Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 30 of 378
Found at i:7280981 original size:13 final size:13
Alignment explanation
Indices: 7280963--7280987 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7280953 TAGAAGTAAT
7280963 AAGAAATATATAA
1 AAGAAATATATAA
7280976 AAGAAATATATA
1 AAGAAATATATA
7280988 CATACATAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (13 bp):
AAGAAATATATAA
Found at i:7281327 original size:3 final size:3
Alignment explanation
Indices: 7281314--7281396 Score: 50
Period size: 3 Copynumber: 27.3 Consensus size: 3
7281304 GAGGGCATAT
7281314 ATA AT- ATA ATA AT- ATAA ATA ATA ATA CATA CATGA GA-A ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA -ATA -AT-A -ATA ATA ATA
* * *
7281358 ATA ATA AT- ATAA ATG ATA GTA AAA ATA ATA A-A ATA ATA A
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
7281397 AACAAAGCTC
Statistics
Matches: 64, Mismatches: 7, Indels: 18
0.72 0.08 0.20
Matches are distributed among these distances:
2 9 0.14
3 43 0.67
4 10 0.16
5 2 0.03
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:7281764 original size:21 final size:21
Alignment explanation
Indices: 7281733--7281783 Score: 68
Period size: 21 Copynumber: 2.4 Consensus size: 21
7281723 TTCTTTTCAA
7281733 AAAAACAAAAAAAAACACCTCC
1 AAAAAC-AAAAAAAACACCTCC
* *
7281755 AAAAACAAAAAAACCTCCTCC
1 AAAAACAAAAAAAACACCTCC
7281776 -AAAACAAA
1 AAAAACAAA
7281784 TAACAATCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
20 8 0.30
21 13 0.48
22 6 0.22
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.06
Consensus pattern (21 bp):
AAAAACAAAAAAAACACCTCC
Found at i:7281802 original size:23 final size:20
Alignment explanation
Indices: 7281734--7281802 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 20
7281724 TCTTTTCAAA
* *
7281734 AAAACAAAAAAAAACACCTCC
1 AAAAC-AAAAAAACCTCCTCC
7281755 AAAAACAAAAAAACCTCCTCC
1 -AAAACAAAAAAACCTCCTCC
*
7281776 AAAACAAATAACAATCCTTCTCC
1 AAAACAAA-AA-AA-CCTCCTCC
7281799 AAAA
1 AAAA
7281803 AACCAAAAAC
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
20 8 0.20
21 15 0.37
22 7 0.17
23 11 0.27
ACGTcount: A:0.59, C:0.29, G:0.00, T:0.12
Consensus pattern (20 bp):
AAAACAAAAAAACCTCCTCC
Found at i:7289868 original size:22 final size:22
Alignment explanation
Indices: 7289840--7289881 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
7289830 CAAGGTGGAG
7289840 ATTGTTGACA-ATTGCATGGTAA
1 ATTGTTGA-ATATTGCATGGTAA
7289862 ATTGTTGAATATTGCATGGT
1 ATTGTTGAATATTGCATGGT
7289882 TTTACAGCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.29, C:0.07, G:0.24, T:0.40
Consensus pattern (22 bp):
ATTGTTGAATATTGCATGGTAA
Found at i:7296459 original size:17 final size:16
Alignment explanation
Indices: 7296389--7296496 Score: 69
Period size: 17 Copynumber: 6.6 Consensus size: 16
7296379 AAATTATTGC
*
7296389 TATTATTATTATTCATA
1 TATTATTATTA-TAATA
* *
7296406 TGTATATTATTAT-TTA
1 TAT-TATTATTATAATA
**
7296422 TATTATT-TTATTTTTA
1 TATTATTATTA-TAATA
7296438 CTATTATTATTATGAATA
1 -TATTATTATTAT-AATA
*
7296456 TATTATTATTATTAAAA
1 TATTATTATTA-TAATA
* *
7296473 TATTGTTATTATTAT-
1 TATTATTATTATAATA
7296488 TATTATTAT
1 TATTATTAT
7296497 CAGTGTTAGT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
14 3 0.04
15 13 0.18
16 9 0.12
17 35 0.47
18 14 0.19
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (16 bp):
TATTATTATTATAATA
Found at i:7296512 original size:3 final size:3
Alignment explanation
Indices: 7296389--7296496 Score: 84
Period size: 3 Copynumber: 37.0 Consensus size: 3
7296379 AAATTATTGC
7296389 TAT TAT TAT TAT TCA- TAT GTA- TAT TAT TAT T-T ATAT TAT T-T TAT
1 TAT TAT TAT TAT T-AT TAT -TAT TAT TAT TAT TAT -TAT TAT TAT TAT
* * * * * * *
7296433 TTT TAC TAT TAT TAT TAT GAA TA- TAT TAT TAT TAT TA- AAA TAT TGT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
7296479 TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT
7296497 CAGTGTTAGT
Statistics
Matches: 84, Mismatches: 12, Indels: 18
0.74 0.11 0.16
Matches are distributed among these distances:
2 9 0.11
3 71 0.85
4 4 0.05
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:7296727 original size:15 final size:15
Alignment explanation
Indices: 7296699--7296741 Score: 59
Period size: 15 Copynumber: 2.9 Consensus size: 15
7296689 TTCTCTGTTT
* *
7296699 TATTACTATCATTAC
1 TATTAATATTATTAC
7296714 TATTAATATTATTAC
1 TATTAATATTATTAC
*
7296729 TATTAATTTTATT
1 TATTAATATTATT
7296742 TATTACTATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (15 bp):
TATTAATATTATTAC
Found at i:7296902 original size:20 final size:22
Alignment explanation
Indices: 7296860--7296911 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 22
7296850 ATGTATTATT
7296860 ATTATTATTATTATTAATCTCTC
1 ATTATT-TTATTATTAATCTCTC
*
7296883 ATTATTTTATT-TTTAT-TCTC
1 ATTATTTTATTATTAATCTCTC
7296903 ATTATTTTA
1 ATTATTTTA
7296912 CTACCACTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 13 0.46
21 4 0.14
22 5 0.18
23 6 0.21
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (22 bp):
ATTATTTTATTATTAATCTCTC
Found at i:7297350 original size:3 final size:3
Alignment explanation
Indices: 7297033--7297331 Score: 105
Period size: 3 Copynumber: 100.0 Consensus size: 3
7297023 TTGTTATTCT
* * ** * * * **
7297033 TTA TTG TTA TTG TTA TTA CAA TTA TTA ATA TTC CTA TTA TTA CCA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
7297080 TTA TTA TTA TTA TTA TTCC TT- CTA TTA TGTA TTA TCA ATA -TA TTA
1 TTA TTA TTA TTA TTA TT-A TTA TTA TTA T-TA TTA TTA TTA TTA TTA
* * * * * * * *
7297125 TTG CTA CTA TCA TCA CTA TTA TTA TTA TTA TTA CTTG TTA TCA TT-
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * *
7297170 TTCA TCA CTA TTA TT- TATA CT- TTA TTA TTA TTA CTTA TTA TT- TTA
1 TT-A TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA -TTA TTA TTA TTA
* * * * **
7297215 TTA TTG TTA TCTA ATA -TA TTA TCA TTA TCA CCA TTA TTA TT- TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * * * * *
7297259 CTA TTG TAA CTTA ATA TTT TTG TT- TTCA TTA TTA TTA TTA TTA TTG
1 TTA TTA TTA -TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA
*
7297305 TTA TTA TTA TTA TTA TTA TTA GTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
7297332 CCACCTTATT
Statistics
Matches: 213, Mismatches: 64, Indels: 38
0.68 0.20 0.12
Matches are distributed among these distances:
2 16 0.08
3 180 0.85
4 17 0.08
ACGTcount: A:0.30, C:0.10, G:0.03, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:7306400 original size:16 final size:17
Alignment explanation
Indices: 7306369--7306401 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
7306359 TTCATAAGTA
7306369 TATATCAATCATTTCAT
1 TATATCAATCATTTCAT
7306386 TATATCAAT-ATTTCAT
1 TATATCAATCATTTCAT
7306402 GTTCCATCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 7 0.44
17 9 0.56
ACGTcount: A:0.36, C:0.15, G:0.00, T:0.48
Consensus pattern (17 bp):
TATATCAATCATTTCAT
Found at i:7306749 original size:46 final size:46
Alignment explanation
Indices: 7306684--7307140 Score: 621
Period size: 46 Copynumber: 10.0 Consensus size: 46
7306674 TTATCTTTGA
* * * * *
7306684 CATGATGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACA-TTTCATAT
* * * * *
7306730 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGCTCATTTCATGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* ** * ** ***
7306776 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* * *
7306821 CATGTTGCCATGGTATTTTTCAACCATGGTCTTACACATTTTATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* *
7306867 CCTGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* *
7306913 CATGTTGCCATGGTGTCTTTTAACCATGGTTTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
7306959 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
* *
7307005 CATGTTGACATGGTGTCTTTCAACCATGGTCTTACATATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
*
7307051 CATGTTGACATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
*
7307097 CATGTTGACATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCAT
7307141 TTCAGAAAGC
Statistics
Matches: 374, Mismatches: 35, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
45 41 0.11
46 333 0.89
ACGTcount: A:0.22, C:0.23, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:7307025 original size:25 final size:25
Alignment explanation
Indices: 7306997--7307072 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
7306987 GTCTTACACA
7306997 TTTCATATCATGTTGACATGGTGTC
1 TTTCATATCATGTTGACATGGTGTC
* * *
7307022 TTTCA-ACCATGGTCTTACA-----TA
1 TTTCATATCAT-GT-TGACATGGTGTC
7307043 TTTCATATCATGTTGACATGGTGTC
1 TTTCATATCATGTTGACATGGTGTC
7307068 TTTCA
1 TTTCA
7307073 ACCATGGTCT
Statistics
Matches: 37, Mismatches: 6, Indels: 16
0.63 0.10 0.27
Matches are distributed among these distances:
20 4 0.11
21 8 0.22
22 4 0.11
24 4 0.11
25 13 0.35
26 4 0.11
ACGTcount: A:0.22, C:0.18, G:0.16, T:0.43
Consensus pattern (25 bp):
TTTCATATCATGTTGACATGGTGTC
Found at i:7314682 original size:19 final size:19
Alignment explanation
Indices: 7314642--7314681 Score: 64
Period size: 18 Copynumber: 2.2 Consensus size: 19
7314632 TTTATTCAAA
*
7314642 TTTAGTATATATTATATAT
1 TTTACTATATATTATATAT
7314661 TTTACTATATA-TATATAT
1 TTTACTATATATTATATAT
7314679 TTT
1 TTT
7314682 TCCTTGTTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 10 0.50
19 10 0.50
ACGTcount: A:0.35, C:0.03, G:0.03, T:0.60
Consensus pattern (19 bp):
TTTACTATATATTATATAT
Found at i:7314849 original size:17 final size:16
Alignment explanation
Indices: 7314816--7314864 Score: 62
Period size: 17 Copynumber: 2.9 Consensus size: 16
7314806 TTCATATATA
*
7314816 TATATATATATATTAT
1 TATATATATACATTAT
7314832 TATATATCATACATTAT
1 TATATAT-ATACATTAT
*
7314849 TATATACTATTCATTA
1 TATATA-TATACATTA
7314865 CATTATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 7 0.24
17 21 0.72
18 1 0.03
ACGTcount: A:0.41, C:0.08, G:0.00, T:0.51
Consensus pattern (16 bp):
TATATATATACATTAT
Found at i:7314868 original size:22 final size:20
Alignment explanation
Indices: 7314812--7314871 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 20
7314802 GTTATTCATA
*
7314812 TATATAT-ATATATATATTAT
1 TATATATCATACAT-TATTAT
7314832 TATATATCATACATTATTA-
1 TATATATCATACATTATTAT
7314851 TATACTATTCATTACATTATT
1 TATA-TA-TCA-TACATTATT
7314872 TTTTTTATTA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
19 4 0.11
20 14 0.40
21 8 0.23
22 9 0.26
ACGTcount: A:0.40, C:0.08, G:0.00, T:0.52
Consensus pattern (20 bp):
TATATATCATACATTATTAT
Found at i:7324317 original size:45 final size:44
Alignment explanation
Indices: 7324236--7324886 Score: 190
Period size: 45 Copynumber: 15.5 Consensus size: 44
7324226 GAACAAGTTG
* * **
7324236 AAGATAGCAGATCTTATCTCTCTGTAATAGATAGGGAGCAGATCC
1 AAGATAACAGATCTTATCTCTCTG-AATCGGCAGGGAGCAGATCC
* *
7324281 AAGATAATAGATCTTATCTCTCTGAATTCGGCAGGGAGCAGATCG
1 AAGATAACAGATCTTATCTCTCTGAA-TCGGCAGGGAGCAGATCC
* * *
7324326 AAGACATAGCAGATCTGA-C-CT-T-CATC-GC---GA-CAGATCC
1 AAG--ATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
* * *
7324363 AAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCG
1 AAGATAACAGATCTTATCTCTCTG-AATCGGCAGGGAGCAGATCC
* * *
7324408 AAGACATAGCAGATCTGA-C-CT-T-CATC-G-A--G-GCAGATCC
1 AAG--ATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
* * * *
7324445 AAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGA
1 AAGATAACAGATCTTATCTCTCTG-AATCGGCAGGGAGCAGATC-C
* * * *
7324491 ACACATAGCAGATCTGA-C-CT-T-CATC-G-A--G-GCAGATCC
1 A-AGATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
* * * *
7324527 AAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGGTCG
1 AAGATAACAGATCTTATCTCTCTG-AATCGGCAGGGAGCAGATCC
* * *
7324572 AAGACATAGCAGATCTGA-C-CT-T-CAT---C-GGG-GCAGATCC
1 AAG--ATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
* * * * *
7324609 AAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAA
1 AAGATAACAGATCTTATCTCTCTG-AATCGGCAGGGAGCAGATC--C
* * * *
7324656 AACATAGCAGATCTGA-C-CT-T-CAT---C-GGG-GCAGATCC
1 AAGATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
* * * * *
7324691 AGGATGACAGATCTTGTCTTTCTGCAAT-GGACGGGGAGCAGATCC
1 AAGATAACAGATCTTATCTCTCTG-AATCGG-CAGGGAGCAGATCC
* * * * *
7324736 AAGATGACAGATCTTATCTCTCTATAATCGACGGGGAGCAGATCA
1 AAGATAACAGATCTTATCTCTCT-GAATCGGCAGGGAGCAGATCC
* * *
7324781 AAGACATAACAGATCTGA-C-CT-T-CAT---C-GGG-GTAGATCC
1 AAG--ATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
* ** *
7324818 AAGATGATGGATCTTATCTCTCTGTAAT-GGACGGGGAGCAGATCC
1 AAGATAACAGATCTTATCTCTCTG-AATCGG-CAGGGAGCAGATCC
*
7324863 AAGATGACAGATCTTATCTCTCTG
1 AAGATAACAGATCTTATCTCTCTG
7324887 TATTTGATAG
Statistics
Matches: 438, Mismatches: 93, Indels: 150
0.64 0.14 0.22
Matches are distributed among these distances:
35 60 0.14
36 7 0.02
37 62 0.14
38 19 0.04
39 3 0.01
40 13 0.03
41 6 0.01
42 12 0.03
43 4 0.01
44 21 0.05
45 159 0.36
46 8 0.02
47 64 0.15
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (44 bp):
AAGATAACAGATCTTATCTCTCTGAATCGGCAGGGAGCAGATCC
Found at i:7324380 original size:82 final size:82
Alignment explanation
Indices: 7324273--7324714 Score: 731
Period size: 82 Copynumber: 5.4 Consensus size: 82
7324263 TAGATAGGGA
* * *
7324273 GCAGATCCAAGATAATAGATCTTATCTCTCTGAATTCGGCAGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
*
7324338 ATCTGACCTTCATCGCG
66 ATCTGACCTTCATCGAG
*
7324355 ACAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
7324420 ATCTGACCTTCATCGAG
66 ATCTGACCTTCATCGAG
* *
7324437 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGAACACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
7324502 ATCTGACCTTCATCGAG
66 ATCTGACCTTCATCGAG
*
7324519 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGGTCGAAGACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
*
7324584 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGAG
* * * *
7324601 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAAACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
*
7324666 ATCTGACCTTCATCGGG
66 ATCTGACCTTCATCGAG
* * *
7324683 GCAGATCCAGGATGACAGATCTTGTCTTTCTG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTG
7324715 CAATGGACGG
Statistics
Matches: 340, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
82 340 1.00
ACGTcount: A:0.29, C:0.23, G:0.24, T:0.24
Consensus pattern (82 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAG
ATCTGACCTTCATCGAG
Found at i:7324458 original size:35 final size:35
Alignment explanation
Indices: 7324417--7324540 Score: 88
Period size: 35 Copynumber: 3.2 Consensus size: 35
7324407 GAAGACATAG
7324417 CAGATCTGACCTTCATCGAGGCAGATCCAAGATGA
1 CAGATCTGACCTTCATCGAGGCAGATCCAAGATGA
* * * *
7324452 CAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGAACACAT-A
1 CAGATCTGA-C-CT-T-CA-TCG--A--G-GCAGATC-CA-AGATGA
7324498 GCAGATCTGACCTTCATCGAGGCAGATCCAAGATGA
1 -CAGATCTGACCTTCATCGAGGCAGATCCAAGATGA
7324534 CAGATCT
1 CAGATCT
7324541 TATCTCTCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 28
0.65 0.08 0.27
Matches are distributed among these distances:
35 18 0.27
36 3 0.04
37 9 0.13
38 2 0.03
39 1 0.01
40 4 0.06
42 4 0.06
43 1 0.01
44 2 0.03
45 9 0.13
46 3 0.04
47 11 0.16
ACGTcount: A:0.30, C:0.25, G:0.22, T:0.23
Consensus pattern (35 bp):
CAGATCTGACCTTCATCGAGGCAGATCCAAGATGA
Found at i:7324487 original size:127 final size:127
Alignment explanation
Indices: 7324356--7324917 Score: 454
Period size: 127 Copynumber: 4.5 Consensus size: 127
7324346 TTCATCGCGA
* *
7324356 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGATCGAAGACATAGCAGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCAGA
* * *
7324421 TCTGACCTTCATCGAGGCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAG
66 TCTGACCTTCATCGAGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAG
* * * * *
7324483 CAGATCGAACACAT-AGCAGATCTGA-C-CT-T-CA-TCG--A--G-GCAGATCCAAG--AT-GA
1 CAGATC-CA-AGATGA-CAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAG-
* * * * *
7324534 CAGATCTTATCTCTCTGTATTCGGCAGGGAGCAGGTCGAAGACAT-AGCAGATCTGA---C-CT-
62 CAGATCTGA-C-CT-T-CA-TC-G-A--G-GCAGATCCAAG--ATGA-CAGATCTTATCTCTCTG
*
7324593 TCAT---C-GGG-G
114 TAATCGACGGGGAG
* *
7324602 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACGGGGAGCAGATCAAAAACATAGCAGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCAGA
* * * * * *
7324667 TCTGACCTTCATCGGGGCAGATCCAGGATGACAGATCTTGTCTTTCTGCAATGGACGGGGAG
66 TCTGACCTTCATCGAGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAG
* * * *
7324729 CAGATCCAAGATGACAGATCTTATCTCTCTATAATCGACGGGGAGCAGATCAAAGACATAACAGA
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCAGA
* * ** *
7324794 TCTGACCTTCATCGGGGTAGATCCAAGATGATGGATCTTATCTCTCTGTAATGGACGGGGAG
66 TCTGACCTTCATCGAGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAG
* * * * *
7324856 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTTGATAGAGAGCAAATCGAAGACATAGC
1 CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGC
7324918 TGATTTGGCT
Statistics
Matches: 343, Mismatches: 50, Indels: 84
0.72 0.10 0.18
Matches are distributed among these distances:
116 1 0.00
117 30 0.09
118 5 0.01
119 29 0.08
120 7 0.02
121 5 0.01
122 8 0.02
123 2 0.01
124 8 0.02
125 5 0.01
126 8 0.02
127 198 0.58
128 5 0.01
129 31 0.09
130 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (127 bp):
CAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGACAGGGAGCAGATCAAAGACATAGCAGA
TCTGACCTTCATCGAGGCAGATCCAAGATGACAGATCTTATCTCTCTGTAATCGACGGGGAG
Found at i:7324652 original size:209 final size:215
Alignment explanation
Indices: 7324437--7324917 Score: 505
Period size: 209 Copynumber: 2.3 Consensus size: 215
7324427 CTTCATCGAG
7324437 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGAACACATAGCAG
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGAACACATAGCAG
* * * *
7324502 ATC-TGAC-CTTC-AT-C-GAG-GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGGCAG
66 ATCTTGACTCTGCAATGCGGAGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAATCGACAG
* * *
7324561 GGAGCAGGTCGAAGACATAGCAGATCTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTAT
131 GGAGCAGATCAAAGACATAACAGATCTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTAT
*
7324626 CTCTCTGTATTCGACGGGGA
196 CTCTCTGTAATCGACGGGGA
* * * ** ** * * *
7324646 GCAGAT-CAA-A-AACATAGCAGATCTGAC---CTTCATC-GGG-GCAGATC---CAGGAT-GAC
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGAACA-CATAG-C
* *
7324699 AGATCTTGTCTTTCTGCAATGGACGGGGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAAT
64 AGATCTTGAC--TCTGCAAT-G-CGGAGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAAT
* * **
7324764 CGACGGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATCGGGGTAGATCCAAGATGATGGA
125 CGACAGGGAGCAGATCAAAGACATAACAGATCTGACCTTCATCGGGGCAGATCCAAGATGACAGA
*
7324829 TCTTATCTCTCTGTAATGGACGGGGA
190 TCTTATCTCTCTGTAATCGACGGGGA
* * * *
7324855 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTTGAT-AGAGAGCAAATCGAAGACATAGC
1 GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCG-TCAGGGAGCAGATCGAACACATAGC
7324918 TGATTTGGCT
Statistics
Matches: 208, Mismatches: 39, Indels: 40
0.72 0.14 0.14
Matches are distributed among these distances:
198 3 0.01
199 8 0.04
200 3 0.01
201 7 0.03
202 3 0.01
203 8 0.04
204 2 0.01
206 10 0.05
207 2 0.01
208 5 0.02
209 127 0.61
210 3 0.01
211 1 0.00
212 10 0.05
215 2 0.01
216 3 0.01
217 6 0.03
219 3 0.01
220 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.24, T:0.24
Consensus pattern (215 bp):
GCAGATCCAAGATGACAGATCTTATCTCTCTGTATTCGTCAGGGAGCAGATCGAACACATAGCAG
ATCTTGACTCTGCAATGCGGAGAGCAGATCCAAGATGACAGATCTTATCTCTCTATAATCGACAG
GGAGCAGATCAAAGACATAACAGATCTGACCTTCATCGGGGCAGATCCAAGATGACAGATCTTAT
CTCTCTGTAATCGACGGGGA
Found at i:7324902 original size:45 final size:45
Alignment explanation
Indices: 7324812--7324911 Score: 119
Period size: 45 Copynumber: 2.2 Consensus size: 45
7324802 TCATCGGGGT
** * *
7324812 AGATCCAAGATGATGGATCTTATCTCTCTGTAATGGACGGGGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACAGAGAGC
* * *
7324857 AGATCCAAGATGACAGATCTTATCTCTCTGTATTTGATAGAGAGC
1 AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACAGAGAGC
* *
7324902 AAATCGAAGA
1 AGATCCAAGA
7324912 CATAGCTGAT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (45 bp):
AGATCCAAGATGACAGATCTTATCTCTCTGTAATGGACAGAGAGC
Found at i:7327211 original size:27 final size:26
Alignment explanation
Indices: 7327169--7327278 Score: 123
Period size: 27 Copynumber: 4.2 Consensus size: 26
7327159 GCTCAGTTAT
*
7327169 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGACAGAGCCACCAGA-A
*
7327196 CAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAA
*
7327222 CAGATATTTGTGACATAGCCACCAGAAA
1 CAGATA-TTGTGACAGAGCCACCAG-AA
* * * *
7327250 CAGATAATGTGGCAAAGCCACTA-AA
1 CAGATATTGTGACAGAGCCACCAGAA
7327275 CAGA
1 CAGA
7327279 ATACGTGGCA
Statistics
Matches: 73, Mismatches: 8, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
25 6 0.08
26 7 0.10
27 52 0.71
28 8 0.11
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (26 bp):
CAGATATTGTGACAGAGCCACCAGAA
Found at i:7327253 original size:54 final size:52
Alignment explanation
Indices: 7327169--7327278 Score: 148
Period size: 54 Copynumber: 2.1 Consensus size: 52
7327159 GCTCAGTTAT
* * * *
7327169 CAGATATTGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACCA-AA
* *
7327222 CAGATATTTGTGACATAGCCACCAGAAACAGATAATGTGGCAAAGCCACTAAA
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAAA
7327275 CAGA
1 CAGA
7327279 ATACGTGGCA
Statistics
Matches: 50, Mismatches: 6, Indels: 2
0.86 0.10 0.03
Matches are distributed among these distances:
53 12 0.24
54 38 0.76
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.18
Consensus pattern (52 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAAA
Found at i:7327296 original size:54 final size:54
Alignment explanation
Indices: 7327176--7327296 Score: 129
Period size: 54 Copynumber: 2.2 Consensus size: 54
7327166 TATCAGATAT
* * * * * **
7327176 TGTGACAGAGTCACCAGATACAGATATTGTGGCAGAGCCACCAGAACAGATATT
1 TGTGACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATACG
* *
7327230 TGTGACATAGCCACCAGAAACAGATAATGTGGCAAAGCCACTA-AACAGAATACG
1 TGTGACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAG-ATACG
7327284 TG-GCACAAAGCCA
1 TGTG-ACAAAGCCA
7327297 TCGATAACTG
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
53 6 0.11
54 50 0.89
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (54 bp):
TGTGACAAAGCCACCAGAAACAGATAATGTGGCAAAGCCACCAGAACAGATACG
Found at i:7327457 original size:22 final size:22
Alignment explanation
Indices: 7327429--7327493 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
7327419 GCAAATACGT
*
7327429 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
7327451 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
7327473 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
7327494 AAGGCTTTAA
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 2 0.06
22 32 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.23, G:0.23, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:7327978 original size:27 final size:27
Alignment explanation
Indices: 7327920--7328303 Score: 527
Period size: 27 Copynumber: 14.3 Consensus size: 27
7327910 AGGGCAAAAT
* * * *
7327920 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
7327946 GATAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
*
7327973 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
7328000 GGTAATTCTACCCTACAAGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
7328027 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
7328054 GATAATTCTACCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
7328081 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
7328108 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
7328135 GATAATTCTACCCTACAGAGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
7328162 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
7328189 GATAATTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
7328216 GGTAATTCTACCCTACAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
7328243 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
7328270 GGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
7328297 GATAATT
1 GGTAATT
7328304 TTGTAAATCG
Statistics
Matches: 316, Mismatches: 41, Indels: 1
0.88 0.11 0.00
Matches are distributed among these distances:
26 13 0.04
27 303 0.96
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:7328355 original size:27 final size:26
Alignment explanation
Indices: 7328325--7328817 Score: 466
Period size: 27 Copynumber: 18.3 Consensus size: 26
7328315 GGGTAAAACA
* * *
7328325 GTAATTCTATAAATCAAGGGTACTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
*** **
7328352 GTAATTTTACAAGTTGAGGGTATTTCA
1 GTAATTTTACAA-ACAAGGGTATTTTG
* ** * *
7328379 ATAATTTTACAGGTCGAGGGTATTTTA
1 GTAATTTTACA-AACAAGGGTATTTTG
*
7328406 GTAATTTCACAAATC-AGAGGTATTTTG
1 GTAATTTTACAAA-CAAG-GGTATTTTG
*
7328433 GTAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AAGGGTATTTTG
* *
7328460 ATAATTTTACAAACTAGGGGTATTTTG
1 GTAATTTTACAAAC-AAGGGTATTTTG
* *
7328487 GTAATTATACAAACTAGTGGTATTTTG
1 GTAATTTTACAAACAAG-GGTATTTTG
* *
7328514 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAAC-AAGGGTATTTTG
*
7328541 GTAATTTTACAAACTAGGAGTATTTTG
1 GTAATTTTACAAACAAGG-GTATTTTG
**
7328568 GTAATTTTGTAAACCAAGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
*
7328595 GTAATTTTACAAACCAGGAGTATTTTG
1 GTAATTTTACAAACAAGG-GTATTTTG
* * *
7328622 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAA-CAAGGGTATTTTG
* *
7328649 GTAATTTTATAAACAAAGGGTATTTTA
1 GTAATTTTACAAAC-AAGGGTATTTTG
*
7328676 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
**
7328703 GTAATTTTGTAAACAAAGGGTATTTTG
1 GTAATTTTACAAAC-AAGGGTATTTTG
*
7328730 GTAATTTTACAAACCAGGGGTATTTTG
1 GTAATTTTACAAA-CAAGGGTATTTTG
* * *
7328757 GTGATTTTATAAACCAAGGGTATTTTA
1 GTAATTTTACAAA-CAAGGGTATTTTG
*
7328784 GTAATTTTACAAACTAGAGGTATTTTG
1 GTAATTTTACAAACAAG-GGTATTTTG
7328811 GTAATTT
1 GTAATTT
7328818 GGTAAACTAA
Statistics
Matches: 390, Mismatches: 59, Indels: 34
0.81 0.12 0.07
Matches are distributed among these distances:
26 16 0.04
27 361 0.93
28 13 0.03
ACGTcount: A:0.33, C:0.08, G:0.19, T:0.40
Consensus pattern (26 bp):
GTAATTTTACAAACAAGGGTATTTTG
Found at i:7328396 original size:81 final size:81
Alignment explanation
Indices: 7328286--7328472 Score: 200
Period size: 81 Copynumber: 2.3 Consensus size: 81
7328276 TCTACCCTAC
** *
7328286 AGGGGTATTTCGATAATTTTGTAAATCGAGGGTAAAACAGTAA-TTCTATAAATCA-AGGGTACT
1 AGGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAGTAATTTC-ACAAATCAGA-GGTACT
*
7328349 TTGGTAATTTTAC-AAGT
64 TTGGTAATTTTACAAACT
* * ** **** *
7328366 TGAGGGTATTTCAATAATTTTACAGGTCGAGGGTATTTTAGTAATTTCACAAATCAGAGGTATTT
1 AG-GGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGAGGTACTT
7328431 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACT
*
7328448 AGGGGTATTTTGATAATTTTACAAA
1 AGGGGTATTTCGATAATTTTACAAA
7328473 CTAGGGGTAT
Statistics
Matches: 85, Mismatches: 18, Indels: 7
0.77 0.16 0.06
Matches are distributed among these distances:
80 1 0.01
81 76 0.89
82 8 0.09
ACGTcount: A:0.34, C:0.09, G:0.20, T:0.37
Consensus pattern (81 bp):
AGGGGTATTTCGATAATTTTACAAATCGAGGGTAAAACAGTAATTTCACAAATCAGAGGTACTTT
GGTAATTTTACAAACT
Found at i:7330337 original size:17 final size:17
Alignment explanation
Indices: 7330284--7330343 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
7330274 ATTATATCAT
*
7330284 TTATATTTCATTACATT-
1 TTATATATCA-TACATTA
*
7330301 TTATTCATAT-ATATATTA
1 TTA-T-ATATCATACATTA
7330319 TTATATATCATACATTA
1 TTATATATCATACATTA
7330336 TTATATAT
1 TTATATAT
7330344 TATTCATTAC
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
16 4 0.11
17 24 0.67
18 5 0.14
19 3 0.08
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (17 bp):
TTATATATCATACATTA
Found at i:7330351 original size:17 final size:17
Alignment explanation
Indices: 7330315--7330380 Score: 64
Period size: 17 Copynumber: 3.9 Consensus size: 17
7330305 TCATATATAT
* *
7330315 ATTATTATATATCATAC
1 ATTATTATATATTATTC
7330332 ATTATTATATATTATTC
1 ATTATTATATATTATTC
* *
7330349 ATTA-CAT-TATTTTTC
1 ATTATTATATATTATTC
*
7330364 TTTTATTATATATTATT
1 -ATTATTATATATTATT
7330381 TTATTTGTAA
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
15 7 0.18
16 5 0.13
17 21 0.54
18 6 0.15
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (17 bp):
ATTATTATATATTATTC
Found at i:7330585 original size:21 final size:20
Alignment explanation
Indices: 7330538--7330587 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
7330528 TGCTTAAAGA
7330538 TATTTCATTTCTTATTTATTG
1 TATTT-ATTTCTTATTTATTG
* * *
7330559 TTTTTATTTCTATTTTTTTTG
1 TATTTATTTCT-TATTTATTG
7330580 TATTTATT
1 TATTTATT
7330588 AAATATAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 6 0.25
21 18 0.75
ACGTcount: A:0.16, C:0.06, G:0.04, T:0.74
Consensus pattern (20 bp):
TATTTATTTCTTATTTATTG
Found at i:7333734 original size:12 final size:12
Alignment explanation
Indices: 7333717--7333760 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
7333707 TAAAAAGTAG
7333717 ATATAATAATAT
1 ATATAATAATAT
7333729 ATATAATATATAAT
1 ATATAATA-AT-AT
*
7333743 AATATAATAATAA
1 -ATATAATAATAT
7333756 ATATA
1 ATATA
7333761 TATATGTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 13 0.46
13 3 0.11
14 4 0.14
15 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:7333744 original size:22 final size:22
Alignment explanation
Indices: 7333717--7333762 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 22
7333707 TAAAAAGTAG
7333717 ATATAATAATAT-AT-AT-AAT
1 ATATAATAATATAATAATAAAT
7333736 ATATAATAATATAATAATAAAT
1 ATATAATAATATAATAATAAAT
7333758 ATATA
1 ATATA
7333763 TATGTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
21 2 0.08
22 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATAATAATATAATAATAAAT
Found at i:7334358 original size:23 final size:23
Alignment explanation
Indices: 7334305--7334361 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
7334295 TTGACAATAT
7334305 TACATAAATATATATTAAAATAAA
1 TACAT-AATATATATTAAAATAAA
* *
7334329 TATATAATA-ATATTAAAATTACA
1 TACATAATATATATTAAAA-TAAA
7334352 TACATAATAT
1 TACATAATAT
7334362 GTACGTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 15 0.54
24 4 0.14
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TACATAATATATATTAAAATAAA
Found at i:7335188 original size:26 final size:26
Alignment explanation
Indices: 7335151--7335287 Score: 211
Period size: 26 Copynumber: 5.3 Consensus size: 26
7335141 TGATACAAAT
*
7335151 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7335177 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7335203 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
7335229 TGATAATGGATTAGGTAAATATTCAA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
7335255 TGATAATGAGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
7335281 TGATAAT
1 TGATAAT
7335288 CATGATAATG
Statistics
Matches: 99, Mismatches: 12, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 99 1.00
ACGTcount: A:0.36, C:0.06, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:7335208 original size:52 final size:51
Alignment explanation
Indices: 7335151--7335347 Score: 225
Period size: 52 Copynumber: 3.6 Consensus size: 51
7335141 TGATACAAAT
7335151 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAAT-TTTCA
* *
7335203 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATTTTC-A
*
7335255 TGATAAT-GAGTTAGGTAAATGTTCCATGATAATCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAG-GTTAGGTAAATGTTCCATGAT-A--ATG-----GG-TTAGGTAAAT-TTTCA
* *
7335316 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
7335348 GAATATCATG
Statistics
Matches: 126, Mismatches: 6, Indels: 20
0.83 0.04 0.13
Matches are distributed among these distances:
51 4 0.03
52 74 0.59
53 1 0.01
55 3 0.02
58 1 0.01
60 2 0.02
61 38 0.30
62 3 0.02
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATTTTCA
Found at i:7335302 original size:61 final size:61
Alignment explanation
Indices: 7335227--7335347 Score: 215
Period size: 61 Copynumber: 2.0 Consensus size: 61
7335217 GTAAATGTTC
7335227 CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAAT
1 CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAAT
* * *
7335288 CATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTTCATGATAA
1 CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAA
7335348 GAATATCATG
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
61 57 1.00
ACGTcount: A:0.38, C:0.07, G:0.21, T:0.35
Consensus pattern (61 bp):
CATGATAATGGATTAGGTAAATATTCAATGATAATGAGTTAGGTAAATGTTCCATGATAAT
Found at i:7335304 original size:35 final size:35
Alignment explanation
Indices: 7335254--7335322 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
7335244 TAAATATTCA
*
7335254 ATGATAATGAGTTAGGTAAATGTTCCATGATAATC
1 ATGATAATGAGTTAGGTAAATATTCCATGATAATC
7335289 ATGATAATG-GATTAGGTAAATATTCCATGATAAT
1 ATGATAATGAG-TTAGGTAAATATTCCATGATAAT
7335323 GGGTTAGGTA
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
34 1 0.03
35 31 0.97
ACGTcount: A:0.39, C:0.07, G:0.19, T:0.35
Consensus pattern (35 bp):
ATGATAATGAGTTAGGTAAATATTCCATGATAATC
Found at i:7335317 original size:26 final size:26
Alignment explanation
Indices: 7335288--7335347 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
7335278 CCATGATAAT
7335288 CATGATAATGGATTAGGTAAATATTC
1 CATGATAATGGATTAGGTAAATATTC
* * *
7335314 CATGATAATGGGTTAGGTAAATGTTT
1 CATGATAATGGATTAGGTAAATATTC
7335340 CATGATAA
1 CATGATAA
7335348 GAATATCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (26 bp):
CATGATAATGGATTAGGTAAATATTC
Found at i:7338437 original size:40 final size:40
Alignment explanation
Indices: 7338372--7338615 Score: 348
Period size: 40 Copynumber: 6.1 Consensus size: 40
7338362 CGGAGTTTAA
* * * *
7338372 CCGGATATAGCTA-CTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAGCTCGCACAAACGCCTTCGGGACTTAGC
* * * *
7338412 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
** * *
7338452 CCGG-TATTCTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
*
7338491 CCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
7338531 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
7338571 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
7338611 CCGGA
1 CCGGA
7338616 ATTAGCCACT
Statistics
Matches: 189, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 38 0.20
40 151 0.80
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
Found at i:7338573 original size:80 final size:79
Alignment explanation
Indices: 7338372--7338654 Score: 365
Period size: 80 Copynumber: 3.5 Consensus size: 79
7338362 CGGAGTTTAA
* * * * * * *
7338372 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
7338437 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
** *
7338452 CCGG-TATTCTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
7338516 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
*
7338531 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
7338596 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* * *
7338611 CCGGA-ATTAGCCACTAGCTCAAATGCTCTT-GGGACTTAGCCCGG
1 CCGGATA-TAG-TACTCGCACAAATGC-CTTCGGGACTTAGCCCGG
7338655 TTTTCATCCG
Statistics
Matches: 179, Mismatches: 18, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 69 0.39
80 105 0.59
81 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACGC
CTTCGGGACTTAGC
Found at i:7343126 original size:29 final size:28
Alignment explanation
Indices: 7343092--7343193 Score: 118
Period size: 29 Copynumber: 3.5 Consensus size: 28
7343082 AATCGATCAC
*
7343092 GCACACTTAGTGCCATGTGATTTAAGCTT
1 GCACACTTAGTGCCATAT-ATTTAAGCTT
*
7343121 GCACACATAGTGCCATATAATTTAAG-TT
1 GCACACTTAGTGCCATAT-ATTTAAGCTT
7343149 CGCACACTTAGTGCCATACT-TTTCAAGCTT
1 -GCACACTTAGTGCCATA-TATTT-AAGCTT
*
7343179 GCACAGTTAGTGCCA
1 GCACACTTAGTGCCA
7343194 ATCTCGTCAC
Statistics
Matches: 64, Mismatches: 5, Indels: 8
0.83 0.06 0.10
Matches are distributed among these distances:
28 5 0.08
29 56 0.88
30 3 0.05
ACGTcount: A:0.27, C:0.24, G:0.18, T:0.31
Consensus pattern (28 bp):
GCACACTTAGTGCCATATATTTAAGCTT
Found at i:7345438 original size:15 final size:15
Alignment explanation
Indices: 7345415--7345444 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
7345405 GTTCGGTTTC
*
7345415 GGCACTAAGTGTGCG
1 GGCAATAAGTGTGCG
7345430 GGCAATAAGTGTGCG
1 GGCAATAAGTGTGCG
7345445 TGGTGACGAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.17, G:0.40, T:0.20
Consensus pattern (15 bp):
GGCAATAAGTGTGCG
Found at i:7345494 original size:29 final size:28
Alignment explanation
Indices: 7345457--7345587 Score: 190
Period size: 29 Copynumber: 4.6 Consensus size: 28
7345447 GTGACGAGAT
* *
7345457 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
*
7345486 TGGCACTAAGTGTGCGAGCTTAAATGTA
1 TGGCACTAAGTGTGCGAGCTTAAATATA
7345514 TGGCACTAAGTGTGCGAGCTTAAACTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
7345543 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
7345572 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
7345588 TGAACGATTA
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
28 32 0.34
29 63 0.66
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:7345523 original size:57 final size:58
Alignment explanation
Indices: 7345457--7345586 Score: 192
Period size: 57 Copynumber: 2.3 Consensus size: 58
7345447 GTGACGAGAT
* **
7345457 TGGCACTAAGTGTGCAAGCTTGAAA-TGTATGGCACTAAGTGTGCGAGCTTAAAT-GTA
1 TGGCACTAAGTGTGCAAGCTT-AAACTATATGGCACTAAGTGTGCGAGCTTAAATCACA
* *
7345514 TGGCACTAAGTGTGCGAGCTTAAACTATATGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAACTATATGGCACTAAGTGTGCGAGCTTAAATCACA
7345572 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
7345587 GTGAACGATT
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
56 3 0.05
57 47 0.71
58 16 0.24
ACGTcount: A:0.28, C:0.17, G:0.27, T:0.28
Consensus pattern (58 bp):
TGGCACTAAGTGTGCAAGCTTAAACTATATGGCACTAAGTGTGCGAGCTTAAATCACA
Found at i:7353623 original size:57 final size:58
Alignment explanation
Indices: 7353557--7353686 Score: 174
Period size: 57 Copynumber: 2.3 Consensus size: 58
7353547 GTGACGAGAT
* **
7353557 TGGCACTAAGTGTGCAAGCTTGAAA-TGTATGGCACTAAGTGTGCAAGCTTAAAT-GTA
1 TGGCACTAAGTGTGCAAGCTT-AAACTATATGGCACTAAGTGTGCAAGCTTAAATCACA
** * *
7353614 TGGCACTAAGTGTGTGAGCTTAAACTATATGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCAAGCTTAAACTATATGGCACTAAGTGTGCAAGCTTAAATCACA
7353672 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
7353687 GTGAACGATT
Statistics
Matches: 63, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
56 3 0.05
57 45 0.71
58 15 0.24
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.28
Consensus pattern (58 bp):
TGGCACTAAGTGTGCAAGCTTAAACTATATGGCACTAAGTGTGCAAGCTTAAATCACA
Found at i:7353687 original size:29 final size:28
Alignment explanation
Indices: 7353557--7353687 Score: 172
Period size: 29 Copynumber: 4.6 Consensus size: 28
7353547 GTGACGAGAT
* *
7353557 TGGCACTAAGTGTGCAAGCTTGAAATGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATATA
* *
7353586 TGGCACTAAGTGTGCAAGCTTAAATGTA
1 TGGCACTAAGTGTGCGAGCTTAAATATA
*
7353614 TGGCACTAAGTGTGTGAGCTTAAACTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
7353643 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
7353672 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
7353688 TGAACGATTA
Statistics
Matches: 93, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
28 30 0.32
29 63 0.68
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:7358311 original size:29 final size:28
Alignment explanation
Indices: 7358209--7358311 Score: 127
Period size: 29 Copynumber: 3.6 Consensus size: 28
7358199 GTGACAAGAT
*
7358209 TGGCACTAAGTGTGCAAGCTTGAAA-AGTA
1 TGGCACTAAGTGTGCGAGCTT-AAATA-TA
*
7358238 TGGCACTAAGTGTGCGAACTTAAATTATA
1 TGGCACTAAGTGTGCGAGCTTAAA-TATA
* *
7358267 TGGCACTATGTGTGCGAGCTTAAATCACA
1 TGGCACTAAGTGTGCGAGCTTAAAT-ATA
7358296 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
7358312 TGATCGATTA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
28 4 0.06
29 60 0.92
30 1 0.02
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.27
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTAAATATA
Found at i:7364973 original size:40 final size:40
Alignment explanation
Indices: 7364908--7365151 Score: 348
Period size: 40 Copynumber: 6.1 Consensus size: 40
7364898 CGGAGTTTAA
* * * *
7364908 CCGGATATAGCTA-CTCGCTCGAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAGCTCGCACAAACGCCTTCGGGACTTAGC
* * * *
7364948 CCGGTTATAGTAACTTGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
** * *
7364988 CCGG-TATTCTAACTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
*
7365027 CCGGATATAATAGCTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
7365067 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
7365107 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
1 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
7365147 CCGGA
1 CCGGA
7365152 ATTAGCCACT
Statistics
Matches: 189, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
39 38 0.20
40 151 0.80
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.22
Consensus pattern (40 bp):
CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGC
Found at i:7365109 original size:80 final size:79
Alignment explanation
Indices: 7364908--7365190 Score: 365
Period size: 80 Copynumber: 3.5 Consensus size: 79
7364898 CGGAGTTTAA
* * * * * * *
7364908 CCGGATATAGCTACTCGCTCGAATGCCTTCGGGACATAGCCCGGTTATAGTAACTTGCACAAATG
1 CCGGATATAG-TACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
7364973 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
** *
7364988 CCGG-TATTCTAACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAATAGCTCGCACAAACG
1 CCGGATATAGT-ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
7365052 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
*
7365067 CCGGATATAGTAGCTCGCACAAACGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
1 CCGGATATAGTA-CTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACG
7365132 CCTTCGGGACTTAGC
65 CCTTCGGGACTTAGC
* * *
7365147 CCGGA-ATTAGCCACTAGCTCAAATGCTCTT-GGGACTTAGCCCGG
1 CCGGATA-TAG-TACTCGCACAAATGC-CTTCGGGACTTAGCCCGG
7365191 TTTTCATCCG
Statistics
Matches: 179, Mismatches: 18, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
78 1 0.01
79 69 0.39
80 105 0.59
81 4 0.02
ACGTcount: A:0.24, C:0.29, G:0.24, T:0.23
Consensus pattern (79 bp):
CCGGATATAGTACTCGCACAAATGCCTTCGGGACTTAGCCCGGATATAGTAGCTCGCACAAACGC
CTTCGGGACTTAGC
Found at i:7368299 original size:25 final size:25
Alignment explanation
Indices: 7368271--7368321 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
7368261 AAAGGTATAT
* **
7368271 ACATAGTATTAAAAATATGTACATA
1 ACATAATATTAAAAATACATACATA
*
7368296 ACATAATGTTAAAAATACATACATA
1 ACATAATATTAAAAATACATACATA
7368321 A
1 A
7368322 TATATTTGTT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (25 bp):
ACATAATATTAAAAATACATACATA
Found at i:7368568 original size:26 final size:24
Alignment explanation
Indices: 7368539--7368667 Score: 70
Period size: 24 Copynumber: 5.2 Consensus size: 24
7368529 ACTAAGATAT
* *
7368539 ATATATATATAATATAGTACTTAAAA
1 ATATATACATAAGATAGTA--TAAAA
*
7368565 ATATATACATAAGATTGTATAAAA
1 ATATATACATAAGATAGTATAAAA
*
7368589 ATATGTACATGGAA-AT-GTATAAGAA
1 ATATATACAT--AAGATAGTATAA-AA
* *
7368614 ATATAT--ATAACTAGTAATATTAAAA
1 ATATATACATAA-GA-TAGTA-TAAAA
* *
7368639 ATATATAAATAACATA-TATAAAA
1 ATATATACATAAGATAGTATAAAA
7368662 CATATA
1 -ATATA
7368668 CAATATATAC
Statistics
Matches: 85, Mismatches: 7, Indels: 24
0.73 0.06 0.21
Matches are distributed among these distances:
21 2 0.02
23 8 0.09
24 28 0.33
25 21 0.25
26 22 0.26
27 4 0.05
ACGTcount: A:0.55, C:0.05, G:0.07, T:0.33
Consensus pattern (24 bp):
ATATATACATAAGATAGTATAAAA
Found at i:7368568 original size:28 final size:28
Alignment explanation
Indices: 7368511--7368592 Score: 73
Period size: 28 Copynumber: 3.1 Consensus size: 28
7368501 TATATACATA
* * *
7368511 ATATATACGTAATATGGTACTAAGATAT
1 ATATATACATAATATAGTACTAAGAAAT
* *
7368539 ATATATATATAATATAGTACTTA-AAA-
1 ATATATACATAATATAGTACTAAGAAAT
* *
7368565 ATATATACATAAGATTGTA-TAA-AAAT
1 ATATATACATAATATAGTACTAAGAAAT
7368591 AT
1 AT
7368593 GTACATGGAA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
25 5 0.11
26 18 0.41
27 2 0.05
28 19 0.43
ACGTcount: A:0.50, C:0.05, G:0.09, T:0.37
Consensus pattern (28 bp):
ATATATACATAATATAGTACTAAGAAAT
Found at i:7370201 original size:27 final size:27
Alignment explanation
Indices: 7370167--7370222 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
7370157 TAATGTGTTG
* *
7370167 GGTTGTAAATAGGGTTTTGGGTAATTT
1 GGTTGTAAATAAGGTTTTGGATAATTT
*
7370194 GGTTGTAAATAAGTTTTTGGATAATTT
1 GGTTGTAAATAAGGTTTTGGATAATTT
7370221 GG
1 GG
7370223 ACTTCTACAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.25, C:0.00, G:0.30, T:0.45
Consensus pattern (27 bp):
GGTTGTAAATAAGGTTTTGGATAATTT
Found at i:7370300 original size:15 final size:15
Alignment explanation
Indices: 7370280--7370313 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
7370270 CATATTCATA
*
7370280 ATTTAATTTATTTTT
1 ATTTAATTCATTTTT
7370295 ATTTAATTCATTTTT
1 ATTTAATTCATTTTT
7370310 -TTTA
1 ATTTA
7370314 TTGTCCAATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 4 0.22
15 14 0.78
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTAATTCATTTTT
Found at i:7373017 original size:33 final size:33
Alignment explanation
Indices: 7372980--7373046 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
7372970 AGCGACATAA
*
7372980 AATTTTTAGCTCGGTCGCTATTTGTGGCGATTT
1 AATTTTTAGCTCGGTCGCTAATTGTGGCGATTT
7373013 AATTTTTAGCTCGGTCGCTAATTGTGGCGATTT
1 AATTTTTAGCTCGGTCGCTAATTGTGGCGATTT
7373046 A
1 A
7373047 CGGAAAATTT
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:0.18, C:0.15, G:0.24, T:0.43
Consensus pattern (33 bp):
AATTTTTAGCTCGGTCGCTAATTGTGGCGATTT
Found at i:7374172 original size:12 final size:12
Alignment explanation
Indices: 7374155--7374198 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 12
7374145 TAAAAAGTAG
7374155 ATATAATAATAT
1 ATATAATAATAT
7374167 ATATAATATATAAT
1 ATATAATA-AT-AT
*
7374181 AATATAATAATAA
1 -ATATAATAATAT
7374194 ATATA
1 ATATA
7374199 TATATGTGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 13 0.46
13 3 0.11
14 4 0.14
15 8 0.29
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (12 bp):
ATATAATAATAT
Found at i:7374182 original size:22 final size:22
Alignment explanation
Indices: 7374155--7374200 Score: 71
Period size: 19 Copynumber: 2.2 Consensus size: 22
7374145 TAAAAAGTAG
7374155 ATATAATAATAT-AT-AT-AAT
1 ATATAATAATATAATAATAAAT
7374174 ATATAATAATATAATAATAAAT
1 ATATAATAATATAATAATAAAT
7374196 ATATA
1 ATATA
7374201 TATGTGTAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 12 0.50
20 2 0.08
21 2 0.08
22 8 0.33
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (22 bp):
ATATAATAATATAATAATAAAT
Found at i:7374795 original size:23 final size:23
Alignment explanation
Indices: 7374742--7374798 Score: 71
Period size: 23 Copynumber: 2.4 Consensus size: 23
7374732 TTGACAATAT
7374742 TACATAAATATATATTAAAATAAA
1 TACAT-AATATATATTAAAATAAA
* *
7374766 TATATAATA-ATATTAAAATTACA
1 TACATAATATATATTAAAA-TAAA
7374789 TACATAATAT
1 TACATAATAT
7374799 GTACGTACTA
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
22 9 0.32
23 15 0.54
24 4 0.14
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (23 bp):
TACATAATATATATTAAAATAAA
Found at i:7375625 original size:26 final size:26
Alignment explanation
Indices: 7375588--7375724 Score: 213
Period size: 26 Copynumber: 5.3 Consensus size: 26
7375578 TGATACAAAT
7375588 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7375614 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7375640 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7375666 TGATAAT-GGATTAGGTAAATATTCAA
1 TGATAATAGG-TTAGGTAAATGTTCCA
*
7375692 TGATAATAAGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7375718 TGATAAT
1 TGATAAT
7375725 CATGATAATG
Statistics
Matches: 100, Mismatches: 9, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
25 2 0.02
26 97 0.97
27 1 0.01
ACGTcount: A:0.36, C:0.06, G:0.22, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:7375645 original size:52 final size:51
Alignment explanation
Indices: 7375588--7375784 Score: 232
Period size: 52 Copynumber: 3.6 Consensus size: 51
7375578 TGATACAAAT
7375588 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAAT-TTTCA
* *
7375640 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGATTAGGTAAATATTCAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATTTTC-A
* *
7375692 TGATAATAAGTTAGGTAAATGTTCCATGATAATCATGATAATGGATTAGGTAAATATTCCA
1 TGATAATAGGTTAGGTAAATGTTCCATGAT-A--ATG-----GG-TTAGGTAAAT-TTTCA
* *
7375753 TGATAATGGGTTAGGTAAATGTTTCATGATAA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAA
7375785 GAATATCATG
Statistics
Matches: 125, Mismatches: 9, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
51 3 0.02
52 75 0.60
53 1 0.01
55 3 0.02
58 1 0.01
60 2 0.02
61 38 0.30
62 2 0.02
ACGTcount: A:0.37, C:0.06, G:0.22, T:0.36
Consensus pattern (51 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTAGGTAAATTTTCA
Found at i:7375739 original size:61 final size:61
Alignment explanation
Indices: 7375664--7375784 Score: 206
Period size: 61 Copynumber: 2.0 Consensus size: 61
7375654 GTAAATGTTC
7375664 CATGATAATGGATTAGGTAAATATTCAATGATAATAAGTTAGGTAAATGTTCCATGATAAT
1 CATGATAATGGATTAGGTAAATATTCAATGATAATAAGTTAGGTAAATGTTCCATGATAAT
* ** *
7375725 CATGATAATGGATTAGGTAAATATTCCATGATAATGGGTTAGGTAAATGTTTCATGATAA
1 CATGATAATGGATTAGGTAAATATTCAATGATAATAAGTTAGGTAAATGTTCCATGATAA
7375785 GAATATCATG
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
61 56 1.00
ACGTcount: A:0.39, C:0.07, G:0.20, T:0.35
Consensus pattern (61 bp):
CATGATAATGGATTAGGTAAATATTCAATGATAATAAGTTAGGTAAATGTTCCATGATAAT
Found at i:7375761 original size:26 final size:26
Alignment explanation
Indices: 7375725--7375784 Score: 93
Period size: 26 Copynumber: 2.3 Consensus size: 26
7375715 CCATGATAAT
7375725 CATGATAATGGATTAGGTAAATATTC
1 CATGATAATGGATTAGGTAAATATTC
* * *
7375751 CATGATAATGGGTTAGGTAAATGTTT
1 CATGATAATGGATTAGGTAAATATTC
7375777 CATGATAA
1 CATGATAA
7375785 GAATATCATG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.35
Consensus pattern (26 bp):
CATGATAATGGATTAGGTAAATATTC
Found at i:7377754 original size:137 final size:135
Alignment explanation
Indices: 7377569--7377852 Score: 516
Period size: 137 Copynumber: 2.1 Consensus size: 135
7377559 GAGTAGTCTC
*
7377569 CCCAAATGGG-TTGCATATGTTATTATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CCCAAATGGGCTTGCATATGTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
7377633 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
7377698 TGTTA
131 TGTTA
7377703 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTA-TGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
7377768 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
64 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
7377833 ACTGTTA
129 ACTGTTA
**
7377840 CCTGAATGGGCTT
1 CCCAAATGGGCTT
7377853 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 3, Indels: 3
0.96 0.02 0.02
Matches are distributed among these distances:
134 10 0.07
135 9 0.06
136 3 0.02
137 122 0.85
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (135 bp):
CCCAAATGGGCTTGCATATGTTATGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTA
Found at i:7381635 original size:25 final size:24
Alignment explanation
Indices: 7381596--7381772 Score: 254
Period size: 25 Copynumber: 7.2 Consensus size: 24
7381586 TGATACAAAT
7381596 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTT-CA
7381622 TGATAATGGTTAGGTAAATGTTCA
1 TGATAATGGTTAGGTAAATGTTCA
7381646 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAT-GGTTAGGTAAATGTT-CA
*
7381672 TGATAA---TTAGGTAAATATTCA
1 TGATAATGGTTAGGTAAATGTTCA
7381693 TGATAATGGTTAGGTAAATGTTCCA
1 TGATAATGGTTAGGTAAATGTT-CA
7381718 TGATAATGGTTAGGTAAAT-TTCA
1 TGATAATGGTTAGGTAAATGTTCA
7381741 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAT-GGTTAGGTAAATG-TTCA
7381767 TGATAA
1 TGATAA
7381773 GAATATCATG
Statistics
Matches: 140, Mismatches: 2, Indels: 18
0.88 0.01 0.11
Matches are distributed among these distances:
21 8 0.06
22 12 0.09
23 9 0.06
24 35 0.25
25 51 0.36
26 25 0.18
ACGTcount: A:0.35, C:0.06, G:0.23, T:0.37
Consensus pattern (24 bp):
TGATAATGGTTAGGTAAATGTTCA
Found at i:7381729 original size:71 final size:70
Alignment explanation
Indices: 7381606--7381747 Score: 234
Period size: 71 Copynumber: 2.0 Consensus size: 70
7381596 TGATAATAGG
*
7381606 TTAGGTAAATGTTCCATGATAATGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATGTTCC
1 TTAGGTAAATATTCCATGATAATGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAAT-TT-C
7381671 ATGATAA
64 ATGATAA
7381678 TTAGGTAAATATT-CATGATAATGGTTAGGTAAATGTTCCATGATAAT-GGTTAGGTAAATTTCA
1 TTAGGTAAATATTCCATGATAATGGTTAGGTAAATGTT-CATGATAATAGGTTAGGTAAATTTCA
7381741 TGATAA
65 TGATAA
7381747 T
1 T
7381748 GGGTTAGGTA
Statistics
Matches: 68, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
69 9 0.13
70 2 0.03
71 36 0.53
72 21 0.31
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.37
Consensus pattern (70 bp):
TTAGGTAAATATTCCATGATAATGGTTAGGTAAATGTTCATGATAATAGGTTAGGTAAATTTCAT
GATAA
Found at i:7383739 original size:137 final size:136
Alignment explanation
Indices: 7383554--7383838 Score: 518
Period size: 137 Copynumber: 2.1 Consensus size: 136
7383544 GAGTAGTCTC
*
7383554 CCCAAATGGG-TTGCATATGTTATTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
1 CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
7383618 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
66 GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
7383683 CTGTTA
131 CTGTTA
7383689 CCCAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
1 CCCAAATGGGCTTGCATATG-TTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATAC
*
7383754 TGTTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
65 TGTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACC
7383819 ACTGTTA
130 ACTGTTA
**
7383826 CCTGAATGGGCTT
1 CCCAAATGGGCTT
7383839 AGGCCCAATG
Statistics
Matches: 144, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
135 10 0.07
136 9 0.06
137 125 0.87
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.32
Consensus pattern (136 bp):
CCCAAATGGGCTTGCATATGTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACT
GTTATCTGAATAAGGGACTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCA
CTGTTA
Found at i:7389699 original size:3 final size:3
Alignment explanation
Indices: 7389691--7389750 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
7389681 GAATAGGAGG
7389691 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
7389739 TAA TAA TAA TAA
1 TAA TAA TAA TAA
7389751 CACAACAAGT
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:7389943 original size:28 final size:28
Alignment explanation
Indices: 7389911--7390003 Score: 91
Period size: 28 Copynumber: 3.2 Consensus size: 28
7389901 AAATACGGAT
7389911 ATATAAAATAGAAGTATGATGGATAGAA
1 ATATAAAATAGAAGTATGATGGATAGAA
* * * * *
7389939 ATAT-AAATAAAATTAGAGAAACGG-TAATAA
1 ATATAAAATAGAAGTA-TG--ATGGAT-AGAA
7389969 ATATAAAATAGAAGTATGATGGATAGAA
1 ATATAAAATAGAAGTATGATGGATAGAA
7389997 ATATAAA
1 ATATAAA
7390004 TAAAATTAGA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
27 9 0.18
28 18 0.37
29 2 0.04
30 11 0.22
31 9 0.18
ACGTcount: A:0.57, C:0.01, G:0.17, T:0.25
Consensus pattern (28 bp):
ATATAAAATAGAAGTATGATGGATAGAA
Found at i:7389951 original size:32 final size:32
Alignment explanation
Indices: 7389913--7390009 Score: 102
Period size: 32 Copynumber: 3.2 Consensus size: 32
7389903 ATACGGATAT
7389913 ATAAAATAGAAGTATGATGGATAGAAATATAA
1 ATAAAATAGAAGTATGATGGATAGAAATATAA
* *
7389945 ATAAAATTAG-AG-A-AACGG-T---AATA-AA
1 ATAAAA-TAGAAGTATGATGGATAGAAATATAA
7389970 TATAAAATAGAAGTATGATGGATAGAAATATAA
1 -ATAAAATAGAAGTATGATGGATAGAAATATAA
7390003 ATAAAAT
1 ATAAAAT
7390010 TAGAGAAACG
Statistics
Matches: 51, Mismatches: 4, Indels: 20
0.68 0.05 0.27
Matches are distributed among these distances:
25 5 0.10
26 12 0.24
27 1 0.02
28 3 0.06
29 2 0.04
30 3 0.06
31 1 0.02
32 19 0.37
33 5 0.10
ACGTcount: A:0.58, C:0.01, G:0.16, T:0.25
Consensus pattern (32 bp):
ATAAAATAGAAGTATGATGGATAGAAATATAA
Found at i:7389979 original size:58 final size:58
Alignment explanation
Indices: 7389911--7390032 Score: 237
Period size: 58 Copynumber: 2.1 Consensus size: 58
7389901 AAATACGGAT
7389911 ATATAAAATAGAAGTATGATGGATAGAAATATAAATAAAATTAGAGAAACGGTAATAA
1 ATATAAAATAGAAGTATGATGGATAGAAATATAAATAAAATTAGAGAAACGGTAATAA
7389969 ATATAAAATAGAAGTATGATGGATAGAAATATAAATAAAATTAGAGAAACGGTAATAA
1 ATATAAAATAGAAGTATGATGGATAGAAATATAAATAAAATTAGAGAAACGGTAATAA
7390027 A-ATAAA
1 ATATAAA
7390033 CATAAATATA
Statistics
Matches: 64, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
57 5 0.08
58 59 0.92
ACGTcount: A:0.58, C:0.02, G:0.16, T:0.24
Consensus pattern (58 bp):
ATATAAAATAGAAGTATGATGGATAGAAATATAAATAAAATTAGAGAAACGGTAATAA
Found at i:7391124 original size:14 final size:13
Alignment explanation
Indices: 7391107--7391139 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
7391097 TTTTGAGAGA
7391107 AAAAAAAGAAAGG
1 AAAAAAAGAAAGG
7391120 AAAAAAAGAAA--
1 AAAAAAAGAAAGG
7391131 AAAAAAAGA
1 AAAAAAAGA
7391140 CAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 9 0.45
13 11 0.55
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAAAAAGAAAGG
Found at i:7391125 original size:13 final size:11
Alignment explanation
Indices: 7391106--7391167 Score: 61
Period size: 11 Copynumber: 5.3 Consensus size: 11
7391096 TTTTTGAGAG
7391106 AAAAAAAAGAA
1 AAAAAAAAGAA
7391117 AGGAAAAAAAGAA
1 A--AAAAAAAGAA
7391130 AAAAAAAAGACA
1 AAAAAAAAGA-A
**
7391142 AAAAGAAAAGTG
1 AAAA-AAAAGAA
*
7391154 AAAAGAAAGAA
1 AAAAAAAAGAA
7391165 AAA
1 AAA
7391168 TAATAGTAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
11 17 0.40
12 9 0.21
13 16 0.38
ACGTcount: A:0.81, C:0.02, G:0.16, T:0.02
Consensus pattern (11 bp):
AAAAAAAAGAA
Found at i:7391144 original size:19 final size:21
Alignment explanation
Indices: 7391107--7391150 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
7391097 TTTTGAGAGA
7391107 AAAAAAAGAAAGGAAAAAAAG
1 AAAAAAAGAAAGGAAAAAAAG
*
7391128 AAAAAAA-AAA-GACAAAAAG
1 AAAAAAAGAAAGGAAAAAAAG
7391147 AAAA
1 AAAA
7391151 GTGAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.55
20 3 0.14
21 7 0.32
ACGTcount: A:0.84, C:0.02, G:0.14, T:0.00
Consensus pattern (21 bp):
AAAAAAAGAAAGGAAAAAAAG
Found at i:7391157 original size:24 final size:22
Alignment explanation
Indices: 7391110--7391167 Score: 53
Period size: 24 Copynumber: 2.5 Consensus size: 22
7391100 TGAGAGAAAA
*
7391110 AAAAGAAAGGAAAAAAAGAAAAAA
1 AAAAGAAA--AAAAAAAGAGAAAA
*
7391134 AAAAGACAAAAAGAAAAGTGAAAA
1 AAAAGA-AAAAA-AAAAGAGAAAA
*
7391158 GAAAGAAAAA
1 AAAAGAAAAA
7391168 TAATAGTAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 7 0.24
24 20 0.69
25 2 0.07
ACGTcount: A:0.79, C:0.02, G:0.17, T:0.02
Consensus pattern (22 bp):
AAAAGAAAAAAAAAAGAGAAAA
Found at i:7394116 original size:27 final size:27
Alignment explanation
Indices: 7394086--7394167 Score: 82
Period size: 26 Copynumber: 3.1 Consensus size: 27
7394076 AGTAAAGTAA
7394086 AAATATATATCTTTATATTTGTTTAAT
1 AAATATATATCTTTATATTTGTTTAAT
* * * *
7394113 AAAT-TA-AT-TTTGTTATGTAGGTGAA-
1 AAATATATATCTTT-ATAT-TTGTTTAAT
7394138 AAATATATATCTTTATATTTGTTTAAT
1 AAATATATATCTTTATATTTGTTTAAT
7394165 AAA
1 AAA
7394168 ATAATTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 12
0.67 0.13 0.20
Matches are distributed among these distances:
24 3 0.07
25 9 0.22
26 14 0.34
27 12 0.29
28 3 0.07
ACGTcount: A:0.39, C:0.02, G:0.09, T:0.50
Consensus pattern (27 bp):
AAATATATATCTTTATATTTGTTTAAT
Found at i:7394142 original size:52 final size:52
Alignment explanation
Indices: 7394084--7394187 Score: 190
Period size: 52 Copynumber: 2.0 Consensus size: 52
7394074 GGAGTAAAGT
*
7394084 AAAAATATATATCTTTATATTTGTTTAATAAATTAATTTTGTTATGTAGGTG
1 AAAAATATATATCTTTATATTTGTTTAATAAAATAATTTTGTTATGTAGGTG
*
7394136 AAAAATATATATCTTTATATTTGTTTAATAAAATAATTTTTTTATGTAGGTG
1 AAAAATATATATCTTTATATTTGTTTAATAAAATAATTTTGTTATGTAGGTG
7394188 CAATCCCACA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.38, C:0.02, G:0.11, T:0.50
Consensus pattern (52 bp):
AAAAATATATATCTTTATATTTGTTTAATAAAATAATTTTGTTATGTAGGTG
Found at i:7394500 original size:2 final size:2
Alignment explanation
Indices: 7394493--7394525 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
7394483 TAACACTAAA
7394493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7394526 GGTAAGATGT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7395613 original size:20 final size:19
Alignment explanation
Indices: 7395584--7395622 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
7395574 TTTTATTTCG
*
7395584 AAAAATTTAATGATTAAAT
1 AAAAATTTAATAATTAAAT
7395603 AAAAATATTAATAATTAAAT
1 AAAAAT-TTAATAATTAAAT
7395623 GACTAAAGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (19 bp):
AAAAATTTAATAATTAAAT
Found at i:7397050 original size:20 final size:20
Alignment explanation
Indices: 7397025--7397065 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
7397015 TATTTTAATC
*
7397025 ATTTAACTATTAATTTTTTT
1 ATTTAACTATTAAATTTTTT
*
7397045 ATTTAATTATTAAATTTTTT
1 ATTTAACTATTAAATTTTTT
7397065 A
1 A
7397066 AAATTAAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTAACTATTAAATTTTTT
Found at i:7397926 original size:22 final size:20
Alignment explanation
Indices: 7397893--7397933 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 20
7397883 TATTTAATTT
*
7397893 TGAAAAATTTAATGATTAAA
1 TGAAAAATTTAATAATTAAA
7397913 TGAAAATATATTAATAATTAA
1 TGAAAA-AT-TTAATAATTAA
7397934 GTGACTAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 2 0.11
22 10 0.56
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
TGAAAAATTTAATAATTAAA
Found at i:7401793 original size:33 final size:33
Alignment explanation
Indices: 7401755--7401821 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
7401745 AAGCTATCGG
7401755 TTCGTCAATTCAATCAATTCAATTAATTTGTTT
1 TTCGTCAATTCAATCAATTCAATTAATTTGTTT
7401788 TTCGTCAATTCAATCAATTCAATTAATTTGTTT
1 TTCGTCAATTCAATCAATTCAATTAATTTGTTT
7401821 T
1 T
7401822 ATTTTAGTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.30, C:0.15, G:0.06, T:0.49
Consensus pattern (33 bp):
TTCGTCAATTCAATCAATTCAATTAATTTGTTT
Found at i:7407397 original size:20 final size:20
Alignment explanation
Indices: 7407372--7407427 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
7407362 ACATACATTT
* *
7407372 TTTGTTCTGTTATGTTCTGC
1 TTTGTTATGTTTTGTTCTGC
*
7407392 TTTGTTATGTTTTGCTCTGC
1 TTTGTTATGTTTTGTTCTGC
* *
7407412 TCTGTTTTGTTTTGTT
1 TTTGTTATGTTTTGTT
7407428 ATAGTTGTAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.04, C:0.12, G:0.20, T:0.64
Consensus pattern (20 bp):
TTTGTTATGTTTTGTTCTGC
Found at i:7407802 original size:26 final size:26
Alignment explanation
Indices: 7407766--7407927 Score: 279
Period size: 26 Copynumber: 6.2 Consensus size: 26
7407756 TGATACAAAT
7407766 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7407792 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7407818 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7407844 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
*
7407870 TGATAATAGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
7407896 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
7407922 TGATAA
1 TGATAA
7407928 GAATATCATG
Statistics
Matches: 130, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 130 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:7407856 original size:78 final size:78
Alignment explanation
Indices: 7407766--7407927 Score: 315
Period size: 78 Copynumber: 2.1 Consensus size: 78
7407756 TGATACAAAT
7407766 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
7407831 GGTAAATGTTTCA
66 GGTAAATGTTTCA
*
7407844 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTTCATGATAATGGGTTA
1 TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
7407909 GGTAAATGTTTCA
66 GGTAAATGTTTCA
7407922 TGATAA
1 TGATAA
7407928 GAATATCATG
Statistics
Matches: 83, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 83 1.00
ACGTcount: A:0.34, C:0.06, G:0.24, T:0.36
Consensus pattern (78 bp):
TGATAATAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCATGATAATGGGTTA
GGTAAATGTTTCA
Found at i:7416075 original size:18 final size:18
Alignment explanation
Indices: 7416035--7416108 Score: 57
Period size: 18 Copynumber: 4.1 Consensus size: 18
7416025 ATATCAGTCC
*
7416035 TTTTT-TTTTTTTACTTTTC
1 TTTTTCTTTTTTT-C-TTTA
7416054 TTTTTCTTTTTTTCTTTA
1 TTTTTCTTTTTTTCTTTA
7416072 -TTTTCTTTATTTAT-TTTA
1 TTTTTCTTT-TTT-TCTTTA
* *
7416090 -TTTTATTTTTTTATTTA
1 TTTTTCTTTTTTTCTTTA
7416107 TT
1 TT
7416109 ATTATTAACT
Statistics
Matches: 48, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
16 1 0.02
17 15 0.31
18 18 0.38
19 7 0.15
20 7 0.15
ACGTcount: A:0.11, C:0.07, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTTCTTTTTTTCTTTA
Found at i:7416101 original size:13 final size:13
Alignment explanation
Indices: 7416035--7416105 Score: 54
Period size: 14 Copynumber: 5.2 Consensus size: 13
7416025 ATATCAGTCC
*
7416035 TTTTTTTTTTTTA
1 TTTTATTTTTTTA
* *
7416048 CTTTTCTTTTTCTTT
1 -TTTTATTTTT-TTA
*
7416063 TTTTCTTTATTTT-
1 TTTTATTT-TTTTA
*
7416076 CTTTATTTATTTTA
1 TTTTATTT-TTTTA
7416090 TTTTATTTTTTTA
1 TTTTATTTTTTTA
7416103 TTT
1 TTT
7416106 ATTATTATTA
Statistics
Matches: 49, Mismatches: 5, Indels: 7
0.80 0.08 0.11
Matches are distributed among these distances:
13 19 0.39
14 26 0.53
15 4 0.08
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.83
Consensus pattern (13 bp):
TTTTATTTTTTTA
Found at i:7416113 original size:18 final size:17
Alignment explanation
Indices: 7416055--7416114 Score: 66
Period size: 18 Copynumber: 3.4 Consensus size: 17
7416045 TTACTTTTCT
* *
7416055 TTTTCTTTTTTTCTTTA
1 TTTTATTTTTTTATTTA
* *
7416072 TTTTCTTTATTTATTTTA
1 TTTTATTTTTTTA-TTTA
7416090 TTTTATTTTTTTATTTA
1 TTTTATTTTTTTATTTA
7416107 TTATTATT
1 TT-TTATT
7416115 AACTTTAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
17 17 0.46
18 20 0.54
ACGTcount: A:0.15, C:0.05, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTTATTTTTTTATTTA
Found at i:7416160 original size:24 final size:25
Alignment explanation
Indices: 7416132--7416204 Score: 84
Period size: 24 Copynumber: 3.1 Consensus size: 25
7416122 AAAATTTTGA
7416132 AATATATA-TTTGAAATATTTTATT
1 AATATATATTTTGAAATATTTTATT
**
7416156 AATATATATTTTTTAA-ATTTTA--
1 AATATATATTTTGAAATATTTTATT
7416178 AATATATATTTTGAAATTATTTT-TT
1 AATATATATTTTGAAA-TATTTTATT
7416203 AA
1 AA
7416205 ATTTTAAATA
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
22 14 0.35
24 19 0.47
25 7 0.17
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (25 bp):
AATATATATTTTGAAATATTTTATT
Found at i:7416181 original size:22 final size:22
Alignment explanation
Indices: 7416122--7416193 Score: 83
Period size: 22 Copynumber: 3.1 Consensus size: 22
7416112 ATTAACTTTA
7416122 AAAATTTTGAAATATATA-TTTG
1 AAAATTTT-AAATATATATTTTG
*
7416144 AAATATTTTATTAATATATATTTTT
1 AAA-ATTTTA--AATATATATTTTG
*
7416169 TAAATTTTAAATATATATTTTG
1 AAAATTTTAAATATATATTTTG
7416191 AAA
1 AAA
7416194 TTATTTTTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
22 18 0.43
23 5 0.12
24 14 0.33
25 5 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (22 bp):
AAAATTTTAAATATATATTTTG
Found at i:7416184 original size:20 final size:22
Alignment explanation
Indices: 7416123--7416195 Score: 62
Period size: 24 Copynumber: 3.2 Consensus size: 22
7416113 TTAACTTTAA
7416123 AAATTTTGAA-ATATATA-TTTG
1 AAATTTT-AATATATATATTTTG
* *
7416144 AAATATTTTATTAATATATATTTTTT
1 -AA-ATTTTAAT-ATATATA-TTTTG
7416170 AAATTTTAA-ATATATATTTTG
1 AAATTTTAATATATATATTTTG
7416191 AAATT
1 AAATT
7416196 ATTTTTTAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 11
0.74 0.07 0.19
Matches are distributed among these distances:
21 9 0.21
22 10 0.24
23 5 0.12
24 13 0.31
25 2 0.05
26 3 0.07
ACGTcount: A:0.42, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
AAATTTTAATATATATATTTTG
Found at i:7416202 original size:26 final size:26
Alignment explanation
Indices: 7416126--7416206 Score: 77
Period size: 22 Copynumber: 3.3 Consensus size: 26
7416116 ACTTTAAAAA
*
7416126 TTTTGAAATATATA-TTTGAAA-TAT
1 TTTTTAAATATATATTTTGAAATTAT
*
7416150 TTTATT-AATATATATTTT----TTAA
1 TTT-TTAAATATATATTTTGAAATTAT
*
7416172 ATTTTAAATATATATTTTGAAATTAT
1 TTTTTAAATATATATTTTGAAATTAT
7416198 TTTTTAAAT
1 TTTTTAAAT
7416207 TTTAAATATT
Statistics
Matches: 44, Mismatches: 5, Indels: 14
0.70 0.08 0.22
Matches are distributed among these distances:
21 2 0.05
22 16 0.36
24 11 0.25
25 4 0.09
26 11 0.25
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTTAAATATATATTTTGAAATTAT
Found at i:7416219 original size:48 final size:47
Alignment explanation
Indices: 7416123--7416221 Score: 114
Period size: 47 Copynumber: 2.1 Consensus size: 47
7416113 TTAACTTTAA
* *
7416123 AAATTTTGAAATATATATTTGAAATATTTTATTAATATATATTTTTT
1 AAATTTTGAAATATATATTTGAAATATTTTATTAATATATAATATTT
*
7416170 AAATTTT-AAATATATATTTTGAAATTATTTT-TTAA-ATTTTAAATATTT
1 AAATTTTGAAATATATA-TTTGAAA-TATTTTATTAATA-TAT-AATATTT
7416218 AAAT
1 AAAT
7416222 ATTTTAAACT
Statistics
Matches: 45, Mismatches: 3, Indels: 7
0.82 0.05 0.13
Matches are distributed among these distances:
46 10 0.22
47 20 0.44
48 15 0.33
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (47 bp):
AAATTTTGAAATATATATTTGAAATATTTTATTAATATATAATATTT
Found at i:7416634 original size:22 final size:23
Alignment explanation
Indices: 7416595--7416651 Score: 66
Period size: 22 Copynumber: 2.6 Consensus size: 23
7416585 GAAAGTTTAA
7416595 AATATTT-AAATATCTAAAAAAT
1 AATATTTAAAATATCTAAAAAAT
* *
7416617 AATATTTAAAAT-TTTAAAAAGT
1 AATATTTAAAATATCTAAAAAAT
*
7416639 AAT-TTCAAAATAT
1 AATATTTAAAATAT
7416652 ATATTTAAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 7 0.23
22 19 0.63
23 4 0.13
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.39
Consensus pattern (23 bp):
AATATTTAAAATATCTAAAAAAT
Found at i:7416656 original size:56 final size:56
Alignment explanation
Indices: 7416596--7416705 Score: 145
Period size: 56 Copynumber: 2.0 Consensus size: 56
7416586 AAAGTTTAAA
*
7416596 ATATTTAAATATCTAAAAAATAATATTTAAAAT-TTT-AAAAAGTA-ATTTCAAAATAT
1 ATATTTAAA-ATCTAAAAAAT-ATATATAAAATATTTCAAAAA-TATATTTCAAAATAT
* *
7416652 ATATTTAAAATTTAAAAAATATATATAAAATATTTCAAATATATATTTCAAAAT
1 ATATTTAAAATCTAAAAAATATATATAAAATATTTCAAAAATATATTTCAAAAT
7416706 TTTTAAAGTT
Statistics
Matches: 48, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
54 10 0.21
55 15 0.31
56 23 0.48
ACGTcount: A:0.55, C:0.04, G:0.01, T:0.40
Consensus pattern (56 bp):
ATATTTAAAATCTAAAAAATATATATAAAATATTTCAAAAATATATTTCAAAATAT
Found at i:7416673 original size:20 final size:20
Alignment explanation
Indices: 7416639--7416707 Score: 75
Period size: 22 Copynumber: 3.2 Consensus size: 20
7416629 TTTAAAAAGT
7416639 AATTTCAAAATATATATTTAA
1 AATTT-AAAATATATATTTAA
* *
7416660 AATTTAAAAAATATATATAAA
1 AATTTAAAATATATAT-TTAA
*
7416681 ATATTTCAAATATATATTTCAA
1 A-ATTTAAAATATATATTT-AA
7416703 AATTT
1 AATTT
7416708 TTAAAGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
20 10 0.25
21 14 0.35
22 16 0.40
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (20 bp):
AATTTAAAATATATATTTAA
Found at i:7416673 original size:22 final size:21
Alignment explanation
Indices: 7416639--7416707 Score: 77
Period size: 21 Copynumber: 3.2 Consensus size: 21
7416629 TTTAAAAAGT
*
7416639 AATTTCAAAATATATATTTAA
1 AATTTAAAAATATATATTTAA
*
7416660 AATTTAAAAA-ATATATATAA
1 AATTTAAAAATATATATTTAA
**
7416680 AATATTTCAAATATATATTTCAA
1 AAT-TTAAAAATATATATTT-AA
7416703 AATTT
1 AATTT
7416708 TTAAAGTTAA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
20 12 0.30
21 14 0.35
22 9 0.22
23 5 0.12
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (21 bp):
AATTTAAAAATATATATTTAA
Found at i:7416734 original size:42 final size:42
Alignment explanation
Indices: 7416645--7416734 Score: 94
Period size: 42 Copynumber: 2.1 Consensus size: 42
7416635 AAGTAATTTC
**
7416645 AAAATATATATTTAAAATTTAAAAAATATATATAAAATATTT
1 AAAATATATATTTAAAATTTAAAAAATATATATAAAATAAAT
* ** *
7416687 CAAATATATATTTCAAAATTTTTAAAGT-TA-ATAATAATAAAT
1 AAAATATATATTT-AAAATTTAAAAAATATATATAA-AATAAAT
7416729 AAAATA
1 AAAATA
7416735 AAATAAAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
41 4 0.10
42 24 0.62
43 11 0.28
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (42 bp):
AAAATATATATTTAAAATTTAAAAAATATATATAAAATAAAT
Found at i:7416738 original size:10 final size:9
Alignment explanation
Indices: 7416716--7416750 Score: 52
Period size: 10 Copynumber: 3.7 Consensus size: 9
7416706 TTTTAAAGTT
7416716 AATAATAATA
1 AATAA-AATA
7416726 AATAAAATAA
1 AATAAAAT-A
7416736 AATAAAATA
1 AATAAAATA
7416745 AATAAA
1 AATAAA
7416751 GAAAAAAGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 10 0.42
10 14 0.58
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AATAAAATA
Found at i:7424829 original size:15 final size:15
Alignment explanation
Indices: 7424809--7424839 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
7424799 CTCTTGTAAG
7424809 ATACTTTATTTTGAA
1 ATACTTTATTTTGAA
7424824 ATACTTTATTTTGAA
1 ATACTTTATTTTGAA
7424839 A
1 A
7424840 CTTTAAATAG
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:0.35, C:0.06, G:0.06, T:0.52
Consensus pattern (15 bp):
ATACTTTATTTTGAA
Found at i:7428638 original size:12 final size:12
Alignment explanation
Indices: 7428621--7428646 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7428611 TCAACTCCAG
7428621 TTTATATATATA
1 TTTATATATATA
7428633 TTTATATATATA
1 TTTATATATATA
7428645 TT
1 TT
7428647 GCCCCCATTT
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (12 bp):
TTTATATATATA
Found at i:7428968 original size:17 final size:16
Alignment explanation
Indices: 7428946--7428977 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
7428936 TTGCAGAGGG
7428946 TTTTTTTTCCTCTTTTT
1 TTTTTTTTCCT-TTTTT
7428963 TTTTTTTTCCTTTTT
1 TTTTTTTTCCTTTTT
7428978 GTCATATTGC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTTTCCTTTTTT
Found at i:7430533 original size:6 final size:5
Alignment explanation
Indices: 7430496--7430538 Score: 52
Period size: 5 Copynumber: 8.6 Consensus size: 5
7430486 CTGTCTAAAC
* *
7430496 AAAGA AGAAGG AAA-A AAAGA AAAGA AAAGA AAAGG AAAGA AAA
1 AAAGA A-AAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAAGA AAA
7430539 TTTGCAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
4 3 0.09
5 25 0.78
6 4 0.12
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (5 bp):
AAAGA
Found at i:7433199 original size:18 final size:18
Alignment explanation
Indices: 7433176--7433217 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
7433166 TAATAGATTT
*
7433176 TTAATTTAATAAATTT-AA
1 TTAATTCAA-AAATTTAAA
*
7433194 TTAATTCAAAATTTTAAA
1 TTAATTCAAAAATTTAAA
7433212 TTAATT
1 TTAATT
7433218 ACACCTTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (18 bp):
TTAATTCAAAAATTTAAA
Found at i:7434337 original size:20 final size:20
Alignment explanation
Indices: 7434309--7434351 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 20
7434299 AAAATTAATA
*
7434309 AAAATATATATAATGATT-GT
1 AAAAGATATAT-ATGATTAGT
7434329 AAAAGATATATATGATTAGT
1 AAAAGATATATATGATTAGT
7434349 AAA
1 AAA
7434352 TATTAAATGG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 6 0.29
20 15 0.71
ACGTcount: A:0.53, C:0.00, G:0.12, T:0.35
Consensus pattern (20 bp):
AAAAGATATATATGATTAGT
Found at i:7434497 original size:28 final size:29
Alignment explanation
Indices: 7434448--7434507 Score: 70
Period size: 28 Copynumber: 2.1 Consensus size: 29
7434438 GAAAAAATAT
7434448 AAAAAATATAAAAACGATAAATATT-ATA
1 AAAAAATATAAAAACGATAAATATTGATA
** *
7434476 AAAAAATATATAAATTGA-AAATTTTGATA
1 AAAAAATATA-AAAACGATAAATATTGATA
7434505 AAA
1 AAA
7434508 TTTATTTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
28 16 0.59
29 11 0.41
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (29 bp):
AAAAAATATAAAAACGATAAATATTGATA
Found at i:7434538 original size:2 final size:2
Alignment explanation
Indices: 7434531--7434564 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7434521 TTATCAAAAT
7434531 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
7434565 AGAAAATTGT
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):
TA
Found at i:7437485 original size:2 final size:2
Alignment explanation
Indices: 7437480--7437513 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
7437470 ATAAATGTGC
7437480 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
7437514 GTGTGTGTGT
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:7438311 original size:2 final size:2
Alignment explanation
Indices: 7438304--7438334 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7438294 AAAATATCTA
7438304 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7438335 CATACTCTTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7439418 original size:56 final size:56
Alignment explanation
Indices: 7439343--7439451 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
7439333 AATATAAATC
* *
7439343 CTGTTCATGAGTCAGATCATCTGTTAAGTTTATAATTATAATTTTAATATTAGATA
1 CTGTTCATGAGTCAGATCATCTGTTAAGTTAATAATTATAACTTTAATATTAGATA
* * * * *
7439399 CTGTTTATGGGTCAGATCATTTGTTAGGTTAATAATTATGACTTTAATATTAG
1 CTGTTCATGAGTCAGATCATCTGTTAAGTTAATAATTATAACTTTAATATTAG
7439452 GTACGATTTT
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.31, C:0.08, G:0.16, T:0.45
Consensus pattern (56 bp):
CTGTTCATGAGTCAGATCATCTGTTAAGTTAATAATTATAACTTTAATATTAGATA
Found at i:7443297 original size:48 final size:48
Alignment explanation
Indices: 7443226--7443322 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
7443216 TTGCTTCTTG
7443226 GTGTAAGAGTAGAGGGGTTTTAACCAATAAATTTTCAAATCCGTTGTT
1 GTGTAAGAGTAGAGGGGTTTTAACCAATAAATTTTCAAATCCGTTGTT
7443274 GTGTAAGAGTAGAGGGGTTTTAACCAATAAATTTTCAAATCCGTTGTT
1 GTGTAAGAGTAGAGGGGTTTTAACCAATAAATTTTCAAATCCGTTGTT
7443322 G
1 G
7443323 AATAAATCTT
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.31, C:0.10, G:0.24, T:0.35
Consensus pattern (48 bp):
GTGTAAGAGTAGAGGGGTTTTAACCAATAAATTTTCAAATCCGTTGTT
Found at i:7447402 original size:2 final size:2
Alignment explanation
Indices: 7447397--7447427 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
7447387 GTACACATGT
7447397 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
7447428 CATACACGCA
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:7450427 original size:40 final size:38
Alignment explanation
Indices: 7450284--7450429 Score: 202
Period size: 38 Copynumber: 3.7 Consensus size: 38
7450274 AGCACTCGAT
*
7450284 ATATATCCGGGTTAAGTCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
7450322 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
7450360 ATATATCCGGGTTAAATCCTGCACAGGCTTAGTGCTGGTA
1 ATATATCCGGGTTAAATCC--CGCAGGCTTCGTGCTGGTA
* * *
7450400 TTATATCCGAGCTTAAAGTCCTGCAGGCTT
1 ATATATCCG-GGTTAAA-TCCCGCAGGCTT
7450430 GTTGTTGGTG
Statistics
Matches: 97, Mismatches: 7, Indels: 6
0.88 0.06 0.05
Matches are distributed among these distances:
38 56 0.58
40 32 0.33
41 6 0.06
42 3 0.03
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
ATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:7450941 original size:18 final size:18
Alignment explanation
Indices: 7450918--7450963 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
7450908 TGTATTGCTT
7450918 AAAACTTACTAGACTTTG
1 AAAACTTACTAGACTTTG
7450936 AAAACTTACTAGACTTTG
1 AAAACTTACTAGACTTTG
*
7450954 AAAGCTTACT
1 AAAACTTACT
7450964 CTGTTCTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
AAAACTTACTAGACTTTG
Found at i:7453948 original size:37 final size:37
Alignment explanation
Indices: 7453895--7453993 Score: 171
Period size: 37 Copynumber: 2.7 Consensus size: 37
7453885 CGAATAGTCC
*
7453895 CCACACGTAGTTATCGGGTCTTACCAGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCAGGACAAAATCT
* *
7453932 CCGCACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCAGGACAAAATCT
7453969 CCACACGTAGTCATCGGGTCTTACC
1 CCACACGTAGTCATCGGGTCTTACC
7453994 TGGAATACAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.25, C:0.31, G:0.20, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCAGGACAAAATCT
Found at i:7454113 original size:48 final size:48
Alignment explanation
Indices: 7454042--7454706 Score: 1042
Period size: 48 Copynumber: 13.8 Consensus size: 48
7454032 TGTTACAACA
*
7454042 TTCACATTAGCCATTCGGCTTTACCACATATACCTATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
7454090 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
7454138 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * *
7454186 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* *
7454234 TTCACATTAGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * *
7454282 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
7454330 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACCAATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATA-C---ATAT
7454382 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
*
7454430 TTCACATTCGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * *
7454478 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
7454526 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
7454574 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * * * *
7454622 TTCACATTCGCCATTCAGCTTTACCACATACACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
* * * *
7454670 TTCACATTAGCCATTCGACTTCACCACACATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATAT
7454707 ATTTATCTTG
Statistics
Matches: 577, Mismatches: 36, Indels: 8
0.93 0.06 0.01
Matches are distributed among these distances:
48 529 0.92
49 1 0.00
51 1 0.00
52 46 0.08
ACGTcount: A:0.31, C:0.29, G:0.06, T:0.34
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATACATAT
Found at i:7476961 original size:27 final size:27
Alignment explanation
Indices: 7476931--7477009 Score: 66
Period size: 27 Copynumber: 3.2 Consensus size: 27
7476921 CTCAATGAGT
7476931 TCGGATGCCTAGTTACATCTCACGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
*
7476958 TCGGA---CTA---A-A-CTCAACGAGC
1 TCGGATGCCTAGTTACATCTC-ACGAAC
* *
7476978 TCGGATGCCTAGTTACATATCATGAAC
1 TCGGATGCCTAGTTACATCTCACGAAC
7477005 TCGGA
1 TCGGA
7477010 CTCAACTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 18
0.64 0.07 0.30
Matches are distributed among these distances:
19 3 0.08
20 11 0.28
21 1 0.03
23 3 0.08
24 3 0.08
26 1 0.03
27 15 0.38
28 2 0.05
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.24
Consensus pattern (27 bp):
TCGGATGCCTAGTTACATCTCACGAAC
Found at i:7476971 original size:47 final size:47
Alignment explanation
Indices: 7476907--7477025 Score: 184
Period size: 47 Copynumber: 2.5 Consensus size: 47
7476897 ATCCATAAGT
* * * *
7476907 GAACTCAGACTCAACTCAATGAGTTCGGATGCCTAGTTACATCTCAC
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATATCAC
* *
7476954 GAACTCGGACTAAACTCAACGAGCTCGGATGCCTAGTTACATATCAT
1 GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATATCAC
7477001 GAACTCGGACTCAACTCAACGAGCT
1 GAACTCGGACTCAACTCAACGAGCT
7477026 TGGAACTCAA
Statistics
Matches: 65, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 65 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGCTCGGATGCCTAGTTACATATCAC
Found at i:7482407 original size:23 final size:23
Alignment explanation
Indices: 7482381--7482432 Score: 86
Period size: 23 Copynumber: 2.3 Consensus size: 23
7482371 TGATTTTTAA
* *
7482381 ATTTTGAATTATTTAGTGATTAT
1 ATTTAGAATTATTTAGTGATAAT
7482404 ATTTAGAATTATTTAGTGATAAT
1 ATTTAGAATTATTTAGTGATAAT
7482427 ATTTAG
1 ATTTAG
7482433 GAAAAATCCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.35, C:0.00, G:0.13, T:0.52
Consensus pattern (23 bp):
ATTTAGAATTATTTAGTGATAAT
Done.