15 Copynumber: 2.1 Consensus size: 14
3381891 TAAACAACCA
3381901 TTTTTTATTTTGTTT
1 TTTTTTATTTT-TTT
3381916 TTTTTTATTTTTTT
1 TTTTTTATTTTTTT
3381930 T
1 T
3381931 CCTGCTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.00, G:0.03, T:0.90
Consensus pattern (14 bp):
TTTTTTATTTTTTT
Found at i:3384696 original size:21 final size:21
Alignment explanation
Indices: 3384658--3384706 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
3384648 AGAAAATCAA
*
3384658 AGAA-AAATAAATTAATAACT
1 AGAATAAATAAATTAATAAAT
3384678 AGAATAAATAAA-TATATAAAT
1 AGAATAAATAAATTA-ATAAAT
*
3384699 AAAATAAA
1 AGAATAAA
3384707 ATGAACTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 6 0.24
21 19 0.76
ACGTcount: A:0.69, C:0.02, G:0.04, T:0.24
Consensus pattern (21 bp):
AGAATAAATAAATTAATAAAT
Found at i:3390607 original size:45 final size:45
Alignment explanation
Indices: 3390476--3390615 Score: 167
Period size: 45 Copynumber: 3.1 Consensus size: 45
3390466 TAATCCAAGA
* *
3390476 CTTTTAATTATTGGGTTGCCAAAAGTAAAATCAAA-CGAATAGTTT
1 CTTTTGATTATTGGGTTGCCAAAAGTAAAATCAAAGC-ATTAGTTT
** *
3390521 CACTTGATTATTGGGTTGCCAAAAGTAAAATAAAATG-ATTAGTTT
1 CTTTTGATTATTGGGTTGCCAAAAGTAAAATCAAA-GCATTAGTTT
* * * *
3390566 CTTTTGATTATTGTGTTCCCAAAAGTAAAACCAAAGCATTAGTTC
1 CTTTTGATTATTGGGTTGCCAAAAGTAAAATCAAAGCATTAGTTT
3390611 CTTTT
1 CTTTT
3390616 AATTCTTAAG
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
44 1 0.01
45 79 0.99
ACGTcount: A:0.35, C:0.13, G:0.15, T:0.37
Consensus pattern (45 bp):
CTTTTGATTATTGGGTTGCCAAAAGTAAAATCAAAGCATTAGTTT
Found at i:3390947 original size:57 final size:58
Alignment explanation
Indices: 3390881--3391117 Score: 243
Period size: 58 Copynumber: 4.1 Consensus size: 58
3390871 AATCTTGTGT
* *
3390881 TGATTCTAACTTTATAAGGAAAATAAGTCGTTGAATTAATTTCCTTG-GAATCTTGAA
1 TGATTCTAACTTTATAAGGAAAATAAATCGTTGAATTTATTTCCTTGAGAATCTTGAA
* * * * * *
3390938 TTATTCTAACCTTGTAAGGAAAATAAATCATTGAATTTATTTCCTTAAGAATCGTGAA
1 TGATTCTAACTTTATAAGGAAAATAAATCGTTGAATTTATTTCCTTGAGAATCTTGAA
* * * * *
3390996 TGATTATAAATTTGA-AAGGAAAATAAATTG-TGTAATTTATTTTCTTGAAAATCTTGAA
1 TGATTCTAACTTT-ATAAGGAAAATAAATCGTTG-AATTTATTTCCTTGAGAATCTTGAA
** * * *
3391054 TGATTCTATTTTTTAAAAGG-AAATAAATTGTTGAATTTATTT--TTGAGAATCTTTAA
1 TGATTCTA-ACTTTATAAGGAAAATAAATCGTTGAATTTATTTCCTTGAGAATCTTGAA
3391110 TGATTCTA
1 TGATTCTA
3391118 TTTTAAAATG
Statistics
Matches: 150, Mismatches: 24, Indels: 13
0.80 0.13 0.07
Matches are distributed among these distances:
56 20 0.13
57 42 0.28
58 79 0.53
59 9 0.06
ACGTcount: A:0.37, C:0.08, G:0.14, T:0.42
Consensus pattern (58 bp):
TGATTCTAACTTTATAAGGAAAATAAATCGTTGAATTTATTTCCTTGAGAATCTTGAA
Found at i:3391145 original size:54 final size:57
Alignment explanation
Indices: 3390953--3391166 Score: 195
Period size: 58 Copynumber: 3.8 Consensus size: 57
3390943 CTAACCTTGT
** * ** * * * ** *
3390953 AAGGAAAATAAATCATTGAATTTATTTCCTTAAGAATCGTGAATGATTATAAATTTGA
1 AAGG-AAATAAATTGTTAAATTTATTTTATTGAGAATCTTGAATGATTCTATTTTTAA
* *
3391011 AAGGAAAATAAATTGTGT-AATTTATTTTCTTGAAAATCTTGAATGATTCTATTTTTTAA
1 AAGG-AAATAAATTGT-TAAATTTATTTTATTGAGAATCTTGAATGATTCTA-TTTTTAA
* *
3391070 AAGGAAATAAATTGTTGAATTTA-TTT-TTGAGAATCTTTAATGATTCTA-TTTTAA
1 AAGGAAATAAATTGTTAAATTTATTTTATTGAGAATCTTGAATGATTCTATTTTTAA
* *
3391124 AATGAAATAAAATT-TTAAATTTATTTTATTGAGAATTTTGAAT
1 AAGGAAAT-AAATTGTTAAATTTATTTTATTGAGAATCTTGAAT
3391167 AAAAAATAAA
Statistics
Matches: 134, Mismatches: 16, Indels: 14
0.82 0.10 0.09
Matches are distributed among these distances:
54 21 0.16
55 8 0.06
56 33 0.25
57 4 0.03
58 59 0.44
59 9 0.07
ACGTcount: A:0.40, C:0.04, G:0.12, T:0.43
Consensus pattern (57 bp):
AAGGAAATAAATTGTTAAATTTATTTTATTGAGAATCTTGAATGATTCTATTTTTAA
Found at i:3391241 original size:99 final size:96
Alignment explanation
Indices: 3391074--3391258 Score: 239
Period size: 99 Copynumber: 1.9 Consensus size: 96
3391064 TTTTAAAAGG
* * * *
3391074 AAATAAATTGTTGAATTTATTTTTGAGAATCTTTAATGATTCTATTTTAAAATGAAATAAAATTT
1 AAATAAATTATTGAATTTATTTTTGAGAATCTTCAATGATTATATTGTAAAATGAAATAAAATTT
3391139 TAAATTTATTTTATTGAGAATTTTGAATAAA
66 TAAATTTATTTTATTGAGAATTTTGAATAAA
* * *
3391170 AAATAAATTATTGAATTTGTTTTCTTAGGAATCTTCAATGATTATATCGTGTAAAA-GGAAT-AA
1 AAATAAATTATTGAATTTATTTT-TGA-GAATCTTCAATGATTATAT--TGTAAAATGAAATAAA
*
3391233 ATCTTTAAATTTATTTTATTGTGAAT
62 AT-TTTAAATTTATTTTATTGAGAAT
3391259 CTTATAATAT
Statistics
Matches: 76, Mismatches: 8, Indels: 7
0.84 0.09 0.08
Matches are distributed among these distances:
96 21 0.28
97 2 0.03
98 21 0.28
99 26 0.34
100 6 0.08
ACGTcount: A:0.39, C:0.04, G:0.11, T:0.46
Consensus pattern (96 bp):
AAATAAATTATTGAATTTATTTTTGAGAATCTTCAATGATTATATTGTAAAATGAAATAAAATTT
TAAATTTATTTTATTGAGAATTTTGAATAAA
Found at i:3391370 original size:39 final size:39
Alignment explanation
Indices: 3391326--3391401 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
3391316 TGAATGATTA
**
3391326 TATTTTGAAAAATAAAATAAATCGTTAAATTTATTTTTC
1 TATTTTGAAAAATAAAATAAATAATTAAATTTATTTTTC
* * * *
3391365 TATTTTGTAATATGAAATAAATAATTGAATTTATTTT
1 TATTTTGAAAAATAAAATAAATAATTAAATTTATTTT
3391402 CGTGAGAATC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.07, T:0.49
Consensus pattern (39 bp):
TATTTTGAAAAATAAAATAAATAATTAAATTTATTTTTC
Found at i:3393421 original size:42 final size:42
Alignment explanation
Indices: 3393362--3393468 Score: 160
Period size: 42 Copynumber: 2.5 Consensus size: 42
3393352 TTATCAATAG
* *
3393362 TCTTAGTTGATGATTTGTGACGATAATTGTTTTTGTCACTAA
1 TCTTAGTCGGTGATTTGTGACGATAATTGTTTTTGTCACTAA
* * *
3393404 TCTTAGTCGGTTATTTGTGACAATAATTGTTTTTGTCACTAG
1 TCTTAGTCGGTGATTTGTGACGATAATTGTTTTTGTCACTAA
*
3393446 TCTTAGTTGGTGATTTGTGACGA
1 TCTTAGTCGGTGATTTGTGACGA
3393469 CAATAATTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 57 1.00
ACGTcount: A:0.21, C:0.10, G:0.21, T:0.47
Consensus pattern (42 bp):
TCTTAGTCGGTGATTTGTGACGATAATTGTTTTTGTCACTAA
Found at i:3393765 original size:21 final size:20
Alignment explanation
Indices: 3393741--3393784 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
3393731 GATGGTGAAT
*
3393741 ATTAATAATTTTGTCACAAAA
1 ATTAA-AATTTGGTCACAAAA
* *
3393762 ATTAAACTTTGGTGACAAAA
1 ATTAAAATTTGGTCACAAAA
3393782 ATT
1 ATT
3393785 TGTACAACAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 15 0.75
21 5 0.25
ACGTcount: A:0.45, C:0.09, G:0.09, T:0.36
Consensus pattern (20 bp):
ATTAAAATTTGGTCACAAAA
Found at i:3394921 original size:18 final size:19
Alignment explanation
Indices: 3394894--3394941 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
3394884 GATGCAATTA
3394894 GTATCAATACTA-AGGTAG
1 GTATCAATACTAGAGGTAG
*
3394912 GTATCTATACTATGAGGTAG
1 GTATCAATACTA-GAGGTAG
*
3394932 GTATCGATAC
1 GTATCAATAC
3394942 CATTGATTAC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
18 11 0.42
20 15 0.58
ACGTcount: A:0.33, C:0.12, G:0.23, T:0.31
Consensus pattern (19 bp):
GTATCAATACTAGAGGTAG
Found at i:3395501 original size:55 final size:55
Alignment explanation
Indices: 3395427--3395639 Score: 311
Period size: 55 Copynumber: 3.9 Consensus size: 55
3395417 ATTATCGAAT
* **
3395427 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATG
* * * *
3395482 GGAAATGTATGTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATG
* * * *
3395537 GGCACTATGTGTGCAAAATTAA-AATATTCACAATAAGTTTATGAATTTCCATATG
1 GGCACTGTGTGTGCAAAACTAAGAA-ATTCATAATAAGTTTATGAATTTTCATATG
3395592 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTT
3395640 CGTATCGTAT
Statistics
Matches: 138, Mismatches: 18, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
54 2 0.01
55 134 0.97
56 2 0.01
ACGTcount: A:0.39, C:0.10, G:0.16, T:0.35
Consensus pattern (55 bp):
GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTTCATATG
Found at i:3396024 original size:49 final size:47
Alignment explanation
Indices: 3395899--3396035 Score: 163
Period size: 47 Copynumber: 2.9 Consensus size: 47
3395889 ATGTTTAGTT
* *
3395899 GTGCATTTTTGGCAGAAAAGTGTCATTAATGCAAGTTAGATATTAACT
1 GTGC-TTTTTGGTAGAAAAGTGTCATTAATGCAAGTTAGATATTAACG
3395947 GTGCTTTTTGGTA-AAAAGGTGTCATTAATGCAAGTTAGA-AGTCTAACG
1 GTGCTTTTTGGTAGAAAA-GTGTCATTAATGCAAGTTAGATA-T-TAACG
* *
3395995 GTGAAC-TTTTGGTAGAAATGTGCCATTAATGCAAGTTAGAT
1 GTG--CTTTTTGGTAGAAAAGTGTCATTAATGCAAGTTAGAT
3396036 GAAGAAAGTG
Statistics
Matches: 78, Mismatches: 4, Indels: 12
0.83 0.04 0.13
Matches are distributed among these distances:
46 5 0.06
47 30 0.38
48 11 0.14
49 28 0.36
50 4 0.05
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.34
Consensus pattern (47 bp):
GTGCTTTTTGGTAGAAAAGTGTCATTAATGCAAGTTAGATATTAACG
Found at i:3396109 original size:46 final size:46
Alignment explanation
Indices: 3396042--3396137 Score: 147
Period size: 46 Copynumber: 2.1 Consensus size: 46
3396032 AGATGAAGAA
* * **
3396042 AGTGCATAGTTGGCATGAAAGGATGTCATAAATGAAAATGTATAAC
1 AGTGCATAATTGGCATGAAAGGATGTCACAAATGAAAATACATAAC
*
3396088 AGTGCATAATTGGCATGAAAGGATGTCACAAATGACAATACATAAC
1 AGTGCATAATTGGCATGAAAGGATGTCACAAATGAAAATACATAAC
3396134 AGTG
1 AGTG
3396138 TATTAATGGG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.42, C:0.11, G:0.23, T:0.24
Consensus pattern (46 bp):
AGTGCATAATTGGCATGAAAGGATGTCACAAATGAAAATACATAAC
Found at i:3405269 original size:95 final size:95
Alignment explanation
Indices: 3405120--3405294 Score: 251
Period size: 95 Copynumber: 1.8 Consensus size: 95
3405110 ATGAGGAATG
* * * * * *
3405120 TATCGATACCATTGATTACAGAATACAAAAATGGTATTGATACCGTAATAGAGTATCGGTATCAT
1 TATCAATACCATTGATTACAGAATACAAAAATGGTATCGATACCGAAAGAGAGTATCGGTACCAC
3405185 AATATAGAAGTATCGGTACTAAGAGACAGA
66 AATATAGAAGTATCGGTACTAAGAGACAGA
* * * * *
3405215 TATCAATACCATTGATTATAGAATATAGAAATGGTATCGATACTGAAAGGGAGTATCGGTACCAC
1 TATCAATACCATTGATTACAGAATACAAAAATGGTATCGATACCGAAAGAGAGTATCGGTACCAC
3405280 AATATAGAAGTATCG
66 AATATAGAAGTATCG
3405295 ATACCATTGT
Statistics
Matches: 69, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
95 69 1.00
ACGTcount: A:0.41, C:0.13, G:0.19, T:0.27
Consensus pattern (95 bp):
TATCAATACCATTGATTACAGAATACAAAAATGGTATCGATACCGAAAGAGAGTATCGGTACCAC
AATATAGAAGTATCGGTACTAAGAGACAGA
Found at i:3415629 original size:55 final size:55
Alignment explanation
Indices: 3415541--3416025 Score: 646
Period size: 55 Copynumber: 8.7 Consensus size: 55
3415531 ATTACCGAAT
* * * *
3415541 GGCACTATGTGTGCAAAACTAATAAATTCATAATAAGTTTATGAATTTTCGTATA
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
3415596 GGCAATGTGTGTGCAAAATTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
3415651 GGCACTGTGTGTGCAATACTAATAAATTCATAATAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* *
3415706 GGCACTGTGTGTACAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATA
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * *
3415761 GGCACTATGTATGCAAAACTAAGAGATTCATATTAAGTTTATGAATTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * *
3415816 GACACTGTGTGTGCAAAACTAAGAGATTCATAATAAGTTTATGAATTTTCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
* * * * *
3415871 GGCATTGTGTGTGTAAAATTAAGATATTCATAATAAGTTTAGGAATTTTCCGTATG
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTCCGTATG
* * *
3415927 GGCACTATGTGTGCAAAACTAAGAAATTCATAATAAGTTTATAAATTTTCGTATCGTATT
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAA-TTTC----CGTATG
** * * *
3415987 GGCACTGTGTGTGCAACCCCACGTAATTCATAATAAGTT
1 GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTT
3416026 GTGAATTACC
Statistics
Matches: 379, Mismatches: 46, Indels: 5
0.88 0.11 0.01
Matches are distributed among these distances:
55 289 0.76
56 52 0.14
60 38 0.10
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (55 bp):
GGCACTGTGTGTGCAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATG
Found at i:3416298 original size:46 final size:48
Alignment explanation
Indices: 3416235--3416371 Score: 145
Period size: 49 Copynumber: 2.9 Consensus size: 48
3416225 ATGCTTAGTT
*
3416235 GTGCATTTTTT-GTAGAAAAGTGACATTAATGCAAGTTAGATG-CTAAC
1 GTGC-TTTTTTGGTAGAAAGGTGACATTAATGCAAGTTAGATGTCTAAC
* * * * *
3416282 -TGTTTTTTTGGAAGAAAGGTGTCATTAATACAAGTTAGAAGTCTAAC
1 GTGCTTTTTTGGTAGAAAGGTGACATTAATGCAAGTTAGATGTCTAAC
** * *
3416329 GGTGCACTTTTGGTATAAAGGTGCCATTAATGCAAGTTAGATG
1 -GTGCTTTTTTGGTAGAAAGGTGACATTAATGCAAGTTAGATG
3416372 AGGAACAATG
Statistics
Matches: 72, Mismatches: 14, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
45 6 0.08
46 28 0.39
47 5 0.07
49 33 0.46
ACGTcount: A:0.32, C:0.10, G:0.23, T:0.34
Consensus pattern (48 bp):
GTGCTTTTTTGGTAGAAAGGTGACATTAATGCAAGTTAGATGTCTAAC
Found at i:3417755 original size:14 final size:15
Alignment explanation
Indices: 3417732--3417767 Score: 56
Period size: 14 Copynumber: 2.5 Consensus size: 15
3417722 TATTTAAAAT
*
3417732 TATTATTATTATATA
1 TATTAATATTATATA
3417747 -ATTAATATTATATA
1 TATTAATATTATATA
3417761 TATTAAT
1 TATTAAT
3417768 TTCAACAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATATTATATA
Found at i:3419591 original size:49 final size:49
Alignment explanation
Indices: 3419528--3419768 Score: 349
Period size: 49 Copynumber: 4.9 Consensus size: 49
3419518 AAAAAGAATG
* *
3419528 AATGAAAATTAAATGCATAACAGTGCATTTCGGCATAAAAGGTGCCACT
1 AATGAAAATTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACT
*
3419577 AATGAAAATCAAATGCATAACGGTGCATTTCTG-CATAAAAGGTGCCACT
1 AATGAAAATTAAATGCATAACGGTGCATTTC-GACATAAAAGGTGCCACT
* * * * *
3419626 AATTAAAATTAAATGCATAACGGTGCATTACGACAAAAAATGTGTCACT
1 AATGAAAATTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACT
*
3419675 AATGAAAATTAAAGGCATAACGGTGCATTTCGACATAAAAGGTGCCACT
1 AATGAAAATTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACT
* * * *
3419724 AATTAAAATTAAAGGCATAACGGTGCATTTCAACATATAAGGTGC
1 AATGAAAATTAAATGCATAACGGTGCATTTCGACATAAAAGGTGC
3419769 TACTCTGGTA
Statistics
Matches: 173, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
48 1 0.01
49 171 0.99
50 1 0.01
ACGTcount: A:0.41, C:0.16, G:0.18, T:0.25
Consensus pattern (49 bp):
AATGAAAATTAAATGCATAACGGTGCATTTCGACATAAAAGGTGCCACT
Found at i:3420322 original size:23 final size:23
Alignment explanation
Indices: 3420278--3420323 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
3420268 ACAACGAATG
* *
3420278 TTTTATTTTATATTAAATATTTT
1 TTTTATTTTATATAAAAAATTTT
3420301 TTTTATTTTA-ATAACAAAATTTT
1 TTTTATTTTATATAA-AAAATTTT
3420324 ATGGGTTTAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 3 0.15
23 17 0.85
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (23 bp):
TTTTATTTTATATAAAAAATTTT
Found at i:3424161 original size:44 final size:44
Alignment explanation
Indices: 3424099--3424398 Score: 388
Period size: 44 Copynumber: 6.9 Consensus size: 44
3424089 ATGAATAATA
* *
3424099 AAAATACATAACGATGCATTATTGGCAGAAAGGTGCCATAAATG
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
* * * *
3424143 AAAATGCATAATGGTGCATTATTTGCAGAAACGTGACATAAATG
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
* * * *
3424187 AAAATGCACAATGGTGTATTATTGGCAGAAAGGTGTCATAAATG
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
*
3424231 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTCATAAATG
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
* * * *
3424275 AAAATGTATAAAGGTGCATTATTGG-AAAAAGGTTCCATAAATG
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
* ** *
3424318 AAAATGCATAACAGTTAATTATTGACAGAAAGGTGCCATAAATG
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
* * *
3424362 AAAATGCGTAATGGTGCATT-TTGGTAGAAAGGTGCCA
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCA
3424399 CTCTTGGTTT
Statistics
Matches: 221, Mismatches: 34, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
43 49 0.22
44 172 0.78
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.26
Consensus pattern (44 bp):
AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATG
Found at i:3424420 original size:131 final size:131
Alignment explanation
Indices: 3424099--3424398 Score: 406
Period size: 131 Copynumber: 2.3 Consensus size: 131
3424089 ATGAATAATA
* * * *
3424099 AAAATACATAACGATGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGCATAATGGTGCATTA
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGTATAAAGGTGCATTA
* * * ** ** * *
3424164 TTTGCAGAAACGTGACATAAATGAAAATGCACAATGGTGTATTATTGGCAGAAAGGTGTCATAAA
66 -TTGGAAAAAGGTTCCATAAATGAAAATGCACAACAGTGTATTATTGACAGAAAGGTGCCATAAA
3424229 TG
130 TG
*
3424231 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTCATAAATGAAAATGTATAAAGGTGCATTA
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGTATAAAGGTGCATTA
*
3424296 TTGGAAAAAGGTTCCATAAATGAAAATGCATAACAGT-TAATTATTGACAGAAAGGTGCCATAAA
66 TTGGAAAAAGGTTCCATAAATGAAAATGCACAACAGTGT-ATTATTGACAGAAAGGTGCCATAAA
3424360 TG
130 TG
* * *
3424362 AAAATGCGTAATGGTGCATT-TTGGTAGAAAGGTGCCA
1 AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCA
3424399 CTCTTGGTTT
Statistics
Matches: 148, Mismatches: 19, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
130 16 0.11
131 72 0.49
132 60 0.41
ACGTcount: A:0.41, C:0.11, G:0.23, T:0.26
Consensus pattern (131 bp):
AAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCCATAAATGAAAATGTATAAAGGTGCATTA
TTGGAAAAAGGTTCCATAAATGAAAATGCACAACAGTGTATTATTGACAGAAAGGTGCCATAAAT
G
Found at i:3426625 original size:19 final size:19
Alignment explanation
Indices: 3426601--3426650 Score: 82
Period size: 19 Copynumber: 2.6 Consensus size: 19
3426591 TAAGGGGGTG
3426601 CATCGATGCACTACTTGTT
1 CATCGATGCACTACTTGTT
3426620 CATCGATGCACTACTTGTT
1 CATCGATGCACTACTTGTT
* *
3426639 CAACGATACACT
1 CATCGATGCACT
3426651 GATGATATTC
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (19 bp):
CATCGATGCACTACTTGTT
Found at i:3432847 original size:18 final size:18
Alignment explanation
Indices: 3432824--3432858 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
3432814 ACTGAATATT
*
3432824 TGTCCCGAATGACCACTA
1 TGTCCCGAAGGACCACTA
3432842 TGTCCCGAAGGACCACT
1 TGTCCCGAAGGACCACT
3432859 GATAATCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.26, C:0.34, G:0.20, T:0.20
Consensus pattern (18 bp):
TGTCCCGAAGGACCACTA
Done.