Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_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: 15077257
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 39 of 62
Found at i:8429281 original size:20 final size:20
Alignment explanation
Indices: 8429239--8429282 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
8429229 TTATAGTATC
*
8429239 GATACTATATGAACAATATT
1 GATACTATATGAACAATACT
*
8429259 GATACTATATGAACAGTACT
1 GATACTATATGAACAATACT
8429279 GATA
1 GATA
8429283 TTGTTCATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.11, G:0.14, T:0.32
Consensus pattern (20 bp):
GATACTATATGAACAATACT
Found at i:8429993 original size:26 final size:26
Alignment explanation
Indices: 8429960--8430013 Score: 99
Period size: 26 Copynumber: 2.1 Consensus size: 26
8429950 GTCAAACCAC
*
8429960 TATAAATCACTGTGTAAAATTGTCTA
1 TATAAATCACTGTGCAAAATTGTCTA
8429986 TATAAATCACTGTGCAAAATTGTCTA
1 TATAAATCACTGTGCAAAATTGTCTA
8430012 TA
1 TA
8430014 ATTTCTTTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.37
Consensus pattern (26 bp):
TATAAATCACTGTGCAAAATTGTCTA
Found at i:8430836 original size:19 final size:20
Alignment explanation
Indices: 8430812--8430851 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
8430802 CTCACTCATG
8430812 AGTTGATAAAG-AAAGAAGA
1 AGTTGATAAAGAAAAGAAGA
*
8430831 AGTTGATGAAGAAAAGAAGA
1 AGTTGATAAAGAAAAGAAGA
8430851 A
1 A
8430852 TAAAAACGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.53
20 9 0.47
ACGTcount: A:0.57, C:0.00, G:0.28, T:0.15
Consensus pattern (20 bp):
AGTTGATAAAGAAAAGAAGA
Found at i:8440539 original size:54 final size:54
Alignment explanation
Indices: 8440405--8440676 Score: 393
Period size: 54 Copynumber: 5.1 Consensus size: 54
8440395 CGTAGTACCA
* * * *
8440405 ATACGGTCGTTCATAAACTCATTATGAATTTTGTGGGTTACACAC-TAGTATCG
1 ATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCG
* * *
8440458 ATACGGTCGTTTATAAACTTATTATGAATTTTGTGGGTTGCACACTTAGTGCCG
1 ATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCG
* ** * *
8440512 ATACAGTCAATCATAAACTTATAATGAATTCCGTGGGTTGCACACTTAGTGTCG
1 ATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCG
* * *
8440566 ATACGGTCGTTCATAAACTTATTATGAATTTCGTGTGTTGCATACTTAGTGCCG
1 ATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCG
*
8440620 ATACGGTCGTTCATAAACTTATTATAAATTTCGTGGGTTGCACACTTAGTGTCG
1 ATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCG
8440674 ATA
1 ATA
8440677 ATACACATAG
Statistics
Matches: 193, Mismatches: 25, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
53 42 0.22
54 151 0.78
ACGTcount: A:0.27, C:0.17, G:0.20, T:0.36
Consensus pattern (54 bp):
ATACGGTCGTTCATAAACTTATTATGAATTTCGTGGGTTGCACACTTAGTGTCG
Found at i:8440585 original size:27 final size:27
Alignment explanation
Indices: 8440555--8440640 Score: 72
Period size: 27 Copynumber: 3.2 Consensus size: 27
8440545 TGGGTTGCAC
8440555 ACTTAGTGTCGATACGGTCGTTCATAA
1 ACTTAGTGTCGATACGGTCGTTCATAA
* * *
8440582 ACTTATTAT-GAATTTCGTGT-GTTGCAT--
1 ACTTAGTGTCG-A-TACG-GTCGTT-CATAA
*
8440609 ACTTAGTGCCGATACGGTCGTTCATAA
1 ACTTAGTGTCGATACGGTCGTTCATAA
8440636 ACTTA
1 ACTTA
8440641 TTATAAATTT
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
25 5 0.11
26 7 0.16
27 20 0.45
28 7 0.16
29 5 0.11
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
ACTTAGTGTCGATACGGTCGTTCATAA
Found at i:8442694 original size:22 final size:22
Alignment explanation
Indices: 8442666--8442712 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
8442656 GTACCTTTCC
8442666 CACGATCCTTTGAACTCAATCA
1 CACGATCCTTTGAACTCAATCA
* * *
8442688 CACGATCTTTTGAACTTAGTCA
1 CACGATCCTTTGAACTCAATCA
8442710 CAC
1 CAC
8442713 ATGCCCTCAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.30, C:0.30, G:0.11, T:0.30
Consensus pattern (22 bp):
CACGATCCTTTGAACTCAATCA
Found at i:8447230 original size:54 final size:54
Alignment explanation
Indices: 8447163--8447302 Score: 183
Period size: 54 Copynumber: 2.6 Consensus size: 54
8447153 TTCTTTGGGA
** * * *
8447163 TGCACACGCAGTGTTGATACGGTCATTCATAAACTCATTATGAATTCTGTTGAT
1 TGCACACTTAGTGTCGATACGGTCATTCATAAACTCATTATGAATTCCGTGGAT
* * *
8447217 TGCACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGT
1 TGCACACTTAGTGTCGATACGGTCATTCATAAACTCATTATGAATTCCGTGGAT
* *
8447271 TGCACACTTAGTGCCGATACGGTTA-TCATAAA
1 TGCACACTTAGTGTCGATACGGTCATTCATAAA
8447303 TTTATTACAC
Statistics
Matches: 75, Mismatches: 11, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
53 7 0.09
54 68 0.91
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (54 bp):
TGCACACTTAGTGTCGATACGGTCATTCATAAACTCATTATGAATTCCGTGGAT
Found at i:8447344 original size:36 final size:35
Alignment explanation
Indices: 8447274--8447345 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 35
8447264 CGTGGGTTGC
*
8447274 ACACTTAGTGCCGATACGGTTATCATAAATTTATT
1 ACACTTAGTGCCGATACGGTTATCATAAACTTATT
*
8447309 ACACTTAGTGTCGATACGGTCGT-TCATAAACTTATT
1 ACACTTAGTGCCGATACGGT--TATCATAAACTTATT
8447345 A
1 A
8447346 TGAATTTCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
35 19 0.58
36 13 0.39
37 1 0.03
ACGTcount: A:0.31, C:0.18, G:0.15, T:0.36
Consensus pattern (35 bp):
ACACTTAGTGCCGATACGGTTATCATAAACTTATT
Found at i:8447371 original size:89 final size:90
Alignment explanation
Indices: 8447220--8447399 Score: 299
Period size: 89 Copynumber: 2.0 Consensus size: 90
8447210 TGTTGATTGC
* *
8447220 ACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGC
1 ACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGTCGCACACTTAGTGC
*
8447285 CGATACGGTT-ATCATAAATTTATT
66 CGATACGGTTCATCATAAACTTATT
* *
8447309 ACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTCATGGGTCGCACACTTAGTGT
1 ACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGTCGCACACTTAGTGC
*
8447374 CGATACGGTTCTTCATAAACTTATT
66 CGATACGGTTCATCATAAACTTATT
8447399 A
1 A
8447400 TGAATTTCAT
Statistics
Matches: 84, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
89 71 0.85
90 13 0.15
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.36
Consensus pattern (90 bp):
ACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTCCATGGGTCGCACACTTAGTGC
CGATACGGTTCATCATAAACTTATT
Found at i:8447391 original size:54 final size:54
Alignment explanation
Indices: 8447309--8447486 Score: 268
Period size: 54 Copynumber: 3.3 Consensus size: 54
8447299 TAAATTTATT
* *
8447309 ACACTTAGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTCATGGGTCGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCATGGGTTGC
* *
8447363 ACACTTAGTGTCGATACGGTTC-TTCATAAACTTATTATGAATTTCATGGATTGC
1 ACACTTAGTGCCGATACGG-TCGTTCATAAACTTATTATGAATTTCATGGGTTGC
* * * *
8447417 AAACTTAGTGCCGATATGGTCGTTCATAAACTTATTATAAATTTCGTGGGTTGC
1 ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCATGGGTTGC
8447471 ACACTTAGTGCCGATA
1 ACACTTAGTGCCGATA
8447487 GTACACATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
53 2 0.02
54 109 0.96
55 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (54 bp):
ACACTTAGTGCCGATACGGTCGTTCATAAACTTATTATGAATTTCATGGGTTGC
Found at i:8447430 original size:143 final size:142
Alignment explanation
Indices: 8447172--8447432 Score: 391
Period size: 143 Copynumber: 1.8 Consensus size: 142
8447162 ATGCACACGC
* *
8447172 AGTGTTGATACGGTCATTCATAAACTCATTATGAATTCTGTTGATTGCACACTTAGTGTCGATAC
1 AGTGTCGATACGGTCATTCATAAACTCATTATGAATTCTG-TGATCGCACACTTAGTGTCGATAC
* * *
8447237 GGTCGTTCATAAACTTATTATGAATTCCGTGGGTTGCACACTTAGTGCCGATACGGTTATCATAA
65 GGTCGTTCATAAACTTATTATGAATTCCATGGATTGCAAACTTAGTGCCGATACGGTTATCATAA
8447302 ATTTATTACACTT
130 ATTTATTACACTT
* * *
8447315 AGTGTCGATACGGTCGTTCATAAACTTATTATGAATTTCATG-GGTCGCACACTTAGTGTCGATA
1 AGTGTCGATACGGTCATTCATAAACTCATTATGAA-TTC-TGTGATCGCACACTTAGTGTCGATA
*
8447379 CGGTTC-TTCATAAACTTATTATGAATTTCATGGATTGCAAACTTAGTGCCGATA
64 CGG-TCGTTCATAAACTTATTATGAATTCCATGGATTGCAAACTTAGTGCCGATA
8447433 TGGTCGTTCA
Statistics
Matches: 106, Mismatches: 9, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
143 99 0.93
144 5 0.05
145 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (142 bp):
AGTGTCGATACGGTCATTCATAAACTCATTATGAATTCTGTGATCGCACACTTAGTGTCGATACG
GTCGTTCATAAACTTATTATGAATTCCATGGATTGCAAACTTAGTGCCGATACGGTTATCATAAA
TTTATTACACTT
Found at i:8447882 original size:18 final size:18
Alignment explanation
Indices: 8447849--8447894 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
8447839 CCTTCCTCTT
8447849 AGTATCGATA-CCACAAC
1 AGTATCGATACCCACAAC
8447866 AGTATCGATACCCACAAC
1 AGTATCGATACCCACAAC
8447884 AGTATCGATAC
1 AGTATCGATAC
8447895 TAATTGCATC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
17 10 0.36
18 18 0.64
ACGTcount: A:0.39, C:0.28, G:0.13, T:0.20
Consensus pattern (18 bp):
AGTATCGATACCCACAAC
Found at i:8451550 original size:39 final size:39
Alignment explanation
Indices: 8451491--8451625 Score: 153
Period size: 39 Copynumber: 3.4 Consensus size: 39
8451481 TGCATATTGG
* * * **
8451491 GTAAGTACTTCAGTGTAAAGGATCGACGCAGTCTTATGC
1 GTAAGCACTTCGGTGCAAAGGATCGACGCAACCTTATGC
* *
8451530 GTAAGCACTTCGGTGCAAAGGATCGACACAACCTTATAC
1 GTAAGCACTTCGGTGCAAAGGATCGACGCAACCTTATGC
* * *
8451569 GTAAGCATTTCGGTGCAAAACGAGTCGATGCAACCTTATGC
1 GTAAGCACTTCGGTGC-AAAGGA-TCGACGCAACCTTATGC
*
8451610 GTAAGCACTTTGGTGC
1 GTAAGCACTTCGGTGC
8451626 GACTCGAATA
Statistics
Matches: 80, Mismatches: 14, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
39 47 0.59
40 5 0.06
41 28 0.35
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (39 bp):
GTAAGCACTTCGGTGCAAAGGATCGACGCAACCTTATGC
Found at i:8451614 original size:41 final size:39
Alignment explanation
Indices: 8451523--8451625 Score: 127
Period size: 41 Copynumber: 2.6 Consensus size: 39
8451513 TCGACGCAGT
* *
8451523 CTTATGCGTAAGCACTTCGGTGCAAAGGATCGACACAAC
1 CTTATGCGTAAGCATTTCGGTGCAAACGATCGACACAAC
* **
8451562 CTTATACGTAAGCATTTCGGTGCAAAACGAGTCGATGCAAC
1 CTTATGCGTAAGCATTTCGGTGC-AAACGA-TCGACACAAC
8451603 CTTATGCGTAAGCACTTT-GGTGC
1 CTTATGCGTAAGCA-TTTCGGTGC
8451626 GACTCGAATA
Statistics
Matches: 55, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
39 21 0.38
40 5 0.09
41 26 0.47
42 3 0.05
ACGTcount: A:0.28, C:0.23, G:0.23, T:0.25
Consensus pattern (39 bp):
CTTATGCGTAAGCATTTCGGTGCAAACGATCGACACAAC
Found at i:8460973 original size:44 final size:44
Alignment explanation
Indices: 8460924--8461061 Score: 195
Period size: 44 Copynumber: 3.0 Consensus size: 44
8460914 GCATACAAAG
* *
8460924 TGCCATAGTACACAAAGTACAACTCCAAGTACACAGAGTACTCT
1 TGCCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCT
8460968 TGCCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCT
1 TGCCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCT
**
8461012 TACGAAAATGCAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCT
1 T--G-CCAT--AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCT
8461061 T
1 T
8461062 ACAAAAATGC
Statistics
Matches: 85, Mismatches: 4, Indels: 5
0.90 0.04 0.05
Matches are distributed among these distances:
44 43 0.51
46 1 0.01
47 2 0.02
49 39 0.46
ACGTcount: A:0.40, C:0.26, G:0.12, T:0.22
Consensus pattern (44 bp):
TGCCATAGTACACAAAGTACTACTCCAAGTACACAAAGTACTCT
Found at i:8461009 original size:21 final size:21
Alignment explanation
Indices: 8460930--8461058 Score: 118
Period size: 21 Copynumber: 5.7 Consensus size: 21
8460920 AAAGTGCCAT
*
8460930 AGTACACAAAGTACAACTCCA
1 AGTACACAAAGTACTACTCCA
*
8460951 AGTACACAGAGTACT-CTTGCCA
1 AGTACACAAAGTACTAC-T-CCA
8460973 TAGTACACAAAGTACTACTCCA
1 -AGTACACAAAGTACTACTCCA
*
8460995 AGTACACAAAGTACT-CTTACGAAAA
1 AGTACACAAAGTACTAC-T-C---CA
8461020 TGCAGTACACAAAGTACTACTCCA
1 ---AGTACACAAAGTACTACTCCA
8461044 AGTACACAAAGTACT
1 AGTACACAAAGTACT
8461059 CTTACAAAAA
Statistics
Matches: 90, Mismatches: 5, Indels: 26
0.74 0.04 0.21
Matches are distributed among these distances:
20 2 0.02
21 45 0.50
22 7 0.08
23 15 0.17
24 2 0.02
25 1 0.01
27 1 0.01
28 16 0.18
29 1 0.01
ACGTcount: A:0.42, C:0.26, G:0.12, T:0.20
Consensus pattern (21 bp):
AGTACACAAAGTACTACTCCA
Found at i:8461045 original size:49 final size:49
Alignment explanation
Indices: 8460930--8461075 Score: 212
Period size: 49 Copynumber: 3.1 Consensus size: 49
8460920 AAAGTGCCAT
* * **
8460930 AGTACACAAAGTACAACTCCAAGTACACAGAGTACTCTT--G-CCAT--
1 AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTACGAAAATGC
8460974 AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTACGAAAATGC
1 AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTACGAAAATGC
*
8461023 AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTACAAAAATGC
1 AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTACGAAAATGC
8461072 AGTA
1 AGTA
8461076 AGTATTTTCT
Statistics
Matches: 92, Mismatches: 5, Indels: 5
0.90 0.05 0.05
Matches are distributed among these distances:
44 37 0.40
46 1 0.01
47 2 0.02
49 52 0.57
ACGTcount: A:0.42, C:0.25, G:0.12, T:0.21
Consensus pattern (49 bp):
AGTACACAAAGTACTACTCCAAGTACACAAAGTACTCTTACGAAAATGC
Found at i:8468373 original size:26 final size:26
Alignment explanation
Indices: 8468344--8468402 Score: 118
Period size: 26 Copynumber: 2.3 Consensus size: 26
8468334 AGATTTCTCT
8468344 GAATTTTCTATTTGATTCGATTTACC
1 GAATTTTCTATTTGATTCGATTTACC
8468370 GAATTTTCTATTTGATTCGATTTACC
1 GAATTTTCTATTTGATTCGATTTACC
8468396 GAATTTT
1 GAATTTT
8468403 TTATCAACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.24, C:0.14, G:0.12, T:0.51
Consensus pattern (26 bp):
GAATTTTCTATTTGATTCGATTTACC
Found at i:8468594 original size:29 final size:29
Alignment explanation
Indices: 8468552--8468659 Score: 182
Period size: 29 Copynumber: 3.8 Consensus size: 29
8468542 AAATGTTTCC
* *
8468552 AAAA-TTTATAATTTGGTCACTTAACTTT
1 AAAATTTTGTAATTTGGTCACTTAGCTTT
*
8468580 TAAATTTTGTAATTTGGTCACTTAGCTTT
1 AAAATTTTGTAATTTGGTCACTTAGCTTT
8468609 AAAATTTTGTAATTTGGTCACTTAGCTTT
1 AAAATTTTGTAATTTGGTCACTTAGCTTT
8468638 AAAATTTTGTAATTTGGTCACT
1 AAAATTTTGTAATTTGGTCACT
8468660 AATAAATACA
Statistics
Matches: 75, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
28 3 0.04
29 72 0.96
ACGTcount: A:0.30, C:0.10, G:0.12, T:0.48
Consensus pattern (29 bp):
AAAATTTTGTAATTTGGTCACTTAGCTTT
Found at i:8469690 original size:23 final size:23
Alignment explanation
Indices: 8469662--8469728 Score: 82
Period size: 23 Copynumber: 2.9 Consensus size: 23
8469652 TGCAACATAT
8469662 TTGTCCCGAAGGACCGA-ATAGGA
1 TTGTCCCGAAGGACC-ACATAGGA
* **
8469685 TTGTCCCAAAGGACCACATAGTT
1 TTGTCCCGAAGGACCACATAGGA
*
8469708 TTGTCCTGAAGGACCACATAG
1 TTGTCCCGAAGGACCACATAG
8469729 AACCCTCGAC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
22 1 0.03
23 37 0.97
ACGTcount: A:0.30, C:0.24, G:0.24, T:0.22
Consensus pattern (23 bp):
TTGTCCCGAAGGACCACATAGGA
Found at i:8470408 original size:19 final size:20
Alignment explanation
Indices: 8470364--8470414 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
8470354 TTCTTAACAA
* **
8470364 TAGTATTGATACCTTACTTC
1 TAGTATCGATACCCCACTTC
*
8470384 TAGTATGGATACCCCACTT-
1 TAGTATCGATACCCCACTTC
8470403 TAGTATCGATAC
1 TAGTATCGATAC
8470415 AAATTCAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
19 11 0.41
20 16 0.59
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (20 bp):
TAGTATCGATACCCCACTTC
Found at i:8475232 original size:90 final size:90
Alignment explanation
Indices: 8475079--8475256 Score: 275
Period size: 90 Copynumber: 2.0 Consensus size: 90
8475069 CCTAACACAC
* ** *
8475079 CCTTTTATAGCCAAGTTACCCTAGTCATATTGGGGTTTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCCGGGATTTTATTATTTCAAATTAATTAAATCTAT
* * *
8475144 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAAATAATTGAAATTAAATAAT
*
8475169 CCTTTTATATCCAAGTTACCCTAATCATATCCGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCCGGGATTTTATTATTTCAAATTAATTAAATCTAT
*
8475234 TTTTAAATAATTGAAATTAAATA
66 ATTTAAATAATTGAAATTAAATA
8475257 GTCGGGATTA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
90 79 1.00
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.44
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCCGGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAAATAATTGAAATTAAATAAT
Found at i:8482126 original size:90 final size:90
Alignment explanation
Indices: 8481970--8482136 Score: 271
Period size: 90 Copynumber: 1.9 Consensus size: 90
8481960 TCTAACACAC
* * * *
8481970 CCTTTTATAGCCAAGTTACCCTAGTCATATTAAGGTTTTTATTATTTCAAATTAATTAAATTTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
8482035 ATTTAATTAATTGGAATTTAATAAT
66 ATTTAATTAATTGGAATTTAATAAT
* * *
8482060 CCTTTTATATCCAAGTTACCCTAATCCTATCAGGGATTTTATTATTTCAAATTAATTAAATCTAT
1 CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
8482125 ATTTAATTAATT
66 ATTTAATTAATT
8482137 AAAATTAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
90 70 1.00
ACGTcount: A:0.35, C:0.13, G:0.07, T:0.46
Consensus pattern (90 bp):
CCTTTTATAGCCAAGTTACCCTAATCATATCAAGGATTTTATTATTTCAAATTAATTAAATCTAT
ATTTAATTAATTGGAATTTAATAAT
Found at i:8484981 original size:23 final size:23
Alignment explanation
Indices: 8484918--8484970 Score: 81
Period size: 23 Copynumber: 2.3 Consensus size: 23
8484908 CACATATTTA
8484918 TCCCCAATG-ACCACATAGTTTTG
1 TCCCCAA-GAACCACATAGTTTTG
*
8484941 TCCCGAAGAACCACATAGTTTTG
1 TCCCCAAGAACCACATAGTTTTG
8484964 TCCCCAA
1 TCCCCAA
8484971 ACACCGCATA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.28, C:0.32, G:0.13, T:0.26
Consensus pattern (23 bp):
TCCCCAAGAACCACATAGTTTTG
Found at i:8485667 original size:21 final size:19
Alignment explanation
Indices: 8485641--8485680 Score: 62
Period size: 21 Copynumber: 2.0 Consensus size: 19
8485631 CCCACTTCAG
8485641 TATCGATACTAATTCAATCAA
1 TATCGATACT-ATTC-ATCAA
8485662 TATCGATACTATTCATCAA
1 TATCGATACTATTCATCAA
8485681 ATTCATATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 5 0.26
20 4 0.21
21 10 0.53
ACGTcount: A:0.40, C:0.20, G:0.05, T:0.35
Consensus pattern (19 bp):
TATCGATACTATTCATCAA
Found at i:8489633 original size:24 final size:24
Alignment explanation
Indices: 8489601--8489646 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
8489591 ATTCTCCATC
8489601 AAACTCATAATCATTTGATTTACT
1 AAACTCATAATCATTTGATTTACT
8489625 AAACTCATAATCATTTGATTTA
1 AAACTCATAATCATTTGATTTA
8489647 ATAATAACTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.15, G:0.04, T:0.41
Consensus pattern (24 bp):
AAACTCATAATCATTTGATTTACT
Found at i:8490408 original size:2 final size:2
Alignment explanation
Indices: 8490401--8490429 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
8490391 CTTCAAATAC
8490401 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8490430 ATAATGTTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8495517 original size:23 final size:24
Alignment explanation
Indices: 8495426--8495515 Score: 98
Period size: 23 Copynumber: 3.9 Consensus size: 24
8495416 GATAGGCTTC
*
8495426 AGGTTTG-ATGTAATTGGGCTCTG
1 AGGTTTGCTTGTAATTGGGCTCTG
* *
8495449 A-GTTTTCTTGCAATTGGGCTCTG
1 AGGTTTGCTTGTAATTGGGCTCTG
* * *
8495472 -GGTTTACTTATAACTGGGCTC-G
1 AGGTTTGCTTGTAATTGGGCTCTG
8495494 AGGTTTGCTTGTAATTGGGCTC
1 AGGTTTGCTTGTAATTGGGCTC
8495516 GATTTTGGGT
Statistics
Matches: 54, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
22 5 0.09
23 49 0.91
ACGTcount: A:0.16, C:0.14, G:0.30, T:0.40
Consensus pattern (24 bp):
AGGTTTGCTTGTAATTGGGCTCTG
Found at i:8496265 original size:134 final size:132
Alignment explanation
Indices: 8495865--8496681 Score: 810
Period size: 134 Copynumber: 6.1 Consensus size: 132
8495855 GATCTTTTGT
* * * * * * * * *
8495865 AGGGAATATCATATATGAGAATGTTGATCTATTCCGATGCCACTCTGGGAAGATTGAATCGAAGC
1 AGGGAATATCATATCTGGGGA-GTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCG-GGA
* * * * *
8495930 AGTCTTGTTCCAT-TGTCACTCAAGGAATATCAAATCTTGAAAGAGAAGGCTATGTTCCGCTTCT
64 AGACTTGTTCC-TCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCT
*
8495994 TCTGA
128 TCTGG
* * * * * *
8495999 ATGTAATATCAAATCTAGGGGAGTTGATCTATTCCACTGTCATTCAGGGAAGATTAAAAGAATCG
1 AGGGAATATCATATCT-GGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATT----GAATC-
* * * * *
8496064 GGGTAGACTTGTTCCGCTGTCAATCAGGAAATATCAAATCTTGAAAGTGAGGGATATG-TTCTGC
60 GGGAAGACTTGTTCCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTC-GC
*
8496128 TTCTTCTAG
124 TTCTTCTGG
* * *
8496137 AGGGAATATCAGATCTAGGGGAGTTGATCCATTCCACTATCACTCAGGGAAGATTGAATCAGGGA
1 AGGGAATATCATATCT-GGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATC-GGGA
* *
8496202 AGACTTGTTCCTCTGCCACTCAGGGAATATCAAATCTTGGAAGAGAGGGATATGTTTCGCTTCTT
64 AGACTTGTTCCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTT
8496267 CTGG
129 CTGG
* ** * * * *
8496271 AGGGAATATCATATCT---G-G-TGATCGATTTTGCTATCACTCAGTGAAGACTGAATCGGGGTA
1 AGGGAATATCATATCTGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATC-GGGAA
* * * * * *
8496331 GACTTATT-CTGCTTTCACTCTGGGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTTTT
65 GACTTGTTCCT-CTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTT
*
8496395 CTAG
129 CTGG
* * *
8496399 AGGGAATATCATATCTGGGGATGTTGATCCCTTCCGCTGTCACTCAAGCAAGATTGAATCGAGGC
1 AGGGAATATCATATCTGGGGA-GTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCG-GG-
* * * *
8496464 AA-ACTTGTTCCACTATCACTCAGGGAATATCAAATCTTGAAAGAAAGGGATATGTTAT-TCTTC
63 AAGACTTGTTCCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTT-TCGCTTC
8496527 TTCTGG
127 TTCTGG
* * *
8496533 TA-GAAATATCAGATCTGGGGAGTTGATCCATTCCGCTGTCACTCAGAGAAGATTGAATCGAGGA
1 -AGGGAATATCATATCTGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCG-GGA
* * * * * *
8496597 AGACTTGTTCCACTGTCACTCAGGGAATATCAAATCTTAAAAGGGAGGGATTTGTTCCGCTTATT
64 AGACTTGTTCCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTT
8496662 CTGG
129 CTGG
*
8496666 AGGGAGTATCATATCT
1 AGGGAATATCATATCT
8496682 AAAAATTAAA
Statistics
Matches: 566, Mismatches: 93, Indels: 49
0.80 0.13 0.07
Matches are distributed among these distances:
127 2 0.00
128 106 0.19
129 1 0.00
130 1 0.00
131 1 0.00
132 3 0.01
133 109 0.19
134 221 0.39
135 10 0.02
137 2 0.00
138 109 0.19
139 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (132 bp):
AGGGAATATCATATCTGGGGAGTTGATCCATTCCGCTGTCACTCAGGGAAGATTGAATCGGGAAG
ACTTGTTCCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCT
GG
Found at i:8496427 original size:262 final size:262
Alignment explanation
Indices: 8495766--8496681 Score: 828
Period size: 262 Copynumber: 3.5 Consensus size: 262
8495756 CTAGGGATGT
* * * * * * * *
8495766 TGATCCATTTCGCTGTCACTCAAAGTAGATTGAATCGGGGAAGACTTGTTCCACTGTTACTCAGT
1 TGATCGATTTTGCTGTCACTCAGAGAAGATTGAATCGGGGTAGACTTGTTCCGCTGTCACTCAGG
* * * * * * *
8495831 GAATATCAAATCTT-AAA-ATAGAGA---G-AT--CTT-TTGT--AGGGAATATCATATATGAGA
66 GAATATCAAATCTTGAAAGAGAGGGATTTGTTTCGCTTATTCTAGAGGGAATATCATATCTGGGG
* * * * * *
8495885 ATGTTGATCTATTCCGA-TGCCACTCTGGGAAGATTGAATC-GAAGCAGTCTTGTTCCAT-TGTC
131 ATGTTGATCCATTCC-ACTGTCACTCAGGGAAGATTGAATCAG-GGAAGACTTGTTCC-TCTGTC
* * * * * *
8495947 ACTCAAGGAATATCAAATCTTGAAAGAGAAGGCTATGTTCCGCTTCTTCTGAATGTAATATCAAA
193 ACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTGGA-GAAATATCAAA
8496012 TCTAGGG
257 TCT-GGG
* * * *
8496019 -GAGTTGATCTATTCCACTGTCATTCAGGGAAGATTAAAAGAATCGGGGTAGACTTGTTCCGCTG
1 TGA-TCGAT-T-TT--GCTGTCACTCAGAGAAGATT----GAATCGGGGTAGACTTGTTCCGCTG
* * * * *
8496083 TCAATCAGGAAATATCAAATCTTGAAAGTGAGGGATATG-TTCTGCTTCTTCTAGAGGGAATATC
57 TCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATTTGTTTC-GCTTATTCTAGAGGGAATATC
* *
8496147 AGATCTAGGGGA-GTTGATCCATTCCACTATCACTCAGGGAAGATTGAATCAGGGAAGACTTGTT
121 ATATCT-GGGGATGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCAGGGAAGACTTGTT
* * *
8496211 CCTCTGCCACTCAGGGAATATCAAATCTTGGAAGAGAGGGATATGTTTCGCTTCTTCTGGAGGGA
185 CCTCTGTCACTCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTGGA-GAA
*
8496276 ATATCATATCT-GG
249 ATATCAAATCTGGG
* * * * * * *
8496289 TGATCGATTTTGCTATCACTCAGTGAAGACTGAATCGGGGTAGACTTATTCTGCTTTCACTCTGG
1 TGATCGATTTTGCTGTCACTCAGAGAAGATTGAATCGGGGTAGACTTGTTCCGCTGTCACTCAGG
* *
8496354 GAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTTTTCTAGAGGGAATATCATATCTGGGG
66 GAATATCAAATCTTGAAAGAGAGGGATTTGTTTCGCTTATTCTAGAGGGAATATCATATCTGGGG
* * * * * * *
8496419 ATGTTGATCCCTTCCGCTGTCACTCAAGCAAGATTGAATCGAGGCAA-ACTTGTTCCACTATCAC
131 ATGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATC-AGGGAAGACTTGTTCCTCTGTCAC
* * *
8496483 TCAGGGAATATCAAATCTTGAAAGAAAGGGATATGTTAT-TCTTCTTCTGGTAGAAATATCAGAT
195 TCAGGGAATATCAAATCTTGAAAGAGAGGGATATGTT-TCGCTTCTTCTGG-AGAAATATCAAAT
8496547 CTGGGGAG
258 CT--GG-G
* ** * * *
8496555 TTGATCCATTCCGCTGTCACTCAGAGAAGATTGAATCGAGGAAGACTTGTTCCACTGTCACTCAG
1 -TGATCGATTTTGCTGTCACTCAGAGAAGATTGAATCGGGGTAGACTTGTTCCGCTGTCACTCAG
* * * * *
8496620 GGAATATCAAATCTTAAAAGGGAGGGATTTGTTCCGCTTATTCTGGAGGGAGTATCATATCT
65 GGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCGCTTATTCTAGAGGGAATATCATATCT
8496682 AAAAATTAAA
Statistics
Matches: 537, Mismatches: 91, Indels: 56
0.79 0.13 0.08
Matches are distributed among these distances:
252 2 0.00
253 3 0.01
254 1 0.00
255 1 0.00
257 15 0.03
261 47 0.09
262 187 0.35
263 14 0.03
265 1 0.00
266 18 0.03
267 106 0.20
268 2 0.00
269 4 0.01
270 9 0.02
271 4 0.01
272 119 0.22
273 4 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (262 bp):
TGATCGATTTTGCTGTCACTCAGAGAAGATTGAATCGGGGTAGACTTGTTCCGCTGTCACTCAGG
GAATATCAAATCTTGAAAGAGAGGGATTTGTTTCGCTTATTCTAGAGGGAATATCATATCTGGGG
ATGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCAGGGAAGACTTGTTCCTCTGTCACT
CAGGGAATATCAAATCTTGAAAGAGAGGGATATGTTTCGCTTCTTCTGGAGAAATATCAAATCTG
GG
Found at i:8496555 original size:395 final size:397
Alignment explanation
Indices: 8495953--8496681 Score: 993
Period size: 395 Copynumber: 1.8 Consensus size: 397
8495943 TGTCACTCAA
* * * *
8495953 GGAATATCAAATCTTGAAAGAGAAGGCTATGTTCCGCTTCTTCTGAATGTAATATCAAATCTAGG
1 GGAATATCAAATCTTGAAAGAGAAGGATATGTTCCACTTCTTCTGAAGGGAATATCAAATCTAGG
* * * * * * * * *
8496018 GGAGTTGATCTATTCCACTGTCATTCAGGGAAGATTAAAAGAATCGGGGTAGACTTGTTCCGCTG
66 GGAGTTGATCCATTCCACTGTCACTCAAGCAAGATT---AGAATCGAGGCAAACTTGTTCCACTA
** * *
8496083 TCAATCAGGAAATATCAAATCTTGAAAGTGAGGGATATGTTCTGCTTCTTCTAGAGGGAATATCA
128 TCAATCAGGAAATATCAAATCTTGAAAGAAAGGGATATGTTATGCTTCTTCTAGAGGAAATATCA
*
8496148 GATCTAGGGGAGTTGATCCATTCCACTATCACTCAGGGAAGATTGAATC-AGGGAAGACTTGTTC
193 GATCTAGGGGAGTTGATCCATTCCACTATCACTCAGAGAAGATTGAATCGA-GGAAGACTTGTTC
* ** * *
8496212 CTCTGCCACTCAGGGAATATCAAATCTTGGAAGAGAGGGATATGTTTCGCTTCTTCTGGAGGGAA
257 CACTGCCACTCAGGGAATATCAAATCTTAAAAGAGAGGGATATGTTCCGCTTATTCTGGAGGGAA
8496277 TATCATATCTGGTGATCGATTTTGCTATCACTCAGTGAAGACTGAATCGGGGTAGACTTATTCTG
322 TATCATATCTGGTGATCGATTTTGCTATCACTCAGTGAAGACTGAATCGGGGTAGACTTATTCTG
8496342 CTTTCACTCTG
387 CTTTCACTCTG
* * * * *
8496353 GGAATATCAAATCTTGAAAGAGAGGGATTTGTTTCACTTTTTCT-AGAGGGAATATCATATCT-G
1 GGAATATCAAATCTTGAAAGAGAAGGATATGTTCCACTTCTTCTGA-AGGGAATATCAAATCTAG
* *
8496416 GGGATGTTGATCCCTTCCGCTGTCACTCAAGCAAGATT-GAATCGAGGCAAACTTGTTCCACTAT
65 GGGA-GTTGATCCATTCCACTGTCACTCAAGCAAGATTAGAATCGAGGCAAACTTGTTCCACTAT
* * * *
8496480 CACTCAGGGAATATCAAATCTTGAAAGAAAGGGATATGTTATTCTTCTTCTGGTA-GAAATATCA
129 CAATCAGGAAATATCAAATCTTGAAAGAAAGGGATATGTTATGCTTCTTCTAG-AGGAAATATCA
* *
8496544 GATCT-GGGGAGTTGATCCATTCCGCTGTCACTCAGAGAAGATTGAATCGAGGAAGACTTGTTCC
193 GATCTAGGGGAGTTGATCCATTCCACTATCACTCAGAGAAGATTGAATCGAGGAAGACTTGTTCC
* * * *
8496608 ACTGTCACTCAGGGAATATCAAATCTTAAAAGGGAGGGATTTGTTCCGCTTATTCTGGAGGGAGT
258 ACTGCCACTCAGGGAATATCAAATCTTAAAAGAGAGGGATATGTTCCGCTTATTCTGGAGGGAAT
8496673 ATCATATCT
323 ATCATATCT
8496682 AAAAATTAAA
Statistics
Matches: 285, Mismatches: 40, Indels: 13
0.84 0.12 0.04
Matches are distributed among these distances:
395 119 0.42
396 81 0.28
397 1 0.00
399 6 0.02
400 78 0.27
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (397 bp):
GGAATATCAAATCTTGAAAGAGAAGGATATGTTCCACTTCTTCTGAAGGGAATATCAAATCTAGG
GGAGTTGATCCATTCCACTGTCACTCAAGCAAGATTAGAATCGAGGCAAACTTGTTCCACTATCA
ATCAGGAAATATCAAATCTTGAAAGAAAGGGATATGTTATGCTTCTTCTAGAGGAAATATCAGAT
CTAGGGGAGTTGATCCATTCCACTATCACTCAGAGAAGATTGAATCGAGGAAGACTTGTTCCACT
GCCACTCAGGGAATATCAAATCTTAAAAGAGAGGGATATGTTCCGCTTATTCTGGAGGGAATATC
ATATCTGGTGATCGATTTTGCTATCACTCAGTGAAGACTGAATCGGGGTAGACTTATTCTGCTTT
CACTCTG
Found at i:8504794 original size:23 final size:23
Alignment explanation
Indices: 8504697--8504783 Score: 113
Period size: 23 Copynumber: 3.8 Consensus size: 23
8504687 GGCTCTAGGA
* * *
8504697 TGGGCTCTGGGTTTG-ATGTAAT
1 TGGGCTCTGAGTTTGCTTGCAAT
**
8504719 TGGGCTCCAAGTTTGCTTGCAAT
1 TGGGCTCTGAGTTTGCTTGCAAT
*
8504742 TGGGCTATGAGTTTGCTTGCAAT
1 TGGGCTCTGAGTTTGCTTGCAAT
8504765 TGGGCTCTGAGTTTGCTTG
1 TGGGCTCTGAGTTTGCTTG
8504784 TAACTAGGCT
Statistics
Matches: 55, Mismatches: 9, Indels: 1
0.85 0.14 0.02
Matches are distributed among these distances:
22 12 0.22
23 43 0.78
ACGTcount: A:0.14, C:0.15, G:0.32, T:0.39
Consensus pattern (23 bp):
TGGGCTCTGAGTTTGCTTGCAAT
Found at i:8504802 original size:46 final size:46
Alignment explanation
Indices: 8504699--8504805 Score: 117
Period size: 46 Copynumber: 2.3 Consensus size: 46
8504689 CTCTAGGATG
* * * *
8504699 GGCTCTGGGTTTG-ATGTAATTGGGCTCCAAGTTTGCTTGCAATTG
1 GGCTCTGGGTTTGCTTGCAATTGGGCTCCAAGTTTGCTTGCAACTA
* * ** *
8504744 GGCTATGAGTTTGCTTGCAATTGGGCTCTGAGTTTGCTTGTAACTA
1 GGCTCTGGGTTTGCTTGCAATTGGGCTCCAAGTTTGCTTGCAACTA
*
8504790 GGCTCCGGGTTTGCTT
1 GGCTCTGGGTTTGCTT
8504806 AAAATTAGGC
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
45 11 0.22
46 38 0.78
ACGTcount: A:0.14, C:0.17, G:0.31, T:0.38
Consensus pattern (46 bp):
GGCTCTGGGTTTGCTTGCAATTGGGCTCCAAGTTTGCTTGCAACTA
Found at i:8504814 original size:23 final size:23
Alignment explanation
Indices: 8504716--8504817 Score: 87
Period size: 23 Copynumber: 4.4 Consensus size: 23
8504706 GGTTTGATGT
* * *
8504716 AATTGGGCTCCAAGTTTGCTTGC
1 AATTAGGCTCCGAGTTTGCTTGA
* ** *
8504739 AATTGGGCTATGAGTTTGCTTGC
1 AATTAGGCTCCGAGTTTGCTTGA
* * *
8504762 AATTGGGCTCTGAGTTTGCTTGT
1 AATTAGGCTCCGAGTTTGCTTGA
* * *
8504785 AACTAGGCTCCGGGTTTGCTTAA
1 AATTAGGCTCCGAGTTTGCTTGA
8504808 AATTAGGCTC
1 AATTAGGCTC
8504818 GATTTTGGGC
Statistics
Matches: 67, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 67 1.00
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.36
Consensus pattern (23 bp):
AATTAGGCTCCGAGTTTGCTTGA
Found at i:8504874 original size:16 final size:16
Alignment explanation
Indices: 8504853--8504886 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
8504843 TAAAAAATAA
*
8504853 AATAATAATATTAATT
1 AATAATAATAATAATT
8504869 AATAATAATAATAATT
1 AATAATAATAATAATT
8504885 AA
1 AA
8504887 ACTTTGGGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AATAATAATAATAATT
Found at i:8508213 original size:15 final size:15
Alignment explanation
Indices: 8508195--8508223 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
8508185 TTAAGTGTGC
8508195 TTTTGTTAAATGTTG
1 TTTTGTTAAATGTTG
8508210 TTTTGTTAAATGTT
1 TTTTGTTAAATGTT
8508224 TTAATCTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.21, C:0.00, G:0.17, T:0.62
Consensus pattern (15 bp):
TTTTGTTAAATGTTG
Found at i:8510134 original size:12 final size:12
Alignment explanation
Indices: 8510104--8510136 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
8510094 GGGTGAAGTG
*
8510104 TTTGTGGCCGGA
1 TTTGTGTCCGGA
8510116 TTTGTGTCCGGA
1 TTTGTGTCCGGA
8510128 TTTGTGTCC
1 TTTGTGTCC
8510137 TTCGTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.06, C:0.18, G:0.33, T:0.42
Consensus pattern (12 bp):
TTTGTGTCCGGA
Found at i:8510897 original size:30 final size:29
Alignment explanation
Indices: 8510863--8510920 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
8510853 GAAAATTTTA
* * *
8510863 AGGTGATTTAATTATTATAATCATTTAATT
1 AGGTGAGTTAA-TATTACAATCAATTAATT
*
8510893 AGGTGAGTTGATATTACAATCAATTAAT
1 AGGTGAGTTAATATTACAATCAATTAAT
8510921 CATTTAATTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 15 0.62
30 9 0.38
ACGTcount: A:0.38, C:0.05, G:0.14, T:0.43
Consensus pattern (29 bp):
AGGTGAGTTAATATTACAATCAATTAATT
Found at i:8511598 original size:29 final size:28
Alignment explanation
Indices: 8511553--8511612 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 28
8511543 TCATTCGACG
** *
8511553 ATTAAAAGTTATTAAATGGTCACTCAACT
1 ATTAAAAGTTACAAAATGATCA-TCAACT
*
8511582 ATTAAAAGTTACAAAATGATCATCGACT
1 ATTAAAAGTTACAAAATGATCATCAACT
8511610 ATT
1 ATT
8511613 TACACGTTCC
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
28 8 0.30
29 19 0.70
ACGTcount: A:0.43, C:0.13, G:0.10, T:0.33
Consensus pattern (28 bp):
ATTAAAAGTTACAAAATGATCATCAACT
Found at i:8512311 original size:17 final size:17
Alignment explanation
Indices: 8512266--8512311 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 17
8512256 GCGTTTGGTT
*
8512266 CATGAATATAAGATTAC
1 CATGAATGTAAGATTAC
8512283 CAGTGGGAATGTAAGATTAC
1 CA-T--GAATGTAAGATTAC
8512303 CATGAATGT
1 CATGAATGT
8512312 TGTATTTTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
17 8 0.32
18 1 0.04
19 1 0.04
20 15 0.60
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (17 bp):
CATGAATGTAAGATTAC
Found at i:8513443 original size:35 final size:35
Alignment explanation
Indices: 8513395--8513506 Score: 152
Period size: 35 Copynumber: 3.2 Consensus size: 35
8513385 TCTAAACCTT
* * *
8513395 AAATTGAAGTATTTTAGAATTTGGGGTTTAAAATT
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
* * *
8513430 TAATTGAATTATTTTGGAATTTAGGGTTTAGAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
* *
8513465 AAATTGAATTACTTTGGAAATTGGGGTTTAAAATG
1 AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
8513500 AAATTGA
1 AAATTGA
8513507 GGACTGTTTT
Statistics
Matches: 66, Mismatches: 11, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 66 1.00
ACGTcount: A:0.37, C:0.01, G:0.21, T:0.41
Consensus pattern (35 bp):
AAATTGAATTATTTTGGAATTTGGGGTTTAAAATG
Found at i:8517649 original size:29 final size:29
Alignment explanation
Indices: 8517617--8517700 Score: 141
Period size: 29 Copynumber: 2.9 Consensus size: 29
8517607 CGATTACTTT
*
8517617 GGTTTGGTTAATAATTTTTAAATTAATTC
1 GGTTCGGTTAATAATTTTTAAATTAATTC
8517646 GGTTCGGTTAATAATTTTTAAATTAATTC
1 GGTTCGGTTAATAATTTTTAAATTAATTC
* *
8517675 GGTTCGATTAATAATTTTCAAATTAA
1 GGTTCGGTTAATAATTTTTAAATTAA
8517701 CTGAACCGAA
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 52 1.00
ACGTcount: A:0.33, C:0.06, G:0.13, T:0.48
Consensus pattern (29 bp):
GGTTCGGTTAATAATTTTTAAATTAATTC
Found at i:8517796 original size:29 final size:29
Alignment explanation
Indices: 8517762--8517838 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 29
8517752 AAAAAATAAG
* * *
8517762 TTAATTTAGTTTGGTTAATAATTTTCAAA
1 TTAATTCAGTTCGATTAATAATTTTCAAA
*
8517791 TTAATTCGGTTCGATTAATAATTTTCAAA
1 TTAATTCAGTTCGATTAATAATTTTCAAA
* **
8517820 TAAAATTTTGTTCGATTAA
1 T-TAATTCAGTTCGATTAA
8517839 CCGAATCGAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
29 26 0.65
30 14 0.35
ACGTcount: A:0.35, C:0.06, G:0.10, T:0.48
Consensus pattern (29 bp):
TTAATTCAGTTCGATTAATAATTTTCAAA
Found at i:8517835 original size:30 final size:29
Alignment explanation
Indices: 8517776--8517838 Score: 90
Period size: 29 Copynumber: 2.1 Consensus size: 29
8517766 TTTAGTTTGG
*
8517776 TTAATAATTTTCAAATTAATTCGGTTCGA
1 TTAATAATTTTCAAATAAATTCGGTTCGA
**
8517805 TTAATAATTTTCAAATAAAATTTTGTTCGA
1 TTAATAATTTTCAAAT-AAATTCGGTTCGA
8517835 TTAA
1 TTAA
8517839 CCGAATCGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 16 0.53
30 14 0.47
ACGTcount: A:0.38, C:0.08, G:0.08, T:0.46
Consensus pattern (29 bp):
TTAATAATTTTCAAATAAATTCGGTTCGA
Found at i:8517859 original size:138 final size:139
Alignment explanation
Indices: 8517696--8517950 Score: 334
Period size: 138 Copynumber: 1.8 Consensus size: 139
8517686 TAATTTTCAA
* * * *
8517696 ATTAACTGAACCGAATTAACCGAATTTTTTATTTGATTAATTCGGGTAATAATTTTAAAAAATAA
1 ATTAACCGAACCGAATAAACCGAATTTTTGATTCGATTAATTCGGGTAATAATTTT-AAAAATAA
*** *
8517761 -GTTAATTTAGTTTGGTTAATAATTTTCAAATTAA-TTCGGTTCGATTAATAATTTTCAAATAAA
65 TGTTAATTTAGTCCAGTTAATAATTTTCAAATAAATTTCGGTTCGATTAATAATTTTCAAATAAA
8517824 ATTTTGTTCG
130 ATTTTGTTCG
* * * *
8517834 ATTAACCGAATCGAATAAACTGAATTTTTGCTTCGATTAATTCGGTTAATAATTTTAAAAATAAT
1 ATTAACCGAACCGAATAAACCGAATTTTTGATTCGATTAATTCGGGTAATAATTTTAAAAATAA-
* *
8517899 TCGGTTAATTTGGTCCAGTTAATAATTTTCAAATAAATTTTGGTTCGATTAA
65 T--GTTAATTTAGTCCAGTTAATAATTTTCAAATAAATTTCGGTTCGATTAA
8517951 CCGAACCGAA
Statistics
Matches: 98, Mismatches: 14, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
137 8 0.08
138 48 0.49
141 29 0.30
142 13 0.13
ACGTcount: A:0.36, C:0.09, G:0.12, T:0.42
Consensus pattern (139 bp):
ATTAACCGAACCGAATAAACCGAATTTTTGATTCGATTAATTCGGGTAATAATTTTAAAAATAAT
GTTAATTTAGTCCAGTTAATAATTTTCAAATAAATTTCGGTTCGATTAATAATTTTCAAATAAAA
TTTTGTTCG
Found at i:8518032 original size:12 final size:12
Alignment explanation
Indices: 8518015--8518040 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8518005 ATTAGTCGCA
8518015 AATAATTTATTT
1 AATAATTTATTT
8518027 AATAATTTATTT
1 AATAATTTATTT
8518039 AA
1 AA
8518041 ACAAATAATT
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:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
AATAATTTATTT
Found at i:8518064 original size:29 final size:30
Alignment explanation
Indices: 8518013--8518075 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
8518003 TTATTAGTCG
8518013 CAAATAATTTATTTAATAATTTAT-TTAAA
1 CAAATAATTTATTTAATAATTTATCTTAAA
* ** *
8518042 CAAATAATTTATTTATTTTTTTATCTTTAA
1 CAAATAATTTATTTAATAATTTATCTTAAA
8518072 CAAA
1 CAAA
8518076 CCTTTAAAAG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
29 21 0.72
30 8 0.28
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (30 bp):
CAAATAATTTATTTAATAATTTATCTTAAA
Found at i:8524070 original size:46 final size:46
Alignment explanation
Indices: 8524002--8524092 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
8523992 TAAAGAGTTT
** * *
8524002 GTGAATTACCATTTCGGTACTATGCGTTCATCCATTGTATTCATAA
1 GTGAATTACCATTTCGACACTATGCGTGCATCCATGGTATTCATAA
* *
8524048 GTGAATTACCATTTTGACACTATGTGTGCATCCATGGTATTCATA
1 GTGAATTACCATTTCGACACTATGCGTGCATCCATGGTATTCATA
8524093 TTGAGTTTGT
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.38
Consensus pattern (46 bp):
GTGAATTACCATTTCGACACTATGCGTGCATCCATGGTATTCATAA
Found at i:8524118 original size:57 final size:57
Alignment explanation
Indices: 8524048--8524159 Score: 188
Period size: 57 Copynumber: 2.0 Consensus size: 57
8524038 GTATTCATAA
* * *
8524048 GTGAATTACCATTTTGACACTATGTGTGCATCCATGGTATTCATATTGAGTTTGTTT
1 GTGAATTACCATTTTGACACTATGTATACATCCATGGTATTCATAATGAGTTTGTTT
*
8524105 GTGAATTACCATTTTGGCACTATGTATACATCCATGGTATTCATAATGAGTTTGT
1 GTGAATTACCATTTTGACACTATGTATACATCCATGGTATTCATAATGAGTTTGT
8524160 GAATTACTAT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (57 bp):
GTGAATTACCATTTTGACACTATGTATACATCCATGGTATTCATAATGAGTTTGTTT
Found at i:8524150 original size:103 final size:99
Alignment explanation
Indices: 8523960--8524150 Score: 265
Period size: 103 Copynumber: 1.9 Consensus size: 99
8523950 CTATGTGTAC
* *
8523960 TTTTGGCACTATGTGTGCATCCATGGTATTCATAAAGAGTTTGTGAATTACCATTTCGGTACTAT
1 TTTTGACACTATGTGTGCATCCATGGTATTCATAAAGAGTTTGTGAATTACCATTTCGGCACTAT
* * *
8524025 GCGTTCATCCATTGTATTCATAAGTGAATTACCA
66 GCATACATCCATGGTATTCATAAGTGAATTACCA
* * *
8524059 TTTTGACACTATGTGTGCATCCATGGTATTCATATTGAGTTTGTTTGTGAATTACCATTTTGGCA
1 TTTTGACACTATGTGTGCATCCATGGTATTCATA--AAG--AGTTTGTGAATTACCATTTCGGCA
*
8524124 CTATGTATACATCCATGGTATTCATAA
62 CTATGCATACATCCATGGTATTCATAA
8524151 TGAGTTTGTG
Statistics
Matches: 79, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
99 33 0.42
101 2 0.03
103 44 0.56
ACGTcount: A:0.26, C:0.16, G:0.18, T:0.40
Consensus pattern (99 bp):
TTTTGACACTATGTGTGCATCCATGGTATTCATAAAGAGTTTGTGAATTACCATTTCGGCACTAT
GCATACATCCATGGTATTCATAAGTGAATTACCA
Found at i:8537577 original size:2 final size:2
Alignment explanation
Indices: 8537570--8537638 Score: 138
Period size: 2 Copynumber: 34.5 Consensus size: 2
8537560 ATTTAAAAGT
8537570 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8537612 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
8537639 CTTAAATGAA
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:8537881 original size:16 final size:17
Alignment explanation
Indices: 8537853--8537884 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
8537843 CTTAGTGAGT
8537853 CAACATAATAAAATAAA
1 CAACATAATAAAATAAA
8537870 CAACAT-ATAAAATAA
1 CAACATAATAAAATAA
8537885 GTAATATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.69, C:0.12, G:0.00, T:0.19
Consensus pattern (17 bp):
CAACATAATAAAATAAA
Found at i:8558281 original size:13 final size:13
Alignment explanation
Indices: 8558263--8558294 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
8558253 TGAATGGTGA
8558263 AAGTGGGTGATTT
1 AAGTGGGTGATTT
8558276 AAGTGGGTGATTT
1 AAGTGGGTGATTT
*
8558289 ATGTGG
1 AAGTGG
8558295 ATGAAGGGGA
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:0.22, C:0.00, G:0.41, T:0.38
Consensus pattern (13 bp):
AAGTGGGTGATTT
Found at i:8563099 original size:31 final size:31
Alignment explanation
Indices: 8563061--8563180 Score: 120
Period size: 31 Copynumber: 3.9 Consensus size: 31
8563051 GAGTCAAGGG
*
8563061 TTACCTATGTCTTTCGAGACATATGGATAGT
1 TTACCTATGTCTTTCGAGACATATGGACAGT
* * *
8563092 TTACCTATGTTTTTTGAGACATATGGACAAT
1 TTACCTATGTCTTTCGAGACATATGGACAGT
*
8563123 ATTACCTATGTCCTTTAG-GACATATGGACAG-
1 -TTACCTATGT-CTTTCGAGACATATGGACAGT
* * *
8563154 TTACATATGT-TCTTCAAAACATATGGA
1 TTACCTATGTCT-TTCGAGACATATGGA
8563181 TAGGTCCTTC
Statistics
Matches: 74, Mismatches: 11, Indels: 9
0.79 0.12 0.10
Matches are distributed among these distances:
28 1 0.01
29 2 0.03
30 18 0.24
31 27 0.36
32 22 0.30
33 4 0.05
ACGTcount: A:0.30, C:0.16, G:0.17, T:0.38
Consensus pattern (31 bp):
TTACCTATGTCTTTCGAGACATATGGACAGT
Found at i:8567873 original size:56 final size:56
Alignment explanation
Indices: 8567730--8568381 Score: 941
Period size: 56 Copynumber: 11.6 Consensus size: 56
8567720 TACAAAAAGT
* * * **
8567730 TAAGAAATTCAAAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTACAAAAGGT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA-AC
* *
8567787 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGTAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* * * **
8567843 TAAGAAATTCATAATAAGTTTATGAATTTCCTTACGGGCACTTTGTGTGGTAAAAGT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGT-GCAAAAAC
*
8567900 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTTTGTGCAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
*
8567956 TAAGAAATTCGTAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* * * *
8568012 TAAGAAATTCATAATAAGTTTCTGAATTTCTGTATGGACACTTTGTGTGCAAAAAGT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA-C
* * *
8568069 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTATATGCAAAATC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
**
8568125 TAAGAAATTCATAATAAGTTTATGAATTTTAGTATGGG--CTTTGTGTGCAAAAAGC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA-C
8568180 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* * * **
8568236 TAAGAAATTCATAATGAGTTTATGAAATTCCGTATAGGCACTTTGTGTGC-AAAGT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* * * *
8568291 TAAGAAATTTATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCTAAACC
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* *
8568347 TAAGAAATTCATAATAAGTATATGAATTTTCGTAT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTAT
8568382 TGCTAGTGGG
Statistics
Matches: 534, Mismatches: 55, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
54 12 0.02
55 85 0.16
56 273 0.51
57 164 0.31
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (56 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
Found at i:8567928 original size:113 final size:112
Alignment explanation
Indices: 8567730--8568381 Score: 941
Period size: 113 Copynumber: 5.8 Consensus size: 112
8567720 TACAAAAAGT
* * * **
8567730 TAAGAAATTCAAAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTACAAAAGGTTAAGAAAT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA-ACTAAGAAAT
* *
8567795 TCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGTAAAAAC
65 TCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* * * **
8567843 TAAGAAATTCATAATAAGTTTATGAATTTCCTTACGGGCACTTTGTGTGGTAAAAGTTAAGAAAT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGT-GCAAAAACTAAGAAAT
*
8567908 TCATAATAAGTTTATGAATTTCCGTATGGGCACTTTTTGTGCAAAAAC
65 TCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
*
8567956 TAAGAAATTCGTAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
* * * *
8568021 CATAATAAGTTTCTGAATTTCTGTATGGACACTTTGTGTGCAAAAAGT
66 CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA-C
* * *
8568069 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTATATGCAAAATCTAAGAAATT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
**
8568134 CATAATAAGTTTATGAATTTTAGTATGGG--CTTTGTGTGCAAAAAGC
66 CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA-C
8568180 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
* * * **
8568245 CATAATGAGTTTATGAAATTCCGTATAGGCACTTTGTGTGC-AAAGT
66 CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
* * * *
8568291 TAAGAAATTTATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCTAAACCTAAGAAATT
1 TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
* *
8568356 CATAATAAGTATATGAATTTTCGTAT
66 CATAATAAGTTTATGAATTTCCGTAT
8568382 TGCTAGTGGG
Statistics
Matches: 488, Mismatches: 47, Indels: 10
0.90 0.09 0.02
Matches are distributed among these distances:
111 185 0.38
112 59 0.12
113 240 0.49
114 4 0.01
ACGTcount: A:0.36, C:0.11, G:0.18, T:0.36
Consensus pattern (112 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAAC
Found at i:8568012 original size:169 final size:169
Alignment explanation
Indices: 8567723--8568375 Score: 965
Period size: 169 Copynumber: 3.9 Consensus size: 169
8567713 ATGAGTGTAC
* * * *
8567723 AAAAAGTTAAGAAATTCAAAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTACAAAAGGTT
1 AAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA-GCT
* *
8567788 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTATGTAAAAACTAAGAAATTC
65 AAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTC
*
8567853 ATAATAAGTTTATGAATTTCCTTACGGGCACTTTGTGTGG
130 ATAATAAGTTTATGAATTTCCTTATGGGCACTTTGTGTGG
* * *
8567893 TAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTTTGTGCAAAAACTA
1 AAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCTA
*
8567958 AGAAATTCGTAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCA
66 AGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCA
* * *
8568023 TAATAAGTTTCTGAATTT-CTGTATGGACACTTTGTGTGC
131 TAATAAGTTTATGAATTTCCT-TATGGGCACTTTGTGTGG
* * *
8568062 AAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTATATGCAAAATCTA
1 AAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCTA
**
8568127 AGAAATTCATAATAAGTTTATGAATTTTAGTATGGG--CTTTGTGTGCAAAAAGCTAAGAAATTC
66 AGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA-CTAAGAAATTC
* *
8568190 ATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC
130 ATAATAAGTTTATGAATTTCCTTATGGGCACTTTGTGTGG
* * * * *
8568230 AAAAA-CTAAGAAATTCATAATGAGTTTATGAAATTCCGTATAGGCACTTTGTGTGC-AAAGTTA
1 AAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCTA
* * * *
8568293 AGAAATTTATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCTAAACCTAAGAAATTCA
66 AGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCA
*
8568358 TAATAAGTATATGAATTT
131 TAATAAGTTTATGAATTT
8568376 TCGTATTGCT
Statistics
Matches: 440, Mismatches: 38, Indels: 13
0.90 0.08 0.03
Matches are distributed among these distances:
166 38 0.09
167 89 0.20
168 66 0.15
169 191 0.43
170 56 0.13
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (169 bp):
AAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAGCTA
AGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAACTAAGAAATTCA
TAATAAGTTTATGAATTTCCTTATGGGCACTTTGTGTGG
Found at i:8573635 original size:137 final size:137
Alignment explanation
Indices: 8573389--8573665 Score: 527
Period size: 137 Copynumber: 2.0 Consensus size: 137
8573379 TAGCTTTGCC
*
8573389 TCTAGATATGAACAAGATCCATAATGTTTTCTACGTATCAATTCTTAGAAAGTACAGATCAGATC
1 TCTAGATATGAACAAGATCCATAATGTTTTCCACGTATCAATTCTTAGAAAGTACAGATCAGATC
8573454 CATCCCATGTCATCACCCTTGAAGAAGTAGAAATCCGACCATATTTAACTTATGAGGATGAACCA
66 CATCCCATGTCATCACCCTTGAAGAAGTAGAAATCCGACCATATTTAACTTATGAGGATGAACCA
8573519 GCACGGA
131 GCACGGA
8573526 TCTAGATATGAACAAGATCCATAATGTTTTCCACGTATCAATTCTTAGAAAGTACAGATCAGATC
1 TCTAGATATGAACAAGATCCATAATGTTTTCCACGTATCAATTCTTAGAAAGTACAGATCAGATC
*
8573591 CATCCCATGTCATCACCCTTGAAGAAGTAGAAATCCGACCATATTTAACTTGTGAGGATGAACCA
66 CATCCCATGTCATCACCCTTGAAGAAGTAGAAATCCGACCATATTTAACTTATGAGGATGAACCA
*
8573656 GTACGGA
131 GCACGGA
8573663 TCT
1 TCT
8573666 TAGCCAAAGA
Statistics
Matches: 137, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
137 137 1.00
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.27
Consensus pattern (137 bp):
TCTAGATATGAACAAGATCCATAATGTTTTCCACGTATCAATTCTTAGAAAGTACAGATCAGATC
CATCCCATGTCATCACCCTTGAAGAAGTAGAAATCCGACCATATTTAACTTATGAGGATGAACCA
GCACGGA
Found at i:8575272 original size:56 final size:56
Alignment explanation
Indices: 8575112--8575718 Score: 846
Period size: 56 Copynumber: 10.8 Consensus size: 56
8575102 TGGAACTGAT
* * *
8575112 TGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGAACTTTG
1 TGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
** * *
8575169 TGTGCTAAAAGTTAAGAAATTCATCATAAGTTTATGAATTTCCGTATGGGCACTTTG
1 TGTGC-AAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
* * *
8575226 TGTACAAAAACTAAAAAATTCGTAATAAGTTTATGAATTTCTGTATGGGCACTTTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
*
8575282 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGGCACTTTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
*
8575338 TGTACAAAAATCTAAGAAATTCATAATAAGTTTATGAATTT-TCGTATGGGCACTTTG
1 TGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTG
* * **
8575395 TGTGCAAAAAGTTAAGAAATTCATAATAAGTTT-TAAATTTCCATATGGGCACTTTG
1 TGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
* * * *
8575451 TGTGAAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGTACTTTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
* *
8575507 TGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTT-TCGTATGAGCACTTTG
1 TGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTG
* *
8575564 TGTGCAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
** *
8575620 TGTGC-AAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTG
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
* *
8575675 TGTGCAAAAA-TGAAGAAATTGATAATAAGTATATGAATTTCTGT
1 TGTGCAAAAACT-AAGAAATTCATAATAAGTTTATGAATTTCTGT
8575719 GTTGCTAGTG
Statistics
Matches: 494, Mismatches: 46, Indels: 21
0.88 0.08 0.04
Matches are distributed among these distances:
55 73 0.15
56 242 0.49
57 175 0.35
58 4 0.01
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (56 bp):
TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTG
Found at i:8575358 original size:113 final size:112
Alignment explanation
Indices: 8575124--8575718 Score: 885
Period size: 113 Copynumber: 5.3 Consensus size: 112
8575114 TGCAAAAAGT
* * *
8575124 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGAACTTTGTGTGCTAAAAGTTAAGAAAT
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGC-AAAAATTAAGAAAT
*
8575189 TCATCATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAC
65 TCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAC
* * *
8575237 TAAAAAATTCGTAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAACTAAGAAATT
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAATTAAGAAATT
**
8575302 CATAATAAGTTTATGAATTTTTGTATGGGCACTTTGTGTACAAAAATC
66 CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAA-C
8575350 TAAGAAATTCATAATAAGTTTATGAATTT-TCGTATGGGCACTTTGTGTGCAAAAAGTTAAGAAA
1 TAAGAAATTCATAATAAGTTTATGAATTTCT-GTATGGGCACTTTGTGTGCAAAAA-TTAAGAAA
* *
8575414 TTCATAATAAGTTT-TAAATTTCCATATGGGCACTTTGTGTGA-AAAAAC
64 TTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGT-ACAAAAAC
* * *
8575462 TAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGTACTTTGTGTGCAAAAAGTTAAGAAAT
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAA-TTAAGAAAT
* * *
8575527 TCATAATAAGTTTATGAATTTTCGTATGAGCACTTTGTGTGCAAAAAC
65 TCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAC
* * *
8575575 TAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC-AAAGTTAAGAAATT
1 TAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAATTAAGAAATT
*
8575639 CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAAA-
66 CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAC
* *
8575685 TGAAGAAATTGATAATAAGTATATGAATTTCTGT
1 T-AAGAAATTCATAATAAGTTTATGAATTTCTGT
8575719 GTTGCTAGTG
Statistics
Matches: 442, Mismatches: 32, Indels: 18
0.90 0.07 0.04
Matches are distributed among these distances:
110 1 0.00
111 82 0.19
112 135 0.31
113 202 0.46
114 22 0.05
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (112 bp):
TAAGAAATTCATAATAAGTTTATGAATTTCTGTATGGGCACTTTGTGTGCAAAAATTAAGAAATT
CATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAAC
Found at i:8575444 original size:169 final size:168
Alignment explanation
Indices: 8575112--8575714 Score: 904
Period size: 169 Copynumber: 3.6 Consensus size: 168
8575102 TGGAACTGAT
* * * *
8575112 TGTGCAAAAAGTTAAGAAATTCATAATAAGTTTATGAATTTCTGTATTGGAACTTTGTGTGCTAA
1 TGTGCAAAAA-CTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGC-AA
* * * * *
8575177 AAGTTAAGAAATTCATCATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTACAAAAACTAAAA
64 AAATTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAACTAAGA
* *
8575242 AATTCGTAATAAGTTTATGAATTTCTGTATGGGCACTTTG
129 AATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTG
** *
8575282 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTTTGTATGGGCACTTTGTGTACAAAA
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
*
8575347 ATCTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAAGTTAAGA
66 AT-TAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAA-CTAAGA
* *
8575412 AATTCATAATAAGTTT-TAAATTTCCATATGGGCACTTTG
129 AATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTG
* * *
8575451 TGTGAAAAAACTAAGAAATTCATAATGAGTTTATGAATTTCCGTATGGGTACTTTGTGTGCAAAA
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
*
8575516 AGTTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGAGCACTTTGTGTGCAAAAACTAAGAA
66 A-TTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAACTAAGAA
*
8575581 ATTCATAATGAGTTTATGAATTTCCGTATGGGCACTTTG
130 ATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTG
**
8575620 TGTGC-AAAGTTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
1 TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
* * *
8575684 ATGAAGAAATTGATAATAAGTATATGAATTT
66 ATTAAGAAATTCATAATAAGTTTATGAATTT
8575715 CTGTGTTGCT
Statistics
Matches: 395, Mismatches: 34, Indels: 11
0.90 0.08 0.03
Matches are distributed among these distances:
167 27 0.07
168 81 0.21
169 257 0.65
170 30 0.08
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (168 bp):
TGTGCAAAAACTAAGAAATTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTGTGTGCAAAA
ATTAAGAAATTCATAATAAGTTTATGAATTTTCGTATGGGCACTTTGTGTGCAAAAACTAAGAAA
TTCATAATAAGTTTATGAATTTCCGTATGGGCACTTTG
Found at i:8576886 original size:22 final size:22
Alignment explanation
Indices: 8576861--8576916 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
8576851 TCAGTAGGCA
8576861 AGACTTCCTCATACAGTGGATG
1 AGACTTCCTCATACAGTGGATG
*
8576883 AGACTTCCTCATACGGTGGATG
1 AGACTTCCTCATACAGTGGATG
*
8576905 AAACTT-CTCATA
1 AGACTTCCTCATA
8576917 GAAGATGCCC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 6 0.19
22 26 0.81
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (22 bp):
AGACTTCCTCATACAGTGGATG
Found at i:8578890 original size:2 final size:2
Alignment explanation
Indices: 8578885--8578971 Score: 174
Period size: 2 Copynumber: 43.5 Consensus size: 2
8578875 ATGATATATA
8578885 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8578927 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
8578969 TG T
1 TG T
8578972 TTATTAAGGA
Statistics
Matches: 85, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 85 1.00
ACGTcount: A:0.00, C:0.00, G:0.49, T:0.51
Consensus pattern (2 bp):
TG
Found at i:8579697 original size:45 final size:45
Alignment explanation
Indices: 8579507--8579679 Score: 262
Period size: 45 Copynumber: 3.9 Consensus size: 45
8579497 AACGAATTAA
* * *
8579507 CAAAATAATAATGCATATGGGTGTATTATCGGCATGAAAGAATGC
1 CAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
8579552 CAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
8579597 CAAAATAATAATGCATATGGGTGCATTATC-GACATGAAAGGATGC
1 CAAAATAATAATGCATATGGGTGCATTATCAG-CATGAAAGGATGC
* *
8579642 CATAATTGA-AATGCATATGGGTGCATTATCAGCA-GAAA
1 CA-AAATAATAATGCATATGGGTGCATTATCAGCATGAAA
8579680 AGTATGCTAT
Statistics
Matches: 120, Mismatches: 5, Indels: 7
0.91 0.04 0.05
Matches are distributed among these distances:
44 5 0.04
45 110 0.92
46 5 0.04
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.25
Consensus pattern (45 bp):
CAAAATAATAATGCATATGGGTGCATTATCAGCATGAAAGGATGC
Found at i:8579716 original size:46 final size:45
Alignment explanation
Indices: 8579516--8579716 Score: 180
Period size: 45 Copynumber: 4.4 Consensus size: 45
8579506 ACAAAATAAT
* * * * * *
8579516 AATGCATATGGGTGTATTATCGGCATGAAAGAATGCCA-AAATAA
1 AATGAATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
* * *
8579560 TAATGCATATGGGTGCATTATC-AGCATGAAAGGATGCCA-AAATAA
1 -AATGAATATGGGTGCATTATCGA-CATGAAAGGATGCCATAATTGA
*
8579605 TAATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
1 -AATGAATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
* * *
8579651 AATGCATATGGGTGCATTATC-AGCA-GAAAAGTATGCTATAATTGAA
1 AATGAATATGGGTGCATTATCGA-CATG-AAAGGATGCCATAATTG-A
8579697 AATGAATAAT-GGTGCATTAT
1 AATGAAT-ATGGGTGCATTAT
8579717 AAAAATGAGT
Statistics
Matches: 141, Mismatches: 8, Indels: 13
0.87 0.05 0.08
Matches are distributed among these distances:
44 2 0.01
45 115 0.82
46 22 0.16
47 2 0.01
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.27
Consensus pattern (45 bp):
AATGAATATGGGTGCATTATCGACATGAAAGGATGCCATAATTGA
Found at i:8586081 original size:45 final size:45
Alignment explanation
Indices: 8586030--8586245 Score: 260
Period size: 45 Copynumber: 4.8 Consensus size: 45
8586020 ACAAAATAAT
* *
8586030 AATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAGTTGA
1 AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGA
* * *
8586075 AATGCATATGGGTGCATTATCAGTATGAAAGGATGCCA-AAATAA
1 AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGA
*
8586119 TAATGCATATGGGTGCATTATC-GACATGAAAGGATGCCATAGTTGA
1 -AATGCATATGGGTGCATTATCAG-CATGAAAGGATGCCATAATTGA
* *
8586165 AATGCATATGGGTGCATTATCAGCA-GAAAAGTATGCTATAATTGAA
1 AATGCATATGGGTGCATTATCAGCATG-AAAGGATGCCATAATTG-A
* * *
8586211 AATGCATAAT-GGTGCATTATAAACATGAATGGATG
1 AATGCAT-ATGGGTGCATTATCAGCATGAAAGGATG
8586246 TTATTAATGA
Statistics
Matches: 147, Mismatches: 16, Indels: 15
0.83 0.09 0.08
Matches are distributed among these distances:
44 5 0.03
45 108 0.73
46 31 0.21
47 3 0.02
ACGTcount: A:0.37, C:0.12, G:0.25, T:0.27
Consensus pattern (45 bp):
AATGCATATGGGTGCATTATCAGCATGAAAGGATGCCATAATTGA
Found at i:8586123 original size:90 final size:90
Alignment explanation
Indices: 8586021--8586187 Score: 325
Period size: 90 Copynumber: 1.9 Consensus size: 90
8586011 AACGAATTAA
*
8586021 CAAAATAATAATGCATATGGGTGCATTATCGGCATGAAAGGATGCCATAGTTGAAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAGTTGAAATGCATATGG
8586086 GTGCATTATCAGTATGAAAGGATGC
66 GTGCATTATCAGTATGAAAGGATGC
8586111 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAGTTGAAATGCATATGG
1 CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAGTTGAAATGCATATGG
8586176 GTGCATTATCAG
66 GTGCATTATCAG
8586188 CAGAAAAGTA
Statistics
Matches: 76, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
90 76 1.00
ACGTcount: A:0.36, C:0.13, G:0.25, T:0.27
Consensus pattern (90 bp):
CAAAATAATAATGCATATGGGTGCATTATCGACATGAAAGGATGCCATAGTTGAAATGCATATGG
GTGCATTATCAGTATGAAAGGATGC
Found at i:8590885 original size:17 final size:17
Alignment explanation
Indices: 8590865--8590912 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
8590855 AAAGTTAGAT
8590865 CATTAATTAAACTAGTC
1 CATTAATTAAACTAGTC
* * *
8590882 CATTCATCAAACTAGTT
1 CATTAATTAAACTAGTC
* *
8590899 CATTTATTTAACTA
1 CATTAATTAAACTA
8590913 ACTCTTAATT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.38, C:0.19, G:0.04, T:0.40
Consensus pattern (17 bp):
CATTAATTAAACTAGTC
Found at i:8592314 original size:35 final size:35
Alignment explanation
Indices: 8592268--8592338 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
8592258 TATTCACAAC
8592268 ATAAATTTTGCACTTTCAAAATCATTTCAAGCACT
1 ATAAATTTTGCACTTTCAAAATCATTTCAAGCACT
8592303 ATAAATTTTGCACTTTCAAAATCATTTCAAGCACT
1 ATAAATTTTGCACTTTCAAAATCATTTCAAGCACT
8592338 A
1 A
8592339 CGGACTAGAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.37
Consensus pattern (35 bp):
ATAAATTTTGCACTTTCAAAATCATTTCAAGCACT
Found at i:8592829 original size:120 final size:119
Alignment explanation
Indices: 8592616--8592855 Score: 462
Period size: 120 Copynumber: 2.0 Consensus size: 119
8592606 TTTGTATGAG
8592616 TGTTGGGACCGATACAAAAGTTTTCTTTGCAAGTGCACCAATCACGGATTCCACGACTGGACTCA
1 TGTTGGGACCGATACAAAAGTTTTCTTTGCAAGTGCACCAATCACGGATTCCACGACTGGACTCA
8592681 AGTTGTGATGTATTACAATGGAGTCAACGCACCCACTTGTATAATGTTGGATGCC
66 AGTTGTGATGTATTACAATGGAGTCAACGCA-CCACTTGTATAATGTTGGATGCC
*
8592736 TGTTGGGACCGATACAAAAGTTTTCTTTGCAAGTGCACCAATCATGGATTCCACGACTGGACTCA
1 TGTTGGGACCGATACAAAAGTTTTCTTTGCAAGTGCACCAATCACGGATTCCACGACTGGACTCA
8592801 AGTTGTGATGTATTACAATGGAGTCAACGCACCACTTGTATAATGTTGGATGCC
66 AGTTGTGATGTATTACAATGGAGTCAACGCACCACTTGTATAATGTTGGATGCC
8592855 T
1 T
8592856 CGGCGAATGG
Statistics
Matches: 119, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
119 24 0.20
120 95 0.80
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.29
Consensus pattern (119 bp):
TGTTGGGACCGATACAAAAGTTTTCTTTGCAAGTGCACCAATCACGGATTCCACGACTGGACTCA
AGTTGTGATGTATTACAATGGAGTCAACGCACCACTTGTATAATGTTGGATGCC
Found at i:8593430 original size:21 final size:21
Alignment explanation
Indices: 8593404--8593446 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
8593394 GCTTCACTGC
*
8593404 AAGATTTTATGGCCTCGACAA
1 AAGATTTTATGGCCTCAACAA
*
8593425 AAGATTTTATGGCTTCAACAA
1 AAGATTTTATGGCCTCAACAA
8593446 A
1 A
8593447 GGCCTTAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.37, C:0.16, G:0.16, T:0.30
Consensus pattern (21 bp):
AAGATTTTATGGCCTCAACAA
Found at i:8603480 original size:20 final size:21
Alignment explanation
Indices: 8603455--8603514 Score: 68
Period size: 20 Copynumber: 2.8 Consensus size: 21
8603445 ATTTTGGTGC
*
8603455 AGGGAATCGATCCCCCCTTG-
1 AGGGAACCGATCCCCCCTTGA
* *
8603475 AGGGAACCGATTCCCCTTTGA
1 AGGGAACCGATCCCCCCTTGA
8603496 AGGGGAACCGATTCCCCCC
1 A-GGGAACCGA-TCCCCCC
8603515 ACAGGGGAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 17 0.53
21 1 0.03
22 9 0.28
23 5 0.16
ACGTcount: A:0.22, C:0.35, G:0.25, T:0.18
Consensus pattern (21 bp):
AGGGAACCGATCCCCCCTTGA
Found at i:8604924 original size:50 final size:50
Alignment explanation
Indices: 8604849--8604949 Score: 202
Period size: 50 Copynumber: 2.0 Consensus size: 50
8604839 TGAATGGGTC
8604849 GATCTTCTGCAAATACTCTGGGAGCTAGTTCTTCACAAGCTCCACCCGAA
1 GATCTTCTGCAAATACTCTGGGAGCTAGTTCTTCACAAGCTCCACCCGAA
8604899 GATCTTCTGCAAATACTCTGGGAGCTAGTTCTTCACAAGCTCCACCCGAA
1 GATCTTCTGCAAATACTCTGGGAGCTAGTTCTTCACAAGCTCCACCCGAA
8604949 G
1 G
8604950 CTGAAGAAGA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
50 51 1.00
ACGTcount: A:0.26, C:0.30, G:0.19, T:0.26
Consensus pattern (50 bp):
GATCTTCTGCAAATACTCTGGGAGCTAGTTCTTCACAAGCTCCACCCGAA
Found at i:8604951 original size:27 final size:27
Alignment explanation
Indices: 8604871--8604951 Score: 62
Period size: 27 Copynumber: 3.1 Consensus size: 27
8604861 ATACTCTGGG
8604871 AGCTAGTTCTTCACAAGCTCCACCCGA
1 AGCTAGTTCTTCACAAGCTCCACCCGA
* * * * * ** *
8604898 AGAT-CTTCTGCA-AA--TACTCTGGG
1 AGCTAGTTCTTCACAAGCTCCACCCGA
8604921 AGCTAGTTCTTCACAAGCTCCACCCGA
1 AGCTAGTTCTTCACAAGCTCCACCCGA
8604948 AGCT
1 AGCT
8604952 GAAGAAGATC
Statistics
Matches: 34, Mismatches: 16, Indels: 8
0.59 0.28 0.14
Matches are distributed among these distances:
23 7 0.21
24 6 0.18
25 4 0.12
26 6 0.18
27 11 0.32
ACGTcount: A:0.26, C:0.32, G:0.17, T:0.25
Consensus pattern (27 bp):
AGCTAGTTCTTCACAAGCTCCACCCGA
Found at i:8607582 original size:16 final size:16
Alignment explanation
Indices: 8607561--8607596 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
8607551 GAATGAATAG
8607561 TATTTTAAATACTTTA
1 TATTTTAAATACTTTA
8607577 TATTTTAAATACTTTA
1 TATTTTAAATACTTTA
8607593 TATT
1 TATT
8607597 ATAGTTATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (16 bp):
TATTTTAAATACTTTA
Found at i:8608576 original size:2 final size:2
Alignment explanation
Indices: 8608569--8608628 Score: 120
Period size: 2 Copynumber: 30.0 Consensus size: 2
8608559 ATTCAAAAAG
8608569 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
8608611 TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA
8608629 AGTATAACCC
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 58 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:8608985 original size:15 final size:16
Alignment explanation
Indices: 8608948--8608986 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
8608938 TTTAGAGATA
*
8608948 TTATTT-ATTTTATTT
1 TTATTTAATTTTATTG
8608963 TTATTTAATTTT-TTG
1 TTATTTAATTTTATTG
8608978 TTATTTAAT
1 TTATTTAAT
8608987 AGATAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 17 0.77
16 5 0.23
ACGTcount: A:0.23, C:0.00, G:0.03, T:0.74
Consensus pattern (16 bp):
TTATTTAATTTTATTG
Found at i:8610031 original size:19 final size:19
Alignment explanation
Indices: 8610009--8610056 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
8609999 AACAAAATAT
*
8610009 TTGGCTTTCCCTTTCATTG
1 TTGGCTTTCCCTTACATTG
8610028 TTGGCTTTCCCTTACATTG
1 TTGGCTTTCCCTTACATTG
*
8610047 TTAGCTTTCC
1 TTGGCTTTCC
8610057 TTGTTCTCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.08, C:0.27, G:0.15, T:0.50
Consensus pattern (19 bp):
TTGGCTTTCCCTTACATTG
Found at i:8611871 original size:20 final size:20
Alignment explanation
Indices: 8611828--8611871 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8611818 TTATATAGGT
* * *
8611828 TATATAGATTATTATTTATT
1 TATATAGATTACTATTAATA
8611848 TATATAGATTACTATTAATA
1 TATATAGATTACTATTAATA
8611868 TATA
1 TATA
8611872 ATTATATTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (20 bp):
TATATAGATTACTATTAATA
Found at i:8611879 original size:16 final size:18
Alignment explanation
Indices: 8611828--8611880 Score: 56
Period size: 20 Copynumber: 2.9 Consensus size: 18
8611818 TTATATAGGT
* *
8611828 TATATAGATTATTATTTATT
1 TATATAGATTACTA-TTA-A
8611848 TATATAGATTACTATTAA
1 TATATAGATTACTATTAA
8611866 TATATA-ATTA-TATTA
1 TATATAGATTACTATTA
8611881 TTAATATATA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 5 0.16
17 4 0.13
18 6 0.19
19 3 0.10
20 13 0.42
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.53
Consensus pattern (18 bp):
TATATAGATTACTATTAA
Found at i:8611884 original size:19 final size:19
Alignment explanation
Indices: 8611860--8611897 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
8611850 TATAGATTAC
*
8611860 TATTAATATATAATTATAT
1 TATTAATATATAAATATAT
8611879 TATTAATATATAAATATAT
1 TATTAATATATAAATATAT
8611898 AGATTCTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATTAATATATAAATATAT
Found at i:8612762 original size:2 final size:2
Alignment explanation
Indices: 8612755--8612781 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
8612745 GTATTTGTAG
8612755 CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT C
8612782 CCCCCCCCCC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:8614450 original size:17 final size:17
Alignment explanation
Indices: 8614428--8614463 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
8614418 AAACTGAAAC
8614428 ATAAATAT-ATAATTCTA
1 ATAAATATAAT-ATTCTA
8614445 ATAAATATAATATTCTA
1 ATAAATATAATATTCTA
8614462 AT
1 AT
8614464 TATATCAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 16 0.89
18 2 0.11
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.42
Consensus pattern (17 bp):
ATAAATATAATATTCTA
Found at i:8615586 original size:15 final size:16
Alignment explanation
Indices: 8615566--8615595 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
8615556 TTGTAGACAA
8615566 ACAAAT-ATAATTAAC
1 ACAAATAATAATTAAC
8615581 ACAAATAATAATTAA
1 ACAAATAATAATTAA
8615596 TAAATAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.63, C:0.10, G:0.00, T:0.27
Consensus pattern (16 bp):
ACAAATAATAATTAAC
Found at i:8615597 original size:25 final size:25
Alignment explanation
Indices: 8615569--8615627 Score: 59
Period size: 28 Copynumber: 2.3 Consensus size: 25
8615559 TAGACAAACA
8615569 AATATAA-TTAACACAAATAATAATT
1 AATATAATTTAA-ACAAATAATAATT
*
8615594 AATAAATAAATTTAAATAAATAATAATT
1 AAT--AT-AATTTAAACAAATAATAATT
8615622 -ATATAA
1 AATATAA
8615628 ATATTATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
24 2 0.07
25 5 0.17
27 4 0.14
28 14 0.48
29 4 0.14
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (25 bp):
AATATAATTTAAACAAATAATAATT
Found at i:8615661 original size:25 final size:26
Alignment explanation
Indices: 8615612--8615678 Score: 77
Period size: 25 Copynumber: 2.7 Consensus size: 26
8615602 AATTTAAATA
* *
8615612 AATAATAATTATATAAATATTATTTT
1 AATAAAAAATATATAAATATTATTTT
8615638 AATAAAAAATATAT-AATATTATTTT
1 AATAAAAAATATATAAATATTATTTT
*
8615663 --TAAAAATATTTATAAA
1 AATAAAAA-ATATATAAA
8615679 AAATATAACA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
23 6 0.17
24 5 0.14
25 13 0.36
26 12 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (26 bp):
AATAAAAAATATATAAATATTATTTT
Found at i:8618535 original size:3 final size:3
Alignment explanation
Indices: 8618527--8618633 Score: 196
Period size: 3 Copynumber: 35.7 Consensus size: 3
8618517 TTTTAATGCT
* *
8618527 TTA TTA TTA TTA TTA ATA TTA ATA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8618575 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
8618623 TTA TTA TTA TT
1 TTA TTA TTA TT
8618634 GAAGTTACCG
Statistics
Matches: 100, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 100 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:8619140 original size:29 final size:31
Alignment explanation
Indices: 8619091--8619149 Score: 79
Period size: 29 Copynumber: 2.0 Consensus size: 31
8619081 CGTTGAACAG
*
8619091 TATATTTCCCGATCAGGCA-CCGTT-CAGAT
1 TATATTTCCCGATCAGACACCCGTTGCAGAT
8619120 TATATTTCCCGATCTA-ACACCCGTTGCAGA
1 TATATTTCCCGATC-AGACACCCGTTGCAGA
8619150 AATGCGTCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
29 16 0.62
30 6 0.23
31 4 0.15
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (31 bp):
TATATTTCCCGATCAGACACCCGTTGCAGAT
Found at i:8619382 original size:9 final size:9
Alignment explanation
Indices: 8619370--8619421 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
8619360 TAATATTTTG
8619370 TATTTAATT
1 TATTTAATT
*
8619379 TATTTAA-G
1 TATTTAATT
8619387 TATTTAATT
1 TATTTAATT
8619396 TATTTAA--
1 TATTTAATT
*
8619403 TATTTTATT
1 TATTTAATT
*
8619412 TAATTAATT
1 TATTTAATT
8619421 T
1 T
8619422 TTTTGCAGAT
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 6 0.17
8 7 0.20
9 22 0.63
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (9 bp):
TATTTAATT
Found at i:8619391 original size:17 final size:17
Alignment explanation
Indices: 8619369--8619418 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
8619359 TTAATATTTT
8619369 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
8619386 GTATTTAATTTATTTAA
1 GTATTTAATTTATTTAA
* *
8619403 -TATTTTATTTAATTAA
1 GTATTTAATTTATTTAA
8619419 TTTTTTTGCA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (17 bp):
GTATTTAATTTATTTAA
Found at i:8622088 original size:16 final size:16
Alignment explanation
Indices: 8622067--8622113 Score: 78
Period size: 16 Copynumber: 2.9 Consensus size: 16
8622057 TATTTTTTCA
8622067 AATAATCATAATAAAC
1 AATAATCATAATAAAC
8622083 AATAATCATAATAAAC
1 AATAATCATAATAAAC
8622099 AATAAGT-ATAATAAA
1 AATAA-TCATAATAAA
8622114 AAAATTTATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
16 29 0.97
17 1 0.03
ACGTcount: A:0.64, C:0.09, G:0.02, T:0.26
Consensus pattern (16 bp):
AATAATCATAATAAAC
Found at i:8622580 original size:37 final size:37
Alignment explanation
Indices: 8622530--8622604 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
8622520 AGGGACCACG
8622530 TCTTTCTGCAAAAGGTGTTAGATCGAGAAATATAGTC
1 TCTTTCTGCAAAAGGTGTTAGATCGAGAAATATAGTC
8622567 TCTTTCTGCAAAAGGTGTTAGATCGAGAAATATAGTC
1 TCTTTCTGCAAAAGGTGTTAGATCGAGAAATATAGTC
8622604 T
1 T
8622605 GAACGGTGCC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.32, C:0.13, G:0.21, T:0.33
Consensus pattern (37 bp):
TCTTTCTGCAAAAGGTGTTAGATCGAGAAATATAGTC
Found at i:8624749 original size:18 final size:18
Alignment explanation
Indices: 8624713--8624750 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
8624703 AATGATTATT
*
8624713 TAATTTATTAAAAGTTCA
1 TAATTTATTAAAAGATCA
8624731 TAATTTATTATAAA-ATCA
1 TAATTTATTA-AAAGATCA
8624749 TA
1 TA
8624751 GTCATTATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 15 0.83
19 3 0.17
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (18 bp):
TAATTTATTAAAAGATCA
Found at i:8634555 original size:95 final size:95
Alignment explanation
Indices: 8634434--8634887 Score: 288
Period size: 95 Copynumber: 4.8 Consensus size: 95
8634424 ACCAAATGCA
* * * **
8634434 GTAATTTAATCAAACAAAA-AGACATATTATGAAT-TTTACTATGA-ATCCACAAATTAAACTTG
1 GTAACTTAATCAAACAAAAGA-ACATATTATG-ATCTTT-CT-TCATATCCAAAAATTAAACTAA
* * *
8634496 GTAGAGCGGAAACATGGAAAT-TAGAACTATGAG
62 GTAAAGCGGAAACATAGAAATGAAGAACTATGAG
*
8634529 GTAACTTAATCAAACAAAAGAACATATTATGCTCTTTCTTCATATCCAAAAATTAAACTAAGTAA
1 GTAACTTAATCAAACAAAAGAACATATTATGATCTTTCTTCATATCCAAAAATTAAACTAAGTAA
*
8634594 AGCGGAAATATAGAAATGAAGAACTATGAG
66 AGCGGAAACATAGAAATGAAGAACTATGAG
* *** * *
8634624 GTAACTTAATCAAACAAAAGAATATATTATG--C-AGATTCAGA-CGAAAAAATTAAACTAAGTA
1 GTAACTTAATCAAACAAAAGAACATATTATGATCTTTCTTCATATC-CAAAAATTAAACTAAGTA
* * * *
8634685 AAGCAGAAATACATAAATGGGAAG-A-TATGAG
65 AAGCGGAAACATAGAAAT--GAAGAACTATGAG
* * ** * * * * *
8634716 GGAATTTAATCAAACAAAAGATTATATTATGAACCTTACTTCGA-AT-TAGAAAAATAAACAAAA
1 GTAACTTAATCAAACAAAAGAACATATTATG-ATCTTTCTTC-ATATCCA-AAAATTAAAC-TAA
* * * *
8634779 GTACAA-CGGAAATATAGAAATGAATAGCTATGCG
62 GTA-AAGCGGAAACATAGAAATGAAGAACTATGAG
* * * * * * * *
8634813 GTGATTTAATCAAACAAAAATAACATATCATGAATCTTACTTGGA-ATCCTAAAATTAAACCAAG
1 GTAACTTAATCAAAC-AAAAGAACATATTATG-ATCTTTCTT-CATATCCAAAAATTAAACTAAG
* *
8634877 TGAAGAGGAAA
63 TAAAGCGGAAA
8634888 TTCAGAAATC
Statistics
Matches: 289, Mismatches: 48, Indels: 42
0.76 0.13 0.11
Matches are distributed among these distances:
91 1 0.00
92 71 0.25
93 4 0.01
94 40 0.14
95 77 0.27
96 16 0.06
97 45 0.16
98 35 0.12
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.25
Consensus pattern (95 bp):
GTAACTTAATCAAACAAAAGAACATATTATGATCTTTCTTCATATCCAAAAATTAAACTAAGTAA
AGCGGAAACATAGAAATGAAGAACTATGAG
Found at i:8634725 original size:92 final size:92
Alignment explanation
Indices: 8634518--8634746 Score: 266
Period size: 92 Copynumber: 2.5 Consensus size: 92
8634508 CATGGAAATT
* * *** * *
8634518 AGAACTATGAGGTAACTTAATCAAACAAAAGAACATATTATGCTCTTTCTTCATATC-CAAAAAT
1 AGAACTATGAGGGAACTTAATCAAACAAAAGAATATATTATG--C-AGATTCAGA-CGAAAAAAT
* *
8634582 TAAACTAAGTAAAGCGGAAATATAGAAATGA
62 TAAACTAAGTAAAGCAGAAATACAGAAATGA
*
8634613 AGAACTATGAGGTAACTTAATCAAACAAAAGAATATATTATGCAGATTCAGACGAAAAAATTAAA
1 AGAACTATGAGGGAACTTAATCAAACAAAAGAATATATTATGCAGATTCAGACGAAAAAATTAAA
*
8634678 CTAAGTAAAGCAGAAATACATAAATGGGA
66 CTAAGTAAAGCAGAAATACAGAAAT--GA
* *
8634707 AG-A-TATGAGGGAATTTAATCAAACAAAAGATTATATTATG
1 AGAACTATGAGGGAACTTAATCAAACAAAAGAATATATTATG
8634747 AACCTTACTT
Statistics
Matches: 119, Mismatches: 12, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
91 1 0.01
92 71 0.60
93 2 0.02
94 4 0.03
95 41 0.34
ACGTcount: A:0.49, C:0.11, G:0.15, T:0.25
Consensus pattern (92 bp):
AGAACTATGAGGGAACTTAATCAAACAAAAGAATATATTATGCAGATTCAGACGAAAAAATTAAA
CTAAGTAAAGCAGAAATACAGAAATGA
Found at i:8636076 original size:16 final size:16
Alignment explanation
Indices: 8636045--8636101 Score: 55
Period size: 16 Copynumber: 3.6 Consensus size: 16
8636035 TAAATGATCC
* *
8636045 GACTTGTTATTGACCT
1 GACTTGATATTTACCT
8636061 GA-TCTGATATTTACCT
1 GACT-TGATATTTACCT
* *
8636077 GACTTGACATTTACCC
1 GACTTGATATTTACCT
8636093 GACTT-ATAT
1 GACTTGATAT
8636102 ATTATCATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
15 4 0.12
16 29 0.85
17 1 0.03
ACGTcount: A:0.25, C:0.21, G:0.14, T:0.40
Consensus pattern (16 bp):
GACTTGATATTTACCT
Found at i:8636203 original size:31 final size:30
Alignment explanation
Indices: 8636144--8636203 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 30
8636134 AATTGTGATA
*
8636144 TTTTGAATTTATAATAAATCGATTAATTAAT
1 TTTTAAATTTATAATAAATC-ATTAATTAAT
8636175 TTTTAAATGTTATAATAAAAT-ATTAATTA
1 TTTTAAAT-TTATAAT-AAATCATTAATTA
8636204 TGATAATTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
31 15 0.58
32 7 0.27
33 4 0.15
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (30 bp):
TTTTAAATTTATAATAAATCATTAATTAAT
Found at i:8636234 original size:14 final size:15
Alignment explanation
Indices: 8636213--8636250 Score: 62
Period size: 13 Copynumber: 2.7 Consensus size: 15
8636203 ATGATAATTA
8636213 ATATACTTTATATTT
1 ATATACTTTATATTT
8636228 A-ATAC-TTATATTT
1 ATATACTTTATATTT
8636241 ATATACTTTA
1 ATATACTTTA
8636251 ACACTTATAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 9 0.43
14 8 0.38
15 4 0.19
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (15 bp):
ATATACTTTATATTT
Found at i:8636238 original size:13 final size:14
Alignment explanation
Indices: 8636213--8636248 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
8636203 ATGATAATTA
8636213 ATATACTTTATATTT
1 ATATAC-TTATATTT
8636228 A-ATACTTATATTT
1 ATATACTTATATTT
8636241 ATATACTT
1 ATATACTT
8636249 TAACACTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
13 9 0.45
14 10 0.50
15 1 0.05
ACGTcount: A:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (14 bp):
ATATACTTATATTT
Found at i:8636823 original size:23 final size:23
Alignment explanation
Indices: 8636794--8636853 Score: 77
Period size: 23 Copynumber: 2.6 Consensus size: 23
8636784 ATGATGCATG
8636794 TATATATA-ATATACATTATACTT
1 TATATATATATATA-ATTATACTT
*
8636817 TATATATATATATATTTATACTT
1 TATATATATATATAATTATACTT
*
8636840 TATAGTTTATATAT
1 TATA-TATATATAT
8636854 GTATATGAAG
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.40, C:0.05, G:0.02, T:0.53
Consensus pattern (23 bp):
TATATATATATATAATTATACTT
Found at i:8636843 original size:30 final size:29
Alignment explanation
Indices: 8636794--8636859 Score: 87
Period size: 30 Copynumber: 2.2 Consensus size: 29
8636784 ATGATGCATG
8636794 TATATATAATATACATTATACTTTATATA
1 TATATATAATATACATTATACTTTATATA
* * *
8636823 TATATATATTTATACTTTATAGTTTATATA
1 TATATATA-ATATACATTATACTTTATATA
*
8636853 TGTATAT
1 TATATAT
8636860 GAAGTACCAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
29 8 0.25
30 24 0.75
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (29 bp):
TATATATAATATACATTATACTTTATATA
Found at i:8636983 original size:25 final size:24
Alignment explanation
Indices: 8636935--8636980 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
8636925 TGATGAGGGA
8636935 TGAAATTGAATTAATTATAAAATG
1 TGAAATTGAATTAATTATAAAATG
*
8636959 TGAAGTTGATATTAA-TATAAAA
1 TGAAATTGA-ATTAATTATAAAA
8636981 ATGGACTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
24 15 0.75
25 5 0.25
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (24 bp):
TGAAATTGAATTAATTATAAAATG
Found at i:8638479 original size:2 final size:2
Alignment explanation
Indices: 8638468--8638508 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
8638458 TTTATTACTA
8638468 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8638509 TTAATTTAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 37 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:8638690 original size:29 final size:29
Alignment explanation
Indices: 8638653--8638729 Score: 81
Period size: 29 Copynumber: 2.8 Consensus size: 29
8638643 CGTTTTTCCC
* *
8638653 TTTTT-TTATTTATTTTTGTTTTATTTCA
1 TTTTTATTATTTATTTTTATTTGATTTCA
* *
8638681 TTTTTATTATTT-TAATTTATTTGATTTGA
1 TTTTTATTATTTAT-TTTTATTTGATTTCA
8638710 TTTTTA-TATTTA-TTTTATTT
1 TTTTTATTATTTATTTTTATTT
8638730 ATGTTAATAT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
27 7 0.17
28 11 0.27
29 23 0.56
ACGTcount: A:0.19, C:0.01, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTTATTATTTATTTTTATTTGATTTCA
Found at i:8638726 original size:5 final size:5
Alignment explanation
Indices: 8638656--8638729 Score: 53
Period size: 5 Copynumber: 14.6 Consensus size: 5
8638646 TTTTCCCTTT
* * * * *
8638656 TTTTA -TTTA TTTTTG TTTTA TTTCA TTTT- TATTA TTTTA ATTTA TTTGA
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
*
8638705 TTTGA TTTTTA TATTTA TTTTA TTT
1 TTTTA -TTTTA T-TTTA TTTTA TTT
8638730 ATGTTAATAT
Statistics
Matches: 54, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
4 7 0.13
5 35 0.65
6 12 0.22
ACGTcount: A:0.20, C:0.01, G:0.04, T:0.74
Consensus pattern (5 bp):
TTTTA
Found at i:8642746 original size:40 final size:40
Alignment explanation
Indices: 8642691--8642772 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
8642681 TGCAGGTTTA
8642691 TAATACACATCGGTGTATATGGTGGGAATGACCTTATGTG
1 TAATACACATCGGTGTATATGGTGGGAATGACCTTATGTG
* *
8642731 TAATACACTTCGGTGTATATGGTGGGCATGACCTTATGTG
1 TAATACACATCGGTGTATATGGTGGGAATGACCTTATGTG
8642771 TA
1 TA
8642773 GCACTACGGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (40 bp):
TAATACACATCGGTGTATATGGTGGGAATGACCTTATGTG
Found at i:8644004 original size:16 final size:16
Alignment explanation
Indices: 8643983--8644015 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
8643973 CCCATTTATC
8643983 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
8643999 ATTTTAAAACACACTT
1 ATTTTAAAACACACTT
8644015 A
1 A
8644016 AAACCACTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.36
Consensus pattern (16 bp):
ATTTTAAAACACACTT
Found at i:8646322 original size:24 final size:22
Alignment explanation
Indices: 8646269--8646351 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 22
8646259 CCAGAACCCC
* * *
8646269 AGGGGGGTATCGATTCCCCT-G
1 AGGGGGGAATCGGTTCCCCTCA
*
8646290 TGGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGGAATCGGTTCCCC-TC-A
8646314 AGGGGGGAATCGGTT-CCCTCA
1 AGGGGGGAATCGGTTCCCCTCA
*
8646335 AGGGGGG-ATCGATTCCC
1 AGGGGGGAATCGGTTCCC
8646352 TCTGCACGAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.12
21 26 0.50
22 3 0.06
23 3 0.06
24 14 0.27
ACGTcount: A:0.17, C:0.24, G:0.37, T:0.22
Consensus pattern (22 bp):
AGGGGGGAATCGGTTCCCCTCA
Found at i:8646345 original size:20 final size:22
Alignment explanation
Indices: 8646291--8646353 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 22
8646281 ATTCCCCTGT
8646291 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGGAATCGGTT-CCC-TCAAA
8646315 GGGGGGAATCGGTTCCCTC-AA
1 GGGGGGAATCGGTTCCCTCAAA
*
8646336 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
8646354 TGCACGAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
20 11 0.29
21 8 0.21
22 2 0.05
23 3 0.08
24 14 0.37
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.21
Consensus pattern (22 bp):
GGGGGGAATCGGTTCCCTCAAA
Found at i:8651034 original size:44 final size:47
Alignment explanation
Indices: 8650986--8651096 Score: 129
Period size: 44 Copynumber: 2.4 Consensus size: 47
8650976 GTAACCATGC
8650986 AAATAAGCTTATGAGCTTACGGAA-T-AATGACAAGTATATT-GAAA
1 AAATAAGCTTATGAGCTTACGGAATTAAATGACAAGTATATTGGAAA
* * ** * *
8651030 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTACGGAA-TTAAATGACAAGTATATTGGAAA
*
8651078 AAATAAGCTTATGAACTTA
1 AAATAAGCTTATGAGCTTA
8651097 TGGGATAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
44 22 0.40
46 1 0.02
47 12 0.22
48 20 0.36
ACGTcount: A:0.42, C:0.08, G:0.18, T:0.32
Consensus pattern (47 bp):
AAATAAGCTTATGAGCTTACGGAATTAAATGACAAGTATATTGGAAA
Found at i:8651087 original size:48 final size:44
Alignment explanation
Indices: 8650986--8651104 Score: 130
Period size: 48 Copynumber: 2.6 Consensus size: 44
8650976 GTAACCATGC
*
8650986 AAATAAGCTTATGAGCTTACGGAATAATGACAAGTATATTGAAA
1 AAATAAGCTTATGAGCTTATGGAATAATGACAAGTATATTGAAA
* ** * *
8651030 AAATAAGCTTACGAGCTTATGGAATTTAAATGGTAAGTATTTTGGTAA
1 AAATAAGCTTATGAGCTTATGGAA--T-AATGACAAGTATATT-GAAA
* *
8651078 AAATAAGCTTATGAACTTATGGGATAA
1 AAATAAGCTTATGAGCTTATGGAATAA
8651105 AAGGTAAGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 7
0.79 0.12 0.09
Matches are distributed among these distances:
44 22 0.35
45 2 0.03
46 2 0.03
47 12 0.19
48 24 0.39
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (44 bp):
AAATAAGCTTATGAGCTTATGGAATAATGACAAGTATATTGAAA
Found at i:8651974 original size:35 final size:37
Alignment explanation
Indices: 8651928--8651998 Score: 110
Period size: 35 Copynumber: 2.0 Consensus size: 37
8651918 TTAGAAGTTG
*
8651928 GTGATAATATAGGCGTGAT-ATTGTGATGGA-ATATA
1 GTGATAATATAGGCGTGATAATGGTGATGGACATATA
*
8651963 GTGATGATATAGGCGTGATAATGGTGATGGACATAT
1 GTGATAATATAGGCGTGATAATGGTGATGGACATAT
8651999 TGTATCTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 18 0.56
36 10 0.31
37 4 0.12
ACGTcount: A:0.32, C:0.04, G:0.31, T:0.32
Consensus pattern (37 bp):
GTGATAATATAGGCGTGATAATGGTGATGGACATATA
Found at i:8655486 original size:28 final size:28
Alignment explanation
Indices: 8655453--8655506 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
8655443 TATTTGCAAC
8655453 TTTCTTCACTT-TTTTCTTTGCTTTTGTT
1 TTTCTTCACTTCTTTTCTTT-CTTTTGTT
**
8655481 TTTCTTCTTTTCTTTTCTTTCTTTTG
1 TTTCTTCACTTCTTTTCTTTCTTTTG
8655507 CACTCATATT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.02, C:0.19, G:0.06, T:0.74
Consensus pattern (28 bp):
TTTCTTCACTTCTTTTCTTTCTTTTGTT
Found at i:8655496 original size:14 final size:15
Alignment explanation
Indices: 8655463--8655505 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
8655453 TTTCTTCACT
*
8655463 TTTTTCTTTGCTTTTG
1 TTTTTCTTT-CTTTTC
8655479 TTTTTC-TTCTTTTC
1 TTTTTCTTTCTTTTC
8655493 -TTTTCTTTCTTTT
1 TTTTTCTTTCTTTT
8655506 GCACTCATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 5 0.20
14 12 0.48
15 2 0.08
16 6 0.24
ACGTcount: A:0.00, C:0.16, G:0.05, T:0.79
Consensus pattern (15 bp):
TTTTTCTTTCTTTTC
Found at i:8668079 original size:15 final size:15
Alignment explanation
Indices: 8668055--8668088 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
8668045 TGAATAGGGG
*
8668055 TTATTGTTGCTCCGA
1 TTATTATTGCTCCGA
*
8668070 TTATTATTGCTCTGA
1 TTATTATTGCTCCGA
8668085 TTAT
1 TTAT
8668089 AGTTGCCCAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.18, C:0.15, G:0.15, T:0.53
Consensus pattern (15 bp):
TTATTATTGCTCCGA
Found at i:8669596 original size:555 final size:556
Alignment explanation
Indices: 8668545--8669655 Score: 1857
Period size: 555 Copynumber: 2.0 Consensus size: 556
8668535 GATTCATTAT
* * *
8668545 CTCCTTAGCGAAAACTAGCAATGTCATTGCGAAGCTGGGTATTCATATTGGGCGAATTGTATCGC
1 CTCCTTAGCGAAAACTAGCAATGTCATTGCAAAGCTGGGTATTCATATTGGGAGAATTATATCGC
*
8668610 AGTAAGAAGCTCTTGCATAAATCTGCCCATGACTCCATTGAGCTGGAAGGAACTCCGCTGAGCCA
66 AGTAAGAAGCTCTTGCATAAATCTGCCCATGACTCCATTGAGCTGGAACGAACTCCGCTGAGCCA
8668675 GACTCTTGCTCTATCGTGTAAGGAATAAGGGAAATATTTCAGTTTGAGCACATATTCATGTACTC
131 GACTCTTGCTCTATCGTGTAAGGAATAAGGGAAATATTTCAGTTTGAGCACATATTCATGTACTC
** * * *
8668740 CATGTTGTCGAAACGAGTCGCATACTTCAAGGAAAGCACGAACATGTTTCCTATCATCCTCATTG
196 CATGTTACCAAAACGAGTCGCATACTTCAAGGAAAGAACGAACATGTTTCCTAGCATCCTCATTG
* *
8668805 GGTGAACCAACAAATTGTCCAATAGAGTTTAGCATGTTGAACATCATCGGTTTGAGTTCGAAATG
261 GGTGAACCAACAAATTGTCCAATAGAGTTTAGCATGTTAAACATCACCGGTTTGAGTTCGAAATG
* * * *
8668870 AGTGGCTTGTATTTTAGGTGCCCCTATGCCTGGATTGAGATCATCAAGAATCGGGTTCAAATGAT
326 AATGGCTTGTATTTCAGGTGCCACTATGCATGGATTGAGATCATCAAGAATCGGGTTCAAATGAT
* * *
8668935 ATCGTATTGCTCTTGTCCTTGCAACTTGAAGATTGACATCTGCATCAGGTCCTAAATCTCCCATG
391 ATCGTATTGCTCTTGGCCTTGCAACTTGAAGATTGAAAGCTGCATCAGGTCCTAAATCTCCCATG
* *
8669000 TTGTGTTGTATTTGGAGTTGATTTGATTGTTCTCTGGTTGTTTGAGCTCGCAACCTTTGTCTTAG
456 TTGTGTTGCATTTGGAGTTGATTTGATTGTTCTCTGGTTGTTTGAGCTCGCAACCTTTGTCTGAG
*
8669065 TGATTACTCAACTTTAGGGTCAAATGGTTCCAAAGG
521 TGATTACTCAACTTCAGGGTCAAATGGTTCCAAAGG
*
8669101 CTCCTTAGCGAAAACTAGCAATGTCATTGCAAAGCTGTGTATTCATATTGGGAGAATTATATCGC
1 CTCCTTAGCGAAAACTAGCAATGTCATTGCAAAGCTGGGTATTCATATTGGGAGAATTATATCGC
8669166 AGTAAGAAGCTCTTGCATAAATCTGCCCATGACTCCATTGAGCTGGAACGAACTCCGCTGAGCCA
66 AGTAAGAAGCTCTTGCATAAATCTGCCCATGACTCCATTGAGCTGGAACGAACTCCGCTGAGCCA
* * * *
8669231 GGCTCTTGCTCTATCGTGTAGGGAATAAGGGAAATGTTTCAGTTTGAGCACATCTTC-TGTACTC
131 GACTCTTGCTCTATCGTGTAAGGAATAAGGGAAATATTTCAGTTTGAGCACATATTCATGTACTC
*
8669295 CTTGTTACCAAAACGAGTCGCATACTTCAAGGAAAGAACGAACATGTTTCCTAGCATCCTCATTG
196 CATGTTACCAAAACGAGTCGCATACTTCAAGGAAAGAACGAACATGTTTCCTAGCATCCTCATTG
* * * *
8669360 GGTGAACCAATAAATTTTCTAATAGAGTTTAGCATGTTAAATATCACCGGTTTGAGTTCGAAATG
261 GGTGAACCAACAAATTGTCCAATAGAGTTTAGCATGTTAAACATCACCGGTTTGAGTTCGAAATG
*
8669425 AATGGCTTGTATTTCAGGTGCCACTATGCATGGATTGAGATTATCAAGAATCGGGTTCAAATGAT
326 AATGGCTTGTATTTCAGGTGCCACTATGCATGGATTGAGATCATCAAGAATCGGGTTCAAATGAT
* *
8669490 CTCGTATTGCTCTTGGCCTTAG-AACTTGAAGATTGAAAGCTGCATCAGGTCTTAAATCTCCCAT
391 ATCGTATTGCTCTTGGCCTT-GCAACTTGAAGATTGAAAGCTGCATCAGGTCCTAAATCTCCCAT
*
8669554 GTTGTGTTGCATTTGGAGTTGATTTGATTGTTCTTTGGTTGTTTGAGCTCGCAACCTTTGTCTGA
455 GTTGTGTTGCATTTGGAGTTGATTTGATTGTTCTCTGGTTGTTTGAGCTCGCAACCTTTGTCTGA
** *
8669619 GTGATTGTTCAACTTCAGGGTTAAATGGTTCCAAAGG
520 GTGATTACTCAACTTCAGGGTCAAATGGTTCCAAAGG
8669656 TTTACCAGAA
Statistics
Matches: 516, Mismatches: 38, Indels: 3
0.93 0.07 0.01
Matches are distributed among these distances:
555 337 0.65
556 179 0.35
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.32
Consensus pattern (556 bp):
CTCCTTAGCGAAAACTAGCAATGTCATTGCAAAGCTGGGTATTCATATTGGGAGAATTATATCGC
AGTAAGAAGCTCTTGCATAAATCTGCCCATGACTCCATTGAGCTGGAACGAACTCCGCTGAGCCA
GACTCTTGCTCTATCGTGTAAGGAATAAGGGAAATATTTCAGTTTGAGCACATATTCATGTACTC
CATGTTACCAAAACGAGTCGCATACTTCAAGGAAAGAACGAACATGTTTCCTAGCATCCTCATTG
GGTGAACCAACAAATTGTCCAATAGAGTTTAGCATGTTAAACATCACCGGTTTGAGTTCGAAATG
AATGGCTTGTATTTCAGGTGCCACTATGCATGGATTGAGATCATCAAGAATCGGGTTCAAATGAT
ATCGTATTGCTCTTGGCCTTGCAACTTGAAGATTGAAAGCTGCATCAGGTCCTAAATCTCCCATG
TTGTGTTGCATTTGGAGTTGATTTGATTGTTCTCTGGTTGTTTGAGCTCGCAACCTTTGTCTGAG
TGATTACTCAACTTCAGGGTCAAATGGTTCCAAAGG
Found at i:8677287 original size:11 final size:11
Alignment explanation
Indices: 8677271--8677318 Score: 55
Period size: 10 Copynumber: 4.5 Consensus size: 11
8677261 GCCCTAAATT
*
8677271 GAAAAAGAAAC
1 GAAAAAGAAAA
8677282 GAAAAAGAAAA
1 GAAAAAGAAAA
*
8677293 GAAAAAAGAGAA
1 G-AAAAAGAAAA
8677305 -AAAAAGAAAA
1 GAAAAAGAAAA
8677315 -AAAA
1 GAAAA
8677319 TAAAGGTAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
10 13 0.39
11 11 0.33
12 9 0.27
ACGTcount: A:0.81, C:0.02, G:0.17, T:0.00
Consensus pattern (11 bp):
GAAAAAGAAAA
Found at i:8680085 original size:2 final size:2
Alignment explanation
Indices: 8680070--8680125 Score: 98
Period size: 2 Copynumber: 29.0 Consensus size: 2
8680060 TTTATTACTA
8680070 AT AT -T AT A- AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
8680110 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
8680126 TTTAACGCTA
Statistics
Matches: 52, Mismatches: 0, Indels: 4
0.93 0.00 0.07
Matches are distributed among these distances:
1 2 0.04
2 50 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:8680310 original size:19 final size:19
Alignment explanation
Indices: 8680286--8680326 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
8680276 TTTATTTTTG
8680286 TTTTATTAATTTTATTAAT
1 TTTTATTAATTTTATTAAT
8680305 TTTTATTAATTTTATTAAT
1 TTTTATTAATTTTATTAAT
8680324 TTT
1 TTT
8680327 ATTTATTTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (19 bp):
TTTTATTAATTTTATTAAT
Found at i:8680344 original size:28 final size:27
Alignment explanation
Indices: 8680282--8680373 Score: 75
Period size: 28 Copynumber: 3.4 Consensus size: 27
8680272 TGATTTTATT
* *
8680282 TTTG-TTTTATTAATTTTATTAATTTT
1 TTTGATTTTATTAATTTTATTTATTTA
*
8680308 TATTAATTTTATTAATTTTATTTATTTGA
1 T-TTGATTTTATTAATTTTATTTATTT-A
* *
8680337 TTTGATTTGATT-TTTTTA-TT-TTTA
1 TTTGATTTTATTAATTTTATTTATTTA
*
8680361 TCTTTATTTTATT
1 T-TTGATTTTATT
8680374 TATGTTAATA
Statistics
Matches: 54, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
24 2 0.04
25 12 0.22
26 3 0.06
27 7 0.13
28 29 0.54
29 1 0.02
ACGTcount: A:0.23, C:0.01, G:0.04, T:0.72
Consensus pattern (27 bp):
TTTGATTTTATTAATTTTATTTATTTA
Done.