Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397265.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_146.0, 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: 8065533
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 116430 characters in sequence are not A, C, G, or T
File 18 of 18
Found at i:7648993 original size:3 final size:3
Alignment explanation
Indices: 7648985--7649012 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
7648975 ATGTACGGGG
7648985 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT A
7649013 ATTTCTACAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:7653663 original size:2 final size:2
Alignment explanation
Indices: 7653656--7653706 Score: 95
Period size: 2 Copynumber: 26.0 Consensus size: 2
7653646 GGATATGTAG
7653656 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7653697 AT AT AT AT AT
1 AT AT AT AT AT
7653707 GCAAGCTATC
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 47 0.98
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:7655904 original size:156 final size:152
Alignment explanation
Indices: 7655622--7655917 Score: 439
Period size: 156 Copynumber: 1.9 Consensus size: 152
7655612 TTTTTGGACA
*
7655622 ACAACAAAATGTACAATTTAATATGTTTTCAGACCACCAAAAGAAATATTTGCAAGCACCTTCAG
1 ACAACAAAATGTACAATTTAATAAGTTTTCAGACCACCAAAAGAAATATTTGCAAGCACCTTCAG
**
7655687 ATGTAAATCATCGAAAGCTTCTTATCATAGTATTAGATGCATTAGTTTTTTGTTTTCTATATGAC
66 ATGTAAATCATCGAAAGCTTCCCATCATAGTATTAGATGCATTAGTTTTTTGTTTTCTATATGAC
7655752 CTGTGTCAATTGCTCATATGCC
131 CTGTGTCAATTGCTCATATGCC
* * ** *
7655774 ACAACAAAAATGTACACTTTAATAAGTTTTCAGACTATTAAAAGAAATATTTGCAAGCACAAGTT
1 ACAAC-AAAATGTACAATTTAATAAGTTTTCAGACCACCAAAAGAAATATTTGCAAGCAC--CTT
* * * *
7655839 CAGATGTGATATCATGGAAAGCTTCCCATCATAGTATTATATGTATTAGTTTTTTGTTTTCTATA
63 CAGATGT-AAATCATCGAAAGCTTCCCATCATAGTATTAGATGCATTAGTTTTTTGTTTTCTATA
*
7655904 TGATCTGTGTCAAT
127 TGACCTGTGTCAAT
7655918 CGCATTGCTT
Statistics
Matches: 127, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
152 5 0.04
153 49 0.39
155 9 0.07
156 64 0.50
ACGTcount: A:0.34, C:0.16, G:0.14, T:0.36
Consensus pattern (152 bp):
ACAACAAAATGTACAATTTAATAAGTTTTCAGACCACCAAAAGAAATATTTGCAAGCACCTTCAG
ATGTAAATCATCGAAAGCTTCCCATCATAGTATTAGATGCATTAGTTTTTTGTTTTCTATATGAC
CTGTGTCAATTGCTCATATGCC
Found at i:7660499 original size:23 final size:19
Alignment explanation
Indices: 7660473--7660526 Score: 54
Period size: 23 Copynumber: 2.6 Consensus size: 19
7660463 ATTCTCAATT
7660473 TAAAAAACATATTTGATAAATA
1 TAAAAAACATATTT-AT--ATA
*
7660495 GTAAAAATTCATATTTATATA
1 -TAAAAA-ACATATTTATATA
7660516 TAAAAAACATA
1 TAAAAAACATA
7660527 CCCCGATCTA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 4 0.14
20 6 0.21
21 3 0.11
23 8 0.29
24 7 0.25
ACGTcount: A:0.57, C:0.06, G:0.04, T:0.33
Consensus pattern (19 bp):
TAAAAAACATATTTATATA
Found at i:7662616 original size:173 final size:173
Alignment explanation
Indices: 7662322--7662667 Score: 593
Period size: 173 Copynumber: 2.0 Consensus size: 173
7662312 GTTTAGTGCA
* * * *
7662322 TGATTTCTTACAAGGAAAATATATACACAGATTGAACATAAATTATTCTGTTATGGAAATTGTCC
1 TGATTTCTTACAAAGAAAATATATACACAGATTGAACAGAAATTATTCTGTTATGAAAATTGCCC
* * * * *
7662387 AAGAAACAACAAAGATAAAACCCAGATAAATCAAGCAAATAGAAAAACACAAGAATTTACTCTGC
66 AAGAAACAACAAAGATAAAACCAAAAGAAATCAAGCAAACAAAAAAACACAAGAATTTACTCTGC
7662452 CTCTTGTCTATGTCCACGAAGTGAAACTATTCTTATATTATTG
131 CTCTTGTCTATGTCCACGAAGTGAAACTATTCTTATATTATTG
7662495 TGATTTCTTACAAAGAAAATATATACACAGATTGAACAGAAATTATTCTGTTATGAAAATTGCCC
1 TGATTTCTTACAAAGAAAATATATACACAGATTGAACAGAAATTATTCTGTTATGAAAATTGCCC
* *
7662560 AAGAAACAACAAAGATAAAACCAAAAGAAATTAAGCAAACAAAAAAACATAAGAATTTACTCTGC
66 AAGAAACAACAAAGATAAAACCAAAAGAAATCAAGCAAACAAAAAAACACAAGAATTTACTCTGC
7662625 CTCTTGTCTATGTCCACGAAGTGAAACTATTCTTATATTATTG
131 CTCTTGTCTATGTCCACGAAGTGAAACTATTCTTATATTATTG
7662668 AGAAATTAAA
Statistics
Matches: 162, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
173 162 1.00
ACGTcount: A:0.44, C:0.16, G:0.12, T:0.28
Consensus pattern (173 bp):
TGATTTCTTACAAAGAAAATATATACACAGATTGAACAGAAATTATTCTGTTATGAAAATTGCCC
AAGAAACAACAAAGATAAAACCAAAAGAAATCAAGCAAACAAAAAAACACAAGAATTTACTCTGC
CTCTTGTCTATGTCCACGAAGTGAAACTATTCTTATATTATTG
Found at i:7662730 original size:63 final size:63
Alignment explanation
Indices: 7662631--7662762 Score: 255
Period size: 63 Copynumber: 2.1 Consensus size: 63
7662621 CTGCCTCTTG
7662631 TCTATGTCCACGAAGTGAAACTATTCTTATATTATTGAGAAATTAAAGTACAATAAATTGACT
1 TCTATGTCCACGAAGTGAAACTATTCTTATATTATTGAGAAATTAAAGTACAATAAATTGACT
*
7662694 TCTATGTCCACGAAGTGAAACTATTTTTATATTATTGAGAAATTAAAGTACAATAAATTGACT
1 TCTATGTCCACGAAGTGAAACTATTCTTATATTATTGAGAAATTAAAGTACAATAAATTGACT
7662757 TCTATG
1 TCTATG
7662763 GCTCACCAAA
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
63 68 1.00
ACGTcount: A:0.39, C:0.12, G:0.13, T:0.36
Consensus pattern (63 bp):
TCTATGTCCACGAAGTGAAACTATTCTTATATTATTGAGAAATTAAAGTACAATAAATTGACT
Found at i:7670840 original size:2 final size:2
Alignment explanation
Indices: 7670833--7670860 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
7670823 TAAGTATTCG
7670833 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
7670861 TTAGCTACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7686228 original size:5 final size:5
Alignment explanation
Indices: 7686220--7686247 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
7686210 GATATATAAT
7686220 ATATA ATATA ATATA ATATA ATATA ATA
1 ATATA ATATA ATATA ATATA ATATA ATA
7686248 ATATATTACA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (5 bp):
ATATA
Found at i:7686253 original size:15 final size:15
Alignment explanation
Indices: 7686211--7686253 Score: 63
Period size: 15 Copynumber: 2.9 Consensus size: 15
7686201 ATGGTCATGG
7686211 ATAT-ATAATATATA
1 ATATAATAATATATA
7686225 ATATAAT-ATAATATA
1 ATATAATAAT-ATATA
7686240 ATATAATAATATAT
1 ATATAATAATATAT
7686254 TACACGTGCG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 6 0.23
15 18 0.69
16 2 0.08
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (15 bp):
ATATAATAATATATA
Found at i:7695398 original size:19 final size:20
Alignment explanation
Indices: 7695370--7695407 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7695360 TCTTTTACAT
7695370 CAACAACAAGAAG-AACAAA
1 CAACAACAAGAAGTAACAAA
*
7695389 CAACAGCAAGAAGTAACAA
1 CAACAACAAGAAGTAACAA
7695408 GCATGTCTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.21, G:0.13, T:0.03
Consensus pattern (20 bp):
CAACAACAAGAAGTAACAAA
Found at i:7705021 original size:2 final size:2
Alignment explanation
Indices: 7705014--7705047 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7705004 NNNNNNNNNN
7705014 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
7705048 GATGGAGTCT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7710574 original size:109 final size:109
Alignment explanation
Indices: 7710382--7710591 Score: 366
Period size: 109 Copynumber: 1.9 Consensus size: 109
7710372 TCTTAAACTC
*
7710382 ACAATCCACATACACCTAAATCACTCTATCTAAATCTAGGCTTTCTTTATTCTTTAACCCCATAG
1 ACAATCCACATACACCCAAATCACTCTATCTAAATCTAGGCTTTCTTTATTCTTTAACCCCATAG
7710447 GATCAGTTTATAACTCCAAGTACAATAATCGTATCTTAATCCTA
66 GATCAGTTTATAACTCCAAGTACAATAATCGTATCTTAATCCTA
* *
7710491 ACAATCCGCATACACCCAAATCACTCTATCTAAATCTAGGCTTTCTTTATTCTTTAACCCCATCG
1 ACAATCCACATACACCCAAATCACTCTATCTAAATCTAGGCTTTCTTTATTCTTTAACCCCATAG
* * *
7710556 GATCATTTTATAAGTCCAAGTACAATAATCTTATCT
66 GATCAGTTTATAACTCCAAGTACAATAATCGTATCT
7710592 AACACAATTA
Statistics
Matches: 95, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
109 95 1.00
ACGTcount: A:0.33, C:0.26, G:0.07, T:0.34
Consensus pattern (109 bp):
ACAATCCACATACACCCAAATCACTCTATCTAAATCTAGGCTTTCTTTATTCTTTAACCCCATAG
GATCAGTTTATAACTCCAAGTACAATAATCGTATCTTAATCCTA
Found at i:7713486 original size:16 final size:17
Alignment explanation
Indices: 7713457--7713498 Score: 59
Period size: 16 Copynumber: 2.5 Consensus size: 17
7713447 GATTTTGGTT
7713457 ATAATAATTATTTATAA
1 ATAATAATTATTTATAA
*
7713474 ATAA-AATTTTTTATAA
1 ATAATAATTATTTATAA
*
7713490 AAAATAATT
1 ATAATAATT
7713499 TATAGGATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 14 0.64
17 8 0.36
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
ATAATAATTATTTATAA
Found at i:7713493 original size:14 final size:16
Alignment explanation
Indices: 7713457--7713502 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 16
7713447 GATTTTGGTT
7713457 ATAATAATTATTTATAA
1 ATAA-AATTATTTATAA
*
7713474 ATAAAATTTTTTAT-A
1 ATAAAATTATTTATAA
*
7713489 A-AAAATAATTTATA
1 ATAAAATTATTTATA
7713503 GGATTACTTC
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 10 0.40
15 2 0.08
16 9 0.36
17 4 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAAAATTATTTATAA
Found at i:7713923 original size:19 final size:18
Alignment explanation
Indices: 7713885--7713929 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
7713875 TACTAAAAGT
7713885 AAAATAATAAAACAAGAA
1 AAAATAATAAAACAAGAA
* *
7713903 AAAATATATAAACCAA-TA
1 AAAATA-ATAAAACAAGAA
7713921 AAAATAATA
1 AAAATAATA
7713930 CAAAATATCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 3 0.12
18 13 0.54
19 8 0.33
ACGTcount: A:0.73, C:0.07, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAATAATAAAACAAGAA
Found at i:7714652 original size:9 final size:9
Alignment explanation
Indices: 7714615--7714683 Score: 51
Period size: 9 Copynumber: 8.3 Consensus size: 9
7714605 TTTATTTCAG
7714615 ATTTTT-TT
1 ATTTTTATT
7714623 A-TTTTATT
1 ATTTTTATT
* * *
7714631 GTCTTTCTT
1 ATTTTTATT
7714640 ATTTTTATT
1 ATTTTTATT
7714649 ATTTTT-TT
1 ATTTTTATT
*
7714657 AATTTTA-T
1 ATTTTTATT
*
7714665 -TTTAT-TT
1 ATTTTTATT
7714672 ATTTTTATT
1 ATTTTTATT
7714681 ATT
1 ATT
7714684 AAGATAATCT
Statistics
Matches: 45, Mismatches: 10, Indels: 11
0.68 0.15 0.17
Matches are distributed among these distances:
7 8 0.18
8 15 0.33
9 22 0.49
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (9 bp):
ATTTTTATT
Found at i:7714662 original size:35 final size:31
Alignment explanation
Indices: 7714615--7714683 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 31
7714605 TTTATTTCAG
*
7714615 ATTTTTTTATTTTATTGTCTTTCTTATTTTTATT
1 ATTTTTTTATTTTATT-T-TAT-TTATTTTTATT
7714649 ATTTTTTTAATTTTATTTTATTTATTTTTATT
1 ATTTTTTT-ATTTTATTTTATTTATTTTTATT
7714681 ATT
1 ATT
7714684 AAGATAATCT
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
32 14 0.42
33 2 0.06
34 9 0.27
35 8 0.24
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.77
Consensus pattern (31 bp):
ATTTTTTTATTTTATTTTATTTATTTTTATT
Found at i:7714666 original size:14 final size:15
Alignment explanation
Indices: 7714647--7714680 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7714637 CTTATTTTTA
7714647 TTATTTT-TTTAATT
1 TTATTTTATTTAATT
*
7714661 TTATTTTATTTATTT
1 TTATTTTATTTAATT
7714676 TTATT
1 TTATT
7714681 ATTAAGATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.39
15 11 0.61
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (15 bp):
TTATTTTATTTAATT
Found at i:7714684 original size:35 final size:34
Alignment explanation
Indices: 7714615--7714684 Score: 88
Period size: 35 Copynumber: 2.0 Consensus size: 34
7714605 TTTATTTCAG
* *
7714615 ATTTTTTTATTTTATTGTCTTTCTTATTTTTATT
1 ATTTTTTTATTTTATTGTATTTATTATTTTTATT
*
7714649 ATTTTTTTAATTTTATTTTATTTATT-TTTATTATT
1 ATTTTTTT-ATTTTATTGTATTTATTATTT-TTATT
7714684 A
1 A
7714685 AGATAATCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
34 11 0.35
35 20 0.65
ACGTcount: A:0.20, C:0.03, G:0.01, T:0.76
Consensus pattern (34 bp):
ATTTTTTTATTTTATTGTATTTATTATTTTTATT
Found at i:7721383 original size:80 final size:80
Alignment explanation
Indices: 7721249--7721656 Score: 575
Period size: 80 Copynumber: 5.1 Consensus size: 80
7721239 TAAAAGGGAA
* * *
7721249 AAAGATGCATAACCGAAGTAGCTAATTAACCCAACTCCACAAGTTTTTTATGGTACGAATTGGAG
1 AAAGATGCATAACCGAAGTAGCTAATTAACCTAGCTCCACAAATTTTTTATGGTACGAATTGGAG
7721314 GTACACATGACAAAG
66 GTACACATGACAAAG
* * * *
7721329 AAAGATGCATAACTGAAGTAGCTCATTAACCTAGC-CTCACAAATTTTTTGTGGTACAAATTGGA
1 AAAGATGCATAACCGAAGTAGCTAATTAACCTAGCTC-CACAAATTTTTTATGGTACGAATTGGA
*
7721393 GGCACACATGACAAAG
65 GGTACACATGACAAAG
* * * * * *
7721409 AAAGTTGAATAACTGAAGTAGCTAATTAACCTAGCTCTACAAATTTTGTATGGTAGGAATTGGAG
1 AAAGATGCATAACCGAAGTAGCTAATTAACCTAGCTCCACAAATTTTTTATGGTACGAATTGGAG
7721474 GTACACATGACAAAG
66 GTACACATGACAAAG
* * * *
7721489 AAAGATGCATTACCGAAGTAGCTCATTAACCTAGCTCCACAAATTTTTTGTGGTACGAATTGGAA
1 AAAGATGCATAACCGAAGTAGCTAATTAACCTAGCTCCACAAATTTTTTATGGTACGAATTGGAG
*
7721554 GTATACATGACAAAG
66 GTACACATGACAAAG
* * * * * *
7721569 AAAGATGCATAACCCAGGTAGCTAATTAACCTAACTCCTCAAATTTTTTATAGTATGAATTGGAG
1 AAAGATGCATAACCGAAGTAGCTAATTAACCTAGCTCCACAAATTTTTTATGGTACGAATTGGAG
7721634 GTACACATGACAAAG
66 GTACACATGACAAAG
7721649 AAAGATGC
1 AAAGATGC
7721657 CTCACCTCTC
Statistics
Matches: 287, Mismatches: 39, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
79 1 0.00
80 285 0.99
81 1 0.00
ACGTcount: A:0.38, C:0.17, G:0.19, T:0.26
Consensus pattern (80 bp):
AAAGATGCATAACCGAAGTAGCTAATTAACCTAGCTCCACAAATTTTTTATGGTACGAATTGGAG
GTACACATGACAAAG
Found at i:7731009 original size:1 final size:1
Alignment explanation
Indices: 7730998--7731731 Score: 1135
Period size: 1 Copynumber: 734.0 Consensus size: 1
7730988 TCTCCATCTT
* * * *
7730998 CCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTCTCCCCCCCTCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
*
7731063 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
***** * * *
7731128 CCCCCCCCCCCCCCCCCCCCCCCCCTAGTTCCCCCCCCCCCCCCCCCCTCACCCCCCCCTCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * * * * *
7731193 CCCGCCCTCCCCCCCCCCCCCACCCCCCCCCCCCCCCCCCCCCCCCCCCCCGCCCGCCCCCCCCT
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * *
7731258 CCCCCCCCCCCCCCCCCCCCCCCCCCCGCCCCCCCCCCTCCCTCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * *
7731323 CCCCCCCCCCGCCCCCACCCCCCCCCCTCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* *** *
7731388 CCCCCCCCGCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCAAACCCCCCCCCCCCCTCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
7731453 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* * *
7731518 CCCCCCCCCCCCCCCCGCCCCCCCCCCCCCCCCCCCCACCCCCCCCCACCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
* *
7731583 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCTCCCTCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
*
7731648 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCGCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
*
7731713 CCCCCCTCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCC
7731732 AAATTTTTTT
Statistics
Matches: 668, Mismatches: 65, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
1 668 1.00
ACGTcount: A:0.01, C:0.95, G:0.01, T:0.03
Consensus pattern (1 bp):
C
Found at i:7733099 original size:33 final size:33
Alignment explanation
Indices: 7733057--7733123 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
7733047 CTATAAAGAG
7733057 TATGTACATTATTTTCCGCATAAAACATTTCCT
1 TATGTACATTATTTTCCGCATAAAACATTTCCT
*
7733090 TATGTACATTATTTTCCGCATAACACATTTCCT
1 TATGTACATTATTTTCCGCATAAAACATTTCCT
7733123 T
1 T
7733124 CTTACAGGAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.28, C:0.22, G:0.06, T:0.43
Consensus pattern (33 bp):
TATGTACATTATTTTCCGCATAAAACATTTCCT
Found at i:7737291 original size:27 final size:27
Alignment explanation
Indices: 7737233--7737291 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 27
7737223 AATTTTACAT
* * *
7737233 TAAAATTAGAAATTTATTTAATTAAAA
1 TAAATTTAAAAATTTATTTAAATAAAA
* *
7737260 AAAATTTAAAAATTTATTTAAATATAA
1 TAAATTTAAAAATTTATTTAAATAAAA
7737287 TAAAT
1 TAAAT
7737292 CATGAAATAG
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.41
Consensus pattern (27 bp):
TAAATTTAAAAATTTATTTAAATAAAA
Found at i:7738369 original size:17 final size:16
Alignment explanation
Indices: 7738336--7738369 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
7738326 TAATAATTTT
7738336 TAAAATTAATAAATAA
1 TAAAATTAATAAATAA
*
7738352 TAAAATTATATTAATAA
1 TAAAATTA-ATAAATAA
7738369 T
1 T
7738370 TAGATTTACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TAAAATTAATAAATAA
Found at i:7739217 original size:12 final size:13
Alignment explanation
Indices: 7739196--7739229 Score: 52
Period size: 12 Copynumber: 2.7 Consensus size: 13
7739186 CATCTTATCC
7739196 AAAAACCAAAAAG
1 AAAAACCAAAAAG
7739209 AAAAA-CAAAAAG
1 AAAAACCAAAAAG
*
7739221 AAAATCCAA
1 AAAAACCAA
7739230 GCACTGTGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.76, C:0.15, G:0.06, T:0.03
Consensus pattern (13 bp):
AAAAACCAAAAAG
Found at i:7739609 original size:23 final size:24
Alignment explanation
Indices: 7739569--7739622 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
7739559 TTCAAAACGT
7739569 ATAAAAATAGATAATTTTATTTA-A
1 ATAAAAATAGATAATTTT-TTTACA
* *
7739593 TTAAAAATA-ATATTTTTTTTACA
1 ATAAAAATAGATAATTTTTTTACA
7739616 ATAAAAA
1 ATAAAAA
7739623 CTTTATAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 4 0.15
23 14 0.54
24 8 0.31
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (24 bp):
ATAAAAATAGATAATTTTTTTACA
Found at i:7755731 original size:174 final size:175
Alignment explanation
Indices: 7755441--7755964 Score: 1007
Period size: 174 Copynumber: 3.0 Consensus size: 175
7755431 ATGGAAAGGG
7755441 TATACGTGTATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
1 TATACGTGTATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
7755506 AAAGAAGCGAGTATTCCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
66 AAAGAAGCGAGTATTCCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
7755571 TGGCAA-TCGCTCTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
131 TGGCAAGTCGCTCTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
*
7755615 TATACGTATATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
1 TATACGTGTATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
*
7755680 AAAGAAGCGAGTATTTCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
66 AAAGAAGCGAGTATTCCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
7755745 TGGCAAGTCGCTCTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
131 TGGCAAGTCGCTCTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
7755790 TATACGTGTATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
1 TATACGTGTATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
7755855 -AAGAAGCGAGTATTCCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
66 AAAGAAGCGAGTATTCCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
*
7755919 TGGCAAGTCGCTTTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
131 TGGCAAGTCGCTCTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
7755964 T
1 T
7755965 TCCCCTAAAT
Statistics
Matches: 344, Mismatches: 5, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
174 242 0.70
175 102 0.30
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (175 bp):
TATACGTGTATTTGCCAGCCTCATGGAATAAAAGCCAAACATTGCTATTTAGGAAGTTTGTTTTC
AAAGAAGCGAGTATTCCACTAATGATGATTGCATTTTGAACGAAGCAATGCATGTTCACCATTGA
TGGCAAGTCGCTCTGGTGCAAGAAGTTTGAGCTCGTGAAGACACA
Found at i:7757805 original size:12 final size:15
Alignment explanation
Indices: 7757773--7757804 Score: 50
Period size: 13 Copynumber: 2.3 Consensus size: 15
7757763 ATCGTTATTT
7757773 TAAAACATATATAAA
1 TAAAACATATATAAA
7757788 TAAAAC-TATA-AAA
1 TAAAACATATATAAA
7757801 TAAA
1 TAAA
7757805 CATTAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 4 0.24
15 6 0.35
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (15 bp):
TAAAACATATATAAA
Found at i:7758011 original size:18 final size:17
Alignment explanation
Indices: 7757974--7758045 Score: 60
Period size: 17 Copynumber: 4.2 Consensus size: 17
7757964 AGAAAGCTCT
* *
7757974 TAAAAAATAA-AGAGAA
1 TAAAAAATAATAAATAA
*
7757990 TAAAAAATGAATAAATAG
1 TAAAAAAT-AATAAATAA
*
7758008 TAAATAATAA-ATAATAA
1 TAAAAAATAATA-AATAA
7758025 TAAAATAATAAT-AATAA
1 TAAAA-AATAATAAATAA
7758042 TAAA
1 TAAA
7758046 TGTAAACAAG
Statistics
Matches: 45, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 9 0.20
17 21 0.47
18 15 0.33
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (17 bp):
TAAAAAATAATAAATAA
Found at i:7758013 original size:7 final size:7
Alignment explanation
Indices: 7757988--7758046 Score: 59
Period size: 7 Copynumber: 8.4 Consensus size: 7
7757978 AAATAAAGAG
*
7757988 AATAAAA
1 AATAATA
7757995 AATGAATA
1 AAT-AATA
*
7758003 AATAGTA
1 AATAATA
7758010 AATAATA
1 AATAATA
7758017 AATAAT-
1 AATAATA
*
7758023 AATAAAA
1 AATAATA
7758030 TAATAAT-
1 -AATAATA
7758037 AATAATA
1 AATAATA
7758044 AAT
1 AAT
7758047 GTAAACAAGG
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
6 11 0.26
7 21 0.49
8 11 0.26
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.27
Consensus pattern (7 bp):
AATAATA
Found at i:7758023 original size:3 final size:3
Alignment explanation
Indices: 7758010--7758044 Score: 54
Period size: 3 Copynumber: 11.7 Consensus size: 3
7758000 ATAAATAGTA
7758010 AAT AAT AAAT AAT AAT AA- AAT AAT AAT AAT AAT AA
1 AAT AAT -AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
7758045 ATGTAAACAA
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 25 0.83
4 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
AAT
Found at i:7774027 original size:6 final size:6
Alignment explanation
Indices: 7774018--7774050 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
7774008 GGGGGGCGCC
7774018 AAGAGA AAGAGA AAGAGA AA-AGA AAGA-A AAGAG
1 AAGAGA AAGAGA AAGAGA AAGAGA AAGAGA AAGAG
7774051 TGACGAAACA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.40
6 15 0.60
ACGTcount: A:0.70, C:0.00, G:0.30, T:0.00
Consensus pattern (6 bp):
AAGAGA
Found at i:7774186 original size:27 final size:27
Alignment explanation
Indices: 7774156--7774207 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
7774146 GGATTTAGGC
7774156 AGGGAGATTGGTGCTAGAGAGAGAAGG
1 AGGGAGATTGGTGCTAGAGAGAGAAGG
7774183 AGGGAGATTGGTGCTAGAGAGAGAA
1 AGGGAGATTGGTGCTAGAGAGAGAA
7774208 AATGAAGGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.35, C:0.04, G:0.46, T:0.15
Consensus pattern (27 bp):
AGGGAGATTGGTGCTAGAGAGAGAAGG
Found at i:7781080 original size:2 final size:2
Alignment explanation
Indices: 7781075--7781099 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7781065 TATATATATA
7781075 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
7781100 TACATGCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:7806847 original size:17 final size:17
Alignment explanation
Indices: 7806825--7806862 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
7806815 AATTGACCTA
*
7806825 TCTAGAATCCAAATATC
1 TCTAGAATCCAAACATC
7806842 TCTAGAATCCAAACATC
1 TCTAGAATCCAAACATC
7806859 TCTA
1 TCTA
7806863 TCATCACCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (17 bp):
TCTAGAATCCAAACATC
Found at i:7809374 original size:15 final size:15
Alignment explanation
Indices: 7809354--7809384 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7809344 AAAACATAAC
7809354 TTGATTCATTTACAT
1 TTGATTCATTTACAT
7809369 TTGATTCATTTACAT
1 TTGATTCATTTACAT
7809384 T
1 T
7809385 CTCACGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.26, C:0.13, G:0.06, T:0.55
Consensus pattern (15 bp):
TTGATTCATTTACAT
Found at i:7820558 original size:31 final size:31
Alignment explanation
Indices: 7820504--7820566 Score: 83
Period size: 31 Copynumber: 2.0 Consensus size: 31
7820494 TGAGTTTTGG
*
7820504 TATTTTTTATTTTGAATCTAATAAATTTTTA
1 TATTTTTTATTTTGAATCTAATAAATATTTA
* *
7820535 TATTTTTTATTTTTAGT-TAAATAAATATTTA
1 TATTTTTTATTTTGAATCT-AATAAATATTTA
7820566 T
1 T
7820567 GATTAATAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 1 0.04
31 27 0.96
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (31 bp):
TATTTTTTATTTTGAATCTAATAAATATTTA
Found at i:7823591 original size:2 final size:2
Alignment explanation
Indices: 7823586--7823615 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
7823576 TGTGTGTGTG
7823586 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
7823616 GAGAGAGAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7823620 original size:2 final size:2
Alignment explanation
Indices: 7823615--7823665 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
7823605 ATATATATAT
7823615 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
7823657 AG AG AG AG A
1 AG AG AG AG A
7823666 TCATGGCAGG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:7826815 original size:223 final size:225
Alignment explanation
Indices: 7826425--7826873 Score: 776
Period size: 223 Copynumber: 2.0 Consensus size: 225
7826415 ATTTAACCTA
*
7826425 TAAATTATTTATTTCGAGAAAGGTGCACATGAAAATCTTTTGTTACTCTGGGGTACATTTTCTTA
1 TAAATTATTTATTTCGAGAAAGGTGCACATGAAAATCTTTTGTTACTCTAGGGTACATTTTCTTA
** *
7826490 AATATCATAGGGTTTCACTCTAATTCATAATCAATTGAATGGGTTGGTCATGCATTTCAACAAAT
66 AATATCATAGGGTTTCACTCTAATTCATAATCAATTGAATGGGTTGGTCACACATTTCAACAAAG
* *
7826555 GGGCTAGCTGATTAGGCAAGACTGGTGTTTATATGTTCTATCTGGGGAAATTCTACTTCTACAAA
131 GGGCTAGCTGATTAGGCAAGACTGGTGTTTATATGTTCTATCTGAGGAAATTCTACCTCTACAAA
7826620 TTAAAAATTTCGGTACATATTGGATAATGC
196 TTAAAAATTTCGGTACATATTGGATAATGC
* * * *
7826650 TAAATTATTTATTTTGAGAGAGGTGCACGTGAAAATCTTTTGTTATTCTAGGGTACATTTTCTT-
1 TAAATTATTTATTTCGAGAAAGGTGCACATGAAAATCTTTTGTTACTCTAGGGTACATTTTCTTA
7826714 AA-ATCATAGGGTTTCACTCTAATTCATAATCAATTGAATGGGTTGGTCACACATTTCAACAAAG
66 AATATCATAGGGTTTCACTCTAATTCATAATCAATTGAATGGGTTGGTCACACATTTCAACAAAG
*
7826778 GGGCTAGCTGATTAGGCAAGACTGGTGTTTATATGTTCTATGTGAGGAAATTCTACCTCTACAAA
131 GGGCTAGCTGATTAGGCAAGACTGGTGTTTATATGTTCTATCTGAGGAAATTCTACCTCTACAAA
*
7826843 TTAAAAATTTTGGTACATATTGGATAATGC
196 TTAAAAATTTCGGTACATATTGGATAATGC
7826873 T
1 T
7826874 TGTGACGTAT
Statistics
Matches: 212, Mismatches: 12, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
223 151 0.71
224 2 0.01
225 59 0.28
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (225 bp):
TAAATTATTTATTTCGAGAAAGGTGCACATGAAAATCTTTTGTTACTCTAGGGTACATTTTCTTA
AATATCATAGGGTTTCACTCTAATTCATAATCAATTGAATGGGTTGGTCACACATTTCAACAAAG
GGGCTAGCTGATTAGGCAAGACTGGTGTTTATATGTTCTATCTGAGGAAATTCTACCTCTACAAA
TTAAAAATTTCGGTACATATTGGATAATGC
Found at i:7840512 original size:2 final size:2
Alignment explanation
Indices: 7840472--7840504 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
7840462 GTGACAGATA
7840472 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7840505 GGTATATACT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7845413 original size:5 final size:5
Alignment explanation
Indices: 7845403--7845429 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
7845393 AGGGATTTTA
7845403 CTTTC CTTTC CTTTC CTTTC CTTTC CT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CT
7845430 CCTTCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (5 bp):
CTTTC
Found at i:7866049 original size:60 final size:59
Alignment explanation
Indices: 7865932--7866055 Score: 133
Period size: 60 Copynumber: 2.1 Consensus size: 59
7865922 ATCAATGTAT
* * * **
7865932 TATTATACATCATGATGACGAGGTATCATATGAATGATAGCAAGATGTTTTGGAAAAATA
1 TATTATACATCATGATGACGAGGTAT-ATATGAATAATAGCAAAATCTTTTAAAAAAATA
* * * *
7865992 TATTATACATCATGATGACGAGGTGT-TATGCAAATAATTGTAAAATCTTTTAAAAAAATT
1 TATTATACATCATGATGACGAGGTATATATG--AATAATAGCAAAATCTTTTAAAAAAATA
7866052 TATT
1 TATT
7866056 TTAAAAATAA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
58 4 0.08
60 49 0.92
ACGTcount: A:0.40, C:0.08, G:0.16, T:0.35
Consensus pattern (59 bp):
TATTATACATCATGATGACGAGGTATATATGAATAATAGCAAAATCTTTTAAAAAAATA
Found at i:7881652 original size:14 final size:15
Alignment explanation
Indices: 7881626--7881654 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7881616 CCCAATCAAT
7881626 CTCCTCGTCTTCCTC
1 CTCCTCGTCTTCCTC
7881641 CTCCTC-TCTTCCTC
1 CTCCTCGTCTTCCTC
7881655 TCATCATCTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.00, C:0.55, G:0.03, T:0.41
Consensus pattern (15 bp):
CTCCTCGTCTTCCTC
Found at i:7884247 original size:33 final size:32
Alignment explanation
Indices: 7884206--7884291 Score: 102
Period size: 33 Copynumber: 2.6 Consensus size: 32
7884196 TTTTAATGTC
*
7884206 ATATATTTTATTTTCATTTC-TTATTATAATCTT
1 ATATATTTTATTTT-ATTTCTTTAATATAAT-TT
7884239 ATATATTTTATTTTTATTTCTTTAATATAATTT
1 ATATATTTTA-TTTTATTTCTTTAATATAATTT
*
7884272 TTATATTATATATTTTATTT
1 ATATATT-T-TATTTTATTT
7884292 TAATTTCTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 7
0.84 0.04 0.12
Matches are distributed among these distances:
33 23 0.49
34 22 0.47
35 2 0.04
ACGTcount: A:0.29, C:0.05, G:0.00, T:0.66
Consensus pattern (32 bp):
ATATATTTTATTTTATTTCTTTAATATAATTT
Found at i:7890681 original size:2 final size:2
Alignment explanation
Indices: 7890674--7890704 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7890664 TGTGGTGAAC
7890674 TA TA 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 TA TA T
7890705 TCATGAACAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7891673 original size:14 final size:15
Alignment explanation
Indices: 7891651--7891684 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
7891641 TTATATCACC
*
7891651 TATGACATATATACA
1 TATGACATATACACA
7891666 TATG-CATATACACA
1 TATGACATATACACA
7891680 TATGA
1 TATGA
7891685 AGGTATGAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
14 13 0.76
15 4 0.24
ACGTcount: A:0.44, C:0.15, G:0.09, T:0.32
Consensus pattern (15 bp):
TATGACATATACACA
Found at i:7892074 original size:3 final size:3
Alignment explanation
Indices: 7892066--7892090 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
7892056 ACAATCAGCA
7892066 TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT T
7892091 TCATAAATGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:7892450 original size:18 final size:18
Alignment explanation
Indices: 7892400--7892461 Score: 74
Period size: 18 Copynumber: 3.4 Consensus size: 18
7892390 TGCTGCTCGT
7892400 TTCTTCTTCTTC-TGCTTC
1 TTCTTCTTCTTCTTGC-TC
7892418 TTCTTCTTCTTCTTGAC-C
1 TTCTTCTTCTTCTTG-CTC
*
7892436 TTCTTCTTCTTCTTGGTC
1 TTCTTCTTCTTCTTGCTC
*
7892454 GTCTTCTT
1 TTCTTCTT
7892462 GCTGTTGGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
18 36 0.92
19 2 0.05
20 1 0.03
ACGTcount: A:0.02, C:0.31, G:0.08, T:0.60
Consensus pattern (18 bp):
TTCTTCTTCTTCTTGCTC
Found at i:7892461 original size:3 final size:3
Alignment explanation
Indices: 7892400--7892449 Score: 64
Period size: 3 Copynumber: 16.7 Consensus size: 3
7892390 TGCTGCTCGT
* * **
7892400 TTC TTC TTC TTC TGC TTC TTC TTC TTC TTC TTG ACC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
7892448 TT
1 TT
7892450 GGTCGTCTTC
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.02, C:0.32, G:0.04, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:7897453 original size:27 final size:27
Alignment explanation
Indices: 7897419--7897475 Score: 87
Period size: 27 Copynumber: 2.1 Consensus size: 27
7897409 GTTAACATTT
7897419 GCTATTTCATGTACTTATACCTTTTTG
1 GCTATTTCATGTACTTATACCTTTTTG
* * *
7897446 GCTATTTCATTTACTTGTACTTTTTTG
1 GCTATTTCATGTACTTATACCTTTTTG
7897473 GCT
1 GCT
7897476 TTGTGATTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.18, G:0.12, T:0.54
Consensus pattern (27 bp):
GCTATTTCATGTACTTATACCTTTTTG
Found at i:7899875 original size:2 final size:2
Alignment explanation
Indices: 7899868--7899896 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
7899858 TGTTCTTTTC
7899868 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
7899897 AAGAGGGGTG
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:7904898 original size:27 final size:28
Alignment explanation
Indices: 7904865--7904917 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
7904855 ATTACTGATT
**
7904865 CAATCAACTCAAATAAAT-AAATAAATG
1 CAATCAAAGCAAATAAATCAAATAAATG
*
7904892 CAATCAAAGCAAATTAATCAAATAAA
1 CAATCAAAGCAAATAAATCAAATAAA
7904918 GGAATTTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 15 0.68
28 7 0.32
ACGTcount: A:0.60, C:0.15, G:0.04, T:0.21
Consensus pattern (28 bp):
CAATCAAAGCAAATAAATCAAATAAATG
Found at i:7905357 original size:21 final size:21
Alignment explanation
Indices: 7905329--7905382 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
7905319 GTCACATGAA
7905329 AATT-GTTTTAATAAAAAAAT
1 AATTAGTTTTAATAAAAAAAT
***
7905349 AATTAGTTTTAATTTTAAAAT
1 AATTAGTTTTAATAAAAAAAT
7905370 AATTAGTTTTAAT
1 AATTAGTTTTAAT
7905383 TTTAATTAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 4 0.13
21 26 0.87
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.48
Consensus pattern (21 bp):
AATTAGTTTTAATAAAAAAAT
Found at i:7905383 original size:21 final size:21
Alignment explanation
Indices: 7905344--7905387 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
7905334 TTTTAATAAA
7905344 AAAATAATTAGTTTTAATTTT
1 AAAATAATTAGTTTTAATTTT
7905365 AAAATAATTAGTTTTAATTTT
1 AAAATAATTAGTTTTAATTTT
7905386 AA
1 AA
7905388 TTAAAAATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (21 bp):
AAAATAATTAGTTTTAATTTT
Found at i:7906268 original size:2 final size:2
Alignment explanation
Indices: 7906261--7906302 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
7906251 AAATAGAAGC
7906261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
7906303 GATGCAGGCC
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:7909387 original size:80 final size:80
Alignment explanation
Indices: 7909249--7909404 Score: 188
Period size: 80 Copynumber: 1.9 Consensus size: 80
7909239 GCTCAGAACA
* * * * *
7909249 CCCTTGGGCATTTTCAATGCTTGGAACACCTCTAGGCACTTCTACACTTAAAATACCCTAGGCCC
1 CCCTTGGACATTTTCAA-GCTTGGAACACCTCTAGGCACTACTACACTTAAAACACCCTAAGCAC
*
7909314 TTCCATGCTTGGAATG
65 TTCCACGCTTGGAATG
** ** *
7909330 CCCTTGGACATTTTCACA-CTTGGAATGCCTCTAGGCACTACTATGCTTAGAACACCCTAAGCAC
1 CCCTTGGACATTTTCA-AGCTTGGAACACCTCTAGGCACTACTACACTTAAAACACCCTAAGCAC
7909394 TTCCACGCTTG
65 TTCCACGCTTG
7909405 AAACATCCTT
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
80 47 0.75
81 15 0.24
82 1 0.02
ACGTcount: A:0.24, C:0.31, G:0.17, T:0.29
Consensus pattern (80 bp):
CCCTTGGACATTTTCAAGCTTGGAACACCTCTAGGCACTACTACACTTAAAACACCCTAAGCACT
TCCACGCTTGGAATG
Found at i:7909449 original size:26 final size:26
Alignment explanation
Indices: 7909420--7909480 Score: 63
Period size: 26 Copynumber: 2.3 Consensus size: 26
7909410 TCCTTTGAAA
*
7909420 TTTTCATACTC-GAAACACCT-TAAGCG
1 TTTTCACACTCAG-AACACCTCTAA-CG
*
7909446 TTTTTACACTCAGAACACCTCTAACG
1 TTTTCACACTCAGAACACCTCTAACG
*
7909472 TTTTTACAC
1 TTTTCACAC
7909481 CCTAGACGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
26 27 0.87
27 4 0.13
ACGTcount: A:0.30, C:0.28, G:0.08, T:0.34
Consensus pattern (26 bp):
TTTTCACACTCAGAACACCTCTAACG
Found at i:7912556 original size:2 final size:2
Alignment explanation
Indices: 7912549--7912581 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7912539 TCCATCCATT
7912549 TA TA TA 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 TA TA TA T
7912582 TATTATTATT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:7913221 original size:17 final size:17
Alignment explanation
Indices: 7913191--7913241 Score: 59
Period size: 17 Copynumber: 2.9 Consensus size: 17
7913181 ACTATATTAT
*
7913191 ATATATACTAATACTTTTA
1 ATATATA-T-ATACTTTAA
7913210 ATATATATATACTTTAA
1 ATATATATATACTTTAA
*
7913227 ATATAAATATA-TTTA
1 ATATATATATACTTTA
7913242 CATTCTATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
16 4 0.13
17 18 0.60
18 1 0.03
19 7 0.23
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATATATACTTTAA
Found at i:7943690 original size:22 final size:23
Alignment explanation
Indices: 7943656--7943702 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 23
7943646 GTAATTATAT
*
7943656 AAATAAAGTTTAT-TATAAATTA
1 AAATAAAGCTTATGTATAAATTA
*
7943678 AAATAATGCTTATGTATAAATTA
1 AAATAAAGCTTATGTATAAATTA
7943701 AA
1 AA
7943703 TATATGTATA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.53, C:0.02, G:0.06, T:0.38
Consensus pattern (23 bp):
AAATAAAGCTTATGTATAAATTA
Found at i:7943718 original size:23 final size:23
Alignment explanation
Indices: 7943656--7943718 Score: 60
Period size: 23 Copynumber: 2.8 Consensus size: 23
7943646 GTAATTATAT
* *
7943656 AAATAAAGTTTAT-TATAAATTA
1 AAATAATGCTTATATATAAATTA
*
7943678 AAATAATGCTTATGTATAAATT-
1 AAATAATGCTTATATATAAATTA
7943700 AAATATATG-TATATATATA
1 AAATA-ATGCT-TATATATA
7943719 TATATATGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
22 17 0.49
23 18 0.51
ACGTcount: A:0.51, C:0.02, G:0.06, T:0.41
Consensus pattern (23 bp):
AAATAATGCTTATATATAAATTA
Found at i:7958986 original size:6 final size:6
Alignment explanation
Indices: 7958977--7959004 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
7958967 TCTACTCCTA
7958977 CTTCTG CTTCTG CTTCTG CTTCTG CTTC
1 CTTCTG CTTCTG CTTCTG CTTCTG CTTC
7959005 GCCTCCTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.36, G:0.14, T:0.50
Consensus pattern (6 bp):
CTTCTG
Found at i:7962005 original size:28 final size:27
Alignment explanation
Indices: 7961956--7962025 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
7961946 NNNNNNNNNN
* * * *
7961956 AATAAAAAATATTAACA-TAAAATATAT
1 AATAAAAAAT-TAAAAATTAAAATAAAA
*
7961983 AATATAAGAATTAAAAATTAAAATAAAA
1 AATA-AAAAATTAAAAATTAAAATAAAA
7962011 AATAAAAAATTAAAA
1 AATAAAAAATTAAAA
7962026 TTTATATAAT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
27 18 0.51
28 17 0.49
ACGTcount: A:0.71, C:0.01, G:0.01, T:0.26
Consensus pattern (27 bp):
AATAAAAAATTAAAAATTAAAATAAAA
Found at i:7962089 original size:17 final size:17
Alignment explanation
Indices: 7962057--7962094 Score: 53
Period size: 17 Copynumber: 2.3 Consensus size: 17
7962047 NNNNNNNAAT
7962057 AAAA-TATATAATATAA
1 AAAATTATATAATATAA
7962073 AAAATTATATTAA-ATAA
1 AAAATTATA-TAATATAA
7962090 AAAAT
1 AAAAT
7962095 AAAATATATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 13 0.65
18 3 0.15
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATTATATAATATAA
Found at i:7962089 original size:31 final size:32
Alignment explanation
Indices: 7962054--7962135 Score: 96
Period size: 31 Copynumber: 2.5 Consensus size: 32
7962044 NNNNNNNNNN
*
7962054 AATAAAATATATAATATAAAAAATTAT-AT-TA
1 AATAAAA-ATAAAATATAAAAAATTATAATATA
* *
7962085 AATAAAAAATAAAATATATAAATTTATAATAATA
1 AAT-AAAAATAAAATATAAAAAATTATAAT-ATA
7962119 AATAAAAATAAAATATA
1 AATAAAAATAAAATATA
7962136 TGATATTAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
31 19 0.43
32 6 0.14
33 14 0.32
34 5 0.11
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (32 bp):
AATAAAAATAAAATATAAAAAATTATAATATA
Found at i:7962094 original size:33 final size:32
Alignment explanation
Indices: 7962057--7962200 Score: 81
Period size: 30 Copynumber: 4.5 Consensus size: 32
7962047 NNNNNNNAAT
7962057 AAAATATATAATATAAAAAATTATATTAAATAA
1 AAAATATATAATATAAAAAATTATATT-AATAA
* *
7962090 AAAATA-A-AATATATAAATTTATAATAATAAATAAAAA
1 AAAATATATAATATAAAAAATTAT-AT--T-AAT---AA
* *
7962127 TAAAATATATGATATTAAAAA-TATATT--TAA
1 -AAAATATATAATATAAAAAATTATATTAATAA
* *
7962157 AAGATGATATTATAT-AAAAATTA-A-TAATAA
1 AAAAT-ATATAATATAAAAAATTATATTAATAA
7962187 AAAATATA-AATATA
1 AAAATATATAATATA
7962201 TTAAACTTAT
Statistics
Matches: 87, Mismatches: 10, Indels: 32
0.67 0.08 0.25
Matches are distributed among these distances:
28 5 0.06
29 13 0.15
30 19 0.22
31 13 0.15
32 3 0.03
33 7 0.08
34 5 0.06
36 1 0.01
37 2 0.02
38 8 0.09
39 4 0.05
40 7 0.08
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (32 bp):
AAAATATATAATATAAAAAATTATATTAATAA
Found at i:7962186 original size:70 final size:71
Alignment explanation
Indices: 7962054--7962198 Score: 168
Period size: 70 Copynumber: 2.1 Consensus size: 71
7962044 NNNNNNNNNN
* * *
7962054 AATAAAATATATAATATAAAAAATTATATTAAATAAAAAATAAAATATATAAATTTATAATAATA
1 AATAAAATATATAATATAAAAAATTATATTAAATAAAAAATAAAATATAAAAATTAATAATAAAA
7962119 AATAAA
66 AATAAA
* * * ** **
7962125 AATAAAATATATGATATTAAAAA-TATATTTAAA-AGATGATATTATATAAAAATTAATAATAAA
1 AATAAAATATATAATATAAAAAATTATA-TTAAATAAAAAATAAAATATAAAAATTAATAATAAA
*
7962188 AAATATA
65 AAATAAA
7962195 AATA
1 AATA
7962199 TATTAAACTT
Statistics
Matches: 62, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
70 36 0.58
71 26 0.42
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (71 bp):
AATAAAATATATAATATAAAAAATTATATTAAATAAAAAATAAAATATAAAAATTAATAATAAAA
AATAAA
Found at i:7962377 original size:15 final size:15
Alignment explanation
Indices: 7962354--7962395 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
7962344 ATTTTCCCTA
* *
7962354 CAATGACATTACTTG
1 CAATCACATTACCTG
7962369 CAATCACATTACCTG
1 CAATCACATTACCTG
*
7962384 TAATCACATTAC
1 CAATCACATTAC
7962396 ATTATAAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (15 bp):
CAATCACATTACCTG
Found at i:7967327 original size:2 final size:2
Alignment explanation
Indices: 7967320--7967356 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
7967310 CAATCATAAA
*
7967320 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7967357 AACAAGCTGA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:7968886 original size:35 final size:36
Alignment explanation
Indices: 7968828--7968919 Score: 150
Period size: 35 Copynumber: 2.6 Consensus size: 36
7968818 AACAACAGCA
*
7968828 CCTCCTCCTCCACCACCTTCCATAAAGAAAGCTCCT
1 CCTCCTCCTCCACCACCTCCCATAAAGAAAGCTCCT
7968864 CCTCCTCCTCC-CCACCTCCCATAAAGAAAGCTCCT
1 CCTCCTCCTCCACCACCTCCCATAAAGAAAGCTCCT
* *
7968899 CCACCTCCGCCACCACCTCCC
1 CCTCCTCCTCCACCACCTCCC
7968920 CCTCTCCTCC
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
35 32 0.62
36 20 0.38
ACGTcount: A:0.22, C:0.54, G:0.05, T:0.18
Consensus pattern (36 bp):
CCTCCTCCTCCACCACCTCCCATAAAGAAAGCTCCT
Found at i:7974575 original size:400 final size:399
Alignment explanation
Indices: 7973739--7975321 Score: 2918
Period size: 400 Copynumber: 4.0 Consensus size: 399
7973729 CAAGTGGATC
7973739 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACA-G-G-GCAGCACCCCGCTTCT
1 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
7973801 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
66 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
7973866 CACCCACCCGATT-G-CACACGTCCCCGTTGTC-GGCGCACCGCTG-C-CCGGCCACCCTGCCTA
131 CACCCACCCGATTCGACA-ACGTCCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTA
7973926 CCCCTCTCCGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTC-GGACGAGGCAACAGGTCCGCTC
195 CCCCTCTCCGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTC
7973990 TGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGC
260 TGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGC
7974055 ACCCGCTTCTTATAGCCC-GGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTC
325 ACCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTC
7974119 GTCACACCTT
390 GTCACACCTT
7974129 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
1 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
7974194 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
66 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
7974259 CACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTAC
131 CACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTAC
7974324 CCCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTC
196 CCCTCTCCGGCCTTTCCC-GACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTC
7974389 TGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGC
260 TGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGC
7974454 ACCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGT-GGAGGAGTGGACCTTTCCT
325 A-CCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCT
7974518 CGTCACACCTT
389 CGTCACACCTT
7974529 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
1 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
7974594 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
66 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
7974659 CACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCGCCGGCCACCCTGCCT
131 CACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTG-C-CGCCGGCCACCCTGCCT
7974724 ACCCCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGC
194 ACCCCTCTCCGGCCTTTCCC-GACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGC
7974789 TCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCA
258 TCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCA
7974854 GCACCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTC
323 GCA-CCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTC
7974919 CTCGTCACACCTT
387 CTCGTCACACCTT
7974932 TGTCACGGGGTCATTACCCTCTCCCATGAAAA-CGGTTATCACAGGTGTG--GCACACCCGCTTC
1 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCAC-CCCGCTTC
7974994 TTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGA-CTTTCCTCGTCACACCC
65 TTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCC
7975058 TCACCCA-CCGATTCGACAACG--CCCGTTGTCGGGCGCACCGCTGCCGCCGGCCGCCACCCTGC
130 TCACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCC-G--GCCACCCTGC
*
7975120 CTACCCCTCTTC-GCC-TTCCCGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCG
192 CTACCCCTCTCCGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCG
7975183 CTCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGC
257 CTCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGC
7975248 AGCACCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTC
322 AGCACCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTC
7975313 CTCGTCACA
387 CTCGTCACA
7975322 GATCCGCACT
Statistics
Matches: 1173, Mismatches: 1, Indels: 34
0.97 0.00 0.03
Matches are distributed among these distances:
390 44 0.04
391 1 0.00
392 1 0.00
393 94 0.08
394 85 0.07
395 130 0.11
396 8 0.01
397 60 0.05
398 44 0.04
399 102 0.09
400 250 0.21
401 81 0.07
402 211 0.18
403 62 0.05
ACGTcount: A:0.17, C:0.37, G:0.24, T:0.22
Consensus pattern (399 bp):
TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
CACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTAC
CCCTCTCCGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTCT
GATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCA
CCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCG
TCACACCTT
Found at i:7974627 original size:129 final size:130
Alignment explanation
Indices: 7973998--7975056 Score: 791
Period size: 129 Copynumber: 8.0 Consensus size: 130
7973988 TCTGATACCA
7973998 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCA-CCCGCT
1 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCT
7974062 TCTTATAGCCC-GGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACAC
66 TCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACAC
7974126 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCT
1 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCT
7974191 TCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACAC
66 TCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACA-
7974256 C
130 C
**** * ** * * * * * *** * * * *
7974257 CTCACCCACCCGATTCGA-CAACGTC-CCCGTTG----TCGG-GCGCACCGCTGCCGCCGGCCAC
1 CTTTGTCA-CGGGGTC-ATTACCCTCTCCC-ATGAAAACCGGTTATCACAGGTG-TG-CAG-CAC
* *** * * ** * * * *
7974315 CCTGC--C-TACCCCTCTCCGG-CCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCG-GGACGAGG
60 CCCGCTTCTTATAGC-C-CAGGACC-TACCC-GTTCC-TGC-C-CGATGTG-G--GAGGA-GTGG
** *
7974375 CAACAGGTCCGCTCTGAT-AC-C
114 --AC-CTTTC-CTC-G-TCACAC
7974396 ACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGC
1 -CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGC
7974461 TTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGT-GGAGGAGTGGACCTTTCCTCGTCACA
65 TTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACA
7974525 C
130 C
7974526 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCT
1 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCT
7974591 TCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACAC
66 TCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACA-
7974656 C
130 C
**** * ** * * * * * *** * * *
7974657 CTCACCCACCCGATTCGA-CAACGTC-CCCGTTG----TCGG-GCGCACCGCTGCCGC-GC-CGG
1 CTTTGTCA-CGGGGTC-ATTACCCTCTCCC-ATGAAAACCGGTTATCACAGGTG-TGCAGCAC--
* * * *** * * ** * * * *
7974713 CCACCCTGCCTACCCCTCTCCGG-CCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCG-GGACGAG
60 CC-CGCTTCTTATAGC-C-CAGGACC-TACCC-GTTCC-TGC-C-CGATGTG-G--GAGGA-GTG
** *
7974776 GCAACAGGTCCGCTCTGAT-AC-C
113 G--AC-CTTTC-CTC-G-TCACAC
7974798 ACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGC
1 -CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGC
7974863 TTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACA
65 TTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACA
7974928 C
130 C
7974929 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAA-CGGTTATCACAGGTGTG--GCACACCCGC
1 CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCAC-CCCGC
7974991 TTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGA-CTTTCCTCGTCACA
65 TTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACA
7975055 C
130 C
7975056 C
1 C
7975057 CTCACCCACC
Statistics
Matches: 711, Mismatches: 138, Indels: 165
0.70 0.14 0.16
Matches are distributed among these distances:
126 1 0.00
127 37 0.05
128 129 0.18
129 156 0.22
130 133 0.19
131 31 0.04
132 28 0.04
133 11 0.02
134 6 0.01
135 15 0.02
136 9 0.01
137 4 0.01
138 16 0.02
139 15 0.02
140 17 0.02
141 29 0.04
142 27 0.04
143 14 0.02
144 17 0.02
145 7 0.01
146 8 0.01
147 1 0.00
ACGTcount: A:0.17, C:0.36, G:0.24, T:0.23
Consensus pattern (130 bp):
CTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCT
TCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACAC
Found at i:7975314 original size:797 final size:789
Alignment explanation
Indices: 7973739--7975321 Score: 2900
Period size: 797 Copynumber: 2.0 Consensus size: 789
7973729 CAAGTGGATC
7973739 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGGCAGCACCCCGCTTCTTAT
1 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGGCAGCACCCCGCTTCTTAT
7973804 AGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCTCAC
66 AGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCTCAC
7973869 CCACCCGATTGCACACGTCCCCGTTGTCGGCGCACCGCTGCCCGGCCACCCTGCCTACCCCTCTC
131 CCACCCGATTGCACACGTCCCCGTTGTCGGCGCACCGCTGCCCGGCCACCCTGCCTACCCCTCTC
7973934 CGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTCGGACGAGGCAACAGGTCCGCTCTGATACCAC
196 CGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTCGGACGAGGCAACAGGTCCGCTCTGATACCAC
7973999 TTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCGCTTC
261 TTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCGCTTC
7974064 TTATAGCCCGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCTT
326 TTATAGCCCGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCTT
7974129 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
391 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
7974194 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
456 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
7974259 CACCCACCCGATTCGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTAC
521 CACCCACCCGATTCGACAACG-CCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTAC
7974324 CCCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTC
585 CCCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTC
7974389 TGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGC
650 TGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGC
7974454 ACCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGAGGAGTGGACCTTTCCTC
715 ACCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGAGGAGTGGACCTTTCCTC
7974519 GTCACACCTT
780 GTCACACCTT
7974529 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
1 TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACA-G-G-GCAGCACCCCGCTTCT
7974594 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
63 TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
7974659 CACCCACCCGATT-CGACAACGTCCCCGTTGTCGGGCGCACCGCTGCCGCGCCGGCCACCCTGCC
128 CACCCACCCGATTGC-AC-ACGTCCCCGTTGTC-GGCGCACCGCT---GC-CCGGCCACCCTGCC
7974723 TACCCCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCG
186 TACCCCTCTCCGGCCTTTCCC-GACCCGGGCGCTTGGTGTGAGTC-GGACGAGGCAACAGGTCCG
7974788 CTCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGC
249 CTCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGC
7974853 AGCACCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTT
314 AGCA-CCCGCTTCTTATAGCCC-GGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTT
7974918 CCTCGTCACACCTTTGTCACGGGGTCATTACCCTCTCCCATGAAAA-CGGTTATCACAGGTGTG-
377 CCTCGTCACACCTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGC
7974981 -GCACACCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGA-CTT
442 AGCAC-CCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTT
7975044 TCCTCGTCACACCCTCACCCA-CCGATTCGACAACG-CCCGTTGTCGGGCGCACCGCTGCCGCCG
506 TCCTCGTCACACCCTCACCCACCCGATTCGACAACGCCCCGTTGTCGGGCGCACCGCTGCCGCC-
*
7975107 GCCGCCACCCTGCCTACCCCTCTTC-GCC-TTCCC-GACCCGGGCGCTTGGTGTGAGTCGGGACG
570 G--GCCACCCTGCCTACCCCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACG
7975169 AGGCAACAGGTCCGCTCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGT
633 AGGCAACAGGTCCGCTCTGATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGT
7975234 TATCACAGGTGTGCAGCA-CCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGG
698 TATCACAGGTGTGCAGCACCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGT-GG
7975298 AGGAGTGGACCTTTCCTCGTCACA
762 AGGAGTGGACCTTTCCTCGTCACA
7975322 GATCCGCACT
Statistics
Matches: 773, Mismatches: 1, Indels: 31
0.96 0.00 0.04
Matches are distributed among these distances:
790 44 0.06
791 1 0.00
792 2 0.00
793 96 0.12
794 14 0.02
795 11 0.01
796 43 0.06
797 165 0.21
798 8 0.01
799 52 0.07
800 72 0.09
801 143 0.18
802 34 0.04
803 88 0.11
ACGTcount: A:0.17, C:0.37, G:0.24, T:0.22
Consensus pattern (789 bp):
TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGGCAGCACCCCGCTTCTTAT
AGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCTCAC
CCACCCGATTGCACACGTCCCCGTTGTCGGCGCACCGCTGCCCGGCCACCCTGCCTACCCCTCTC
CGGCCTTTCCCGACCCGGGCGCTTGGTGTGAGTCGGACGAGGCAACAGGTCCGCTCTGATACCAC
TTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCGCTTC
TTATAGCCCGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCTT
TGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCACCCCGCTTCT
TATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGGAGGAGTGGACCTTTCCTCGTCACACCCT
CACCCACCCGATTCGACAACGCCCCGTTGTCGGGCGCACCGCTGCCGCCGGCCACCCTGCCTACC
CCTCTCCGGCCTTTCCCGGACCCGGGCGCTTGGTGTGAGTCGGGACGAGGCAACAGGTCCGCTCT
GATACCACTTTGTCACGGGGTCATTACCCTCTCCCATGAAAACCGGTTATCACAGGTGTGCAGCA
CCCCGCTTCTTATAGCCCAGGACCTACCCGTTCCTGCCCGATGTGGAGGAGTGGACCTTTCCTCG
TCACACCTT
Found at i:7978032 original size:5 final size:5
Alignment explanation
Indices: 7978014--7978044 Score: 53
Period size: 5 Copynumber: 6.0 Consensus size: 5
7978004 AAACCCAGAT
7978014 TAATC TACATC TAATC TAATC TAATC TAATC
1 TAATC TA-ATC TAATC TAATC TAATC TAATC
7978045 GGTTTTAACT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 20 0.80
6 5 0.20
ACGTcount: A:0.39, C:0.23, G:0.00, T:0.39
Consensus pattern (5 bp):
TAATC
Found at i:7985881 original size:4 final size:4
Alignment explanation
Indices: 7985874--7985930 Score: 50
Period size: 4 Copynumber: 14.8 Consensus size: 4
7985864 ATTAATTTTT
*
7985874 ATTA ATTA ATT- ATAA ATTA A-T- ATATA ATTA ATTA A-TA TATTA ATTA
1 ATTA ATTA ATTA ATTA ATTA ATTA AT-TA ATTA ATTA ATTA -ATTA ATTA
*
7985920 ATTA ATAA ATT
1 ATTA ATTA ATT
7985931 TTCATAATTT
Statistics
Matches: 43, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
2 1 0.02
3 5 0.12
4 33 0.77
5 4 0.09
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:7985894 original size:15 final size:14
Alignment explanation
Indices: 7985863--7985923 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 14
7985853 AATCTTGATA
* *
7985863 AATTAATTTTTATT
1 AATTAATTATAATT
7985877 AATTAATTAT-A--
1 AATTAATTATAATT
7985888 AATTAATATATAATT
1 AATTAAT-TATAATT
7985903 AATTAA-TAT-ATT
1 AATTAATTATAATT
7985915 AATTAATTA
1 AATTAATTA
7985924 ATAAATTTTC
Statistics
Matches: 41, Mismatches: 1, Indels: 11
0.77 0.02 0.21
Matches are distributed among these distances:
11 7 0.17
12 12 0.29
13 7 0.17
14 9 0.22
15 6 0.15
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
AATTAATTATAATT
Found at i:7985919 original size:16 final size:15
Alignment explanation
Indices: 7985888--7985926 Score: 69
Period size: 16 Copynumber: 2.5 Consensus size: 15
7985878 ATTAATTATA
7985888 AATTAATATATAATT
1 AATTAATATATAATT
7985903 AATTAATATATTAATT
1 AATTAATATA-TAATT
7985919 AATTAATA
1 AATTAATA
7985927 AATTTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 10 0.43
16 13 0.57
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAATATATAATT
Found at i:7985930 original size:12 final size:11
Alignment explanation
Indices: 7985872--7985919 Score: 53
Period size: 11 Copynumber: 4.3 Consensus size: 11
7985862 AAATTAATTT
*
7985872 TTATTAATTAA
1 TTATAAATTAA
7985883 TTATAAATTAA
1 TTATAAATTAA
7985894 -TATATAATTAA
1 TTATA-AATTAA
*
7985905 TTAATATATTAA
1 TT-ATAAATTAA
7985917 TTA
1 TTA
7985920 ATTAATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
10 4 0.12
11 17 0.53
12 8 0.25
13 3 0.09
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTATAAATTAA
Found at i:7986034 original size:30 final size:32
Alignment explanation
Indices: 7985998--7986079 Score: 96
Period size: 30 Copynumber: 2.5 Consensus size: 32
7985988 TTATTAATTT
* *
7985998 TAAAAATTTATTTAATTTAAAA-TAAAAAT-A
1 TAAAAATTTATTTAAATAAAAATTAAAAATAA
*
7986028 TAAAAATTTATTTAAATAAAAATTAAATATAA
1 TAAAAATTTATTTAAATAAAAATTAAAAATAA
7986060 TAAAAAATTTTATTTTAAAT
1 T-AAAAA-TTTA-TTTAAAT
7986080 TTTTTGAATA
Statistics
Matches: 44, Mismatches: 3, Indels: 5
0.85 0.06 0.10
Matches are distributed among these distances:
30 20 0.45
31 6 0.14
32 2 0.05
33 5 0.11
34 4 0.09
35 7 0.16
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (32 bp):
TAAAAATTTATTTAAATAAAAATTAAAAATAA
Found at i:7986043 original size:25 final size:24
Alignment explanation
Indices: 7986007--7986054 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
7985997 TTAAAAATTT
7986007 ATTTAATTTAAAATAAAAATATAAAA
1 ATTTAATTT-AAATAAAAAT-TAAAA
7986033 ATTT-ATTTAAATAAAAATTAAA
1 ATTTAATTTAAATAAAAATTAAA
7986055 TATAATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 4 0.18
24 10 0.45
25 4 0.18
26 4 0.18
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
ATTTAATTTAAATAAAAATTAAAA
Found at i:8011622 original size:2 final size:2
Alignment explanation
Indices: 8011615--8011668 Score: 99
Period size: 2 Copynumber: 27.0 Consensus size: 2
8011605 CATGCATCTT
*
8011615 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA TA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
8011657 CA CA CA CA CA CA
1 CA CA CA CA CA CA
8011669 GAGGTTATAC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.48, G:0.00, T:0.02
Consensus pattern (2 bp):
CA
Found at i:8030714 original size:3 final size:3
Alignment explanation
Indices: 8030706--8030736 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
8030696 TATTTGTATG
*
8030706 TAA TAA TAA TAA TAA TAA AAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
8030737 CCTTGAATCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
TAA
Found at i:8034286 original size:18 final size:18
Alignment explanation
Indices: 8034245--8034286 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
8034235 CTTTTGTTTT
*
8034245 TGTTTTCTTTTATTCTTC
1 TGTTTTCTTTTATTCCTC
*
8034263 TATTTTCTTTT-TCTCCTC
1 TGTTTTCTTTTAT-TCCTC
8034281 TGTTTT
1 TGTTTT
8034287 TGTCCCTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 1 0.05
18 19 0.95
ACGTcount: A:0.05, C:0.19, G:0.05, T:0.71
Consensus pattern (18 bp):
TGTTTTCTTTTATTCCTC
Found at i:8056952 original size:5 final size:5
Alignment explanation
Indices: 8056942--8057047 Score: 56
Period size: 5 Copynumber: 20.4 Consensus size: 5
8056932 ATGTTATAAT
* * * *
8056942 TAAAA TAAAA TATAT TAAAA TAAAA T-ATA TAATA TAAGAA TTAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAA-AA -T-AAAA
* * * *
8056989 TTAAAA TAAAA TAAAA TATATAA TATAA -AAAA TTATA TTAAA -AAAA
1 -TAAAA TAAAA TAAAA TA-A-AA TAAAA TAAAA TAAAA TAAAA TAAAA
8057035 TAAAAA TAAAA TA
1 T-AAAA TAAAA TA
8057048 TATAAGATTA
Statistics
Matches: 80, Mismatches: 12, Indels: 18
0.73 0.11 0.16
Matches are distributed among these distances:
4 9 0.11
5 49 0.61
6 11 0.14
7 9 0.11
8 2 0.03
ACGTcount: A:0.70, C:0.00, G:0.01, T:0.29
Consensus pattern (5 bp):
TAAAA
Found at i:8057058 original size:34 final size:33
Alignment explanation
Indices: 8056955--8057083 Score: 113
Period size: 33 Copynumber: 3.9 Consensus size: 33
8056945 AATAAAATAT
* * *
8056955 ATTAAAATAAAATATATAATATAAGAAT-TA-AAA
1 ATTATAATAAAAAATA-AAAATAA-AATATATAAA
* * *
8056988 ATTA-AA-ATAAAATAAAATATATAATATAAAAA
1 ATTATAATAAAAAATAAAA-ATAAAATATATAAA
* *
8057020 ATTATATTAAAAAAATAAAAATAAAATATATAAG
1 ATTATAAT-AAAAAATAAAAATAAAATATATAAA
*
8057054 ATTATAATAATAAATAAAAATAAAATATAT
1 ATTATAATAAAAAATAAAAATAAAATATAT
8057084 GATCTTAAAT
Statistics
Matches: 79, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
30 5 0.06
31 11 0.14
32 9 0.11
33 26 0.33
34 18 0.23
35 10 0.13
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (33 bp):
ATTATAATAAAAAATAAAAATAAAATATATAAA
Found at i:8057074 original size:33 final size:34
Alignment explanation
Indices: 8056996--8057083 Score: 115
Period size: 33 Copynumber: 2.6 Consensus size: 34
8056986 AAATTAAAAT
* * *
8056996 AAAATAAAATATATAATATAAAAAATTATATTAAA
1 AAAATAAAA-ATAAAATATATAAAATTATAATAAA
*
8057031 AAAATAAAAATAAAATATATAAGATTATAAT-AA
1 AAAATAAAAATAAAATATATAAAATTATAATAAA
*
8057064 TAAATAAAAATAAAATATAT
1 AAAATAAAAATAAAATATAT
8057084 GATCTTAAAT
Statistics
Matches: 48, Mismatches: 5, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
33 21 0.44
34 18 0.38
35 9 0.19
ACGTcount: A:0.69, C:0.00, G:0.01, T:0.30
Consensus pattern (34 bp):
AAAATAAAAATAAAATATATAAAATTATAATAAA
Found at i:8057094 original size:29 final size:29
Alignment explanation
Indices: 8057026--8057094 Score: 77
Period size: 33 Copynumber: 2.2 Consensus size: 29
8057016 AAAAATTATA
*
8057026 TTAAAAAAATAAAAATAAAATATATAAGAT
1 TTAAATAAATAAAAATAAAATATAT-AGAT
8057056 TATAATAATAAATAAAAATAAAATATAT-GAT
1 T-T-A-AATAAATAAAAATAAAATATATAGAT
8057087 CTTAAATA
1 -TTAAATA
8057095 TATATTTAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 9
0.77 0.02 0.20
Matches are distributed among these distances:
29 4 0.12
30 2 0.06
31 5 0.15
32 2 0.06
33 21 0.62
ACGTcount: A:0.65, C:0.01, G:0.03, T:0.30
Consensus pattern (29 bp):
TTAAATAAATAAAAATAAAATATATAGAT
Found at i:8057172 original size:20 final size:19
Alignment explanation
Indices: 8057147--8057199 Score: 63
Period size: 19 Copynumber: 2.7 Consensus size: 19
8057137 ATATAAATAT
8057147 ATTAAATTTATATTTTAAAA
1 ATTAAA-TTATATTTTAAAA
*
8057167 ATTAAA-AATAATTTTAAAA
1 ATTAAATTAT-ATTTTAAAA
8057186 ATTAACATTATATT
1 ATTAA-ATTATATT
8057200 CTCAACAAAG
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
18 2 0.07
19 14 0.50
20 10 0.36
21 2 0.07
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
ATTAAATTATATTTTAAAA
Found at i:8060896 original size:34 final size:34
Alignment explanation
Indices: 8060858--8060925 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
8060848 AGCATGACAA
8060858 AATCTGCGAATTGCTTGCAGAGATAACATGTTCT
1 AATCTGCGAATTGCTTGCAGAGATAACATGTTCT
8060892 AATCTGCGAATTGCTTGCAGAGATAACATGTTCT
1 AATCTGCGAATTGCTTGCAGAGATAACATGTTCT
8060926 GTTATCTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.29, C:0.18, G:0.21, T:0.32
Consensus pattern (34 bp):
AATCTGCGAATTGCTTGCAGAGATAACATGTTCT
Done.