Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 147 of 173
Found at i:44543935 original size:18 final size:18
Alignment explanation
Indices: 44543914--44543950 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
44543904 AAGAAATAAG
44543914 AAAGAAGGAAGCAAAAGA
1 AAAGAAGGAAGCAAAAGA
*
44543932 AAAGAAGGAAGGAAAAGA
1 AAAGAAGGAAGCAAAAGA
44543950 A
1 A
44543951 GAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.68, C:0.03, G:0.30, T:0.00
Consensus pattern (18 bp):
AAAGAAGGAAGCAAAAGA
Found at i:44543956 original size:22 final size:23
Alignment explanation
Indices: 44543903--44543956 Score: 60
Period size: 22 Copynumber: 2.4 Consensus size: 23
44543893 TAGAGAAACG
44543903 GAAGAAATAAGAAAGAAGGAAGCAA
1 GAAGAAA-AAGAAAGAAGGAA-CAA
*
44543928 -AAG-AAAAGAAGGAAGGAA-AA
1 GAAGAAAAAGAAAGAAGGAACAA
44543948 GAAGAAAAA
1 GAAGAAAAA
44543957 AATAAGGTAT
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
20 2 0.08
21 3 0.12
22 16 0.62
23 2 0.08
24 3 0.12
ACGTcount: A:0.69, C:0.02, G:0.28, T:0.02
Consensus pattern (23 bp):
GAAGAAAAAGAAAGAAGGAACAA
Found at i:44546957 original size:27 final size:27
Alignment explanation
Indices: 44546927--44546993 Score: 86
Period size: 24 Copynumber: 2.5 Consensus size: 27
44546917 AAATTGTAAA
44546927 ATAAAAAAACATTATAATTTTATTTAC
1 ATAAAAAAACATTATAATTTTATTTAC
*
44546954 ATAAAAAAAC---CTAATTTTATTTAC
1 ATAAAAAAACATTATAATTTTATTTAC
44546978 ATAAAAAGAATCATTA
1 ATAAAAA-AA-CATTA
44546994 CATAAATATG
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
24 20 0.61
25 2 0.06
26 1 0.03
27 10 0.30
ACGTcount: A:0.54, C:0.09, G:0.01, T:0.36
Consensus pattern (27 bp):
ATAAAAAAACATTATAATTTTATTTAC
Found at i:44549098 original size:38 final size:38
Alignment explanation
Indices: 44549055--44549136 Score: 137
Period size: 38 Copynumber: 2.2 Consensus size: 38
44549045 AAAAAGTCAG
* *
44549055 TTATAATTAAACTTTTAATAAAATGATTTTTAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTAAATTTTT
*
44549093 TTATAATTAAACTTTTAATGAAATAATTTTAAATTTTT
1 TTATAATTAAACTTTTAATAAAATAATTTTAAATTTTT
44549131 TTATAA
1 TTATAA
44549137 ACTTTATATG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.54
Consensus pattern (38 bp):
TTATAATTAAACTTTTAATAAAATAATTTTAAATTTTT
Found at i:44549246 original size:60 final size:60
Alignment explanation
Indices: 44549170--44549291 Score: 165
Period size: 60 Copynumber: 2.0 Consensus size: 60
44549160 ATACTAAACT
* * * * * *
44549170 AAACACAACAACTTATAGCTTAATCCTAAATTACTAATAAATTAAATTTTAAAAT-ATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATT-AATTATAAAATAATTAC
*
44549230 AAACACAAAAATTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
1 AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
44549290 AA
1 AA
44549292 TATTCATACA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
59 10 0.19
60 44 0.81
ACGTcount: A:0.54, C:0.15, G:0.01, T:0.30
Consensus pattern (60 bp):
AAACACAAAAACTTATAACATAATCCCAAATTACTAACAAATTAATTATAAAATAATTAC
Found at i:44549319 original size:8 final size:8
Alignment explanation
Indices: 44549306--44549396 Score: 65
Period size: 8 Copynumber: 10.4 Consensus size: 8
44549296 CATACAAAAA
44549306 ATTACAAT
1 ATTACAAT
44549314 ATTACAAT
1 ATTACAAT
* * *
44549322 ATATCCCGAC
1 AT-T-ACAAT
44549332 ATTACAAT
1 ATTACAAT
*
44549340 ATTCATACAAA
1 A-T--TACAAT
44549351 ATTACAAT
1 ATTACAAT
44549359 ATTACAAT
1 ATTACAAT
*
44549367 ATTCATACAAA
1 A-T--TACAAT
44549378 ATTACAAT
1 ATTACAAT
44549386 ATTACAAT
1 ATTACAAT
44549394 ATT
1 ATT
44549397 CATACAAAAA
Statistics
Matches: 65, Mismatches: 10, Indels: 16
0.71 0.11 0.18
Matches are distributed among these distances:
8 43 0.66
9 4 0.06
10 6 0.09
11 12 0.18
ACGTcount: A:0.48, C:0.16, G:0.01, T:0.34
Consensus pattern (8 bp):
ATTACAAT
Found at i:44549356 original size:19 final size:19
Alignment explanation
Indices: 44549332--44549640 Score: 150
Period size: 19 Copynumber: 16.2 Consensus size: 19
44549322 ATATCCCGAC
44549332 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
44549351 ATTACAATA-T--TACAATA
1 ATTACAATATTCATACAA-A
* * *
44549368 TTCATACAA-AAT--TACAAT
1 AT--TACAATATTCATACAAA
44549386 ATTACAATATTCATACAAAAAA
1 ATTACAATATTCATAC---AAA
* *
44549408 ATTGCAATATTCATTCAAA
1 ATTACAATATTCATACAAA
* *
44549427 ATTATAATA-T--TACAAT
1 ATTACAATATTCATACAAA
*
44549443 ATT-C-ATA--CA-AAAAA
1 ATTACAATATTCATACAAA
44549457 ATTACAATATTCATACAAA
1 ATTACAATATTCATACAAA
44549476 ATTACAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
44549497 ATTACAATATTCATATAAA
1 ATTACAATATTCATACAAA
* * *
44549516 A-TACTA-ATCCAAAACTATAA
1 ATTACAATATTC-ATAC-A-AA
*
44549536 A-TACAAATTTAATT-ATAAAATA
1 ATTAC-AA--T-ATTCATACAA-A
*
44549558 ATTACAATATTCATACAAC
1 ATTACAATATTCATACAAA
* *
44549577 ATTAAAATATTCATAAAAAA
1 ATTACAATATTCAT-ACAAA
*
44549597 ATTAAAATATTCATACAAAAA
1 ATTACAATATTCATAC--AAA
*
44549618 AGTTAGAATATTCATACAAA
1 A-TTACAATATTCATACAAA
44549638 ATT
1 ATT
44549641 CTAATCTAAA
Statistics
Matches: 225, Mismatches: 31, Indels: 68
0.69 0.10 0.21
Matches are distributed among these distances:
14 9 0.04
15 1 0.00
16 20 0.09
17 7 0.03
18 12 0.05
19 77 0.34
20 33 0.15
21 24 0.11
22 35 0.16
23 5 0.02
25 2 0.01
ACGTcount: A:0.54, C:0.13, G:0.01, T:0.32
Consensus pattern (19 bp):
ATTACAATATTCATACAAA
Found at i:44549368 original size:27 final size:27
Alignment explanation
Indices: 44549332--44549507 Score: 213
Period size: 27 Copynumber: 7.1 Consensus size: 27
44549322 ATATCCCGAC
44549332 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
44549359 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
44549386 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
* * *
44549408 ATTGCAATATTCATTCAAAATTATAAT
1 ATTACAATATTCATACAAAATTACAAT
44549435 ATTACAATATTCATAC-AAA--A-AA-
1 ATTACAATATTCATACAAAATTACAAT
44549457 ATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
44549484 ATT-C-ATA--CA-A-AAAATTACAAT
1 ATTACAATATTCATACAAAATTACAAT
44549505 ATT
1 ATT
44549508 CATATAAAAT
Statistics
Matches: 135, Mismatches: 4, Indels: 26
0.82 0.02 0.16
Matches are distributed among these distances:
21 14 0.10
22 31 0.23
23 12 0.09
24 2 0.01
25 5 0.04
26 11 0.08
27 60 0.44
ACGTcount: A:0.53, C:0.14, G:0.01, T:0.33
Consensus pattern (27 bp):
ATTACAATATTCATACAAAATTACAAT
Found at i:44549436 original size:41 final size:43
Alignment explanation
Indices: 44549332--44549639 Score: 187
Period size: 49 Copynumber: 7.0 Consensus size: 43
44549322 ATATCCCGAC
44549332 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATAC-AAA--A-AA-ATTACAATATTCATAC---A--A-AAT
* *
44549386 ATTACAATATTCATACAAAAAAATTGCAATATTCATTCAAAATTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCA-T--ACA--A-AAT
44549435 ATTACAATATTCATACAAAAAAATTACAATATTCATAC-AAA-
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAT
*
44549476 ATTACAATATTCATAC-AAAAAATTACAATATTCATA-TAAA-
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAT
* * * * *
44549516 A-TACTA-ATCCA-A-AACTATAAA-TACAA-ATTTAATTATAAAAT
1 ATTACAATATTCATACAA--AAAAATTACAATA-TTCA-TACAAAAT
* * *
44549557 AATTACAATATTCATAC---AACATTAAAATATTCATA-AAAAA
1 -ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAT
* * *
44549597 ATTAAAATATTCATACAAAAAAGTTAGAATATTCATACAAAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAT
44549640 TCTAATCTAA
Statistics
Matches: 210, Mismatches: 22, Indels: 55
0.73 0.08 0.19
Matches are distributed among these distances:
37 3 0.01
38 12 0.06
39 25 0.12
40 31 0.15
41 20 0.10
42 25 0.12
43 10 0.05
44 4 0.02
45 1 0.00
46 1 0.00
48 1 0.00
49 53 0.25
50 3 0.01
51 1 0.00
52 1 0.00
53 3 0.01
54 16 0.08
ACGTcount: A:0.55, C:0.13, G:0.01, T:0.32
Consensus pattern (43 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAAT
Found at i:44549436 original size:49 final size:49
Alignment explanation
Indices: 44549285--44549486 Score: 250
Period size: 49 Copynumber: 4.1 Consensus size: 49
44549275 TTATAAAATA
** * *
44549285 ATTACAATATTCATAC-AAAAAATTACAATA-T--TACAATATATCCCGAC
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAA-A-ATTACAAT
44549332 ATTACAATATTCATACAAAATTACAATATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATAC-AAA--A-AA-ATTACAATATTCATACAAAATTACAAT
* * *
44549386 ATTACAATATTCATACAAAAAAATTGCAATATTCATTCAAAATTATAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
44549435 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
1 ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
44549484 ATT
1 ATT
44549487 CATACAAAAA
Statistics
Matches: 136, Mismatches: 10, Indels: 16
0.84 0.06 0.10
Matches are distributed among these distances:
47 16 0.12
49 75 0.55
50 2 0.01
51 2 0.01
52 2 0.01
53 12 0.09
54 21 0.15
55 1 0.01
56 5 0.04
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.33
Consensus pattern (49 bp):
ATTACAATATTCATACAAAAAAATTACAATATTCATACAAAATTACAAT
Found at i:44549627 original size:22 final size:21
Alignment explanation
Indices: 44549552--44549638 Score: 108
Period size: 20 Copynumber: 4.2 Consensus size: 21
44549542 ATTTAATTAT
*
44549552 AAAATAATTACAATATTCATAC
1 AAAA-AATTAAAATATTCATAC
*
44549574 --AACATTAAAATATTCATA-
1 AAAAAATTAAAATATTCATAC
44549592 AAAAAATTAAAATATTCATAC
1 AAAAAATTAAAATATTCATAC
*
44549613 AAAAAAGTTAGAATATTCATAC
1 AAAAAA-TTAAAATATTCATAC
44549635 AAAA
1 AAAA
44549639 TTCTAATCTA
Statistics
Matches: 57, Mismatches: 4, Indels: 8
0.83 0.06 0.12
Matches are distributed among these distances:
19 14 0.25
20 19 0.33
21 6 0.11
22 18 0.32
ACGTcount: A:0.59, C:0.10, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAAATTAAAATATTCATAC
Found at i:44549666 original size:61 final size:60
Alignment explanation
Indices: 44549481--44549667 Score: 164
Period size: 61 Copynumber: 3.1 Consensus size: 60
44549471 ACAAAATTAC
* * * *
44549481 AATATTCATACAAAAAATTACAATATTCATATAAAATACTAATCCAAAACTATAAATAC-A
1 AATATTCATACAAAAAATTACAATATTCATACAAAATTCTAAT-CTAAACTATAAAAACTA
* * * ** * ** * *
44549541 AAT-TTAATTATAAAATAATTACAATATTCATACAACATTAAAATATTCA-TAAAAAAATTAA
1 AATATTCA-TACAAAA-AATTACAATATTCATACAAAATTCTAATCTAAACTATAAAAACT-A
* *
44549602 AATATTCATACAAAAAAGTTAGAATATTCATACAAAATTCTAATCTAAACTATAAACACTA
1 AATATTCATACAAAAAA-TTACAATATTCATACAAAATTCTAATCTAAACTATAAAAACTA
44549663 AATAT
1 AATAT
44549668 AGATAATTTA
Statistics
Matches: 94, Mismatches: 26, Indels: 13
0.71 0.20 0.10
Matches are distributed among these distances:
59 9 0.10
60 12 0.13
61 63 0.67
62 10 0.11
ACGTcount: A:0.56, C:0.12, G:0.01, T:0.31
Consensus pattern (60 bp):
AATATTCATACAAAAAATTACAATATTCATACAAAATTCTAATCTAAACTATAAAAACTA
Found at i:44549724 original size:12 final size:12
Alignment explanation
Indices: 44549707--44549732 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
44549697 AAAAATTCAC
44549707 AATATCTTCTAA
1 AATATCTTCTAA
44549719 AATATCTTCTAA
1 AATATCTTCTAA
44549731 AA
1 AA
44549733 AATTCACAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.46, C:0.15, G:0.00, T:0.38
Consensus pattern (12 bp):
AATATCTTCTAA
Found at i:44549816 original size:3 final size:3
Alignment explanation
Indices: 44549810--44549847 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
44549800 TTTTCATTCT
*
44549810 TTC TTC TTC TTC -TC TTC TTC TTC TTC TCC TTC -TC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
44549848 CCTTTCTCTC
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
2 4 0.13
3 27 0.87
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:44549827 original size:14 final size:14
Alignment explanation
Indices: 44549806--44549847 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
44549796 TTTTTTTTCA
44549806 TTCT-TTCTTCTTC
1 TTCTCTTCTTCTTC
44549819 TTCTCTTCTTCTTC
1 TTCTCTTCTTCTTC
44549833 TTCTCCTTC-TCTTC
1 TTCT-CTTCTTCTTC
44549847 T
1 T
44549848 CCTTTCTCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.15
14 19 0.70
15 4 0.15
ACGTcount: A:0.00, C:0.36, G:0.00, T:0.64
Consensus pattern (14 bp):
TTCTCTTCTTCTTC
Found at i:44549848 original size:11 final size:11
Alignment explanation
Indices: 44549811--44549856 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
44549801 TTTCATTCTT
*
44549811 TCTTCTTCTTC
1 TCTTCTCCTTC
*
44549822 TCTTCTTC-T-
1 TCTTCTCCTTC
44549831 TCTTCTCCTTC
1 TCTTCTCCTTC
44549842 TCTTCTCCTTTC
1 TCTTCTCC-TTC
44549854 TCT
1 TCT
44549857 CTTTTTTTTT
Statistics
Matches: 31, Mismatches: 1, Indels: 5
0.84 0.03 0.14
Matches are distributed among these distances:
9 7 0.23
10 2 0.06
11 16 0.52
12 6 0.19
ACGTcount: A:0.00, C:0.39, G:0.00, T:0.61
Consensus pattern (11 bp):
TCTTCTCCTTC
Found at i:44549857 original size:14 final size:13
Alignment explanation
Indices: 44549813--44549859 Score: 53
Period size: 14 Copynumber: 3.6 Consensus size: 13
44549803 TCATTCTTTC
*
44549813 TTCTTCTTCTCTT
1 TTCTTCTTCTCCT
44549826 CTTCTTCTTCTCC-
1 -TTCTTCTTCTCCT
44549839 TTC-TCTTCTCCT
1 TTCTTCTTCTCCT
44549851 TTCTCTCTT
1 TTCT-TCTT
44549860 TTTTTTTTCT
Statistics
Matches: 29, Mismatches: 1, Indels: 6
0.81 0.03 0.17
Matches are distributed among these distances:
11 8 0.28
12 6 0.21
14 15 0.52
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (13 bp):
TTCTTCTTCTCCT
Found at i:44549857 original size:20 final size:21
Alignment explanation
Indices: 44549808--44549854 Score: 69
Period size: 20 Copynumber: 2.3 Consensus size: 21
44549798 TTTTTTCATT
* *
44549808 CTTTCTTCTTCTTCTCTTCTT
1 CTTTCTTCTCCTTCTCTTCTC
44549829 C-TTCTTCTCCTTCTCTTCTC
1 CTTTCTTCTCCTTCTCTTCTC
44549849 CTTTCT
1 CTTTCT
44549855 CTCTTTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (21 bp):
CTTTCTTCTCCTTCTCTTCTC
Found at i:44558083 original size:29 final size:30
Alignment explanation
Indices: 44558046--44558105 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
44558036 CACGATCTGG
* * *
44558046 CACATGACCATGTG-GCAGCTCGTGTGGCT
1 CACACGACCATGTGTCCAGCCCGTGTGGCT
44558075 CACACGACCATGTGTCCAGCCCGTGTGGCT
1 CACACGACCATGTGTCCAGCCCGTGTGGCT
44558105 C
1 C
44558106 CTAAAACTTG
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.17, C:0.33, G:0.28, T:0.22
Consensus pattern (30 bp):
CACACGACCATGTGTCCAGCCCGTGTGGCT
Found at i:44558890 original size:19 final size:19
Alignment explanation
Indices: 44558850--44558897 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
44558840 GGTTGATGAG
*
44558850 AAAAATAAATAAATATTAT
1 AAAAATAAATAAAAATTAT
*
44558869 AAAATTAAATATAAAATT-T
1 AAAAATAAATA-AAAATTAT
44558888 AAAAAGTAAA
1 AAAAA-TAAA
44558898 AATAAATGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 15 0.62
20 9 0.38
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAATAAATAAAAATTAT
Found at i:44571233 original size:46 final size:46
Alignment explanation
Indices: 44571173--44571268 Score: 160
Period size: 46 Copynumber: 2.1 Consensus size: 46
44571163 TTTGGATAAT
44571173 GATT-AAGACACATCTCAAAGATTGAAAGT-AATTTCGAATATTAGA
1 GATTAAAGACACATCTCAAAGATTGAAAGTAAATTT-GAATATTAGA
*
44571218 GATTAAAGATACATCTCAAAGATTGAAAGTAAATTTGAATATTAGA
1 GATTAAAGACACATCTCAAAGATTGAAAGTAAATTTGAATATTAGA
44571264 GATTA
1 GATTA
44571269 CTTTTTTTTT
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
45 4 0.08
46 39 0.81
47 5 0.10
ACGTcount: A:0.46, C:0.08, G:0.16, T:0.30
Consensus pattern (46 bp):
GATTAAAGACACATCTCAAAGATTGAAAGTAAATTTGAATATTAGA
Found at i:44574308 original size:21 final size:21
Alignment explanation
Indices: 44574275--44574314 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
44574265 ATTACAACTC
* *
44574275 AAAATAAAGGAAAACAAAAAA
1 AAAAAAAAAGAAAACAAAAAA
*
44574296 AAAAAAAAAGAAAAGAAAA
1 AAAAAAAAAGAAAACAAAA
44574315 GAAAGAACAC
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.85, C:0.03, G:0.10, T:0.03
Consensus pattern (21 bp):
AAAAAAAAAGAAAACAAAAAA
Found at i:44574695 original size:127 final size:127
Alignment explanation
Indices: 44574546--44574795 Score: 428
Period size: 127 Copynumber: 2.0 Consensus size: 127
44574536 TCCTCCAACC
44574546 TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
1 TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
* * *
44574611 CATACATAATTTCAAAATTCATACTTACTTACTTAAATACATGTAATCAATATTCATTTATG
66 CATACATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATCAATATTCATTTATG
* * *
44574673 TAACTGAAAGGCTAAGTACATGATTAATAATTACATTAATGACTAAATAAATGCATTTAATCTTA
1 TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
* *
44574738 CATGCATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATTAATATTCATT
66 CATACATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATCAATATTCATT
44574796 CATGCACTAA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
127 115 1.00
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (127 bp):
TAACTCAAAGGCTAAGTACATGATTAATAATTACATTAATAACCAAATAAATGCATTTAATCTTA
CATACATAATTTCAAAATTCATACTTAATTAATTAAATACATGCAATCAATATTCATTTATG
Found at i:44575869 original size:21 final size:20
Alignment explanation
Indices: 44575844--44575890 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 20
44575834 AAAAATATTT
44575844 ATAA-TTTCTTATAATTTTTAA
1 ATAATTTTC-TATAATTTTT-A
44575865 ATAATTTTCTATAATTTTTA
1 ATAATTTTCTATAATTTTTA
44575885 ATAATT
1 ATAATT
44575891 ATTTAAAAAG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
20 7 0.28
21 14 0.56
22 4 0.16
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.57
Consensus pattern (20 bp):
ATAATTTTCTATAATTTTTA
Found at i:44575870 original size:11 final size:10
Alignment explanation
Indices: 44575844--44575896 Score: 56
Period size: 10 Copynumber: 5.1 Consensus size: 10
44575834 AAAAATATTT
44575844 ATAATTTCTT-
1 ATAATTT-TTA
44575854 ATAATTTTTAA
1 ATAATTTTT-A
44575865 ATAATTTTCT-
1 ATAATTTT-TA
44575875 ATAATTTTTA
1 ATAATTTTTA
44575885 ATAATTATTTA
1 ATAATT-TTTA
44575896 A
1 A
44575897 AAAGCCACTT
Statistics
Matches: 38, Mismatches: 0, Indels: 9
0.81 0.00 0.19
Matches are distributed among these distances:
9 3 0.08
10 21 0.55
11 13 0.34
12 1 0.03
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.57
Consensus pattern (10 bp):
ATAATTTTTA
Found at i:44575878 original size:31 final size:30
Alignment explanation
Indices: 44575826--44575899 Score: 87
Period size: 30 Copynumber: 2.4 Consensus size: 30
44575816 TAAATTTCAA
*
44575826 AATTTTAAAAAAATATTTATAATTTCTT-AT
1 AATTTTTAAAAAATATTTATAATTT-TTAAT
* *
44575856 AATTTTTAAATAATTTTCTATAATTTTTAAT
1 AATTTTTAAAAAATATT-TATAATTTTTAAT
44575887 AATTATTTAAAAA
1 AATT-TTTAAAAA
44575900 GCCACTTTAA
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
30 16 0.43
31 14 0.38
32 7 0.19
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (30 bp):
AATTTTTAAAAAATATTTATAATTTTTAAT
Found at i:44576954 original size:10 final size:10
Alignment explanation
Indices: 44576939--44576963 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
44576929 TATTATTATT
44576939 AAATTTTAAA
1 AAATTTTAAA
44576949 AAATTTTAAA
1 AAATTTTAAA
44576959 AAATT
1 AAATT
44576964 ATAATTTCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (10 bp):
AAATTTTAAA
Found at i:44583683 original size:6 final size:6
Alignment explanation
Indices: 44583674--44583765 Score: 82
Period size: 6 Copynumber: 15.7 Consensus size: 6
44583664 AAAAAGGAAA
44583674 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC GAAAA-C AAAA--
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC -AAAATC AAAATC
* ** ** * * *
44583720 AGAAGA AAAAGA AAAATC AAAATC AAATTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
44583766 AAGAGAGAAG
Statistics
Matches: 76, Mismatches: 7, Indels: 6
0.85 0.08 0.07
Matches are distributed among these distances:
4 3 0.04
5 4 0.05
6 65 0.86
7 4 0.05
ACGTcount: A:0.70, C:0.11, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:44583742 original size:46 final size:47
Alignment explanation
Indices: 44583686--44583782 Score: 135
Period size: 46 Copynumber: 2.1 Consensus size: 47
44583676 AATCAAAATC
*
44583686 AAAATCAAAATCAAAATCAAAATCGAAAA-CAAAAAGA-AGAAAAAGA
1 AAAATCAAAATCAAAATCAAAAT-GAAAAGAAAAAAGAGAGAAAAAGA
* *
44583732 AAAATCAAAATCAAATTCAAAATGAAAATGAAAAAAGAGAGAAGAAGA
1 AAAATCAAAATCAAAATCAAAATGAAAA-GAAAAAAGAGAGAAAAAGA
44583780 AAA
1 AAA
44583783 GGAAAAAAGG
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
45 5 0.11
46 22 0.49
47 7 0.16
48 11 0.24
ACGTcount: A:0.70, C:0.08, G:0.11, T:0.10
Consensus pattern (47 bp):
AAAATCAAAATCAAAATCAAAATGAAAAGAAAAAAGAGAGAAAAAGA
Found at i:44584675 original size:20 final size:22
Alignment explanation
Indices: 44584650--44584696 Score: 71
Period size: 20 Copynumber: 2.2 Consensus size: 22
44584640 CTTTGAGTCA
44584650 AAAAAAATGAA-AAAGAAAA-T
1 AAAAAAATGAACAAAGAAAAGT
*
44584670 AAAAAAATGAACAATGAAAAGT
1 AAAAAAATGAACAAAGAAAAGT
44584692 AAAAA
1 AAAAA
44584697 TGGAGAGGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 11 0.46
21 7 0.29
22 6 0.25
ACGTcount: A:0.77, C:0.02, G:0.11, T:0.11
Consensus pattern (22 bp):
AAAAAAATGAACAAAGAAAAGT
Found at i:44586064 original size:50 final size:50
Alignment explanation
Indices: 44585999--44586349 Score: 201
Period size: 50 Copynumber: 7.0 Consensus size: 50
44585989 TCCCAGGCAA
* * * *
44585999 TGCAGTGGAACAGATTAAAGACACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
* * * * * ** * **
44586049 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTT-ATTTTCCTAGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGA-CAT
* * * * *
44586099 TGTAGTGGAACAGATTAAAGCCACAAT-GGCGAACCTTGCTTCCCTGACAT
1 TGCAGTGAAAAAGATTAAAGCCAC-ATCGGCGAATCTTGCTTCCCCGACAT
* * * * * * *
44586149 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TCCCTAGGCGA-
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCC-CGAC-AT
* * * * *
44586199 TGCAGTGGAACAGATTAACGCCACAAT-GGCGAACCTTGCTTTCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCAC-ATCGGCGAATCTTGCTTCCCCGACAT
* * * * ** * * * **
44586249 TGTAGTTAAAAAGATTAAAGCTACAACATCGAATTTTACTT-CCCTAGCGG
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGA-CAT
* * *
44586299 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGACAT
1 TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
44586349 T
1 T
44586350 AAAGCTACAA
Statistics
Matches: 208, Mismatches: 81, Indels: 24
0.66 0.26 0.08
Matches are distributed among these distances:
49 16 0.08
50 178 0.86
51 14 0.07
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (50 bp):
TGCAGTGAAAAAGATTAAAGCCACATCGGCGAATCTTGCTTCCCCGACAT
Found at i:44586175 original size:100 final size:99
Alignment explanation
Indices: 44585999--44586838 Score: 699
Period size: 100 Copynumber: 8.7 Consensus size: 99
44585989 TCCCAGGCAA
* * *
44585999 TGCAGTGGAACAGATTAAAGACACATCGGTGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
*
44586064 TAAAGCTACAACAGCGAATCTTATTTTCCTAGCGG
66 TAAAGCTACAACAGCGAATCTTA-TTCCCTAGCGG
* *
44586099 TGTAGTGGAACAGATTAAAGCCACAAT-GGCGAACCTTGCTTCCCTGACATTGCAGTTAAAAAGA
1 TGCAGTGGAACAGATTAAAGCCAC-ATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* *
44586163 TTAAAGCTACAACAGCGAATCTTACTCCCTAGGCGA
65 TTAAAGCTACAACAGCGAATCTTATTCCCTA-GCGG
* * *
44586199 TGCAGTGGAACAGATTAACGCCACAAT-GGCGAACCTTGCTTTCCCGACATTGTAGTTAAAAAGA
1 TGCAGTGGAACAGATTAAAGCCAC-ATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* *
44586263 TTAAAGCTACAACATCGAATTTTACTTCCCTAGCGG
65 TTAAAGCTACAACAGCGAATCTTA-TTCCCTAGCGG
* * *
44586299 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCG--A---CA-TT--AAAG-C
1 TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * ** * *
44586355 TACAA-C-AGCGA-ATC---T-TACTTCTCAAGCGG
66 TA-AAGCTA-CAACAGCGAATCTTATTCCCTAGCGG
* * *
44586384 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
44586449 TAAAGCTACAACAGCGAATCTTACTTCCCTAGCGG
66 TAAAGCTACAACAGCGAATCTTA-TTCCCTAGCGG
* * * * *
44586484 TGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTT-CCC--C--TACA-TT--AAAG-C
1 TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* * ** * * **
44586540 TACAA-C-AGCGA-ATC---T-TACTTCTCAAGTAG
66 TA-AAGCTA-CAACAGCGAATCTTATTCCCTAGCGG
* * *
44586569 TGCAGTGGAACAGATTAACGCCACAAT-GGCGAACCTTGCTTCCCCAACATTGTAGTTAAAAAGA
1 TGCAGTGGAACAGATTAAAGCCAC-ATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGA
* * * * **
44586633 TTAAAGCTACCACAGTGAATCTTACTTCTCAAGTAG
65 TTAAAGCTACAACAGCGAATCTTA-TTCCCTAGCGG
* * * * * *
44586669 TTCAGTAGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
* *
44586734 TAAAGCTACAACAGCAAATGTTACTTCCC-AGGCGG
66 TAAAGCTACAACAGCGAATCTTA-TTCCCTA-GCGG
* * * * * * * * ** * *
44586769 TGTAGTGGAACAGACTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATCACATTTAAACAGAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
44586834 TAAAG
66 TAAAG
44586839 TTACGAGTTA
Statistics
Matches: 609, Mismatches: 86, Indels: 90
0.78 0.11 0.11
Matches are distributed among these distances:
85 96 0.16
86 7 0.01
87 3 0.00
88 1 0.00
90 11 0.02
91 14 0.02
92 12 0.02
93 12 0.02
94 14 0.02
95 9 0.01
97 1 0.00
98 3 0.00
99 14 0.02
100 404 0.66
101 8 0.01
ACGTcount: A:0.33, C:0.23, G:0.19, T:0.25
Consensus pattern (99 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGCGAACCTTGCTTCCCCGACATTGCAGTTAAAAAGAT
TAAAGCTACAACAGCGAATCTTATTCCCTAGCGG
Found at i:44586405 original size:85 final size:85
Alignment explanation
Indices: 44586262--44586434 Score: 301
Period size: 85 Copynumber: 2.0 Consensus size: 85
44586252 AGTTAAAAAG
* * *
44586262 ATTAAAGCTACAACATCGAATTTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCG
44586327 GTGAATCTTGCTTCCCCGAC
66 GTGAATCTTGCTTCCCCGAC
*
44586347 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCG
*
44586412 GTGAATCTTGCTTTCCCGAC
66 GTGAATCTTGCTTCCCCGAC
44586432 ATT
1 ATT
44586435 GCAGTTAAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
85 83 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (85 bp):
ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCGGTGCAGTGGAACAGATTAAAGCCACATCG
GTGAATCTTGCTTCCCCGAC
Found at i:44586438 original size:50 final size:50
Alignment explanation
Indices: 44586384--44586534 Score: 169
Period size: 50 Copynumber: 3.0 Consensus size: 50
44586374 TCTCAAGCGG
*
44586384 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCTACAT
** * * * * * * **
44586434 TGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTAC-TTCCCTAGCGG
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCTA-CAT
* *
44586484 TGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCTACAT
1 TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCTACAT
44586534 T
1 T
44586535 AAAGCTACAA
Statistics
Matches: 76, Mismatches: 23, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
49 6 0.08
50 64 0.84
51 6 0.08
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.26
Consensus pattern (50 bp):
TGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCTACAT
Found at i:44586475 original size:185 final size:185
Alignment explanation
Indices: 44586162--44586719 Score: 841
Period size: 185 Copynumber: 3.0 Consensus size: 185
44586152 AGTTAAAAAG
* * *
44586162 ATTAAAGCTACAACAGCGAATCTTAC-TCCCTAGGCGATGCAGTGGAACAGATTAACGCCACAAT
1 ATTAAAGCTACAACAGCGAATCTTACTTCTC-AAGCGGTGCAGTGGAACAGATTAACGCCACAAT
* *
44586226 GGCGAACCTTGCTTTCCCGACATTGTAGTTAAAAAGATTAAAGCTACAACATCGAATTTTACTTC
65 GGCGAACCTTGCTTTCCCGACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTC
44586291 CCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
130 CCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
*
44586347 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATTAAAGCCAC-ATC
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATTAACGCCACAAT-
* * *
44586411 GGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTC
65 GGCGAACCTTGCTTTCCCGACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTC
* *
44586476 CCTAGCGGTGCAGTGGAACAGATTAAAGCCACATTGGTGAATCTTGCTTCCCCTAC
130 CCTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
**
44586532 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGTAGTGCAGTGGAACAGATTAACGCCACAATG
1 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATTAACGCCACAATG
* * * * *
44586597 GCGAACCTTGCTTCCCCAACATTGTAGTTAAAAAGATTAAAGCTACCACAGTGAATCTTACTTCT
66 GCGAACCTTGCTTTCCCGACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCC
* ** * * * * * *
44586662 CAAGTAGTTCAGTAGAATAGATTAACGCCACAACGGCGAATCTTGCTTCCCCGAC
131 CTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
44586717 ATT
1 ATT
44586720 GCAGTTAAAA
Statistics
Matches: 337, Mismatches: 33, Indels: 6
0.90 0.09 0.02
Matches are distributed among these distances:
184 2 0.01
185 330 0.98
186 5 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.25
Consensus pattern (185 bp):
ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGCGGTGCAGTGGAACAGATTAACGCCACAATG
GCGAACCTTGCTTTCCCGACATTGTAGTTAAAAAGATTAAAGCTACAACAGCGAATCTTACTTCC
CTAGCGGTGCAGTGGAACAGATTAAAGCCACATCGGTGAATCTTGCTTCCCCGAC
Found at i:44586592 original size:85 final size:85
Alignment explanation
Indices: 44586447--44586619 Score: 265
Period size: 85 Copynumber: 2.0 Consensus size: 85
44586437 AGTTAAAAAG
* * *
44586447 ATTAAAGCTACAACAGCGAATCTTACTTCCCTAGCGGTGCAGTGGAACAGATTAAAGCCACATTG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGCAGTGGAACAGATTAAAGCCACAATG
* * *
44586512 GTGAATCTTGCTTCCCCTAC
66 GCGAACCTTGCTTCCCCAAC
* * *
44586532 ATTAAAGCTACAACAGCGAATCTTACTTCTCAAGTAGTGCAGTGGAACAGATTAACGCCACAATG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGCAGTGGAACAGATTAAAGCCACAATG
44586597 GCGAACCTTGCTTCCCCAAC
66 GCGAACCTTGCTTCCCCAAC
44586617 ATT
1 ATT
44586620 GTAGTTAAAA
Statistics
Matches: 79, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
85 79 1.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (85 bp):
ATTAAAGCTACAACAGCGAATCTTACTTCCCAAGCAGTGCAGTGGAACAGATTAAAGCCACAATG
GCGAACCTTGCTTCCCCAAC
Found at i:44586761 original size:50 final size:50
Alignment explanation
Indices: 44586532--44586838 Score: 163
Period size: 50 Copynumber: 6.1 Consensus size: 50
44586522 CTTCCCCTAC
* * * * ** *
44586532 ATTAAAGCTACAACAGCGAATCTTACTT-CTCAAGTAGTGCAGTGGAACAG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCCGA-CATTGCAGTTAAAAAG
* * ** * * * *
44586582 ATTAACGCCACAATGGCGAACCTTGCTTCCCCAACATTGTAGTTAAAAAG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAG
* * ** * *
44586632 ATTAAAGCTACCACAGTGAATCTTACTTCTCAAGTA-GTT-CAG-TAGAATAG
1 ATTAAAGCTACAACAGCGAATCTTACTTC-CCCG-ACATTGCAGTTA-AAAAG
* * * *
44586682 ATTAACGCCACAACGGCGAATCTTGCTTCCCCGACATTGCAGTTAAAAAG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAG
* * * * ** * ** *
44586732 ATTAAAGCTACAACAGCAAATGTTACTTCCCAGGCGGTGTAGTGGAACAG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAG
* * * * ** * *
44586782 ACTGAAGCTACAACAGCGAATCTTGCTTCCTCGACATCACATTTAAACAG
1 ATTAAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAG
44586832 ATTAAAG
1 ATTAAAG
44586839 TTACGAGTTA
Statistics
Matches: 181, Mismatches: 69, Indels: 14
0.69 0.26 0.05
Matches are distributed among these distances:
48 1 0.01
49 6 0.03
50 164 0.91
51 9 0.05
52 1 0.01
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.24
Consensus pattern (50 bp):
ATTAAAGCTACAACAGCGAATCTTACTTCCCCGACATTGCAGTTAAAAAG
Found at i:44594310 original size:43 final size:43
Alignment explanation
Indices: 44594254--44594353 Score: 182
Period size: 43 Copynumber: 2.3 Consensus size: 43
44594244 GTGGTGTAAT
* *
44594254 ATTATGCACTTGGACAATGTTGTTACTATGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
44594297 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
1 ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
44594340 ATTATGTATTTGGA
1 ATTATGTATTTGGA
44594354 TAATATTATT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.26, C:0.10, G:0.21, T:0.43
Consensus pattern (43 bp):
ATTATGTATTTGGACAATGTTGTTACTATGTGGTGTACTACTA
Found at i:44594582 original size:20 final size:20
Alignment explanation
Indices: 44594518--44594594 Score: 86
Period size: 20 Copynumber: 3.9 Consensus size: 20
44594508 AAATTATTGC
44594518 AATATATGTAAAAACAATTT
1 AATATATGTAAAAACAATTT
* ** *
44594538 AA-A-ATATAAAAATTTATTA
1 AATATATGTAAAAA-CAATTT
44594557 ATATATATGTAAAAACAATTT
1 A-ATATATGTAAAAACAATTT
44594578 AATATATGTAAAAACAA
1 AATATATGTAAAAACAA
44594595 CTTTTCCGGA
Statistics
Matches: 45, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
18 8 0.18
19 5 0.11
20 19 0.42
21 5 0.11
22 8 0.18
ACGTcount: A:0.58, C:0.04, G:0.04, T:0.34
Consensus pattern (20 bp):
AATATATGTAAAAACAATTT
Found at i:44599209 original size:50 final size:50
Alignment explanation
Indices: 44598986--44599215 Score: 286
Period size: 50 Copynumber: 4.6 Consensus size: 50
44598976 ACATGCTAAA
* ** *
44598986 GCCATGTCCCAGACATGGTCTTACATGGGA--TGTTTTCT-GTACTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCG--GTGCCAAT
* * ** *
44599035 GCCATATCCCAGATATGGTCTTACGGGGGACCTCTCATCTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
** * *
44599085 GCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCCAAC
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
* *
44599135 GCCATGTCCCAGACATGGTCTTACATGGGACCTATTATCTCGGTGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
44599185 GCCATGTCCCAGACATGGTCTTACATGGGAC
1 GCCATGTCCCAGACATGGTCTTACATGGGAC
44599216 TTTTTTACCC
Statistics
Matches: 158, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
49 26 0.16
50 126 0.80
51 5 0.03
52 1 0.01
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.27
Consensus pattern (50 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTGCCAAT
Found at i:44607930 original size:11 final size:11
Alignment explanation
Indices: 44607910--44607947 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
44607900 GATTTAGGCA
* *
44607910 TTTTGGGAAAC
1 TTTTGTGAAAT
44607921 TTTTGTGAAAT
1 TTTTGTGAAAT
44607932 TTTTGTGAAAT
1 TTTTGTGAAAT
44607943 TTTTG
1 TTTTG
44607948 GCATTTTGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.24, C:0.03, G:0.21, T:0.53
Consensus pattern (11 bp):
TTTTGTGAAAT
Found at i:44610953 original size:32 final size:32
Alignment explanation
Indices: 44610912--44610986 Score: 141
Period size: 32 Copynumber: 2.3 Consensus size: 32
44610902 GGCTGAAAGT
44610912 CAAAATTAGGAGTAGTTAAAGAGTAGTTATAC
1 CAAAATTAGGAGTAGTTAAAGAGTAGTTATAC
*
44610944 CAAAATTAGGAGTAGTTAATGAGTAGTTATAC
1 CAAAATTAGGAGTAGTTAAAGAGTAGTTATAC
44610976 CAAAATTAGGA
1 CAAAATTAGGA
44610987 AGTTAACTTA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
32 42 1.00
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (32 bp):
CAAAATTAGGAGTAGTTAAAGAGTAGTTATAC
Found at i:44616954 original size:147 final size:148
Alignment explanation
Indices: 44616681--44616978 Score: 490
Period size: 147 Copynumber: 2.0 Consensus size: 148
44616671 AGGGATAGAA
* * *
44616681 AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTCATTGGAAATGATTTAGGGATATTG
1 AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
* *
44616746 TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAGAAGCTAACTTT-T
66 TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
* *
44616810 TCTAGGTATTTGAATCTT
131 TCTAGGTATTTAAATATT
* *
44616828 AAGTGATCTTTCTCATTTTATGTGTCGATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
1 AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
**
44616893 TCATCTGTTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
66 TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
44616958 TCTAGGTATTTAAATATT
131 TCTAGGTATTTAAATATT
44616976 AAG
1 AAG
44616979 GGATTAAAAG
Statistics
Matches: 139, Mismatches: 11, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
147 119 0.86
148 20 0.14
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (148 bp):
AAGTGATCTTTCTCATTCTATGTGTCAATAACATTCTACTAATTGGAAATGATTTAGAGACATTG
TCATCTACTAAATTATGGTTAACTCAACACATTAGCATGAAGGACTTGGGAAAAGCAAACTTTGT
TCTAGGTATTTAAATATT
Found at i:44619379 original size:16 final size:16
Alignment explanation
Indices: 44619360--44619391 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
44619350 TATTACAAAC
44619360 CCAAAATATCAAAATA
1 CCAAAATATCAAAATA
*
44619376 CCAAAATATCACAATA
1 CCAAAATATCAAAATA
44619392 AAATTTAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.22, G:0.00, T:0.19
Consensus pattern (16 bp):
CCAAAATATCAAAATA
Found at i:44623909 original size:6 final size:6
Alignment explanation
Indices: 44623902--44623941 Score: 53
Period size: 6 Copynumber: 6.2 Consensus size: 6
44623892 AAGGGAGGAG
44623902 AAGAAGA AAGAAAA GAAGAAA AAGAAA AAGAAA AAGAAA A
1 AAGAA-A AAG-AAA -AAGAAA AAGAAA AAGAAA AAGAAA A
44623942 CAGAGAACAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
6 19 0.61
7 7 0.23
8 5 0.16
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (6 bp):
AAGAAA
Found at i:44623930 original size:7 final size:7
Alignment explanation
Indices: 44623902--44623968 Score: 50
Period size: 7 Copynumber: 9.6 Consensus size: 7
44623892 AAGGGAGGAG
*
44623902 AAGAAGA
1 AAGAAAA
44623909 AAGAAAA
1 AAGAAAA
44623916 GAAG-AAA
1 -AAGAAAA
44623923 AAG-AAA
1 AAGAAAA
44623929 AAG-AAA
1 AAGAAAA
44623935 AAGAAAA
1 AAGAAAA
*
44623942 CAGAGAACA
1 -A-AGAAAA
*
44623951 AAGAACA
1 AAGAAAA
*
44623958 AAGAACA
1 AAGAAAA
44623965 AAGA
1 AAGA
44623969 GGGATGAGAG
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
6 15 0.28
7 29 0.54
8 5 0.09
9 5 0.09
ACGTcount: A:0.75, C:0.06, G:0.19, T:0.00
Consensus pattern (7 bp):
AAGAAAA
Found at i:44624264 original size:20 final size:20
Alignment explanation
Indices: 44624241--44624286 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
44624231 CTTACACTAC
*
44624241 TACTTAACTACTAGACCAAT
1 TACTCAACTACTAGACCAAT
44624261 TACTCAACTACTAGACCAAT
1 TACTCAACTACTAGACCAAT
44624281 TACTCA
1 TACTCA
44624287 TTTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.39, C:0.28, G:0.04, T:0.28
Consensus pattern (20 bp):
TACTCAACTACTAGACCAAT
Found at i:44624784 original size:20 final size:20
Alignment explanation
Indices: 44624759--44624798 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
44624749 TTTTAAATGT
44624759 AATTATATAAAAATA-TAAAA
1 AATTATA-AAAAATATTAAAA
44624779 AATTATAAAAAATATTAAAA
1 AATTATAAAAAATATTAAAA
44624799 TTTTGTACCA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
AATTATAAAAAATATTAAAA
Found at i:44624791 original size:10 final size:10
Alignment explanation
Indices: 44624759--44624791 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
44624749 TTTTAAATGT
44624759 AATTATATAAA
1 AATTATA-AAA
44624770 AA-TATAAAA
1 AATTATAAAA
44624779 AATTATAAAA
1 AATTATAAAA
44624789 AAT
1 AAT
44624792 ATTAAAATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.24
10 14 0.67
11 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AATTATAAAA
Found at i:44625078 original size:4 final size:4
Alignment explanation
Indices: 44625069--44625111 Score: 52
Period size: 4 Copynumber: 10.8 Consensus size: 4
44625059 ATTCAGAACA
* *
44625069 AAAT AAAT AAA- AATT AAAG AAAGT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA-T AAAT AAAT AAAT AAAT AAA
44625112 GAGAAGAAAG
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
3 2 0.06
4 28 0.85
5 3 0.09
ACGTcount: A:0.74, C:0.00, G:0.05, T:0.21
Consensus pattern (4 bp):
AAAT
Found at i:44627456 original size:95 final size:95
Alignment explanation
Indices: 44627318--44627565 Score: 300
Period size: 96 Copynumber: 2.6 Consensus size: 95
44627308 TAAATAAGGG
** ** * * * *
44627318 ATTAGGGTTTAGGGTTTGTCAATTAAATTAATTATAATTTTTTTAAAATTGGATTA-GGTTTCGT
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGA
** ** * *
44627382 GTTTATTGTTTTTTAAGAAAAAATTAATTAA
66 G-TTAAGGGGTTTTAAGAAAAAATCAAATAA
*
44627413 ATTAGGGTTTAGGGTTACTTGAGTAATTTAATTATAATTTTTTTAAAAATTAGATTAGGGTTTAG
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTT-AAAATTAGATTAGGGTTTAG
*
44627478 AGTTAAGGGGTTTTAAGGAAAAATCAAATAA
65 AGTTAAGGGGTTTTAAGAAAAAATCAAATAA
* *
44627509 ATTAGGGTTCAGGGTTACTTGAGTAAATTAATTATAAATTTTTATAAAATTAGATTA
1 ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTAT-AATTTTTTTAAAATTAGATTA
44627566 TCGCTCCCCA
Statistics
Matches: 131, Mismatches: 19, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
95 38 0.29
96 78 0.60
97 15 0.11
ACGTcount: A:0.36, C:0.02, G:0.18, T:0.44
Consensus pattern (95 bp):
ATTAGGGTTTAGGGTTACTTGAGTAAATTAATTATAATTTTTTTAAAATTAGATTAGGGTTTAGA
GTTAAGGGGTTTTAAGAAAAAATCAAATAA
Found at i:44628128 original size:11 final size:11
Alignment explanation
Indices: 44628114--44628159 Score: 51
Period size: 11 Copynumber: 4.2 Consensus size: 11
44628104 TCTTTTAAAT
44628114 AGGAATTTGAG
1 AGGAATTTGAG
44628125 AGGAATTTGAG
1 AGGAATTTGAG
44628136 A-GAATATT-AG
1 AGGAAT-TTGAG
*
44628146 AGAGAAATTGAG
1 AG-GAATTTGAG
44628158 AG
1 AG
44628160 AAAGGATTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
10 7 0.23
11 16 0.53
12 7 0.23
ACGTcount: A:0.43, C:0.00, G:0.33, T:0.24
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:44628158 original size:10 final size:10
Alignment explanation
Indices: 44628120--44628162 Score: 50
Period size: 10 Copynumber: 4.0 Consensus size: 10
44628110 AAATAGGAAT
*
44628120 TTGAGAGGAAT
1 TTGAGA-GAAA
44628131 TTGAGAGAATA
1 TTGAGAGAA-A
44628142 TTAGAGAGAAA
1 TT-GAGAGAAA
44628153 TTGAGAGAAA
1 TTGAGAGAAA
44628163 GGATTTAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 11 0.38
11 11 0.38
12 7 0.24
ACGTcount: A:0.47, C:0.00, G:0.30, T:0.23
Consensus pattern (10 bp):
TTGAGAGAAA
Found at i:44632841 original size:14 final size:14
Alignment explanation
Indices: 44632819--44632857 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
44632809 ACCAGAAAAG
44632819 TAAAACATTTTCCA
1 TAAAACATTTTCCA
*
44632833 TAAATCATTTTCCA
1 TAAAACATTTTCCA
* *
44632847 GAAAACGTTTT
1 TAAAACATTTT
44632858 ATTGGCAAAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.05, T:0.38
Consensus pattern (14 bp):
TAAAACATTTTCCA
Found at i:44634104 original size:32 final size:32
Alignment explanation
Indices: 44634068--44634376 Score: 299
Period size: 32 Copynumber: 9.7 Consensus size: 32
44634058 AATCAAAGCA
* *
44634068 GCAATATATAAATACATATACAAATCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
** * *
44634100 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
44634132 GCAATATA-AGTATACATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
* * *
44634164 GCAATA-AGTGTATACCTATACAATTCAATCCG
1 GCAATATA-TATATACATATACAATTCAATTCG
* *
44634196 GCAATATA-AGTATTCATATACAATTTAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
*
44634228 GCAATAGGTGTATAT-C-TATACAATTCAATTCG
1 GCAATA--TATATATACATATACAATTCAATTCG
*
44634260 GCAATATA-AGTATATATATACAATTCAATTCG
1 GCAATATATA-TATACATATACAATTCAATTCG
** * * *
44634292 GCAATAGGTGTATACCTATACAATTTAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
** * *
44634324 GCAATAGGTGTATACCTATACAATTCAATTCG
1 GCAATATATATATACATATACAATTCAATTCG
* *
44634356 GAAATATATA-AAACATATACA
1 GCAATATATATATACATATACA
44634377 TTTAAATTAA
Statistics
Matches: 230, Mismatches: 35, Indels: 25
0.79 0.12 0.09
Matches are distributed among these distances:
29 1 0.00
30 4 0.02
31 10 0.04
32 208 0.90
33 2 0.01
34 4 0.02
35 1 0.00
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.32
Consensus pattern (32 bp):
GCAATATATATATACATATACAATTCAATTCG
Found at i:44634147 original size:64 final size:64
Alignment explanation
Indices: 44634079--44634361 Score: 449
Period size: 64 Copynumber: 4.4 Consensus size: 64
44634069 CAATATATAA
*
44634079 ATACATATACAAATCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
* *
44634143 ATACATATACAATTCAATTCGGCAATAAGTGTATACCTATACAATTCAATCCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
* * *
44634207 ATTCATATACAATTTAATTCGGCAATAGGTGTATATCTATACAATTCAATTCGGCAATATAAGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
* * ***
44634271 ATATATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTTAATTCGGCAATAGGTGT
1 ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
* *
44634335 ATACCTATACAATTCAATTCGGAAATA
1 ATACATATACAATTCAATTCGGCAATA
44634362 TATAAAACAT
Statistics
Matches: 200, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 200 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (64 bp):
ATACATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGT
Found at i:44634362 original size:96 final size:95
Alignment explanation
Indices: 44634083--44634363 Score: 384
Period size: 96 Copynumber: 2.9 Consensus size: 95
44634073 ATATAAATAC
* * *** *
44634083 ATATACAAATCAATTCGGCAATAGGTGTATACCTATACAATTCAATTCGGCAATATAAGTATACA
1 ATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTTAATTCGGCAATAGGTGTATACC
* *
44634148 TATACAATTCAATTCGGCA-ATAAGTGTAT
66 TATACAATTCAATTCGGAATATAAGTATAT
* *** * *
44634177 ACCTATACAATTCAATCCGGCAATATAAGTATTCATATACAATTTAATTCGGCAATAGGTGTATA
1 A--TATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTTAATTCGGCAATAGGTGTATA
*
44634242 TCTATACAATTCAATTCGGCAATATAAGTATAT
64 CCTATACAATTCAATTCGG-AATATAAGTATAT
44634275 ATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTTAATTCGGCAATAGGTGTATACC
1 ATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTTAATTCGGCAATAGGTGTATACC
44634340 TATACAATTCAATTCGGAAATATA
66 TATACAATTCAATTCGG-AATATA
44634364 TAAAACATAT
Statistics
Matches: 160, Mismatches: 23, Indels: 6
0.85 0.12 0.03
Matches are distributed among these distances:
94 1 0.01
96 148 0.93
97 1 0.01
98 10 0.06
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.32
Consensus pattern (95 bp):
ATATACAATTCAATTCGGCAATAGGTGTATACCTATACAATTTAATTCGGCAATAGGTGTATACC
TATACAATTCAATTCGGAATATAAGTATAT
Found at i:44636624 original size:23 final size:23
Alignment explanation
Indices: 44636568--44636618 Score: 86
Period size: 23 Copynumber: 2.2 Consensus size: 23
44636558 ATACCATAAC
44636568 GTGCTTGTGAAGTTAGCACTCTG
1 GTGCTTGTGAAGTTAGCACTCTG
44636591 GTGCTTGTGAAGTTAGCACT-TCG
1 GTGCTTGTGAAGTTAGCACTCT-G
44636614 GTGCT
1 GTGCT
44636619 CTTGAATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
22 1 0.04
23 26 0.96
ACGTcount: A:0.16, C:0.18, G:0.31, T:0.35
Consensus pattern (23 bp):
GTGCTTGTGAAGTTAGCACTCTG
Found at i:44636640 original size:23 final size:22
Alignment explanation
Indices: 44636604--44636664 Score: 68
Period size: 22 Copynumber: 2.7 Consensus size: 22
44636594 CTTGTGAAGT
** *
44636604 TAGCACTTCGGTGCTCTTGAATG
1 TAGCACTTTTGTGCTCCTG-ATG
* *
44636627 TAGGACTTTTGTGCTCCTGATT
1 TAGCACTTTTGTGCTCCTGATG
44636649 TAGCACTTTTGTGCTC
1 TAGCACTTTTGTGCTC
44636665 ATGTATTTGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
22 17 0.53
23 15 0.47
ACGTcount: A:0.15, C:0.21, G:0.23, T:0.41
Consensus pattern (22 bp):
TAGCACTTTTGTGCTCCTGATG
Found at i:44636658 original size:22 final size:23
Alignment explanation
Indices: 44636575--44636664 Score: 74
Period size: 23 Copynumber: 4.0 Consensus size: 23
44636565 AACGTGCTTG
* * * **
44636575 TGAAGTTAGCACTCTGGTGCTTG
1 TGAATTTAGCACTTTTGTGCTCC
* ** *
44636598 TGAAGTTAGCACTTCGGTGCTCT
1 TGAATTTAGCACTTTTGTGCTCC
* *
44636621 TGAATGTAGGACTTTTGTGCTCC
1 TGAATTTAGCACTTTTGTGCTCC
44636644 TG-ATTTAGCACTTTTGTGCTC
1 TGAATTTAGCACTTTTGTGCTC
44636665 ATGTATTTGT
Statistics
Matches: 55, Mismatches: 12, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
22 17 0.31
23 38 0.69
ACGTcount: A:0.17, C:0.19, G:0.26, T:0.39
Consensus pattern (23 bp):
TGAATTTAGCACTTTTGTGCTCC
Found at i:44637808 original size:17 final size:15
Alignment explanation
Indices: 44637777--44637805 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
44637767 TTATTGTAAT
44637777 CAGAGAAAAAAATAA
1 CAGAGAAAAAAATAA
44637792 CAGAGAAAAAAATA
1 CAGAGAAAAAAATA
44637806 TAAAAAAGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.14, T:0.07
Consensus pattern (15 bp):
CAGAGAAAAAAATAA
Found at i:44638806 original size:69 final size:70
Alignment explanation
Indices: 44638692--44638873 Score: 255
Period size: 69 Copynumber: 2.6 Consensus size: 70
44638682 ATTTCATCAT
*
44638692 TTTATATTTTTTTATCTATTTATTTATTTATTTATTATTCTTTTACTTTTTAAATACCTAAATTT
1 TTTATATTTTTTTATCTATTTATTTATTTATTTATTA-T-TTTTACTTATTAAATACCTAAATTT
44638757 AATATAA
64 AATATAA
*
44638764 TTTATATTTGTTTTATCTATTTATTTATTTA-TTATTA-TTTTACTTATTAAATACTTAAATTTA
1 TTTATATTT-TTTTATCTATTTATTTATTTATTTATTATTTTTACTTATTAAATACCTAAATTTA
*
44638827 ATATTA
65 ATATAA
* *
44638833 TGTA-ATTTTTTTATCTATTTATTTA-TTATTCTTTTATTTTT
1 TTTATATTTTTTTATCTATTTATTTATTTATT-TATTATTTTT
44638874 TAAGTATTTA
Statistics
Matches: 101, Mismatches: 5, Indels: 11
0.86 0.04 0.09
Matches are distributed among these distances:
66 3 0.03
67 18 0.18
68 8 0.08
69 36 0.36
72 15 0.15
73 21 0.21
ACGTcount: A:0.29, C:0.05, G:0.01, T:0.65
Consensus pattern (70 bp):
TTTATATTTTTTTATCTATTTATTTATTTATTTATTATTTTTACTTATTAAATACCTAAATTTAA
TATAA
Found at i:44642651 original size:20 final size:19
Alignment explanation
Indices: 44642608--44642651 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
44642598 ATGTAAAATG
44642608 TATTCATTTTATGTAAAGA
1 TATTCATTTTATGTAAAGA
* *
44642627 GATTCATTTTATAGTAAAGT
1 TATTCATTTTAT-GTAAAGA
44642647 TATTC
1 TATTC
44642652 TAATCGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.34, C:0.07, G:0.11, T:0.48
Consensus pattern (19 bp):
TATTCATTTTATGTAAAGA
Found at i:44647951 original size:86 final size:86
Alignment explanation
Indices: 44647806--44647975 Score: 286
Period size: 86 Copynumber: 2.0 Consensus size: 86
44647796 GTACCATACG
*
44647806 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATTTGAATGGAAG
1 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATCTGAATGGAAG
*
44647871 GATAGCCCGATGGAAAATTTT
66 GATAGCCCGAAGGAAAATTTT
* *
44647892 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTACTCTGAATTGAAG
1 ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATCTGAATGGAAG
* *
44647957 GATGGCCCGAAGGCAAATT
66 GATAGCCCGAAGGAAAATT
44647976 CTGCTTTCCA
Statistics
Matches: 78, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
86 78 1.00
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.25
Consensus pattern (86 bp):
ACTTGGCTCATCTAAAAAATGGACCCTCTAAAGTACATGATGGAGTCGACTAATCTGAATGGAAG
GATAGCCCGAAGGAAAATTTT
Found at i:44650888 original size:27 final size:27
Alignment explanation
Indices: 44650826--44650894 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
44650816 AAGAAAATTA
*
44650826 AAATG-ATGTAATAAGCTAAGACAAAT
1 AAATGCATGTATTAAGCTAAGACAAAT
* *
44650852 TAATGACATGTATTAA-CTAAGACATACT
1 AAATG-CATGTATTAAGCTAAGACA-AAT
*
44650880 AAATGCATGCATTAA
1 AAATGCATGTATTAA
44650895 AATAAAACAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
26 4 0.11
27 17 0.49
28 14 0.40
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.28
Consensus pattern (27 bp):
AAATGCATGTATTAAGCTAAGACAAAT
Found at i:44651068 original size:19 final size:18
Alignment explanation
Indices: 44651040--44651078 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
44651030 ATCAAGCTGA
*
44651040 AATTGAGCTCATTGAGCT
1 AATTGAGCTCATGGAGCT
44651058 AATTCGAGCTCATGGAGCT
1 AATT-GAGCTCATGGAGCT
44651077 AA
1 AA
44651079 GGTTGAGTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (18 bp):
AATTGAGCTCATGGAGCT
Found at i:44654144 original size:18 final size:19
Alignment explanation
Indices: 44654117--44654171 Score: 58
Period size: 18 Copynumber: 2.8 Consensus size: 19
44654107 TCTTTGGTTG
* *
44654117 TTTTTCCTTTTTTTTTTCA
1 TTTTTCCTTTTCTTTTGCA
44654136 TTTTT-CTTTTCTTTTGCA
1 TTTTTCCTTTTCTTTTGCA
*
44654154 TTTTCATTCTTTTCTTTT
1 TTTT--TCCTTTTCTTTT
44654172 TCTCTTATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
18 15 0.48
19 5 0.16
20 1 0.03
21 10 0.32
ACGTcount: A:0.05, C:0.16, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTCCTTTTCTTTTGCA
Found at i:44655805 original size:184 final size:184
Alignment explanation
Indices: 44655486--44655853 Score: 646
Period size: 184 Copynumber: 2.0 Consensus size: 184
44655476 GTCCGATCGA
44655486 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGGTCTTCATCAATCCGTCCACGTTCTCT
1 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGGTCTTCATCAATCCGTCCACGTTCTCT
**
44655551 TTGGCCACGGTTTCTTGGAACTCTTCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
66 TTGGCCACGGTTTCTTGGAACTCACCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
* *
44655616 CACTTCGGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCGTTCTCTTT
131 CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCATTCTCTTT
* *
44655670 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGGTCTTCATCGATCCGTCCATGTTCTCT
1 CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGGTCTTCATCAATCCGTCCACGTTCTCT
* * *
44655735 TTGGCCACGGTTTCTTGGAACTCACCGCCTTTCACTTTGGTTTGACCCTTGGTCACTTTTGGCTT
66 TTGGCCACGGTTTCTTGGAACTCACCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
*
44655800 CACTTCAGTCATAGAGGTTTTCTTGGTTAATTTCTGGGCGGCATCATTCTCTTT
131 CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCATTCTCTTT
44655854 GTGGACCTTG
Statistics
Matches: 174, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
184 174 1.00
ACGTcount: A:0.18, C:0.23, G:0.20, T:0.39
Consensus pattern (184 bp):
CCTTGAAATGGTGGAATAAAAAGCTTGATATTTTTAAGGTCTTCATCAATCCGTCCACGTTCTCT
TTGGCCACGGTTTCTTGGAACTCACCGCCTTTCACTTTGGTTTGACCCTTAGTCACTTTCGGCCT
CACTTCAGTCATAGAGGTCTTCTTGGTTAATTTCTGGGCGGCATCATTCTCTTT
Found at i:44657761 original size:27 final size:28
Alignment explanation
Indices: 44657705--44657784 Score: 87
Period size: 27 Copynumber: 2.9 Consensus size: 28
44657695 GGCAGGAACT
*
44657705 TAAG-CAAATTAAAATG-ATGTAATAAGC
1 TAAGACAAATT-AAATGCATGTATTAAGC
44657732 TAAGACAAATT-AATGACATGTATTAA-C
1 TAAGACAAATTAAATG-CATGTATTAAGC
* *
44657759 TAAGACATATTAAATGCATGAATTAA
1 TAAGACAAATTAAATGCATGTATTAA
44657785 AATAAAACAT
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
26 4 0.09
27 24 0.52
28 18 0.39
ACGTcount: A:0.50, C:0.09, G:0.12, T:0.29
Consensus pattern (28 bp):
TAAGACAAATTAAATGCATGTATTAAGC
Found at i:44659397 original size:44 final size:44
Alignment explanation
Indices: 44659333--44660076 Score: 638
Period size: 44 Copynumber: 16.8 Consensus size: 44
44659323 TTATCGTGGT
* * *
44659333 AAATCTTATCTCCTTAAAGTTGCAGTGGAACAGATTAAAGTCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
*
44659377 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCA-C
** ** * * ** * *
44659422 AAATCTTATCTCTTTGAAGTCACAATAGAATAGATGAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
* *
44659466 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
*
44659510 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCA-C
** ** * * ** * *
44659555 AAATCTTATCTCTTTGAAGTCACAATAGAATAGATGAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
* * * * *
44659599 AAATCTTATCTCCCTGAAATTGCAATGGAGTAGATTGAAAATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTCAC
* * ** *
44659644 AAATCTTATCTCTCTGAAGTTGCAGTAGAATAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
* * * * * * *
44659688 AAATTTTATCTCCTTAAAGTTGCAATGGAACAGATTGAAAAT-AGT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTCA-C
* * *
44659733 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
* * *
44659777 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGACAGC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCA-C
* * *
44659822 AAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTGAAGATAAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAG-TCAC
** * * *
44659867 AAATC-TATCTTTCTGAAGTTGCAATAGAGCAGATTGAAGTCAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
* * * *
44659910 AAATCTTATCT-CCTTAAGTTGCAGTGGAGTAGATTGAAGTTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
* * * * * *
44659953 AAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTGAAGGT-AT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGTCAC
* * * * *
44659997 GAGTCTCATCGCCCTGAAGTTGCAGCGGAGCAGATTAAAG-CTAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTC-AC
* * * * *
44660041 AAGTCTAATCTACCTGAAGTTACAGTGGAGTAGATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
44660077 GAAGCAAAAA
Statistics
Matches: 562, Mismatches: 121, Indels: 34
0.78 0.17 0.05
Matches are distributed among these distances:
43 46 0.08
44 333 0.59
45 182 0.32
46 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.19, T:0.28
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGTCAC
Found at i:44659475 original size:89 final size:89
Alignment explanation
Indices: 44659333--44660079 Score: 652
Period size: 89 Copynumber: 8.4 Consensus size: 89
44659323 TTATCGTGGT
* * * * *
44659333 AAATCTTATCTCCTTAAAGTTGCAGTGGAACAGATT-AAAGTCACAAATCTTATCTCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACACAAATCTTATCTCCCTGAAGT
**
44659397 TGCAGTGGAGCAGATTGAAGATAGC
66 TGCAGTGGAGCAGATTGAAGCCA-C
** ** * ** * *
44659422 AAATCTTATCTCTTTGAAGTCACAATAGAATAGA-TGAAAGCCACAAATCTTATCTCCCTAAAGT
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACACAAATCTTATCTCCCTGAAGT
*
44659486 TGCAGTGGAGCAGATTAAAGCCAC
66 TGCAGTGGAGCAGATTGAAGCCAC
* * **
44659510 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGATAGCAAATCTTATCTCTTTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACA-CAAATCTTATCTCCCTGAAG
** * * **
44659574 TCACAATAGAATAGA-TGAAAGCCAC
65 TTGCAGTGGAGCAGATTG-AAGCCAC
* * * *
44659599 AAATCTTATCTCCCTGAAATTGCAATGGAGTAGATTGAAA-ATAACAAATCTTATCTCTCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGA-CACAAATCTTATCTCCCTGAAG
* ** *
44659663 TTGCAGTAGAATAGATTAAAGCCAC
65 TTGCAGTGGAGCAGATTGAAGCCAC
* * * * * * *
44659688 AAATTTTATCTCCTTAAAGTTGCAATGGAACAGATTGAAA-ATAGTAAATCTTATCTCTCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACA-CAAATCTTATCTCCCTGAAG
* *
44659752 TTGCAGTAGAGCAGATTAAAGCCAC
65 TTGCAGTGGAGCAGATTGAAGCCAC
* *
44659777 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAGACAGCAAATCTTATCTCCCTGAAG
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACA-CAAATCTTATCTCCCTGAAG
* **
44659841 TTGCAGTGGAACAGATTGAAGATAAC
65 TTGCAGTGGAGCAGATTGAAG-CCAC
** * * *
44659867 AAATC-TATCTTTCTGAAGTTGCAATAGAGCAGATTG-AAGTCACAAATCTTATCT-CCTTAAGT
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACACAAATCTTATCTCCCTGAAGT
* **
44659929 TGCAGTGGAGTAGATTGAAGTTAC
66 TGCAGTGGAGCAGATTGAAGCCAC
* * * * * ** ** * * *
44659953 AAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTG-AAGGTATGAGTCTCATCGCCCTGAAGT
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACACAAATCTTATCTCCCTGAAGT
* * *
44660017 TGCAGCGGAGCAGATTAAAGCTAC
66 TGCAGTGGAGCAGATTGAAGCCAC
* * * * * *
44660041 AAGTCTAATCTACCTGAAGTTACAGTGGAGTAGATTGAA
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAA
44660080 GCAAAAAATC
Statistics
Matches: 544, Mismatches: 101, Indels: 26
0.81 0.15 0.04
Matches are distributed among these distances:
86 8 0.01
87 59 0.11
88 106 0.19
89 361 0.66
90 10 0.02
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (89 bp):
AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAGACACAAATCTTATCTCCCTGAAGT
TGCAGTGGAGCAGATTGAAGCCAC
Found at i:44659571 original size:133 final size:134
Alignment explanation
Indices: 44659333--44660080 Score: 760
Period size: 133 Copynumber: 5.6 Consensus size: 134
44659323 TTATCGTGGT
* * *
44659333 AAATCTTATCTCCTTAAAGTTGCAGTGGAACAGATTAAAGTCACAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* ** *
44659398 GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTCACAATAGAATAGA-TGAAAG
66 GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAATAGATTGAAAG
44659462 CCAC
131 CCAC
44659466 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* ** *
44659531 GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTTTGAAGTCACAATAGAATAGA-TGAAAG
66 GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAATAGATTGAAAG
44659595 CCAC
131 CCAC
* * *** *
44659599 AAATCTTATCTCCCTGAAA-TTGCAATGGAGTAGATTGAAAATAACAAATCTTATCTCTCTGAAG
1 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATT-AAAGCCACAAATCTTATCTCCCTGAAG
* ** * ** * * *
44659663 TTGCAGTAGAATAGATTAAAGCCA-CAAATTTTATCTCCTTAAAGTTGCAATGGAACAGATTGAA
64 TTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAATAGATTGAA
** *
44659727 A-ATAGT
129 AGCCA-C
* * * *
44659733 AAATCTTATCTCTCTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* * * *
44659798 GCAGTGGAGCAGATTGAAGACAGCAAATCTTATCTCCCTGAAGTTGCAGTGGAACAGATTG-AAG
66 GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAATAGATTGAAAG
**
44659862 ATAAC
131 -CCAC
** * * * * * *
44659867 AAATC-TATCTTTCTGAAGTTGCAATAGAGCAGATTGAAGTCACAAATCTTATCT-CCTTAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* * * * * * * *
44659930 GCAGTGGAGTAGATTGAAGTTA-CAAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTG-AAG
66 GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAATAGATTGAAAG
** *
44659993 GTAT
131 CCAC
* * * * * * * * * *
44659997 GAGTCTCATCGCCCTGAAGTTGCAGCGGAGCAGATTAAAGCTACAAGTCTAATCTACCTGAAGTT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
* *
44660062 ACAGTGGAGTAGATTGAAG
66 GCAGTGGAGCAGATTGAAG
44660081 CAAAAAATCC
Statistics
Matches: 525, Mismatches: 80, Indels: 21
0.84 0.13 0.03
Matches are distributed among these distances:
130 4 0.01
131 73 0.14
132 53 0.10
133 278 0.53
134 116 0.22
135 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.28
Consensus pattern (134 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAGTT
GCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCCTTGAAGTTGCAATGGAATAGATTGAAAG
CCAC
Found at i:44660124 original size:132 final size:131
Alignment explanation
Indices: 44659746--44660124 Score: 311
Period size: 132 Copynumber: 2.9 Consensus size: 131
44659736 TCTTATCTCT
** * * * * *
44659746 CTGAAGTTGCAGTAGAGCAGATTAAAGCCACAAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGA
1 CTGAAGTTGCAACAGAGCAGATTAAAGTCACAAATCTAATCT-CCTGAAGTTACAGTGGAGTAGA
** * * ** * * ** *
44659811 TTGAAGACAGCAAATCTTATCT-CCCTGAAGTTGCAGTGGAACAGATTGAAGATAACAAATCT-A
65 TTGAAG-CAAAAAATCTCAT-TACCCTAAAGTTGCAGTGGAGTAGAATGAAGGT-ATGAGTCTCA
***
44659874 TCTTT
127 TCGCC
* * * * *
44659879 CTGAAGTTGCAATAGAGCAGATTGAAGTCACAAATCTTATCTCCTTAAGTTGCAGTGGAGTAGAT
1 CTGAAGTTGCAACAGAGCAGATTAAAGTCACAAATCTAATCTCCTGAAGTTACAGTGGAGTAGAT
** * * *
44659944 TGAAGTTACAAATCTCATTTCCCTAAAGTTGCAGTGGAGTAGATTGAAGGTATGAGTCTCATCGC
66 TGAAGCAAAAAATCTCATTACCCTAAAGTTGCAGTGGAGTAGAATGAAGGTATGAGTCTCATCGC
44660009 C
131 C
* * *
44660010 CTGAAGTTGCAGCGGAGCAGATTAAAG-CTACAAGTCTAATCTACCTGAAGTTACAGTGGAGTAG
1 CTGAAGTTGCAACAGAGCAGATTAAAGTC-ACAAATCTAATCT-CCTGAAGTTACAGTGGAGTAG
* *
44660074 ATTGAAGCAAAAAATC-C-TGTACCTCTGAAGTTGTAGTGG-GTTAGAATGAAG
64 ATTGAAGCAAAAAATCTCAT-TACC-CTAAAGTTGCAGTGGAG-TAGAATGAAG
44660125 CCACTTGAAA
Statistics
Matches: 204, Mismatches: 35, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
130 8 0.04
131 78 0.38
132 80 0.39
133 38 0.19
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (131 bp):
CTGAAGTTGCAACAGAGCAGATTAAAGTCACAAATCTAATCTCCTGAAGTTACAGTGGAGTAGAT
TGAAGCAAAAAATCTCATTACCCTAAAGTTGCAGTGGAGTAGAATGAAGGTATGAGTCTCATCGC
C
Found at i:44661635 original size:65 final size:67
Alignment explanation
Indices: 44661545--44661676 Score: 187
Period size: 69 Copynumber: 2.0 Consensus size: 67
44661535 TTCATTCTTT
44661545 TATATTTGTTTTATCTATTTATTTA-TCA-TTCTTTTACTTTTTAAATACTTAAATTTCATATTA
1 TATATTTGTTTTATCTATTTATTTATTCATTTCTTTTACTTTTTAAATACTTAAATTTCATATTA
44661608 TG
66 TG
* * * * *
44661610 TATATTTGTTTTATCTATTTATTTATTTTTATTTTTTTTACTTTTTAAATATTTGAATTTGATAT
1 TATATTTGTTTTATCTATTTATTTA--TTCATTTCTTTTACTTTTTAAATACTTAAATTTCATAT
44661675 TA
64 TA
44661677 CTTATACTTC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
65 25 0.43
68 2 0.03
69 31 0.53
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.64
Consensus pattern (67 bp):
TATATTTGTTTTATCTATTTATTTATTCATTTCTTTTACTTTTTAAATACTTAAATTTCATATTA
TG
Found at i:44669808 original size:31 final size:31
Alignment explanation
Indices: 44669770--44669833 Score: 110
Period size: 31 Copynumber: 2.1 Consensus size: 31
44669760 AGCAAAAGCG
44669770 ATTCATGCGTGGTACGCAGACATAGTAAACT
1 ATTCATGCGTGGTACGCAGACATAGTAAACT
* *
44669801 ATTCATGCTTGGTATGCAGACATAGTAAACT
1 ATTCATGCGTGGTACGCAGACATAGTAAACT
44669832 AT
1 AT
44669834 CTCGTCACAG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (31 bp):
ATTCATGCGTGGTACGCAGACATAGTAAACT
Found at i:44671419 original size:11 final size:11
Alignment explanation
Indices: 44671398--44671438 Score: 52
Period size: 9 Copynumber: 3.9 Consensus size: 11
44671388 AAAAATACAC
44671398 ATTTTAATTTTT
1 ATTTT-ATTTTT
44671410 A-TTTATTTTT
1 ATTTTATTTTT
44671420 ATTTTA--TTT
1 ATTTTATTTTT
44671429 ATTTTATTTT
1 ATTTTATTTT
44671439 GTAGGGAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
9 9 0.35
10 7 0.27
11 9 0.35
12 1 0.04
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (11 bp):
ATTTTATTTTT
Found at i:44671426 original size:15 final size:14
Alignment explanation
Indices: 44671406--44671438 Score: 57
Period size: 14 Copynumber: 2.3 Consensus size: 14
44671396 ACATTTTAAT
44671406 TTTTATTTATTTTTA
1 TTTTATTTA-TTTTA
44671421 TTTTATTTATTTTA
1 TTTTATTTATTTTA
44671435 TTTT
1 TTTT
44671439 GTAGGGAAAC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (14 bp):
TTTTATTTATTTTA
Found at i:44690124 original size:30 final size:31
Alignment explanation
Indices: 44690084--44690161 Score: 97
Period size: 31 Copynumber: 2.5 Consensus size: 31
44690074 TATATTTTCT
44690084 GTACTTGGCTAGGTTTTCTT-TTT-AAGAACA
1 GTACTTGGCTAGGTTTT-TTCTTTAAAGAACA
* **
44690114 GTACTCGGCTAGGTTTTTTCTTTAAAGATTA
1 GTACTTGGCTAGGTTTTTTCTTTAAAGAACA
*
44690145 GTAGTTGGCTAGGTTTT
1 GTACTTGGCTAGGTTTT
44690162 ATTAATCATA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 2 0.05
30 19 0.46
31 20 0.49
ACGTcount: A:0.21, C:0.12, G:0.23, T:0.45
Consensus pattern (31 bp):
GTACTTGGCTAGGTTTTTTCTTTAAAGAACA
Found at i:44691167 original size:22 final size:22
Alignment explanation
Indices: 44691142--44691205 Score: 119
Period size: 22 Copynumber: 2.9 Consensus size: 22
44691132 TTAGACCATA
44691142 GTGATTTTCTTTATAAATCATG
1 GTGATTTTCTTTATAAATCATG
*
44691164 GTGATTTTCTTTATAAATAATG
1 GTGATTTTCTTTATAAATCATG
44691186 GTGATTTTCTTTATAAATCA
1 GTGATTTTCTTTATAAATCA
44691206 CGGAATCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 40 1.00
ACGTcount: A:0.30, C:0.08, G:0.12, T:0.50
Consensus pattern (22 bp):
GTGATTTTCTTTATAAATCATG
Found at i:44692638 original size:26 final size:25
Alignment explanation
Indices: 44692608--44692665 Score: 80
Period size: 26 Copynumber: 2.2 Consensus size: 25
44692598 ATAAACACCA
44692608 AAAAAATATTTTAAATATAAAAAGAAT
1 AAAAAATATTTTAAA-AT-AAAAGAAT
*
44692635 AAAAAAGTATTTTAAAATTAAAGAAT
1 AAAAAA-TATTTTAAAATAAAAGAAT
44692661 AAAAA
1 AAAAA
44692666 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
26 12 0.41
27 8 0.28
28 9 0.31
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.28
Consensus pattern (25 bp):
AAAAAATATTTTAAAATAAAAGAAT
Found at i:44692645 original size:28 final size:26
Alignment explanation
Indices: 44692607--44692665 Score: 82
Period size: 28 Copynumber: 2.2 Consensus size: 26
44692597 AATAAACACC
44692607 AAAAAAATATTTTAAATATAAAAAGAAT
1 AAAAAAATATTTTAAA-AT-AAAAGAAT
* *
44692635 AAAAAAGTATTTTAAAATTAAAGAAT
1 AAAAAAATATTTTAAAATAAAAGAAT
44692661 AAAAA
1 AAAAA
44692666 TTGTTTATTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
26 12 0.41
27 2 0.07
28 15 0.52
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (26 bp):
AAAAAAATATTTTAAAATAAAAGAAT
Found at i:44693178 original size:6 final size:6
Alignment explanation
Indices: 44693156--44693199 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
44693146 AAAATTTAGA
* * *
44693156 TTAGGG TTAGTG CTAGGG TTAGGA TTAGGG TTAGGG TTTAGGG T
1 TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG TTAGGG -TTAGGG T
44693200 GTTTTTAAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.02, G:0.43, T:0.36
Consensus pattern (6 bp):
TTAGGG
Found at i:44693350 original size:35 final size:35
Alignment explanation
Indices: 44693328--44693396 Score: 129
Period size: 35 Copynumber: 2.0 Consensus size: 35
44693318 TAGGGACGCG
44693328 CTGACGTGGCAGGAAAACGCGTCCACATCAGCGCA
1 CTGACGTGGCAGGAAAACGCGTCCACATCAGCGCA
*
44693363 TTGACGTGGCAGGAAAACGCGTCCACATCAGCGC
1 CTGACGTGGCAGGAAAACGCGTCCACATCAGCGC
44693397 GCTTTATGTC
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.28, C:0.30, G:0.29, T:0.13
Consensus pattern (35 bp):
CTGACGTGGCAGGAAAACGCGTCCACATCAGCGCA
Found at i:44693921 original size:17 final size:18
Alignment explanation
Indices: 44693898--44693942 Score: 74
Period size: 17 Copynumber: 2.6 Consensus size: 18
44693888 ATATATTTTT
44693898 TATTTTTAATCAAATATA
1 TATTTTTAATCAAATATA
44693916 -ATTTTTAATCAAATATA
1 TATTTTTAATCAAATATA
*
44693933 TATATTTAAT
1 TATTTTTAAT
44693943 ATATTTTTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 17 0.68
18 8 0.32
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTTTTAATCAAATATA
Found at i:44696872 original size:19 final size:19
Alignment explanation
Indices: 44696850--44696898 Score: 89
Period size: 19 Copynumber: 2.6 Consensus size: 19
44696840 TGATTTCAAA
44696850 TGAATTAAGATAATTTGAG
1 TGAATTAAGATAATTTGAG
*
44696869 TGAATTAAGGTAATTTGAG
1 TGAATTAAGATAATTTGAG
44696888 TGAATTAAGAT
1 TGAATTAAGAT
44696899 TGAACCTAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TGAATTAAGATAATTTGAG
Found at i:44699266 original size:27 final size:27
Alignment explanation
Indices: 44699225--44699311 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 27
44699215 CTGTCTCATT
44699225 GGACT-TCCTATGTTTAACGTCCCGTC
1 GGACTATCCTATGTTTAACGTCCCGTC
* *
44699251 GGACTATCCTGTGTTTAACGTCCTGTC
1 GGACTATCCTATGTTTAACGTCCCGTC
* * * *
44699278 GGACTATCCCATGTTTAACATCCCATT
1 GGACTATCCTATGTTTAACGTCCCGTC
44699305 GGACTAT
1 GGACTAT
44699312 ATACAATGCC
Statistics
Matches: 52, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
26 5 0.10
27 47 0.90
ACGTcount: A:0.20, C:0.28, G:0.18, T:0.34
Consensus pattern (27 bp):
GGACTATCCTATGTTTAACGTCCCGTC
Found at i:44699390 original size:57 final size:57
Alignment explanation
Indices: 44699317--44699461 Score: 202
Period size: 57 Copynumber: 2.5 Consensus size: 57
44699307 ACTATATACA
* * **
44699317 ATGCCACAGTGTCTTTCAACTATGGTCTTACTCATTATA-TCGTCAAATCATCTTTTG
1 ATGCCATAGCGTCTTTCAACTATGGTCTTACTCACAATACT-GTCAAATCATCTTTTG
* *
44699374 ATGCCATAGCGTCTTTCAGCTATGGTATTACTCACAATACTGTCAAATCATCTTTTG
1 ATGCCATAGCGTCTTTCAACTATGGTCTTACTCACAATACTGTCAAATCATCTTTTG
* *
44699431 ATTCCATAGCATCTTTCAACTATGGTCTTAC
1 ATGCCATAGCGTCTTTCAACTATGGTCTTAC
44699462 ACAATATAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
57 76 0.99
58 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (57 bp):
ATGCCATAGCGTCTTTCAACTATGGTCTTACTCACAATACTGTCAAATCATCTTTTG
Found at i:44700851 original size:9 final size:9
Alignment explanation
Indices: 44700837--44700870 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
44700827 GTTTTTGAAT
44700837 TCGAATAAC
1 TCGAATAAC
*
44700846 TCGAATAAT
1 TCGAATAAC
*
44700855 TCGAATAAG
1 TCGAATAAC
44700864 TCGAATA
1 TCGAATA
44700871 TCAAACTATA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:44700855 original size:18 final size:18
Alignment explanation
Indices: 44700834--44700870 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
44700824 TGAGTTTTTG
44700834 AATTCGAATAACTCGAAT
1 AATTCGAATAACTCGAAT
*
44700852 AATTCGAATAAGTCGAAT
1 AATTCGAATAACTCGAAT
44700870 A
1 A
44700871 TCAAACTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.14, G:0.14, T:0.27
Consensus pattern (18 bp):
AATTCGAATAACTCGAAT
Found at i:44701120 original size:30 final size:31
Alignment explanation
Indices: 44701084--44701143 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
44701074 AAACTTTTTA
*
44701084 TTTTCCCCCAAAATTTTTACTCCC-TCCCAC
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
* *
44701114 TTTTCCCCTAAAACTTTTATTCCCTTCCCA
1 TTTTCCCCCAAAACTTTTACTCCCTTCCCA
44701144 TCCCATTCCC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 21 0.81
31 5 0.19
ACGTcount: A:0.20, C:0.40, G:0.00, T:0.40
Consensus pattern (31 bp):
TTTTCCCCCAAAACTTTTACTCCCTTCCCAC
Found at i:44701919 original size:5 final size:5
Alignment explanation
Indices: 44701909--44701934 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44701899 CTCAAAAATT
44701909 TTCGA TTCGA TTCGA TTCGA TTCGA T
1 TTCGA TTCGA TTCGA TTCGA TTCGA T
44701935 CGAATGCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.19, T:0.42
Consensus pattern (5 bp):
TTCGA
Found at i:44708032 original size:19 final size:21
Alignment explanation
Indices: 44707996--44708034 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
44707986 TAATTTAACC
*
44707996 ATTTTTTATTTTTATTTTAAT
1 ATTTTTTATTTGTATTTTAAT
44708017 ATTTTTT-TTTGT-TTTTAA
1 ATTTTTTATTTGTATTTTAA
44708035 CTTAATTGTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 6 0.35
20 4 0.24
21 7 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.77
Consensus pattern (21 bp):
ATTTTTTATTTGTATTTTAAT
Found at i:44710579 original size:21 final size:22
Alignment explanation
Indices: 44710554--44710596 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
44710544 GGAGAGAGGA
44710554 AAAAAAT-AAAATAATAAAAAG
1 AAAAAATAAAAATAATAAAAAG
*
44710575 -AAAAATAAAAATAATCAAAAG
1 AAAAAATAAAAATAATAAAAAG
44710596 A
1 A
44710597 TTATCCAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 6 0.32
21 13 0.68
ACGTcount: A:0.79, C:0.02, G:0.05, T:0.14
Consensus pattern (22 bp):
AAAAAATAAAAATAATAAAAAG
Found at i:44716369 original size:24 final size:24
Alignment explanation
Indices: 44716341--44716389 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
44716331 TAACATACAT
*
44716341 AGAATCTCATGATCAGTTAGATAC
1 AGAATCTCATGATCAGTCAGATAC
* *
44716365 AGAATTTCATGATTAGTCAGATAC
1 AGAATCTCATGATCAGTCAGATAC
44716389 A
1 A
44716390 AATTCGGACC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.31
Consensus pattern (24 bp):
AGAATCTCATGATCAGTCAGATAC
Found at i:44716909 original size:18 final size:18
Alignment explanation
Indices: 44716886--44716920 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
44716876 ATTTCAAAAT
*
44716886 TTTGGGCCCATATGCCCG
1 TTTGGGCCCACATGCCCG
44716904 TTTGGGCCCACATGCCC
1 TTTGGGCCCACATGCCC
44716921 CATTTGGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.11, C:0.37, G:0.26, T:0.26
Consensus pattern (18 bp):
TTTGGGCCCACATGCCCG
Found at i:44716929 original size:18 final size:18
Alignment explanation
Indices: 44716886--44716927 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
44716876 ATTTCAAAAT
* *
44716886 TTTGGGCCCATATGCCCG
1 TTTGGGCCCACATGCCCA
44716904 TTTGGGCCCACATGCCCCA
1 TTTGGGCCCACATG-CCCA
44716923 TTTGG
1 TTTGG
44716928 CCTAGCCCGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.62
19 8 0.38
ACGTcount: A:0.12, C:0.33, G:0.26, T:0.29
Consensus pattern (18 bp):
TTTGGGCCCACATGCCCA
Found at i:44718162 original size:14 final size:16
Alignment explanation
Indices: 44718143--44718178 Score: 58
Period size: 14 Copynumber: 2.4 Consensus size: 16
44718133 CCCGAGTTTT
44718143 TTTTAATTT-AT-TTA
1 TTTTAATTTCATGTTA
44718157 TTTTAATTTCATGTTA
1 TTTTAATTTCATGTTA
44718173 TTTTAA
1 TTTTAA
44718179 AAAAAATTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 9 0.45
15 2 0.10
16 9 0.45
ACGTcount: A:0.28, C:0.03, G:0.03, T:0.67
Consensus pattern (16 bp):
TTTTAATTTCATGTTA
Found at i:44730612 original size:19 final size:19
Alignment explanation
Indices: 44730572--44730611 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
44730562 TTTATGTGTG
* *
44730572 TTTATTTTTGTTTTTATGT
1 TTTATTTGTGTGTTTATGT
44730591 TTTATTTGTGTGTTTAT-T
1 TTTATTTGTGTGTTTATGT
44730609 TTT
1 TTT
44730612 TTATATAGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.10, C:0.00, G:0.12, T:0.78
Consensus pattern (19 bp):
TTTATTTGTGTGTTTATGT
Found at i:44730625 original size:31 final size:29
Alignment explanation
Indices: 44730558--44730625 Score: 84
Period size: 31 Copynumber: 2.3 Consensus size: 29
44730548 GTTGCACATA
*
44730558 AGTTTTTATGTGTGTTTATTTTTGTTTTT
1 AGTTTTTATGTGTGTTTATTTTTGTTTAT
*
44730587 ATGTTTTATTTGTGTGTTTATTTTT-TTATAT
1 A-GTTTT-TATGTGTGTTTATTTTTGTT-TAT
44730618 AGTTTTTA
1 AGTTTTTA
44730626 AAAAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
29 2 0.06
30 12 0.36
31 19 0.58
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.71
Consensus pattern (29 bp):
AGTTTTTATGTGTGTTTATTTTTGTTTAT
Found at i:44734183 original size:37 final size:37
Alignment explanation
Indices: 44734125--44734370 Score: 257
Period size: 37 Copynumber: 6.7 Consensus size: 37
44734115 ATACTCCCTG
* *
44734125 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* *
44734162 ATTGGGCGTGTTATCGGGTGGATTACCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* ** * *
44734199 ATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* * *
44734236 ATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGC
1 ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
* *
44734273 ATTTGGTGTGTTA-CTGGGTGGACTAGCTCTTATGAGC
1 ATTTGGCGTGTTATC-GGGTGGATTAGCTCTTATGAGC
* * * *
44734310 ATTTGGCGTGTTATTAGGG-GAAGTAGTTCTTATGAGC
1 ATTTGGCGTGTTA-TCGGGTGGATTAGCTCTTATGAGC
* *
44734347 GA-TTGGTGTGTT-TCGGTTGGATTA
1 -ATTTGGCGTGTTATCGGGTGGATTA
44734371 CTTGTGTACT
Statistics
Matches: 175, Mismatches: 29, Indels: 11
0.81 0.13 0.05
Matches are distributed among these distances:
35 3 0.02
36 5 0.03
37 163 0.93
38 4 0.02
ACGTcount: A:0.18, C:0.13, G:0.30, T:0.39
Consensus pattern (37 bp):
ATTTGGCGTGTTATCGGGTGGATTAGCTCTTATGAGC
Found at i:44734322 original size:111 final size:111
Alignment explanation
Indices: 44734125--44734324 Score: 314
Period size: 111 Copynumber: 1.8 Consensus size: 111
44734115 ATACTCCCTG
* *
44734125 ATTTGGCTTGTTATCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATCGGGTGGATTACCT
1 ATTTGGCTTGTTACCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATCGGGTGGACTACCT
44734190 CTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
66 CTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
* * *
44734236 ATTTGG-TGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGTGTGTTA-CTGGGTGGACTAG
1 ATTTGGCT-TGTTACCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATC-GGGTGGACTAC
*
44734299 CTCTTATGAGCATTTGGCGTGTTATT
64 CTCTTATGAGCATTTGGCCTGTTATT
44734325 AGGGGAAGTA
Statistics
Matches: 81, Mismatches: 6, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
110 2 0.02
111 79 0.98
ACGTcount: A:0.17, C:0.14, G:0.29, T:0.40
Consensus pattern (111 bp):
ATTTGGCTTGTTACCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATCGGGTGGACTACCT
CTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
Found at i:44734344 original size:111 final size:112
Alignment explanation
Indices: 44734124--44734358 Score: 309
Period size: 111 Copynumber: 2.1 Consensus size: 112
44734114 TATACTCCCT
* *
44734124 GATTTGGCT-TGTTATCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATCGGGTGGATTAC
1 GATTTGG-TGTGTTACCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATCGGGTGGACTAC
* *
44734188 CTCTTATGAGCATTTGGCCTGTTATTTGGTGGATTAACTCCTATGAGC
65 CTCTTATGAGCATTTGGCCTGTTATTAGGTGGAGTAACTCCTATGAGC
* * *
44734236 -ATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGCATTTGGTGTGTTA-CTGGGTGGACTAG
1 GATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATC-GGGTGGACTAC
* ** *
44734299 CTCTTATGAGCATTTGGCGTGTTATTAGG-GGAAGTAGTTCTTATGAGC
65 CTCTTATGAGCATTTGGCCTGTTATTAGGTGG-AGTAACTCCTATGAGC
44734347 GA-TTGGTGTGTT
1 GATTTGGTGTGTT
44734359 TCGGTTGGAT
Statistics
Matches: 108, Mismatches: 11, Indels: 9
0.84 0.09 0.07
Matches are distributed among these distances:
110 4 0.04
111 103 0.95
112 1 0.01
ACGTcount: A:0.18, C:0.13, G:0.31, T:0.39
Consensus pattern (112 bp):
GATTTGGTGTGTTACCAGGTGGATTAGCTCTTATGAGCATTGGGCGTGTTATCGGGTGGACTACC
TCTTATGAGCATTTGGCCTGTTATTAGGTGGAGTAACTCCTATGAGC
Found at i:44736850 original size:22 final size:22
Alignment explanation
Indices: 44736795--44736851 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
44736785 ACTGGTCGCT
** * *
44736795 ATGTCGCAACACGGAATTCTCT
1 ATGTCGCAACATAGAAATCTCA
*
44736817 ATGTCACAACATAGAAATCTCA
1 ATGTCGCAACATAGAAATCTCA
44736839 ATGTCGCAACATA
1 ATGTCGCAACATA
44736852 AGGACCAGAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.37, C:0.25, G:0.14, T:0.25
Consensus pattern (22 bp):
ATGTCGCAACATAGAAATCTCA
Found at i:44747293 original size:54 final size:54
Alignment explanation
Indices: 44747211--44747319 Score: 218
Period size: 54 Copynumber: 2.0 Consensus size: 54
44747201 TAACCTTTTA
44747211 CTAAGTTCACACGAGCATCAATTTCACATATTTCAACATCATGCCTGTAATTAT
1 CTAAGTTCACACGAGCATCAATTTCACATATTTCAACATCATGCCTGTAATTAT
44747265 CTAAGTTCACACGAGCATCAATTTCACATATTTCAACATCATGCCTGTAATTAT
1 CTAAGTTCACACGAGCATCAATTTCACATATTTCAACATCATGCCTGTAATTAT
44747319 C
1 C
44747320 CATATTTCAT
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.33, C:0.25, G:0.09, T:0.33
Consensus pattern (54 bp):
CTAAGTTCACACGAGCATCAATTTCACATATTTCAACATCATGCCTGTAATTAT
Found at i:44747323 original size:29 final size:29
Alignment explanation
Indices: 44747237--44747328 Score: 88
Period size: 29 Copynumber: 3.3 Consensus size: 29
44747227 ATCAATTTCA
44747237 CATATTTCAACATCATGCCTGTAATTATC
1 CATATTTCAACATCATGCCTGTAATTATC
* * * *
44747266 TA-AGTTC-ACA-CGA-GCAT-CAATT-TC
1 CATATTTCAACATC-ATGCCTGTAATTATC
44747290 ACATATTTCAACATCATGCCTGTAATTATC
1 -CATATTTCAACATCATGCCTGTAATTATC
44747320 CATATTTCA
1 CATATTTCA
44747329 TATTTTACCT
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
24 2 0.04
25 5 0.11
26 8 0.17
27 8 0.17
28 8 0.17
29 14 0.30
30 2 0.04
ACGTcount: A:0.33, C:0.24, G:0.08, T:0.36
Consensus pattern (29 bp):
CATATTTCAACATCATGCCTGTAATTATC
Found at i:44748136 original size:102 final size:103
Alignment explanation
Indices: 44747960--44748171 Score: 390
Period size: 102 Copynumber: 2.1 Consensus size: 103
44747950 TTAAATTAAC
*
44747960 TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCTATCAATTTCAAGTCTAATTCTTCA
1 TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
*
44748025 ACAAATAAACAATGGTAATTTT-CTAAACTTTAACAGT
66 ACAAATAAACAATGGTAATTTTCCAAAACTTTAACAGT
*
44748062 TTTACAATCTAGTCCTTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
1 TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
44748127 ACAAATAAACAATGGTAATTTTCCAAAACTTTAACAGT
66 ACAAATAAACAATGGTAATTTTCCAAAACTTTAACAGT
44748165 TTTACAA
1 TTTACAA
44748172 GTTTGTACAT
Statistics
Matches: 106, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 85 0.80
103 21 0.20
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.38
Consensus pattern (103 bp):
TTTACAATCTAGTCCCTTTTCACATTCTAAGCTTAAAATCCATCAATTTCAAGTCTAATTCTTCA
ACAAATAAACAATGGTAATTTTCCAAAACTTTAACAGT
Found at i:44754364 original size:5 final size:5
Alignment explanation
Indices: 44754356--44754381 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
44754346 GAGATAGAAT
44754356 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
44754382 ATATTTGTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:44755228 original size:30 final size:31
Alignment explanation
Indices: 44755186--44755246 Score: 106
Period size: 30 Copynumber: 2.0 Consensus size: 31
44755176 GGGTTGGGAG
*
44755186 GGGAAGGGAGTAAAAGTTTTGGGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
44755217 GGGAA-GGAGTAAAAGTTTTGAGGGAAAAGT
1 GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
44755247 AAAAAGGTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.38, C:0.00, G:0.43, T:0.20
Consensus pattern (31 bp):
GGGAAGGGAGTAAAAGTTTTGAGGGAAAAGT
Found at i:44758611 original size:23 final size:23
Alignment explanation
Indices: 44758584--44758654 Score: 106
Period size: 23 Copynumber: 3.1 Consensus size: 23
44758574 AATGTTATTG
44758584 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
* * * *
44758607 TTCAGTGGTAGCTACAGCTACGT
1 ATCAGTGGTAGCTTCGGCTACAT
44758630 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
44758653 AT
1 AT
44758655 TCGTGTGGCA
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:44759513 original size:127 final size:127
Alignment explanation
Indices: 44759287--44759541 Score: 510
Period size: 127 Copynumber: 2.0 Consensus size: 127
44759277 AAAAATTATG
44759287 AAAATTTTATGGTAAGAAGATATGTGAATCTAGTTTTAGGGAAAATTAACAGATCTTAATTTGAA
1 AAAATTTTATGGTAAGAAGATATGTGAATCTAGTTTTAGGGAAAATTAACAGATCTTAATTTGAA
44759352 TCTCTTTAGCTCCAGATAAAAATAATTTAGTGACTCTAACTCGGATAGACAGCTTTGAATAT
66 TCTCTTTAGCTCCAGATAAAAATAATTTAGTGACTCTAACTCGGATAGACAGCTTTGAATAT
44759414 AAAATTTTATGGTAAGAAGATATGTGAATCTAGTTTTAGGGAAAATTAACAGATCTTAATTTGAA
1 AAAATTTTATGGTAAGAAGATATGTGAATCTAGTTTTAGGGAAAATTAACAGATCTTAATTTGAA
44759479 TCTCTTTAGCTCCAGATAAAAATAATTTAGTGACTCTAACTCGGATAGACAGCTTTGAATAT
66 TCTCTTTAGCTCCAGATAAAAATAATTTAGTGACTCTAACTCGGATAGACAGCTTTGAATAT
44759541 A
1 A
44759542 CATGTGAGTG
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
127 128 1.00
ACGTcount: A:0.38, C:0.11, G:0.16, T:0.35
Consensus pattern (127 bp):
AAAATTTTATGGTAAGAAGATATGTGAATCTAGTTTTAGGGAAAATTAACAGATCTTAATTTGAA
TCTCTTTAGCTCCAGATAAAAATAATTTAGTGACTCTAACTCGGATAGACAGCTTTGAATAT
Found at i:44763180 original size:33 final size:33
Alignment explanation
Indices: 44763143--44763210 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
44763133 AAACCTACTC
44763143 AGGGAATGATTTGCATAAAATAATAAAATATAA
1 AGGGAATGATTTGCATAAAATAATAAAATATAA
44763176 AGGGAATGATTTGCATAAAATAATAAAATATAA
1 AGGGAATGATTTGCATAAAATAATAAAATATAA
44763209 AG
1 AG
44763211 AAAAATTTTA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.26
Consensus pattern (33 bp):
AGGGAATGATTTGCATAAAATAATAAAATATAA
Found at i:44776721 original size:4 final size:4
Alignment explanation
Indices: 44776712--44776766 Score: 101
Period size: 4 Copynumber: 13.8 Consensus size: 4
44776702 AGCACATAAA
*
44776712 TATC TATC TATC CATC TATC TATC TATC TATC TATC TATC TATC TATC
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC
44776760 TATC TAT
1 TATC TAT
44776767 ATAAGGACTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 49 1.00
ACGTcount: A:0.25, C:0.25, G:0.00, T:0.49
Consensus pattern (4 bp):
TATC
Found at i:44779015 original size:41 final size:41
Alignment explanation
Indices: 44778946--44779080 Score: 164
Period size: 41 Copynumber: 3.3 Consensus size: 41
44778936 AATTATACTC
*
44778946 TGAATTGCACATATGAGCCCCTGTTTGTACTTCGGTACCCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
* * *
44778987 TGAATTGCACATATGTGCCCTTGGTTGTACTTCGATACCCT
1 TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
* * * * *
44779028 TGAATTACAGATACGTGCCCCTGTTTATACTAT-GGTACCCC
1 TGAATTGCACATATGTGCCCCTGTTTGTACT-TCGGTACCCT
*
44779069 TGAATAGCACAT
1 TGAATTGCACAT
44779081 GCGTTCCCCT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 77 0.99
42 1 0.01
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.33
Consensus pattern (41 bp):
TGAATTGCACATATGTGCCCCTGTTTGTACTTCGGTACCCT
Found at i:44780632 original size:42 final size:42
Alignment explanation
Indices: 44780554--44780652 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 42
44780544 TGGCCAATCG
* **
44780554 TGCGACAGACCGTGTAACTTTCGAAATAGTTGCACACGACCA
1 TGCGACAGACCGTGTAACATTCGAAATACATGCACACGACCA
*
44780596 TGCGACAGACCGTGTAACATTCGAAATACCAT-CACACGACTA
1 TGCGACAGACCGTGTAACATTCGAAATA-CATGCACACGACCA
*
44780638 TGTC-ACAGGCCGTGT
1 TG-CGACAGACCGTGT
44780653 GCTACACCAT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
42 48 0.96
43 2 0.04
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.21
Consensus pattern (42 bp):
TGCGACAGACCGTGTAACATTCGAAATACATGCACACGACCA
Found at i:44784315 original size:16 final size:15
Alignment explanation
Indices: 44784268--44784331 Score: 58
Period size: 15 Copynumber: 4.1 Consensus size: 15
44784258 TTCAGAGATC
* *
44784268 AAGAAAGAGAAGAAA
1 AAGAAAGAAAAAAAA
44784283 AAG-AAGTAAAAAGAAA
1 AAGAAAG-AAAAA-AAA
44784299 AAGGAACAGAAAAAAAA
1 AA-GAA-AGAAAAAAAA
*
44784316 AAGAAAGGAAAAAAA
1 AAGAAAGAAAAAAAA
44784331 A
1 A
44784332 CGTAAAGGAG
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
14 3 0.07
15 16 0.39
16 8 0.20
17 6 0.15
18 6 0.15
19 2 0.05
ACGTcount: A:0.77, C:0.02, G:0.20, T:0.02
Consensus pattern (15 bp):
AAGAAAGAAAAAAAA
Found at i:44784338 original size:16 final size:15
Alignment explanation
Indices: 44784309--44784353 Score: 54
Period size: 15 Copynumber: 2.9 Consensus size: 15
44784299 AAGGAACAGA
44784309 AAAAAAAAAGAAAGG
1 AAAAAAAAAGAAAGG
*
44784324 AAAAAAAACGTAAAGG
1 AAAAAAAAAG-AAAGG
*
44784340 AGAAAAGAAAGAAA
1 A-AAAAAAAAGAAA
44784354 AATGTTTTAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
15 9 0.36
16 9 0.36
17 7 0.28
ACGTcount: A:0.76, C:0.02, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAAAAAAGAAAGG
Found at i:44785311 original size:85 final size:84
Alignment explanation
Indices: 44785172--44785508 Score: 403
Period size: 85 Copynumber: 4.0 Consensus size: 84
44785162 ACCACCGCTA
* * * * * *
44785172 ATTTACAGTTACTGCCACTTGTAG--GTGTACAACATATTTGAAAATTAAAGAAACTGCCACTTG
1 ATTTGCAGTTACTGCCACTTGTTGTAGTGCACAACATATTTGTAGATTAAACAAACTGCCACTTG
*
44785235 GTTCATGATTGAACCACAT
66 GTTCATGATCGAACCACAT
* * * * *
44785254 ATTTGCAGTTACTACCATTTGTTATAGTTGCAAAACATATTTGTAGATTAAACAAACTGCCATTT
1 ATTTGCAGTTACTGCCACTTGTTGTAG-TGCACAACATATTTGTAGATTAAACAAACTGCCACTT
44785319 GGTTCATGATCGAACCACAT
65 GGTTCATGATCGAACCACAT
* * * * *
44785339 ATTTGCAGTCACTGTCACTTGTTGTGGGTACACAACATATTT-TCAGATTAAACAAATTGCCACT
1 ATTTGCAGTTACTGCCACTTGTTGT-AGTGCACAACATATTTGT-AGATTAAACAAACTGCCACT
44785403 TGGTTCATGATCGAACCACAT
64 TGGTTCATGATCGAACCACAT
* * * *
44785424 ATTTGCACTTACTGCCACTTGTTGTGAGTGTACAACAAATTTGCT-GATTAAATAAACTGCCACT
1 ATTTGCAGTTACTGCCACTTGTTGT-AGTGCACAACATATTTG-TAGATTAAACAAACTGCCACT
*
44785488 TGGTTCGTGATCGAACCACAT
64 TGGTTCATGATCGAACCACAT
44785509 TGTTTACAGA
Statistics
Matches: 216, Mismatches: 32, Indels: 11
0.83 0.12 0.04
Matches are distributed among these distances:
82 19 0.09
84 2 0.01
85 193 0.89
86 1 0.00
87 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (84 bp):
ATTTGCAGTTACTGCCACTTGTTGTAGTGCACAACATATTTGTAGATTAAACAAACTGCCACTTG
GTTCATGATCGAACCACAT
Found at i:44791535 original size:15 final size:16
Alignment explanation
Indices: 44791515--44791547 Score: 59
Period size: 15 Copynumber: 2.1 Consensus size: 16
44791505 CATCCCAATC
44791515 CATAATTAC-TTTAAT
1 CATAATTACATTTAAT
44791530 CATAATTACATTTAAT
1 CATAATTACATTTAAT
44791546 CA
1 CA
44791548 ATATATAGCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.53
16 8 0.47
ACGTcount: A:0.42, C:0.15, G:0.00, T:0.42
Consensus pattern (16 bp):
CATAATTACATTTAAT
Found at i:44800316 original size:14 final size:15
Alignment explanation
Indices: 44800296--44800338 Score: 54
Period size: 14 Copynumber: 2.9 Consensus size: 15
44800286 TTAGAGTGTA
44800296 TATGAATTTTATATG
1 TATGAATTTTATATG
*
44800311 -ATGAATTTAAT-TG
1 TATGAATTTTATATG
44800324 TATGAATTTTCATAT
1 TATGAATTTT-ATAT
44800339 TAATAGCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 2 0.09
14 18 0.78
15 2 0.09
16 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.12, T:0.51
Consensus pattern (15 bp):
TATGAATTTTATATG
Found at i:44800627 original size:41 final size:41
Alignment explanation
Indices: 44800494--44800649 Score: 190
Period size: 41 Copynumber: 3.8 Consensus size: 41
44800484 GTGATATTCG
* * ** * * *
44800494 GGCTCTATGCCTAGCAGGCTTTATGTTGGTGAATTATAACA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCA
44800535 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTA-CATATCA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCA
*
44800575 GGCTTTATGCCTAGCAGGCTTCGTGCCGGTGTATCATATCTA
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATC-A
* * *
44800617 -GCTTTGTGCCTAGAAGGCTTTATGCCGGTGTAT
1 GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTAT
44800650 TTTAATAAGC
Statistics
Matches: 101, Mismatches: 12, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
40 37 0.37
41 63 0.62
42 1 0.01
ACGTcount: A:0.19, C:0.21, G:0.26, T:0.33
Consensus pattern (41 bp):
GGCTTTATGCCTAGCAGGCTTCATGCCGGTGTATCATATCA
Done.