Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A10
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: 111961792
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4980000 characters in sequence are not A, C, G, or T
File 147 of 344
Found at i:48973077 original size:40 final size:40
Alignment explanation
Indices: 48972894--48973063 Score: 225
Period size: 40 Copynumber: 4.3 Consensus size: 40
48972884 TCCTCGTTCA
* * * * *
48972894 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
48972933 AATGCCTTCGGGACGTAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48972973 AATGCCTTCGGGACTTAACCCGGCTTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
48973013 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
48973053 AAGGCCTTCGG
1 AATGCCTTCGG
48973064 ATCTTAGTCC
Statistics
Matches: 116, Mismatches: 14, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
39 33 0.28
40 83 0.72
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:48976204 original size:47 final size:46
Alignment explanation
Indices: 48976084--48976666 Score: 752
Period size: 47 Copynumber: 12.4 Consensus size: 46
48976074 GAGCTCGTAG
* *
48976084 TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
48976130 GTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 -TG--TATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* *
48976179 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 -TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
*
48976226 GTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACT
1 -TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* *
48976274 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* * * * *
48976321 TGCATATATGAGGTAAGGCCGAATGGCCAATGTGATAAATGAGAACA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* * *
48976368 TGTGTATGTGTGATAAGGCCAAATGGCCAATGTGATGAATGTGAACA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* *
48976415 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* * *
48976462 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAGCA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGA-AA
* * *
48976509 TGTGTATGTGTGATAAGGCCGAATGGCCAATGTGAAGAATGTGAACA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-A
* *
48976556 TGCATATATGAGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
1 TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
* * *
48976602 GTGTATATATGTGGTAAGGCCGAATGGCCAATGTGATGGATGTGGAAG
1 -TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGT-GAAA
* *
48976650 TGTATAAATATGATAAG
1 TGTATATATGTGATAAG
48976667 TCCCGAAGGG
Statistics
Matches: 483, Mismatches: 46, Indels: 14
0.89 0.08 0.03
Matches are distributed among these distances:
46 1 0.00
47 432 0.89
48 3 0.01
49 47 0.10
ACGTcount: A:0.33, C:0.10, G:0.30, T:0.27
Consensus pattern (46 bp):
TGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAA
Found at i:48982223 original size:40 final size:40
Alignment explanation
Indices: 48982179--48982330 Score: 225
Period size: 40 Copynumber: 3.8 Consensus size: 40
48982169 GGATATAGCT
* * * * *
48982179 ACTCGCTCGAATGCCTTCGGGGCATAGCCCAG-TTATAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATT-TAGTA
*
48982219 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTGGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
48982259 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
*
48982299 GCTCGCACAAATGCCTTCGGGACTTAGCCCGG
1 ACTCGCACAAATGCCTTCGGGACTTAGCCCGG
48982331 TTATCATCCG
Statistics
Matches: 103, Mismatches: 8, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
40 101 0.98
41 2 0.02
ACGTcount: A:0.22, C:0.29, G:0.25, T:0.24
Consensus pattern (40 bp):
ACTCGCACAAATGCCTTCGGGACTTAGCCCGGATTTAGTA
Found at i:48984861 original size:93 final size:93
Alignment explanation
Indices: 48984749--48984919 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
48984739 GCCCATAAGC
*
48984749 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
48984813 ACGAGTTCGGATGCCTAGTTACATCTCAT
65 ACGAGTTCGGATGCCTAGTTACATCTCAT
*
48984842 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
48984907 CGAGTTCGGATGC
66 CGAGTTCGGATGC
48984920 TCAACCATCC
Statistics
Matches: 75, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 73 0.97
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAT
Found at i:48984914 original size:46 final size:46
Alignment explanation
Indices: 48984741--48984916 Score: 218
Period size: 46 Copynumber: 3.8 Consensus size: 46
48984731 TGTAACCCGC
* * *
48984741 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
*
48984787 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
48984837 -C-TCA-TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
48984880 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
48984917 TGCTCAACCA
Statistics
Matches: 113, Mismatches: 7, Indels: 20
0.81 0.05 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 62 0.55
47 30 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49001144 original size:37 final size:37
Alignment explanation
Indices: 49001089--49001227 Score: 160
Period size: 37 Copynumber: 3.8 Consensus size: 37
49001079 ACATGTGGTA
* *
49001089 CGTGTAAGACCATGGCTGGGCTATGGCATTGTAATAG
1 CGTGTAAGACCATAGCTGGGCTATGGCATTGTGATAG
**
49001126 CGTGTAAGACCATAGCTGGGCTATGGCATCATGAT-G
1 CGTGTAAGACCATAGCTGGGCTATGGCATTGTGATAG
* * *
49001162 ACATATAAGACCATAGCTTGGCTATGGCATTGTGATA-
1 -CGTGTAAGACCATAGCTGGGCTATGGCATTGTGATAG
49001199 CGTGTAAGACCAT-GTCTGGGAC-ATGGCAT
1 CGTGTAAGACCATAG-CTGGG-CTATGGCAT
49001228 CGATATGAGA
Statistics
Matches: 86, Mismatches: 12, Indels: 9
0.80 0.11 0.08
Matches are distributed among these distances:
35 1 0.01
36 23 0.27
37 62 0.72
ACGTcount: A:0.27, C:0.18, G:0.29, T:0.27
Consensus pattern (37 bp):
CGTGTAAGACCATAGCTGGGCTATGGCATTGTGATAG
Found at i:49001259 original size:42 final size:41
Alignment explanation
Indices: 49001200--49001471 Score: 172
Period size: 48 Copynumber: 6.3 Consensus size: 41
49001190 ATTGTGATAC
*
49001200 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATCCT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGAT-CT
49001242 GTGTAAGACCATATCTGGGATATGGCATCGGCATCGATATGAGATCCT
1 GTGTAAGACCATATCTGGG--A---CAT-GGCATCGATATGAGAT-CT
*
49001290 GTGTAAGACCATAACTGGGATATGGCATCGGCATCGATATGAGAT-T
1 GTGTAAGACCATATCTGGG--A---CAT-GGCATCGATATGAGATCT
* * * * *
49001336 ACGTGTAAGACCATATCTGGGATATGACTTCGCTATGAGATTT
1 --GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
** * *** *
49001379 CGTGTAAGACTGTGTCTGGGATGCGGCATCGATATGTGAT-T
1 -GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
* * * ** * *
49001420 TTGT-ATACCATGTCTGGGACATGGCATTAATGTGAGACTTT
1 GTGTAAGACCATATCTGGGACATGGCATCGATATGAGA-TCT
49001461 GTGTAAGACCA
1 GTGTAAGACCA
49001472 CAGTTGGACT
Statistics
Matches: 189, Mismatches: 29, Indels: 24
0.78 0.12 0.10
Matches are distributed among these distances:
39 23 0.12
40 4 0.02
41 5 0.03
42 67 0.35
43 3 0.02
44 1 0.01
46 2 0.01
47 3 0.02
48 81 0.43
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGACATGGCATCGATATGAGATCT
Found at i:49001294 original size:48 final size:48
Alignment explanation
Indices: 49001223--49001361 Score: 244
Period size: 48 Copynumber: 2.9 Consensus size: 48
49001213 TCTGGGACAT
49001223 GGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGATATGGCATC
1 GGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGATATGGCATC
*
49001271 GGCATCGATATGAGATCCTGTGTAAGACCATAACTGGGATATGGCATC
1 GGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGATATGGCATC
*
49001319 GGCATCGATATGAGATTAC-GTGTAAGACCATATCTGGGATATG
1 GGCATCGATATGAGA-TCCTGTGTAAGACCATATCTGGGATATG
49001362 ACTTCGCTAT
Statistics
Matches: 87, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
48 85 0.98
49 2 0.02
ACGTcount: A:0.29, C:0.17, G:0.27, T:0.27
Consensus pattern (48 bp):
GGCATCGATATGAGATCCTGTGTAAGACCATATCTGGGATATGGCATC
Found at i:49002759 original size:12 final size:12
Alignment explanation
Indices: 49002742--49002768 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
49002732 CTGAAGCTTT
49002742 AGTGCTAAGTTC
1 AGTGCTAAGTTC
49002754 AGTGCTAAGTTC
1 AGTGCTAAGTTC
49002766 AGT
1 AGT
49002769 TTGGATTAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (12 bp):
AGTGCTAAGTTC
Found at i:49004759 original size:21 final size:21
Alignment explanation
Indices: 49004733--49004776 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
49004723 GTACTCGATG
49004733 ATTGATTTTGGCGTAATTGGC
1 ATTGATTTTGGCGTAATTGGC
49004754 ATTGATTTTGGCGTAATTGGC
1 ATTGATTTTGGCGTAATTGGC
49004775 AT
1 AT
49004777 ATGGATAGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.20, C:0.09, G:0.27, T:0.43
Consensus pattern (21 bp):
ATTGATTTTGGCGTAATTGGC
Found at i:49005701 original size:28 final size:29
Alignment explanation
Indices: 49005590--49005714 Score: 180
Period size: 29 Copynumber: 4.3 Consensus size: 29
49005580 GAAAGCATGT
*
49005590 ATATGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
49005619 ATACGAATGTGATTTGGGCCTAATGGGTC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
49005648 ATACGAATGTGATTTGGGCCTAATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
* *
49005677 ATATGAATGAGA-TTGGGCCTTATGGGCC
1 ATATGAATGTGATTTGGGCCTAATGGGCC
*
49005705 ATATGCATGT
1 ATATGAATGT
49005715 ATGTAGACTT
Statistics
Matches: 89, Mismatches: 7, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
28 23 0.26
29 66 0.74
ACGTcount: A:0.25, C:0.14, G:0.30, T:0.31
Consensus pattern (29 bp):
ATATGAATGTGATTTGGGCCTAATGGGCC
Found at i:49007912 original size:26 final size:27
Alignment explanation
Indices: 49007875--49007932 Score: 82
Period size: 27 Copynumber: 2.2 Consensus size: 27
49007865 GAAGTGAATT
* *
49007875 ATACTGGTGGC-TTGCGACATATACTG
1 ATACTAGTGGCTTTGCCACATATACTG
*
49007901 TTACTAGTGGCTTTGCCACATATACTG
1 ATACTAGTGGCTTTGCCACATATACTG
49007928 ATACT
1 ATACT
49007933 GGCAGCTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
26 9 0.33
27 18 0.67
ACGTcount: A:0.24, C:0.21, G:0.21, T:0.34
Consensus pattern (27 bp):
ATACTAGTGGCTTTGCCACATATACTG
Found at i:49007940 original size:27 final size:27
Alignment explanation
Indices: 49007886--49007943 Score: 71
Period size: 27 Copynumber: 2.1 Consensus size: 27
49007876 TACTGGTGGC
* * **
49007886 TTGCGACATATACTGTTACTAGTGGCT
1 TTGCCACATATACTGATACTAGCAGCT
*
49007913 TTGCCACATATACTGATACTGGCAGCT
1 TTGCCACATATACTGATACTAGCAGCT
49007940 TTGC
1 TTGC
49007944 TACGATACTG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.22, C:0.22, G:0.21, T:0.34
Consensus pattern (27 bp):
TTGCCACATATACTGATACTAGCAGCT
Found at i:49013813 original size:34 final size:34
Alignment explanation
Indices: 49013770--49013836 Score: 125
Period size: 34 Copynumber: 2.0 Consensus size: 34
49013760 TTCTATTAAA
*
49013770 CTCAATTTACATCTTAGGCAAAATTACCATTTTG
1 CTCAATTTACATCCTAGGCAAAATTACCATTTTG
49013804 CTCAATTTACATCCTAGGCAAAATTACCATTTT
1 CTCAATTTACATCCTAGGCAAAATTACCATTTT
49013837 ACCCCTAAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.33, C:0.22, G:0.07, T:0.37
Consensus pattern (34 bp):
CTCAATTTACATCCTAGGCAAAATTACCATTTTG
Found at i:49014546 original size:14 final size:14
Alignment explanation
Indices: 49014527--49014553 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
49014517 TAAAATCGAT
49014527 AAAATTTTCTTATC
1 AAAATTTTCTTATC
49014541 AAAATTTTCTTAT
1 AAAATTTTCTTAT
49014554 GACATTCCTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.00, T:0.52
Consensus pattern (14 bp):
AAAATTTTCTTATC
Found at i:49023526 original size:36 final size:36
Alignment explanation
Indices: 49023465--49023534 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
49023455 TACTGATATA
*
49023465 GTTGCACAGGTTGCACAAAACGACTGTGGACCTAAG
1 GTTGCACAGGTCGCACAAAACGACTGTGGACCTAAG
*
49023501 GTTGCACAGGTCGCA-AAAGATGACTGTGGACCTA
1 GTTGCACAGGTCGCACAAA-ACGACTGTGGACCTA
49023535 CTGATGGCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 3 0.10
36 28 0.90
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (36 bp):
GTTGCACAGGTCGCACAAAACGACTGTGGACCTAAG
Found at i:49023559 original size:20 final size:20
Alignment explanation
Indices: 49023536--49023666 Score: 181
Period size: 20 Copynumber: 6.5 Consensus size: 20
49023526 GTGGACCTAC
49023536 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
* *
49023556 TGATGGCTTTGTACCACTAC
1 TGATGGCTTTGTGCCACTAT
**
49023576 AAATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
*
49023596 TGATGGCTTTGTGCCGCTAT
1 TGATGGCTTTGTGCCACTAT
* * *
49023616 TGATGGCTTGGTTCCATTAT
1 TGATGGCTTTGTGCCACTAT
*
49023636 TGATGGCTTTGTGCCACTAC
1 TGATGGCTTTGTGCCACTAT
49023656 TGATGGCTTTG
1 TGATGGCTTTG
49023667 GACCTAGGCT
Statistics
Matches: 94, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 94 1.00
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:49027404 original size:20 final size:20
Alignment explanation
Indices: 49027379--49027489 Score: 186
Period size: 20 Copynumber: 5.5 Consensus size: 20
49027369 TTAGACCTAC
49027379 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
49027399 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
**
49027419 TGATGGCTTTGTGCTGCTAT
1 TGATGGCTTTGTGCCACTAT
* *
49027439 TGATGGCTTGGTGCCATTAT
1 TGATGGCTTTGTGCCACTAT
49027459 TGATGGCTTTGTGCCACTAT
1 TGATGGCTTTGTGCCACTAT
49027479 TGATGGCTTTG
1 TGATGGCTTTG
49027490 AACCTAGGCT
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 83 1.00
ACGTcount: A:0.14, C:0.17, G:0.28, T:0.41
Consensus pattern (20 bp):
TGATGGCTTTGTGCCACTAT
Found at i:49061516 original size:60 final size:60
Alignment explanation
Indices: 49061423--49061541 Score: 238
Period size: 60 Copynumber: 2.0 Consensus size: 60
49061413 CTGAGTCAAC
49061423 GATCAAAAGAGAGTACCTAACCTGCACACAGAAAACAAAATCGCAAGCTAAGTAAAACTT
1 GATCAAAAGAGAGTACCTAACCTGCACACAGAAAACAAAATCGCAAGCTAAGTAAAACTT
49061483 GATCAAAAGAGAGTACCTAACCTGCACACAGAAAACAAAATCGCAAGCTAAGTAAAACT
1 GATCAAAAGAGAGTACCTAACCTGCACACAGAAAACAAAATCGCAAGCTAAGTAAAACT
49061542 CAATGATATT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 59 1.00
ACGTcount: A:0.49, C:0.22, G:0.15, T:0.14
Consensus pattern (60 bp):
GATCAAAAGAGAGTACCTAACCTGCACACAGAAAACAAAATCGCAAGCTAAGTAAAACTT
Found at i:49062441 original size:101 final size:101
Alignment explanation
Indices: 49062278--49062526 Score: 295
Period size: 101 Copynumber: 2.5 Consensus size: 101
49062268 GCCATAGTCG
* * * * * * *
49062278 AACTATGATCTTACATAT--GCATTGCCATGGCCCTACCATGGTCTTACATTCGTAGTGCCATAA
1 AACTATGAACTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACATCCATAGTGCCATAA
* * * ***
49062341 CCCAATTATAGTCTTATTATCAGAATGCCATAGTTC
66 CCCAATTATAGCCTTATCATAAGAATGCCATAACCC
* * * * * * *
49062377 AGCTATTATCTTACATATAAACACTGTCATGGTCCAACCATGGTCTTTCGTCCATAGTGTCATAA
1 AACTATGAACTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACATCCATAGTGCCATAA
*
49062442 CCCAATTATGGCCTTATCATAAGAATGCCATAACCC
66 CCCAATTATAGCCTTATCATAAGAATGCCATAACCC
49062478 AACTATGAACTTACATATAAACACTGCCATGGTCCAACCATGGTCTTAC
1 AACTATGAACTTACATATAAACACTGCCATGGTCCAACCATGGTCTTAC
49062527 GTTTGAATAA
Statistics
Matches: 124, Mismatches: 24, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
99 16 0.13
101 108 0.87
ACGTcount: A:0.31, C:0.25, G:0.13, T:0.31
Consensus pattern (101 bp):
AACTATGAACTTACATATAAACACTGCCATGGTCCAACCATGGTCTTACATCCATAGTGCCATAA
CCCAATTATAGCCTTATCATAAGAATGCCATAACCC
Found at i:49063929 original size:28 final size:27
Alignment explanation
Indices: 49063865--49063934 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
49063855 AAGCAGGGTA
* * *
49063865 ATTCAGACATGCTTAATTCCAGCGTTC
1 ATTCAGACATGATTAATTCCAGCATAC
* * *
49063892 ATTCGGACATGATTAATCTCCTGTATAC
1 ATTCAGACATGATTAAT-TCCAGCATAC
49063920 ATTCAGACAT-ATTAA
1 ATTCAGACATGATTAA
49063935 ACTCTAGCAT
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
27 20 0.57
28 15 0.43
ACGTcount: A:0.31, C:0.21, G:0.13, T:0.34
Consensus pattern (27 bp):
ATTCAGACATGATTAATTCCAGCATAC
Found at i:49065818 original size:12 final size:13
Alignment explanation
Indices: 49065775--49065817 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
49065765 TAGAGCTGGC
49065775 GAACATAATTCTT
1 GAACATAATTCTT
** *
49065788 GAACATCTTTTTT
1 GAACATAATTCTT
49065801 GAACA-AATTCTT
1 GAACATAATTCTT
49065813 GAACA
1 GAACA
49065818 ATTAAGCAAG
Statistics
Matches: 24, Mismatches: 6, Indels: 1
0.77 0.19 0.03
Matches are distributed among these distances:
12 9 0.38
13 15 0.62
ACGTcount: A:0.37, C:0.16, G:0.09, T:0.37
Consensus pattern (13 bp):
GAACATAATTCTT
Found at i:49067560 original size:47 final size:47
Alignment explanation
Indices: 49067506--49067600 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
49067496 TAAAAAATAC
49067506 TTGGATATTATAGTTACCTAAGGATTGAAATAAAAAGCATGTGGCAG
1 TTGGATATTATAGTTACCTAAGGATTGAAATAAAAAGCATGTGGCAG
* *
49067553 TTGGATATTGTAGTTACCTAAGGATTGAAATAAATAGCATGTGGCAG
1 TTGGATATTATAGTTACCTAAGGATTGAAATAAAAAGCATGTGGCAG
49067600 T
1 T
49067601 GTTAATGTCT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.36, C:0.08, G:0.24, T:0.32
Consensus pattern (47 bp):
TTGGATATTATAGTTACCTAAGGATTGAAATAAAAAGCATGTGGCAG
Found at i:49069308 original size:18 final size:17
Alignment explanation
Indices: 49069258--49069311 Score: 54
Period size: 18 Copynumber: 3.1 Consensus size: 17
49069248 ATCAGGTATT
*
49069258 TTTTTAAAAAATATTTA
1 TTTTTATAAAATATTTA
***
49069275 TTTTTAATATTTTATTATA
1 TTTTT-ATAAAATATT-TA
49069294 TTTTTATAAAATATTTA
1 TTTTTATAAAATATTTA
49069311 T
1 T
49069312 CAATTCTTTA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
17 8 0.29
18 13 0.46
19 7 0.25
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTATAAAATATTTA
Found at i:49071407 original size:28 final size:28
Alignment explanation
Indices: 49071343--49071407 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
49071333 TTATGGGTCC
* *
49071343 AACACAAGTCTACAAAAGCTCTTTTGCT
1 AACACGAGCCTACAAAAGCTCTTTTGCT
*
49071371 AACACGAGCCTACGAAAGCTCTTTTGCT
1 AACACGAGCCTACAAAAGCTCTTTTGCT
*
49071399 AACATGAGC
1 AACACGAGC
49071408 ATGAATTAGG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (28 bp):
AACACGAGCCTACAAAAGCTCTTTTGCT
Found at i:49073556 original size:17 final size:17
Alignment explanation
Indices: 49073534--49073569 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
49073524 ACATGTATTC
49073534 AATTTGTTCCCTAATGT
1 AATTTGTTCCCTAATGT
49073551 AATTTGTTCCCTAATGT
1 AATTTGTTCCCTAATGT
49073568 AA
1 AA
49073570 CAAAGTTAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.28, C:0.17, G:0.11, T:0.44
Consensus pattern (17 bp):
AATTTGTTCCCTAATGT
Found at i:49075538 original size:29 final size:29
Alignment explanation
Indices: 49075475--49075542 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
49075465 TAATCAACCA
49075475 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
49075504 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
49075533 CGCACACTTA
1 CGCACACTTA
49075543 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:49075683 original size:29 final size:30
Alignment explanation
Indices: 49075644--49075722 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
49075634 CTTAATAATC
49075644 AACCGCGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
49075674 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
49075703 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
49075723 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:49079952 original size:20 final size:21
Alignment explanation
Indices: 49079892--49079952 Score: 88
Period size: 21 Copynumber: 3.0 Consensus size: 21
49079882 GTTATAAGGA
*
49079892 CCACACGGGCATGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
49079913 CCACATGGGCGTGTTGCCCTT
1 CCACACGGGCGTGTTGCCCTT
*
49079934 CCGCACGGGCGTG-TGCCCT
1 CCACACGGGCGTGTTGCCCT
49079953 ATTTCAAGAG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
20 6 0.17
21 30 0.83
ACGTcount: A:0.10, C:0.38, G:0.30, T:0.23
Consensus pattern (21 bp):
CCACACGGGCGTGTTGCCCTT
Found at i:49092215 original size:40 final size:40
Alignment explanation
Indices: 49092171--49092358 Score: 281
Period size: 40 Copynumber: 4.7 Consensus size: 40
49092161 GCTACTTGCT
* *
49092171 CAAATGCCTTTGGGACTTAGCCCAGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
49092211 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
49092251 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
49092291 CAAATGCCTTCGGG-CTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
*
49092330 CAAATGCCTTCGGGGCTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
49092359 CATCCGAATA
Statistics
Matches: 136, Mismatches: 9, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
38 1 0.01
39 33 0.24
40 101 0.74
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:49095690 original size:9 final size:9
Alignment explanation
Indices: 49095676--49095700 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
49095666 TATAAGATAC
49095676 AGGAAAGGA
1 AGGAAAGGA
49095685 AGGAAAGGA
1 AGGAAAGGA
49095694 AGGAAAG
1 AGGAAAG
49095701 TAAGCTATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (9 bp):
AGGAAAGGA
Found at i:49101685 original size:24 final size:24
Alignment explanation
Indices: 49101657--49101705 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
49101647 CCTGAATTTC
*
49101657 TTAGCCCCTTGCTTTCGAATCTTA
1 TTAGCCCCTTACTTTCGAATCTTA
49101681 TTAGCCCCTTACTTTCGAATCTTA
1 TTAGCCCCTTACTTTCGAATCTTA
49101705 T
1 T
49101706 CAACCGGAGG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.18, C:0.29, G:0.10, T:0.43
Consensus pattern (24 bp):
TTAGCCCCTTACTTTCGAATCTTA
Found at i:49110570 original size:48 final size:50
Alignment explanation
Indices: 49110499--49110724 Score: 200
Period size: 50 Copynumber: 4.7 Consensus size: 50
49110489 GGTGCAGACA
*
49110499 CCATGTCCCAGACATGGTCTTACACTGGCT-TACCCA-A-CAAAGTCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCT-CCCATATCAAAGCCGATG
* ** ** * *
49110547 CCATGTCCCAAACATGGTCTTACACTAACTCTCGTATATCGAGGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCCCATATCAAAGCCGATG
* ***
49110597 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATC-TATCGGTGCCGATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTC-CCATATCAAAGCCGATG
* *** * *
49110647 CCATGTTCCAGACATGGTCTTACACT-G---AAACATATC-AAGCTGATC
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCCCATATCAAAGCCGATG
*
49110692 CCATGTCCCAGACATGGTCTTACACTAGCTCTC
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTC
49110725 ATATATCCGT
Statistics
Matches: 143, Mismatches: 26, Indels: 17
0.77 0.14 0.09
Matches are distributed among these distances:
45 31 0.22
46 5 0.03
48 29 0.20
49 3 0.02
50 75 0.52
ACGTcount: A:0.25, C:0.31, G:0.18, T:0.26
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCCCATATCAAAGCCGATG
Found at i:49110606 original size:50 final size:50
Alignment explanation
Indices: 49110542--49110731 Score: 214
Period size: 50 Copynumber: 3.9 Consensus size: 50
49110532 CCAACAAAGT
* *
49110542 CGATGCCATGTCCCAAACATGGTCTTACACTAACTCTCGTATATCGAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGC
** *
49110592 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTATCG-GTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAG-GC
* * *
49110642 CGATGCCATGTTCCAGACATGGTCTTACACTGAA-----ACATATC-AAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-AACTCTCATATATCGAGGC
* * *
49110687 TGATCCCATGTCCCAGACATGGTCTTACACTAGCTCTCATATATC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATC
49110732 CGTAGCATCA
Statistics
Matches: 116, Mismatches: 16, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
44 1 0.01
45 30 0.26
46 5 0.04
49 7 0.06
50 73 0.63
ACGTcount: A:0.25, C:0.30, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAACTCTCATATATCGAGGC
Found at i:49113198 original size:25 final size:26
Alignment explanation
Indices: 49113170--49113255 Score: 79
Period size: 26 Copynumber: 3.3 Consensus size: 26
49113160 CTGGAGGCCT
49113170 AGCCTCTTTTAG-T-AACTGAGACAAA
1 AGCC-CTTTTAGATAAACTGAGACAAA
* * *
49113195 AGCCCTTTTTGATAAACTGGGGCAAA
1 AGCCCTTTTAGATAAACTGAGACAAA
* * *
49113221 AGCCCTTTTCGGTAAACT-AGGGCAAA
1 AGCCCTTTTAGATAAACTGA-GACAAA
49113247 AGCCCTTTT
1 AGCCCTTTT
49113256 TGCACTTCCT
Statistics
Matches: 52, Mismatches: 6, Indels: 5
0.83 0.10 0.08
Matches are distributed among these distances:
24 6 0.12
25 5 0.10
26 41 0.79
ACGTcount: A:0.30, C:0.22, G:0.20, T:0.28
Consensus pattern (26 bp):
AGCCCTTTTAGATAAACTGAGACAAA
Found at i:49113220 original size:26 final size:26
Alignment explanation
Indices: 49113191--49113257 Score: 107
Period size: 26 Copynumber: 2.6 Consensus size: 26
49113181 GTAACTGAGA
*
49113191 CAAAAGCCCTTTTTGATAAACTGGGG
1 CAAAAGCCCTTTTTGATAAACTAGGG
* *
49113217 CAAAAGCCCTTTTCGGTAAACTAGGG
1 CAAAAGCCCTTTTTGATAAACTAGGG
49113243 CAAAAGCCCTTTTTG
1 CAAAAGCCCTTTTTG
49113258 CACTTCCTCC
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (26 bp):
CAAAAGCCCTTTTTGATAAACTAGGG
Found at i:49113326 original size:20 final size:20
Alignment explanation
Indices: 49113303--49113349 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
49113293 TTATGAGTAC
49113303 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49113323 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49113343 ATCATGT
1 ATCATGT
49113350 ATATCAGAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49115877 original size:25 final size:25
Alignment explanation
Indices: 49115841--49115906 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
49115831 CTTGTACATG
*
49115841 TATGCTCGCACGAGCTATAAA-CTGA
1 TATGCTCTCACGAGCTATAAATC-GA
* *
49115866 TATGCTCTCACGAGTTATAAATCGG
1 TATGCTCTCACGAGCTATAAATCGA
*
49115891 TATGCTCTCACAAGCT
1 TATGCTCTCACGAGCT
49115907 GTGGGTTAGA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
25 34 0.97
26 1 0.03
ACGTcount: A:0.29, C:0.24, G:0.18, T:0.29
Consensus pattern (25 bp):
TATGCTCTCACGAGCTATAAATCGA
Found at i:49120046 original size:64 final size:64
Alignment explanation
Indices: 49119965--49120102 Score: 249
Period size: 64 Copynumber: 2.2 Consensus size: 64
49119955 ACATTATGAC
* * *
49119965 GTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGAGAAGAGAGCTACGGGATATAT
1 GTAGCTAGGTCGAATGGGTAATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
49120029 GTAGCTAGGTCGAATGGGTAATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
1 GTAGCTAGGTCGAATGGGTAATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
49120093 GTAGCTAGGT
1 GTAGCTAGGT
49120103 TGCATGCGTG
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
64 71 1.00
ACGTcount: A:0.30, C:0.14, G:0.30, T:0.25
Consensus pattern (64 bp):
GTAGCTAGGTCGAATGGGTAATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATATAT
Found at i:49123710 original size:28 final size:28
Alignment explanation
Indices: 49123670--49123786 Score: 137
Period size: 28 Copynumber: 4.2 Consensus size: 28
49123660 CTTCAGCTAT
*
49123670 GTATGGCACTTAGTGTGCTAGATATTGA
1 GTATGGCACTTAGTGTGCGAGATATTGA
* *
49123698 GTATGGAACTTAGTGTGCGA-ATCATTAA
1 GTATGGCACTTAGTGTGCGAGAT-ATTGA
* * *
49123726 GAATGGCACTTATTGTGCGAGATGTTGA
1 GTATGGCACTTAGTGTGCGAGATATTGA
* *
49123754 GTATGGCACTTAGAGTGCGAGATGTTGA
1 GTATGGCACTTAGTGTGCGAGATATTGA
*
49123782 ATATG
1 GTATG
49123787 CAACAGTATT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
27 2 0.03
28 71 0.95
29 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.30, T:0.32
Consensus pattern (28 bp):
GTATGGCACTTAGTGTGCGAGATATTGA
Found at i:49133589 original size:18 final size:17
Alignment explanation
Indices: 49133553--49133591 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
49133543 GATAATATAA
49133553 TATTAATATATTAAAAT
1 TATTAATATATTAAAAT
* *
49133570 TATTATTATAGTTTAAAT
1 TATTAATATA-TTAAAAT
49133588 TATT
1 TATT
49133592 TAAGAGATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.54
Consensus pattern (17 bp):
TATTAATATATTAAAAT
Found at i:49133938 original size:22 final size:21
Alignment explanation
Indices: 49133898--49133944 Score: 58
Period size: 22 Copynumber: 2.2 Consensus size: 21
49133888 TTTAAAATTG
* * *
49133898 ATATAAAAATATAATAATTCA
1 ATATAAAAATAAAAGAATTAA
49133919 ATATAAAAATAAAAAGAATTAA
1 ATATAAAAAT-AAAAGAATTAA
49133941 ATAT
1 ATAT
49133945 TAACGACGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (21 bp):
ATATAAAAATAAAAGAATTAA
Found at i:49134153 original size:14 final size:14
Alignment explanation
Indices: 49134115--49134154 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
49134105 TAAAAATTGG
*
49134115 AATCCCAAAATTAA
1 AATCCCAAAATCAA
* *
49134129 AAACCCCAAATCAA
1 AATCCCAAAATCAA
49134143 AATCCCAAAATC
1 AATCCCAAAATC
49134155 CCCAAATCGA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (14 bp):
AATCCCAAAATCAA
Found at i:49134175 original size:22 final size:22
Alignment explanation
Indices: 49134127--49134178 Score: 77
Period size: 22 Copynumber: 2.4 Consensus size: 22
49134117 TCCCAAAATT
*
49134127 AAAAACCCCAAATCAAAATCCC
1 AAAATCCCCAAATCAAAATCCC
* *
49134149 AAAATCCCCAAATCGAAATCTC
1 AAAATCCCCAAATCAAAATCCC
49134171 AAAATCCC
1 AAAATCCC
49134179 TTTGATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.50, C:0.35, G:0.02, T:0.13
Consensus pattern (22 bp):
AAAATCCCCAAATCAAAATCCC
Found at i:49138850 original size:95 final size:97
Alignment explanation
Indices: 49138656--49138932 Score: 312
Period size: 95 Copynumber: 2.9 Consensus size: 97
49138646 AGGGTAAGAT
* ** ** *
49138656 GCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGTTGATGCCAAGTTC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATA-CAATGCCGATGCCAAGCTC
49138721 CAAACATGGTCTTACACTAGCCCACATATCGAG
65 CAAACATGGTCTTACACTAGCCCACATATCGAG
* * * *
49138754 GCTGATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCCTATA-AATGCCGAT-CCATGCTCC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATACAATGCCGATGCCAAGCTCC
* *
49138817 AAACATGGTCTTACACTAGCTCACATATTGAG
66 AAACATGGTCTTACACTAGCCCACATATCGAG
* * * * * * *
49138849 GCCGATGCCATGTCCCAAACATGGTCTTACATTAG-TGCACATAT-CGAGGTCGATGCCATG-TC
1 GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCT-CTCATATACAATGCCGATGCCAAGCT-
*
49138911 CCAGACATGGTCTTACACTAGC
64 CCAAACATGGTCTTACACTAGC
49138933 TCTCGTATAA
Statistics
Matches: 153, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
94 1 0.01
95 80 0.52
96 31 0.20
98 41 0.27
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (97 bp):
GCTGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATACAATGCCGATGCCAAGCTCC
AAACATGGTCTTACACTAGCCCACATATCGAG
Found at i:49138923 original size:143 final size:146
Alignment explanation
Indices: 49138662--49138962 Score: 425
Period size: 143 Copynumber: 2.1 Consensus size: 146
49138652 AGATGCTGAT
* * ** *
49138662 GCCATG-TCCCAAACATGGTCTTACACTGGCTCTCATATATCGGTGTTGATGCCAAGTTCCAAAC
1 GCCATGCT-CCAAACATGGTCTTACACTAGCTCACATATATCGGTGCCGATGCCAAGTCCCAAAC
*
49138726 ATGGTCTTACACTAGCCCACATATCGAGGCTGATGCCATGTCTCAGACATGGTCTTACACTAGCT
65 ATGGTCTTACACTAGCCCACATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCT
49138791 CTCCTATAAATGCCGA-
130 CTCCTATAAATGCCGAC
* *
49138807 TCCATGCTCCAAACATGGTCTTACACTAGCTCACATAT-T-GAG-GCCGATGCCATGTCCCAAAC
1 GCCATGCTCCAAACATGGTCTTACACTAGCTCACATATATCG-GTGCCGATGCCAAGTCCCAAAC
* **
49138869 ATGGTCTTACATTAGTGCACATATCGAGG-TCGATGCCATGTCCCAGACATGGTCTTACACTAGC
65 ATGGTCTTACACTAGCCCACATATCGAGGCT-GATGCCATGTCCCAGACATGGTCTTACACTAGC
*
49138933 TCTCGTATAAATGCCGAC
129 TCTCCTATAAATGCCGAC
49138951 GCCATGCTCCAA
1 GCCATGCTCCAA
49138963 GTCTTACACT
Statistics
Matches: 139, Mismatches: 13, Indels: 9
0.86 0.08 0.06
Matches are distributed among these distances:
142 1 0.01
143 91 0.65
144 13 0.09
145 33 0.24
146 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.27
Consensus pattern (146 bp):
GCCATGCTCCAAACATGGTCTTACACTAGCTCACATATATCGGTGCCGATGCCAAGTCCCAAACA
TGGTCTTACACTAGCCCACATATCGAGGCTGATGCCATGTCCCAGACATGGTCTTACACTAGCTC
TCCTATAAATGCCGAC
Found at i:49138956 original size:48 final size:48
Alignment explanation
Indices: 49138659--49138934 Score: 299
Period size: 48 Copynumber: 5.7 Consensus size: 48
49138649 GTAAGATGCT
* * **
49138659 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATATATCG-GTGTT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATA--GAG-GCC
* * * * *
49138709 GATGCCAAGTTCCAAACATGGTCTTACACTAGCCCACATATCGAGGCT
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGCC
* * * * * *
49138757 GATGCCATGTCTCAGACATGGTCTTACACTAGCTCTCCTATAAATGCC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGCC
*
49138805 GAT-CCATG-CTCCAAACATGGTCTTACACTAGCTCACATATTGAGGCC
1 GATGCCATGTC-CCAAACATGGTCTTACACTAGCTCACATATAGAGGCC
* * *
49138852 GATGCCATGTCCCAAACATGGTCTTACATTAG-TGCACATATCGAGGTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCT-CACATATAGAGGCC
*
49138900 GATGCCATGTCCCAGACATGGTCTTACACTAGCTC
1 GATGCCATGTCCCAAACATGGTCTTACACTAGCTC
49138935 TCGTATAAAT
Statistics
Matches: 190, Mismatches: 30, Indels: 14
0.81 0.13 0.06
Matches are distributed among these distances:
46 1 0.01
47 39 0.21
48 111 0.58
49 3 0.02
50 36 0.19
ACGTcount: A:0.26, C:0.28, G:0.19, T:0.27
Consensus pattern (48 bp):
GATGCCATGTCCCAAACATGGTCTTACACTAGCTCACATATAGAGGCC
Found at i:49146391 original size:48 final size:48
Alignment explanation
Indices: 49146331--49146602 Score: 215
Period size: 48 Copynumber: 5.7 Consensus size: 48
49146321 ATGCTATGGG
* * * *
49146331 CCAAACACGGTCTTACACTAGCCCACATATCGAGGCTGGTACCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTC
* * ** * * *
49146379 CCAAACATGGTCTTACACTAGGTCTCATATAAATGTTGATGTCATG-C
1 CCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTC
* * * * * *
49146426 TCCAAATATGGTCTTACTCTGGCTCACATATTGACGCGGATGCCATGTC
1 -CCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTC
* ** *
49146475 CCAAATATGGTCTTACACTAGCTCACATATCGAGGCCAATTCCATGTC
1 CCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTC
** * * * ** * *
49146523 TTAGACATGGTCTTACACTAGCTCTCGTATAAATGCTGACGCCATG-C
1 CCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTC
** *
49146570 TCTGAACATGGTCTTACACTGGCTCACATATCG
1 -CCAAACATGGTCTTACACTAGCTCACATATCG
49146603 CTAGTATCAC
Statistics
Matches: 171, Mismatches: 50, Indels: 6
0.75 0.22 0.03
Matches are distributed among these distances:
47 2 0.01
48 168 0.98
49 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.28
Consensus pattern (48 bp):
CCAAACATGGTCTTACACTAGCTCACATATCGAGGCTGATGCCATGTC
Found at i:49146592 original size:144 final size:144
Alignment explanation
Indices: 49146339--49146600 Score: 371
Period size: 144 Copynumber: 1.8 Consensus size: 144
49146329 GGCCAAACAC
*** *
49146339 GGTCTTACACTAGCCCACATATCGAGGCTGGTACCATGTCCCAAACATGGTCTTACACTAGGTCT
1 GGTCTTACACTAGCCCACATATCGAGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCTCT
* * * * *
49146404 CATATAAATGTTGATGTCATGCTCCAAATATGGTCTTACTCTGGCTCACATATTGACGCGGATGC
66 CATATAAATGCTGACGCCATGCTCCAAACATGGTCTTACACTGGCTCACATATTGACGCGGATGC
49146469 CATGTCCCAAATAT
131 CATGTCCCAAATAT
* * ** *
49146483 GGTCTTACACTAGCTCACATATCGAGGCCAATTCCATGTCTTAGACATGGTCTTACACTAGCTCT
1 GGTCTTACACTAGCCCACATATCGAGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCTCT
* **
49146548 CGTATAAATGCTGACGCCATGCTCTGAACATGGTCTTACACTGGCTCACATAT
66 CATATAAATGCTGACGCCATGCTCCAAACATGGTCTTACACTGGCTCACATAT
49146601 CGCTAGTATC
Statistics
Matches: 101, Mismatches: 17, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
144 101 1.00
ACGTcount: A:0.26, C:0.26, G:0.18, T:0.29
Consensus pattern (144 bp):
GGTCTTACACTAGCCCACATATCGAGGCCAATACCATGTCCCAAACATGGTCTTACACTAGCTCT
CATATAAATGCTGACGCCATGCTCCAAACATGGTCTTACACTGGCTCACATATTGACGCGGATGC
CATGTCCCAAATAT
Found at i:49152734 original size:22 final size:22
Alignment explanation
Indices: 49152709--49152759 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
49152699 CACTAGGGAC
*
49152709 TATGTGATCTGAGCTCATGAGT-
1 TATGTGATATGAGCTCATGA-TA
*
49152731 TATGTGGTATGAGCTCATGATA
1 TATGTGATATGAGCTCATGATA
49152753 TATGTGA
1 TATGTGA
49152760 GACATGTTAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 1 0.04
22 24 0.96
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (22 bp):
TATGTGATATGAGCTCATGATA
Found at i:49155471 original size:68 final size:64
Alignment explanation
Indices: 49155258--49155485 Score: 176
Period size: 68 Copynumber: 3.5 Consensus size: 64
49155248 AACACTCAGT
* * * * * * *
49155258 ACCACCCATGTGACCTAGCCA-ATTTATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACCT-
1 ACCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATG---TGCACATA
*
49155321 GG
63 GC
* * *
49155323 AGCCACGCATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGGTGTGCACATAGT
1 A-CCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGC
* * * **
49155388 ATCACCCATGCGACCTAGCTACATCATAATGTCTTGTAGCTCTCTTGTAC-ACATGATGTGCAC-
1 ACCACACATGTGACCTAGCTACAT-AT-A--TCCCGTAGCTCTCTTGT-CTACATGATGTGCACA
49155451 TCAGC
61 T-AGC
*
49155456 ACCATACATGTGACCTAGCTACATACTATC
1 ACCACACATGTGACCTAGCTACATA-TATC
49155486 TGTATCATCC
Statistics
Matches: 135, Mismatches: 18, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
64 25 0.19
65 7 0.05
66 19 0.14
67 33 0.24
68 50 0.37
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.17, T:0.30
Consensus pattern (64 bp):
ACCACACATGTGACCTAGCTACATATATCCCGTAGCTCTCTTGTCTACATGATGTGCACATAGC
Found at i:49161896 original size:45 final size:44
Alignment explanation
Indices: 49161790--49161950 Score: 119
Period size: 45 Copynumber: 3.5 Consensus size: 44
49161780 GTGCCGATGC
* * * * ** *
49161790 CATGTCCTAGACACTGTCTTATACTGTCTCATATCTCAATTCAATT
1 CATGTCCTAGACA-TGTCTTACACTGACTTATATCTCGAGCCGA-T
* *
49161836 CCATGTCCCAAACATGGTCTTACACTGAC-TATCATCTCGTAGCCGAT
1 -CATGTCCTAGACAT-GTCTTACACTGACTTAT-ATCTCG-AGCCGAT
* * * * *
49161883 -ATGTCCTAGACATGTCTTACATTGGCTTATGTCTCGAGGCGTT
1 CATGTCCTAGACATGTCTTACACTGACTTATATCTCGAGCCGAT
49161926 GCATGTCCTAGACATGTCTTACACT
1 -CATGTCCTAGACATGTCTTACACT
49161951 AGCCCTCGTC
Statistics
Matches: 91, Mismatches: 17, Indels: 14
0.75 0.14 0.11
Matches are distributed among these distances:
43 5 0.05
44 16 0.18
45 36 0.40
46 3 0.03
47 28 0.31
48 3 0.03
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.34
Consensus pattern (44 bp):
CATGTCCTAGACATGTCTTACACTGACTTATATCTCGAGCCGAT
Found at i:49162025 original size:47 final size:43
Alignment explanation
Indices: 49161925--49162054 Score: 125
Period size: 47 Copynumber: 2.8 Consensus size: 43
49161915 CTCGAGGCGT
* * *
49161925 TGCATGTCCTAGACATGTCTTACACTAGCCCTCGTCTCAATGCCAA
1 TGCATGTCCCAGACATGTCTTACACT-G-GCTC-TCACAATGCCAA
49161971 TGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAATGTGGCCAA
1 TG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCACAA--T-GCCAA
* * * *
49162019 TGCATGTCCCAGATATGTCTTAAACTAGCTCACACA
1 TGCATGTCCCAGACATGTCTTACACTGGCTCTCACA
49162055 CGAATGACTC
Statistics
Matches: 72, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
45 5 0.07
46 22 0.31
47 28 0.39
48 17 0.24
ACGTcount: A:0.25, C:0.31, G:0.17, T:0.27
Consensus pattern (43 bp):
TGCATGTCCCAGACATGTCTTACACTGGCTCTCACAATGCCAA
Found at i:49174101 original size:37 final size:37
Alignment explanation
Indices: 49174051--49174165 Score: 185
Period size: 37 Copynumber: 3.1 Consensus size: 37
49174041 ACCTTTAGCT
* * *
49174051 CGGACGAAATCTCCACACGAAGTTATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
49174088 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
* *
49174125 TGGACAAAATCTCCACACGTAGTCATCGGGTCTCACC
1 CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
49174162 CGGA
1 CGGA
49174166 ATATATTTCC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 72 1.00
ACGTcount: A:0.27, C:0.31, G:0.21, T:0.21
Consensus pattern (37 bp):
CGGACAAAATCTCCACACGTAGTCATCGGGTCTTACC
Found at i:49174393 original size:22 final size:22
Alignment explanation
Indices: 49174368--49174441 Score: 55
Period size: 23 Copynumber: 3.2 Consensus size: 22
49174358 TCATATTCAC
49174368 CACATTGGCCATTCAGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
*
49174390 CACACATAT-G-CATGCTCA-CATTCAT
1 --CACAT-TGGCCAT--TCAGCCTT-AT
*
49174415 CACATTGGCCATTCGGCCTTAT
1 CACATTGGCCATTCAGCCTTAT
49174437 CACAT
1 CACAT
49174442 ATATGCATGC
Statistics
Matches: 40, Mismatches: 3, Indels: 16
0.68 0.05 0.27
Matches are distributed among these distances:
22 10 0.25
23 12 0.30
24 12 0.30
25 6 0.15
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (22 bp):
CACATTGGCCATTCAGCCTTAT
Found at i:49174879 original size:47 final size:47
Alignment explanation
Indices: 49174328--49174868 Score: 812
Period size: 47 Copynumber: 11.5 Consensus size: 47
49174318 TTTCACACTA
* * * * * *
49174328 GCCATTCGGCTTTACCACATGTATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
49174375 GCCATTCAGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
49174422 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
49174469 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
49174516 TCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
** * * *
49174563 GTGATTCGGCCTTATCACATATATACATGTTCACATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
*
49174610 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
49174657 GCCATTCGGCCTTATCAAATATATGCATGCTCACGTTCATCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
49174704 GCCATTCGGCCTCATCACATATATGCATGTTCACATTCATCACATAG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* * *
49174751 GCCATTCGGCCTTATCACATATATGCATGTTCATATTCACCACATTG
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
49174798 GCCATTCGGCCTTATCACACATATGCATGCTCACATTCATCACATTA
1 GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
* *
49174845 CCCATTTGGCCTTATCACATATAT
1 GCCATTCGGCCTTATCACATATAT
49174869 ACACATTCAC
Statistics
Matches: 445, Mismatches: 49, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 445 1.00
ACGTcount: A:0.26, C:0.30, G:0.12, T:0.32
Consensus pattern (47 bp):
GCCATTCGGCCTTATCACATATATGCATGCTCACATTCATCACATTG
Found at i:49177477 original size:33 final size:33
Alignment explanation
Indices: 49177435--49177502 Score: 127
Period size: 33 Copynumber: 2.1 Consensus size: 33
49177425 GTGTCACAAC
49177435 AACTCTTCCCCCCTTAAAGAAAATTTCGACCTT
1 AACTCTTCCCCCCTTAAAGAAAATTTCGACCTT
*
49177468 AACTCTTCCCCCCTTAAAGAAAATTTTGACCTT
1 AACTCTTCCCCCCTTAAAGAAAATTTCGACCTT
49177501 AA
1 AA
49177503 AATTTTACCT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.32, C:0.31, G:0.06, T:0.31
Consensus pattern (33 bp):
AACTCTTCCCCCCTTAAAGAAAATTTCGACCTT
Found at i:49179439 original size:18 final size:17
Alignment explanation
Indices: 49179418--49179472 Score: 67
Period size: 18 Copynumber: 3.2 Consensus size: 17
49179408 ACAATTCTTT
49179418 TCTCTTCTTCTTTTCTCC
1 TCTCTTCTTCTTTTCT-C
* *
49179436 TCTCTTCATCTATTCTC
1 TCTCTTCTTCTTTTCTC
49179453 TCTTCTTCTTCTTTTC-C
1 TC-TCTTCTTCTTTTCTC
49179470 TCT
1 TCT
49179473 ATAGTTGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 1 0.03
17 6 0.19
18 25 0.78
ACGTcount: A:0.04, C:0.36, G:0.00, T:0.60
Consensus pattern (17 bp):
TCTCTTCTTCTTTTCTC
Found at i:49184559 original size:23 final size:22
Alignment explanation
Indices: 49184508--49184559 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
49184498 CCTCGTCTTT
*
49184508 TTCTTTTGTTTCTTTTTCTAAC
1 TTCTTTTCTTTCTTTTTCTAAC
49184530 -TCATTTTCTCTTCTTTCTTC-AAC
1 TTC-TTTTCT-TTCTTT-TTCTAAC
49184553 TTCTTTT
1 TTCTTTT
49184560 TCAAATTTCT
Statistics
Matches: 25, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 2 0.08
22 5 0.20
23 13 0.52
24 5 0.20
ACGTcount: A:0.10, C:0.23, G:0.02, T:0.65
Consensus pattern (22 bp):
TTCTTTTCTTTCTTTTTCTAAC
Found at i:49184574 original size:18 final size:18
Alignment explanation
Indices: 49184553--49184591 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
49184543 TTTCTTCAAC
* *
49184553 TTCTTTTTCAAATTTCTT
1 TTCTGTTTCAAATTCCTT
*
49184571 TTCTGTTTCACATTCCTT
1 TTCTGTTTCAAATTCCTT
49184589 TTC
1 TTC
49184592 ACTCTCAATC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.13, C:0.23, G:0.03, T:0.62
Consensus pattern (18 bp):
TTCTGTTTCAAATTCCTT
Found at i:49191736 original size:29 final size:29
Alignment explanation
Indices: 49191701--49191774 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
49191691 GTTGTGAGAT
* *
49191701 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
49191730 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
49191759 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49191775 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:49194441 original size:45 final size:45
Alignment explanation
Indices: 49194386--49194515 Score: 197
Period size: 45 Copynumber: 2.9 Consensus size: 45
49194376 CGATATCATT
*
49194386 TCACCGGCATTATAGCTTGCTAGGCTCAAAGGCCCGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
49194431 TCATCGGCATTATAGCCTGCTAGGTTCAAAGGCCTGAATAGTATC
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
* * *
49194476 TCACCAGCATCACAGCCTGCTAGGCTCAAAGGCCCGAATA
1 TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATA
49194516 ATACCTTACA
Statistics
Matches: 75, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 75 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.23
Consensus pattern (45 bp):
TCACCGGCATTATAGCCTGCTAGGCTCAAAGGCCCGAATAGTATC
Found at i:49196427 original size:13 final size:13
Alignment explanation
Indices: 49196409--49196434 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49196399 TAGATTTCAG
49196409 CAAATGAAAGAAA
1 CAAATGAAAGAAA
49196422 CAAATGAAAGAAA
1 CAAATGAAAGAAA
49196435 GAATGGATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.08, G:0.15, T:0.08
Consensus pattern (13 bp):
CAAATGAAAGAAA
Found at i:49198109 original size:29 final size:29
Alignment explanation
Indices: 49198076--49198138 Score: 108
Period size: 29 Copynumber: 2.2 Consensus size: 29
49198066 GTCTAGGCCC
49198076 TGTGAGGGACACGGGCATGTGCTCCGCCG
1 TGTGAGGGACACGGGCATGTGCTCCGCCG
* *
49198105 TGTGAGGGACACGGGCGTGTGCTCGGCCG
1 TGTGAGGGACACGGGCATGTGCTCCGCCG
49198134 TGTGA
1 TGTGA
49198139 AATCCCTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 32 1.00
ACGTcount: A:0.13, C:0.24, G:0.44, T:0.19
Consensus pattern (29 bp):
TGTGAGGGACACGGGCATGTGCTCCGCCG
Found at i:49198535 original size:48 final size:48
Alignment explanation
Indices: 49198475--49198657 Score: 217
Period size: 48 Copynumber: 3.8 Consensus size: 48
49198465 AGTAAATTGC
* * * *** *
49198475 CGATGCCTTGTCCCAGACATGGTCTTACAC-AGGCTCTCAGAAT-GTGGT
1 CGATGCCATGTCCCAGACATGGTCTTACACTA-GCACACA-AATCAACGA
*
49198523 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
* * *
49198571 CGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
* *
49198619 CGATGCCATGTCCCAGATATGGTCTTACAGTAGCACACA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACA
49198658 TCACCCAAAT
Statistics
Matches: 120, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
47 2 0.02
48 117 0.98
49 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.19, T:0.23
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAAATCAACGA
Found at i:49198658 original size:48 final size:48
Alignment explanation
Indices: 49198523--49198658 Score: 236
Period size: 48 Copynumber: 2.8 Consensus size: 48
49198513 AGAATGTGGT
49198523 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
* *
49198571 CGATGCCATGTCCCAGACATGGTCTTACACTAACACACATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
* *
49198619 CGATGCCATGTCCCAGATATGGTCTTACAGTAGCACACAT
1 CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACAT
49198659 CACCCAAATG
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 83 1.00
ACGTcount: A:0.30, C:0.31, G:0.17, T:0.22
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTAGCACACATATCAACGA
Found at i:49199967 original size:20 final size:20
Alignment explanation
Indices: 49199922--49199967 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
49199912 GAGTACACAA
**
49199922 GCGTGTCCCAAGCCATGCGG
1 GCGTGTCCCAAGCCACACGG
* *
49199942 GTGTGTCCCAAGCCACATGG
1 GCGTGTCCCAAGCCACACGG
49199962 GCGTGT
1 GCGTGT
49199968 GTATGACCAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.15, C:0.30, G:0.35, T:0.20
Consensus pattern (20 bp):
GCGTGTCCCAAGCCACACGG
Found at i:49207732 original size:29 final size:29
Alignment explanation
Indices: 49207700--49207757 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
49207690 TACATGTTTT
*
49207700 GACAATGTGAAATTATTAATAATTGACTA
1 GACAATGTGAAATTAGTAATAATTGACTA
49207729 GACAATGTGAAATTAGTAATAATTGACTA
1 GACAATGTGAAATTAGTAATAATTGACTA
49207758 TTTGTGAGAG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.33
Consensus pattern (29 bp):
GACAATGTGAAATTAGTAATAATTGACTA
Found at i:49211389 original size:27 final size:27
Alignment explanation
Indices: 49211359--49211419 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
49211349 CGACTTGTAA
* *
49211359 AATTACCAAAGTACCCTCGATTTCCAT
1 AATTACCAAAGTACCCCCGATTTACAT
****
49211386 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
49211413 AATTACC
1 AATTACC
49211420 TTTTACCCTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:49211443 original size:53 final size:54
Alignment explanation
Indices: 49211370--49211527 Score: 165
Period size: 54 Copynumber: 2.9 Consensus size: 54
49211360 ATTACCAAAG
** * ** * *
49211370 TACCCTCGATTTCCATAATTACCGTTTTACCCCCGATTTACATAATTAC-CTTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTATTT
** * *
49211423 TACCCTCGATTTATAGAATTACCGTTTTAAACATGATTTATAGAATTACTATTT
1 TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTATTT
* * ** *
49211477 TACCATTGATTTATAGAATTACTATTTTACCCTTGATTTACAAAATTACTA
1 TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTA
49211528 AAATACCCTT
Statistics
Matches: 85, Mismatches: 19, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
53 40 0.47
54 45 0.53
ACGTcount: A:0.31, C:0.20, G:0.07, T:0.42
Consensus pattern (54 bp):
TACCCTCGATTTATAGAATTACCGTTTTACCCATGATTTACAAAATTACTATTT
Found at i:49211526 original size:27 final size:27
Alignment explanation
Indices: 49211370--49211552 Score: 134
Period size: 27 Copynumber: 6.8 Consensus size: 27
49211360 ATTACCAAAG
* * * **
49211370 TACCCTCGATTTCCATAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTATTT
** * *
49211397 TACCCCCGATTTACATAATTAC-CTTT
1 TACCCTTGATTTACAGAATTACTATTT
* * **
49211423 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTTGATTTACAGAATTACTATTT
** * *
49211450 TAAACATGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTATTT
* *
49211477 TACCATTGATTTATAGAATTACTATTT
1 TACCCTTGATTTACAGAATTACTATTT
* ***
49211504 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAGAATTACTATTT
* *
49211531 TACCCTTGGTTTACAAAATTAC
1 TACCCTTGATTTACAGAATTAC
49211553 CAAAATACCC
Statistics
Matches: 131, Mismatches: 24, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
26 22 0.17
27 109 0.83
ACGTcount: A:0.32, C:0.20, G:0.07, T:0.40
Consensus pattern (27 bp):
TACCCTTGATTTACAGAATTACTATTT
Found at i:49211557 original size:27 final size:27
Alignment explanation
Indices: 49211504--49211836 Score: 242
Period size: 27 Copynumber: 12.3 Consensus size: 27
49211494 ATTACTATTT
* ** *
49211504 TACCCTTGATTTACAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
**
49211531 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
49211558 TACCCTCGATCAGTAAATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * *
49211585 TA-CCTTGGTCTGTAAAATTGCTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
49211611 TACCCCTGGTTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * *
49211638 TACCCCTAGTTTGTAAAATTACTAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
49211665 TACCAC-TGGTTTGTGAAATTACCGAAA
1 TACC-CTTGGTTTGTAAAATTACCAAAA
***
49211692 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* * ** *
49211719 TACCCCTGATTTACAAAATTA-TAGAAA
1 TACCCTTGGTTTGTAAAATTACCA-AAA
* * *
49211746 TACACTTGACTTTCTAAAAGTTA-CAGAAA
1 TACCCTTG-GTTTGTAAAA-TTACCA-AAA
* ** **
49211775 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
* *
49211802 TACCCTTGGTTTGTAGATTTACCAAAA
1 TACCCTTGGTTTGTAAAATTACCAAAA
*
49211829 CACCCTTG
1 TACCCTTG
49211837 TAGGGTGAAA
Statistics
Matches: 242, Mismatches: 57, Indels: 14
0.77 0.18 0.04
Matches are distributed among these distances:
26 22 0.09
27 191 0.79
28 15 0.06
29 14 0.06
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (27 bp):
TACCCTTGGTTTGTAAAATTACCAAAA
Found at i:49211640 original size:80 final size:81
Alignment explanation
Indices: 49211518--49211724 Score: 231
Period size: 80 Copynumber: 2.6 Consensus size: 81
49211508 CTTGATTTAC
* ** *
49211518 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGA-TCAGTAAATTTACCA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCC-CGAGTCAGTAAAATTACCA
*
49211582 AAATACC-TTGGTCTGT
65 AAATACCACTGGTCTGT
* * ** *
49211598 AAAATTGCTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAA
1 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
*
49211663 AATACCACTGGTTTGT
66 AATACCACTGGTCTGT
* ** **
49211679 GAAATTACCGAAATA-CCCTCAATTTGTAAAATTACCAAAATACCCC
1 AAAATTACTAAAATACCCCT-GGTTTGTAAAATTACCAAAATACCCC
49211725 TGATTTACAA
Statistics
Matches: 107, Mismatches: 17, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
79 2 0.02
80 63 0.59
81 42 0.39
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.29
Consensus pattern (81 bp):
AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAA
AATACCACTGGTCTGT
Found at i:49212673 original size:16 final size:16
Alignment explanation
Indices: 49212652--49212682 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
49212642 CAAATATGGG
*
49212652 CATGACATTTTGCATA
1 CATGACATGTTGCATA
49212668 CATGACATGTTGCAT
1 CATGACATGTTGCAT
49212683 GGGTTGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:49212751 original size:25 final size:25
Alignment explanation
Indices: 49212713--49212803 Score: 121
Period size: 25 Copynumber: 3.7 Consensus size: 25
49212703 AGGAAGTGCT
* * *
49212713 AAAAGGGCTATGCCCGAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCG
* *
49212738 AAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATCG
49212763 AAAAGGGCTTTGCCCCAGTTTATC-
1 AAAAGGGCTTTGCCCCAGTTTATCG
*
49212787 AAAAAGGCTTTGCCCCA
1 AAAAGGGCTTTGCCCCA
49212804 ATTATTAAAA
Statistics
Matches: 59, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
24 16 0.27
25 43 0.73
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCG
Found at i:49212818 original size:24 final size:24
Alignment explanation
Indices: 49212712--49212819 Score: 110
Period size: 25 Copynumber: 4.4 Consensus size: 24
49212702 GAGGAAGTGC
* * *
49212712 TAAAAGGGCTATGCCCGAGTTTACC
1 TAAAAGGGCTTTGCCCCAGTTTA-T
* *
49212737 GAAAAGGGCTTTGCCCTAGTTTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
49212761 TGAAAAGGGCTTTGCCCCAGTTTAT
1 T-AAAAGGGCTTTGCCCCAGTTTAT
* * *
49212786 CAAAAAGGCTTTGCCCCA-ATTAT
1 TAAAAGGGCTTTGCCCCAGTTTAT
49212809 TAAAAGAGGCT
1 TAAAAG-GGCT
49212820 AGGCCTCCAG
Statistics
Matches: 70, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
23 8 0.11
24 20 0.29
25 42 0.60
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (24 bp):
TAAAAGGGCTTTGCCCCAGTTTAT
Found at i:49215303 original size:27 final size:27
Alignment explanation
Indices: 49215257--49215469 Score: 146
Period size: 27 Copynumber: 7.9 Consensus size: 27
49215247 ATTATTGAAA
**
49215257 TACCCTCGACTTGTA-A-AATTACCAAAG
1 TACCCTCGA-TT-TACATAATTACCAATT
* **
49215284 TACCCCCGATTTACATAATTACCGCTT
1 TACCCTCGATTTACATAATTACCAATT
*
49215311 TACCCTCGATTTACATATTTACC-ATT
1 TACCCTCGATTTACATAATTACCAATT
* * *
49215337 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACATAATTACCAATT
* * * * * *
49215364 TACCTTTGATTTATAGAATTACTATTT
1 TACCCTCGATTTACATAATTACCAATT
* * ***
49215391 TACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACATAATTACCAATT
* * **
49215418 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACATAATTACCAATT
*
49215445 TACCCTC-AGTTTACAAAATTACCAA
1 TACCCTCGA-TTTACATAATTACCAA
49215470 AATACCTTCG
Statistics
Matches: 157, Mismatches: 25, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
25 2 0.01
26 26 0.17
27 129 0.82
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.37
Consensus pattern (27 bp):
TACCCTCGATTTACATAATTACCAATT
Found at i:49215333 original size:54 final size:54
Alignment explanation
Indices: 49215257--49215467 Score: 183
Period size: 54 Copynumber: 3.9 Consensus size: 54
49215247 ATTATTGAAA
* ** * * * *
49215257 TACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTACATAATTACCGCTT
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
* * * * *
49215311 TACCCTCGATTTACATATTTACC-ATTTACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
* * * * * ** * *
49215364 TACCTTTGATTTATAGAATTACTATTTTACCCTTGATTTACAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
* * *
49215418 TACCCTCGATTTACAAAATTACTAAAATACCCTC-AGTTTACAAAATTACC
1 TACCCTCGATTTACAAAATTACCAAATTACCCTCGA-TTTACAGAATTACC
49215468 AAAATACCTT
Statistics
Matches: 122, Mismatches: 33, Indels: 4
0.77 0.21 0.03
Matches are distributed among these distances:
53 41 0.34
54 81 0.66
ACGTcount: A:0.32, C:0.24, G:0.07, T:0.37
Consensus pattern (54 bp):
TACCCTCGATTTACAAAATTACCAAATTACCCTCGATTTACAGAATTACCGTTT
Found at i:49215471 original size:27 final size:27
Alignment explanation
Indices: 49215432--49215637 Score: 197
Period size: 27 Copynumber: 7.7 Consensus size: 27
49215422 CTCGATTTAC
* **
49215432 AAAATTACTAAAATACCCTCAGTTTAC
1 AAAATTACCAAAATACCCTCAGTTTGT
* **
49215459 AAAATTACCAAAATACCTTC-GATCAGT
1 AAAATTACCAAAATACCCTCAG-TTTGT
* *
49215486 AAAATTACCAAAATACCCT-GGTCTGT
1 AAAATTACCAAAATACCCTCAGTTTGT
* * *
49215512 AAAATTGCTAAAATACCC-CTGGTTTGT
1 AAAATTACCAAAATACCCTC-AGTTTGT
49215539 AAAATTACCAAAATACCC-CTAGTTTGT
1 AAAATTACCAAAATACCCTC-AGTTTGT
*
49215566 AAAATTACCAAAATACCACT-GGTTTGT
1 AAAATTACCAAAATACC-CTCAGTTTGT
* * * *
49215593 GAAATTATCGAAATACCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAGTTTGT
49215620 AAAATTACCAAAATACCC
1 AAAATTACCAAAATACCC
49215638 AGATTTACAA
Statistics
Matches: 149, Mismatches: 23, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
26 23 0.15
27 125 0.84
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAGTTTGT
Found at i:49215481 original size:54 final size:54
Alignment explanation
Indices: 49215421--49215653 Score: 208
Period size: 54 Copynumber: 4.4 Consensus size: 54
49215411 ACTGTTTTAC
* * **
49215421 CCTC-GATTTACAAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATA
1 CCTCTGATTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA
* * * * *
49215474 CCT-TCGA-TCAGTAAAATTACCAAAATACCCT-GGTCTGTAAAATTGCTAAAATA
1 CCTCT-GATTTA-TAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA
* * *
49215527 CCCCTGGTTTGTAAAATTACCAAAATACCC-CTAGTTTGTAAAATTACCAAAATA
1 CCTCTGATTTATAAAATTACCAAAATACCCTC-AGTTTGTAAAATTACCAAAATA
* * * * * * *
49215581 CCACTGGTTTGTGAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATA
1 CCTCTGATTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA
* *
49215635 CC-CAGATTTACAAAATTAC
1 CCTCTGATTTATAAAATTAC
49215654 AGAAGTACCC
Statistics
Matches: 144, Mismatches: 28, Indels: 16
0.77 0.15 0.09
Matches are distributed among these distances:
53 54 0.38
54 89 0.62
55 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
CCTCTGATTTATAAAATTACCAAAATACCCTCAGTTTGTAAAATTACCAAAATA
Found at i:49215543 original size:80 final size:80
Alignment explanation
Indices: 49215432--49215637 Score: 238
Period size: 80 Copynumber: 2.5 Consensus size: 80
49215422 CTCGATTTAC
** *
49215432 AAAATTACTAAAATACCCTCAGTTTACAAAATTACCAAAATACCTTCGA-TCAGTAAAATTACCA
1 AAAATT-CTAAAATACCCTCAGTTTGTAAAATTACCAAAATACC-CCGAGTCAGTAAAATTACCA
49215496 AAATACC-CTGGTCTGT
64 AAATACCACTGGTCTGT
* * **
49215512 AAAATTGCTAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCA
1 AAAATT-CTAAAATACCCTC-AGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCA
*
49215576 AAATACCACTGGTTTGT
64 AAATACCACTGGTCTGT
* * * *
49215593 GAAATTATCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
1 AAAATTCT-AAAATACCCTCAGTTTGTAAAATTACCAAAATACCC
49215638 AGATTTACAA
Statistics
Matches: 107, Mismatches: 14, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
79 3 0.03
80 59 0.55
81 44 0.41
82 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (80 bp):
AAAATTCTAAAATACCCTCAGTTTGTAAAATTACCAAAATACCCCGAGTCAGTAAAATTACCAAA
ATACCACTGGTCTGT
Found at i:49215714 original size:27 final size:27
Alignment explanation
Indices: 49215675--49215726 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
49215665 TGACTTTCTA
49215675 AAAATTATAGAAATACCATTGGTTTAC
1 AAAATTATAGAAATACCATTGGTTTAC
*
49215702 AAAATTACT-GAAATACCCTTGGTTT
1 AAAATTA-TAGAAATACCATTGGTTT
49215727 GTAGATTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 22 0.96
28 1 0.04
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.35
Consensus pattern (27 bp):
AAAATTATAGAAATACCATTGGTTTAC
Found at i:49215844 original size:27 final size:27
Alignment explanation
Indices: 49215767--49215844 Score: 79
Period size: 27 Copynumber: 2.9 Consensus size: 27
49215757 AAATGACTAA
* *
49215767 AATACCCCTAT-TAGGTAAAAAGACCGT
1 AATACCCCTGTAT-GGTAAAATGACCGT
* * *
49215794 AA-AGCCTCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTATGGTAAAATGACCGT
49215821 AATACCCCTGTATGGTAAAATGAC
1 AATACCCCTGTATGGTAAAATGAC
49215845 GAATATGCCC
Statistics
Matches: 40, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
26 1 0.03
27 38 0.95
28 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.21, T:0.23
Consensus pattern (27 bp):
AATACCCCTGTATGGTAAAATGACCGT
Found at i:49216325 original size:18 final size:18
Alignment explanation
Indices: 49216302--49216341 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
49216292 AGCATTCATA
49216302 GGGCCCATTAGAGGTTTT
1 GGGCCCATTAGAGGTTTT
49216320 GGGCCCATTAGAGGTTTT
1 GGGCCCATTAGAGGTTTT
49216338 GGGC
1 GGGC
49216342 TCAAAAGCCC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.15, C:0.17, G:0.38, T:0.30
Consensus pattern (18 bp):
GGGCCCATTAGAGGTTTT
Found at i:49216737 original size:24 final size:25
Alignment explanation
Indices: 49216654--49216760 Score: 139
Period size: 25 Copynumber: 4.4 Consensus size: 25
49216644 AGGAAGTGCT
* **
49216654 AAAAGGGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
49216679 AAAAGGGCTTTGCCCTAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
49216704 AAAAGGGCTTTGCCCCAGTTTATTG
1 AAAAGGGCTTTGCCCCAGTTTATTG
*
49216729 -AAAGGGCTTTTCCCCAG-TTATT-
1 AAAAGGGCTTTGCCCCAGTTTATTG
49216751 AAAAGAGGCT
1 AAAAG-GGCT
49216761 AGGCCTCCAG
Statistics
Matches: 74, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
23 9 0.12
24 20 0.27
25 45 0.61
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATTG
Found at i:49219326 original size:27 final size:27
Alignment explanation
Indices: 49219296--49219356 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
49219286 CGACTTGTAA
49219296 AATTACCAAAGTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
****
49219323 AATTACCGTTTTACCCCCGATTTACAT
1 AATTACCAAAGTACCCCCGATTTACAT
*
49219350 ATTTACC
1 AATTACC
49219357 TTTTACTCTC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.31, C:0.30, G:0.07, T:0.33
Consensus pattern (27 bp):
AATTACCAAAGTACCCCCGATTTACAT
Found at i:49219394 original size:27 final size:27
Alignment explanation
Indices: 49219307--49219462 Score: 143
Period size: 27 Copynumber: 5.8 Consensus size: 27
49219297 ATTACCAAAG
* * *
49219307 TACCCCCGATTTACATAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
49219334 TACCCCCGATTTACATATTTACC-TTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
49219360 TACTCTCGATTTATAGAATTGCCATTT
1 TACCCTCGATTTACAGAATTACCATTT
* **
49219387 TACCCTCGATTTATAGAATTAATATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
49219414 TACCCTTGATTTGCAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
49219441 TTCCCTCGATATACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
49219463 TAAAATACCA
Statistics
Matches: 108, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
26 20 0.19
27 88 0.81
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:49219570 original size:22 final size:22
Alignment explanation
Indices: 49219527--49219570 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
49219517 CAAAATACCC
*
49219527 TGGTCTGTAAAATTGCTAAAAT
1 TGGTCTGTAAAATTACTAAAAT
* *
49219549 TGGTTTGTAAAATTACTGAAAT
1 TGGTCTGTAAAATTACTAAAAT
49219571 ACCACTGGTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.36, C:0.07, G:0.18, T:0.39
Consensus pattern (22 bp):
TGGTCTGTAAAATTACTAAAAT
Found at i:49219588 original size:27 final size:27
Alignment explanation
Indices: 49219455--49219627 Score: 101
Period size: 27 Copynumber: 6.6 Consensus size: 27
49219445 CTCGATATAC
** * **
49219455 AAAATTACTAAAATACCATTGGTTTAC
1 AAAATTACCGAAATACCACTGGTTTGT
* * **
49219482 AAAATTACCAAAATACC-CTTGATCAGT
1 AAAATTACCGAAATACCAC-TGGTTTGT
* *
49219509 AAAATTACCAAAATACC-CTGGTCTGT
1 AAAATTACCGAAATACCACTGGTTTGT
* * *
49219535 AAAATT-GC-TAA-A--ATTGGTTTGT
1 AAAATTACCGAAATACCACTGGTTTGT
*
49219557 AAAATTACTGAAATACCACTGGTTTGT
1 AAAATTACCGAAATACCACTGGTTTGT
* **
49219584 GAAATTACCGAAATACC-CTCAATTTGT
1 AAAATTACCGAAATACCACT-GGTTTGT
*
49219611 AAAATTACCAAAATACC
1 AAAATTACCGAAATACC
49219628 CCAGATTTAC
Statistics
Matches: 115, Mismatches: 23, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
22 13 0.11
23 1 0.01
24 4 0.03
25 2 0.02
26 14 0.12
27 81 0.70
ACGTcount: A:0.42, C:0.18, G:0.10, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCACTGGTTTGT
Found at i:49219628 original size:27 final size:26
Alignment explanation
Indices: 49219552--49219656 Score: 93
Period size: 27 Copynumber: 3.9 Consensus size: 26
49219542 CTAAAATTGG
* **
49219552 TTTGTAAAATTACTGAAATACCACTGG
1 TTTGTAAAATTACCGAAATACC-CTAA
*
49219579 TTTGTGAAATTACCGAAATACCCTCAA
1 TTTGTAAAATTACCGAAATACCCT-AA
* *
49219606 TTTGTAAAATTACCAAAATACCCCAGA
1 TTTGTAAAATTACCGAAATACCCTA-A
** * *
49219633 TTTACAAATTTACAGAAATACCCT
1 TTTGTAAAATTACCGAAATACCCT
49219657 TGACTTTTTA
Statistics
Matches: 63, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
26 3 0.05
27 60 0.95
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
TTTGTAAAATTACCGAAATACCCTAA
Found at i:49219706 original size:27 final size:26
Alignment explanation
Indices: 49219663--49219718 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
49219653 CCCTTGACTT
*
49219663 TTTAAAAATTAGAGAAATA-CCATTGG
1 TTTAAAAATTACAGAAATATCC-TTGG
*
49219689 TTTACAAAATTACTGAAATATCCTTGG
1 TTTA-AAAATTACAGAAATATCCTTGG
49219716 TTT
1 TTT
49219719 GTAGATTTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 4 0.15
27 20 0.77
28 2 0.08
ACGTcount: A:0.39, C:0.11, G:0.12, T:0.38
Consensus pattern (26 bp):
TTTAAAAATTACAGAAATATCCTTGG
Found at i:49219836 original size:27 final size:27
Alignment explanation
Indices: 49219772--49219836 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
49219762 ACCCTAATTA
*
49219772 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAATGACCGTAAAGCCCCTGTAG
* * *
49219799 GGTAAAGTGACCGTAATA-CCTCTGTAT
1 GGTAAAATGACCGTAA-AGCCCCTGTAG
49219826 GGTAAAATGAC
1 GGTAAAATGAC
49219837 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAGCCCCTGTAG
Found at i:49220723 original size:24 final size:25
Alignment explanation
Indices: 49220667--49220724 Score: 68
Period size: 24 Copynumber: 2.4 Consensus size: 25
49220657 TATGTTTACC
*
49220667 GAAAAG-GGCTTTGCTCCAGTTTAT
1 GAAAAGAGGCTTTGCCCCAGTTTAT
* *
49220691 CAAAA-AGGCTTTGCCCCTG-TTAT
1 GAAAAGAGGCTTTGCCCCAGTTTAT
49220714 GAAAAGAGGCT
1 GAAAAGAGGCT
49220725 AGGCCTCTAG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 8 0.29
24 20 0.71
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.28
Consensus pattern (25 bp):
GAAAAGAGGCTTTGCCCCAGTTTAT
Found at i:49220965 original size:31 final size:31
Alignment explanation
Indices: 49220930--49221006 Score: 127
Period size: 31 Copynumber: 2.5 Consensus size: 31
49220920 CATTTACAGT
49220930 AAAGGCTTCGGCCCAGTGATATGATTTATAA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
* *
49220961 AAAGGCTTCGGCCTAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATAA
*
49220992 AAAGGCTTCGACCCA
1 AAAGGCTTCGGCCCA
49221007 CTAACCGTTA
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATAA
Found at i:49224506 original size:93 final size:93
Alignment explanation
Indices: 49224394--49224565 Score: 310
Period size: 93 Copynumber: 1.8 Consensus size: 93
49224384 CGCCCATAAG
*
49224394 CGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
49224458 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
*
49224487 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49224552 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49224566 TCAATCATCC
Statistics
Matches: 76, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
92 2 0.03
93 74 0.97
ACGTcount: A:0.28, C:0.30, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49224560 original size:46 final size:46
Alignment explanation
Indices: 49224387--49224562 Score: 209
Period size: 46 Copynumber: 3.8 Consensus size: 46
49224377 TGTAACCCGC
* *
49224387 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
49224433 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
49224483 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49224526 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49224563 TGCTCAATCA
Statistics
Matches: 111, Mismatches: 9, Indels: 20
0.79 0.06 0.14
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 4 0.04
46 61 0.55
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.30, G:0.20, T:0.20
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49226278 original size:27 final size:27
Alignment explanation
Indices: 49226242--49226612 Score: 499
Period size: 27 Copynumber: 13.7 Consensus size: 27
49226232 TACTGAAATG
* * *
49226242 CCCTCAATTTGTAAAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * * *
49226269 CCCACGATTTACAAAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
49226296 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
** * *
49226323 CCCTTAATTTACAGAATTACCATCTTA
1 CCCTCGATTTATAGAATTACCATTTTA
49226350 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
49226377 CCCTCGATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
49226404 CCCTCGATTTACAAAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49226431 CCCTCGGTTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* * *
49226458 CCCTCGATTTACAGAGTTACTATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49226485 CCCTCAATTTATAGAATTACCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49226512 CCCTCGATTTATAGAATTATCATTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
*
49226539 CCCTCGATTTATAGAATTACCGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* ***
49226566 CCCTCGATTTATAAAATTATTGTTTTA
1 CCCTCGATTTATAGAATTACCATTTTA
* *
49226593 CCCTCGATTTACAAAATTAC
1 CCCTCGATTTATAGAATTAC
49226613 TGAAATACCT
Statistics
Matches: 303, Mismatches: 41, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 303 1.00
ACGTcount: A:0.30, C:0.22, G:0.07, T:0.40
Consensus pattern (27 bp):
CCCTCGATTTATAGAATTACCATTTTA
Found at i:49226621 original size:27 final size:27
Alignment explanation
Indices: 49226510--49226676 Score: 104
Period size: 27 Copynumber: 6.2 Consensus size: 27
49226500 ATTACCATTT
* * **
49226510 TACCCTCGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAAAATTACTGA-AA
* * ***
49226537 TACCCTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTATAAAATTACTGAAA
* ***
49226564 TACCCTCGATTTATAAAATTATTGTTT
1 TACCCTCGATTTATAAAATTACTGAAA
*
49226591 TACCCTCGATTTACAAAATTACTGAAA
1 TACCCTCGATTTATAAAATTACTGAAA
* * * * **
49226618 TACCTTTGGTTTACAAAATTACCAAAA
1 TACCCTCGATTTATAAAATTACTGAAA
* *
49226645 CACCCTCGA-TCAGTAAAATTACTGAAA
1 TACCCTCGATTTA-TAAAATTACTGAAA
49226672 TACCC
1 TACCC
49226677 CTGTAGGGTA
Statistics
Matches: 113, Mismatches: 25, Indels: 4
0.80 0.18 0.03
Matches are distributed among these distances:
26 2 0.02
27 111 0.98
ACGTcount: A:0.34, C:0.22, G:0.08, T:0.36
Consensus pattern (27 bp):
TACCCTCGATTTATAAAATTACTGAAA
Found at i:49226691 original size:27 final size:27
Alignment explanation
Indices: 49226661--49226825 Score: 260
Period size: 27 Copynumber: 6.1 Consensus size: 27
49226651 CGATCAGTAA
49226661 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
49226688 AATTACTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
49226715 AATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
* *
49226742 AATTACTAAAATACCCCTATAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
49226769 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
49226796 AAATACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAG
49226823 AAT
1 AAT
49226826 CACCCCTGTA
Statistics
Matches: 126, Mismatches: 10, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
26 1 0.01
27 124 0.98
28 1 0.01
ACGTcount: A:0.37, C:0.18, G:0.20, T:0.25
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:49226692 original size:54 final size:54
Alignment explanation
Indices: 49226634--49226811 Score: 204
Period size: 54 Copynumber: 3.3 Consensus size: 54
49226624 TGGTTTACAA
* *
49226634 AATTACCAAAACACCCTCGATCA-GTAAAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTCGAT-AGGTAGAATTACTGAAATACCCCTGTAGGGTAG
**
49226688 AATTACTGAAATAACCCT-G-TAGGGTAGAATTA-TCGAAATACCCCTGTAGGGTAG
1 AATTACCAAAAT-ACCCTCGATA-GGTAGAATTACT-GAAATACCCCTGTAGGGTAG
* *
49226742 AATTACTAAAATACCC-CTATAGGGTAGAATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCAAAATACCCTCGATA-GGTAGAATTACTGAAATACCCCTGTAGGGTAG
* *
49226796 AAATACCGAAATACCC
1 AATTACCAAAATACCC
49226812 CTGTAGGATA
Statistics
Matches: 108, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
52 1 0.01
53 6 0.06
54 95 0.88
55 6 0.06
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (54 bp):
AATTACCAAAATACCCTCGATAGGTAGAATTACTGAAATACCCCTGTAGGGTAG
Found at i:49226719 original size:81 final size:79
Alignment explanation
Indices: 49226634--49226818 Score: 223
Period size: 81 Copynumber: 2.3 Consensus size: 79
49226624 TGGTTTACAA
* *
49226634 AATTACCAAAACACCCTCGATCA-GTAAAATTACTGAAATACCCCTGTAGGGTAGAATTACTGAA
1 AATTACCAAAACACCCT-G-T-AGGTAAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAA
49226698 ATAACCCTGTAGGGTAG
63 ATAACCCTGTAGGGTAG
* *
49226715 AATTATCGAAATAC-CCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAGAATTACTGAA
1 AATTA-CCAAA-ACACCCTGTA-GGTAAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAA
*
49226779 ATACCCCTGTAGGGTAG
63 ATAACCCTGTAGGGTAG
*
49226796 AAATACCGAAATAC-CCCTGTAGG
1 AATTACC-AAA-ACACCCTGTAGG
49226819 ATAGAATCAC
Statistics
Matches: 92, Mismatches: 7, Indels: 11
0.84 0.06 0.10
Matches are distributed among these distances:
79 1 0.01
80 4 0.04
81 77 0.84
82 8 0.09
83 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.18, T:0.24
Consensus pattern (79 bp):
AATTACCAAAACACCCTGTAGGTAAAATTACTAAAATACCCCTATAGGGTAGAATTACTGAAATA
ACCCTGTAGGGTAG
Found at i:49226812 original size:54 final size:54
Alignment explanation
Indices: 49226661--49226898 Score: 255
Period size: 54 Copynumber: 4.6 Consensus size: 54
49226651 CGATCAGTAA
* * * * *
49226661 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
* ** *
49226715 AATTA-TCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
*
49226769 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
*
49226823 AA-T-C------ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
* * *
49226869 AATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACT-GAAATACCCCTGTAGGGTAGAAAT
49226899 TACCATTTTG
Statistics
Matches: 161, Mismatches: 12, Indels: 23
0.82 0.06 0.12
Matches are distributed among these distances:
46 42 0.26
47 1 0.01
52 1 0.01
53 6 0.04
54 110 0.68
55 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (54 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGGATAG
Found at i:49226832 original size:46 final size:46
Alignment explanation
Indices: 49226781--49226871 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
49226771 TTACTGAAAT
* *
49226781 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATC
1 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAATC
49226827 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAAT
1 ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAAT
49226872 TATCGAGATA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.37, C:0.23, G:0.20, T:0.20
Consensus pattern (46 bp):
ACCCCTGTAGGGTAGAAATACCGAAATACCCCTATAGAATAGAATC
Found at i:49226913 original size:100 final size:100
Alignment explanation
Indices: 49226661--49226898 Score: 273
Period size: 100 Copynumber: 2.3 Consensus size: 100
49226651 CGATCAGTAA
* * * *
49226661 AATTACTGAAATACCCCTGTAGGGTAGAATTACTGAAATAACCCTGTAGGGTAGAATTATCGAAA
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAG-A--ATC----
* * **
49226726 TACCCCTGTAGGGTAGAATTACTAAAATACCCCTATAGGGTAG
59 -ACCCCTGTAGGGTAGAAATACCAAAATACCCCTATAGAATAG
49226769 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATCACCCCTG
1 AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATCACCCCTG
*
49226834 TAGGGTAGAAATACCGAAATACCCCTATAGAATAG
66 TAGGGTAGAAATACCAAAATACCCCTATAGAATAG
* * *
49226869 AATTA-TCGAGATACCCTTGTGGGGTA-AAAT
1 AATTACT-GAAATACCCCTGTAGGGTAGAAAT
49226899 TACCATTTTG
Statistics
Matches: 117, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
99 5 0.04
100 58 0.50
105 3 0.03
107 1 0.01
108 50 0.43
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (100 bp):
AATTACTGAAATACCCCTGTAGGGTAGAAATACCGAAATACCCCTGTAGGATAGAATCACCCCTG
TAGGGTAGAAATACCAAAATACCCCTATAGAATAG
Found at i:49227147 original size:25 final size:25
Alignment explanation
Indices: 49227105--49227199 Score: 127
Period size: 25 Copynumber: 3.8 Consensus size: 25
49227095 AAGAAGTGCT
* *
49227105 AAAAGGGCTATGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCTAGTTTATCG
* *
49227130 AAAAGGACTTTGCTCTAGTTTATCG
1 AAAAGGGCTTTGCCCTAGTTTATCG
* *
49227155 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCTAGTTTATCG
*
49227180 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCTAGTT
49227200 ATTAAAAGAG
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.27, C:0.22, G:0.22, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCTAGTTTATCG
Found at i:49227212 original size:24 final size:24
Alignment explanation
Indices: 49227149--49227226 Score: 79
Period size: 25 Copynumber: 3.2 Consensus size: 24
49227139 TTGCTCTAGT
49227149 TTATCGAAAAG-GGCTTTGCCCCAG
1 TTATC-AAAAGAGGCTTTGCCCCAG
49227173 TTTATCAAAA-AGGGCTTTGCCCCAG
1 -TTATCAAAAGA-GGCTTTGCCCCAG
* **
49227198 TTATTAAAAGAGGCTAGGCCTCCAG
1 TTATCAAAAGAGGCTTTGCC-CCAG
49227223 TTAT
1 TTAT
49227227 ATGATAAAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
24 19 0.41
25 27 0.59
ACGTcount: A:0.28, C:0.22, G:0.22, T:0.28
Consensus pattern (24 bp):
TTATCAAAAGAGGCTTTGCCCCAG
Found at i:49227514 original size:29 final size:29
Alignment explanation
Indices: 49227431--49227514 Score: 84
Period size: 29 Copynumber: 2.9 Consensus size: 29
49227421 CATTTACAGT
* *
49227431 AAAA-GCTTCGGCCCAGTGATATGATTTATG
1 AAAAGGCTTCGGCCCAGT-ATATG-TTAACG
*
49227461 AAAAGGCTTCGGCCTAGTA-ACTGTTAAACG
1 AAAAGGCTTCGGCCCAGTATA-TGTT-AACG
49227491 -AAAGGCTTCGGCCCAGTATATGTT
1 AAAAGGCTTCGGCCCAGTATATGTT
49227515 GAGAATGAAT
Statistics
Matches: 46, Mismatches: 4, Indels: 9
0.78 0.07 0.15
Matches are distributed among these distances:
29 24 0.52
30 10 0.22
31 12 0.26
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (29 bp):
AAAAGGCTTCGGCCCAGTATATGTTAACG
Found at i:49230178 original size:27 final size:26
Alignment explanation
Indices: 49230147--49230324 Score: 153
Period size: 27 Copynumber: 6.6 Consensus size: 26
49230137 TAAATTGTAC
49230147 AGCACTAAGTGTGCGATTCGACTATGT
1 AGCACTAAGTGTGCGATT-GACTATGT
* * *
49230174 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCG-ATTGACTATGT
*
49230200 ATGCACTAAGTGTGCGAATTGA-TCATGC
1 A-GCACTAAGTGTGCG-ATTGACT-ATGT
*
49230228 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA--TTGACTATGT
* * **
49230256 AGCACTAAGTGTACGATTTGATTACAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
* *
49230283 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGA-TTGACTATGT
*
49230310 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
49230325 GGCTCAATAT
Statistics
Matches: 128, Mismatches: 16, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
26 2 0.02
27 102 0.80
28 23 0.18
29 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (26 bp):
AGCACTAAGTGTGCGATTGACTATGT
Found at i:49230315 original size:82 final size:81
Alignment explanation
Indices: 49230144--49230324 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
49230134 GATTAAATTG
* * *
49230144 TACAGCACTAAGTGTGCGATTCGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
49230209 GTGTGCGAATTGATCA
66 GTGTGCGAATTGATCA
* * * ** *
49230225 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTACGATTTGATTA-CATAGCACT
1 TACAGCACTAAGTGTGCGA-TTCGACTATGTAGCACTAAGTGTACGAAATGAATATCAT-GCACT
* *
49230289 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGATCA
* *
49230307 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49230325 GGCTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 19 0.23
82 64 0.77
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTCGACTATGTAGCACTAAGTGTACGAAATGAATATCATGCACTAA
GTGTGCGAATTGATCA
Found at i:49230335 original size:27 final size:27
Alignment explanation
Indices: 49230229--49230335 Score: 70
Period size: 27 Copynumber: 3.9 Consensus size: 27
49230219 TGATCATGCG
* * * *
49230229 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGAG-CTCAATATATA
* ** * * *
49230257 GCACTAAGTGTACGATTTGATTACATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* * *
49230284 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAGCTCAATATATA
* *
49230311 GCACTGAGTGTGCGGGCTCAATATA
1 GCACTAAGTGTGCGAGCTCAATATA
49230336 CATTCGTGAA
Statistics
Matches: 66, Mismatches: 13, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
27 52 0.79
28 14 0.21
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (27 bp):
GCACTAAGTGTGCGAGCTCAATATATA
Found at i:49249244 original size:20 final size:21
Alignment explanation
Indices: 49249204--49249244 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
49249194 GACTATGTGA
49249204 TCTGAGCTCATGAGTTATATGG
1 TCTGAGCTCATGAG-TATATGG
49249226 TCTGAGCTCATGA-TATATG
1 TCTGAGCTCATGAGTATATG
49249245 TGACACATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 6 0.32
22 13 0.68
ACGTcount: A:0.24, C:0.15, G:0.24, T:0.37
Consensus pattern (21 bp):
TCTGAGCTCATGAGTATATGG
Found at i:49251088 original size:27 final size:28
Alignment explanation
Indices: 49251051--49251189 Score: 164
Period size: 27 Copynumber: 5.1 Consensus size: 28
49251041 AGCATGGCTG
* * *
49251051 CCAGA-ACAGATAAT-GTGACAAAGTCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
49251077 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
*
49251105 CCAGAT-CAGATACTCGTGGCAGAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
49251132 CCAG-TACAGATATAT-GTGGCAGAGCCA
1 CCAGATACAGATA-ATCGTGGCAGAGCCA
* * *
49251159 CCAGAT-CAGATATTTGTGGCATAGCCA
1 CCAGATACAGATAATCGTGGCAGAGCCA
49251186 CCAG
1 CCAG
49251190 GACGCTTCCT
Statistics
Matches: 100, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.07
27 76 0.76
28 17 0.17
ACGTcount: A:0.35, C:0.24, G:0.24, T:0.17
Consensus pattern (28 bp):
CCAGATACAGATAATCGTGGCAGAGCCA
Found at i:49252803 original size:26 final size:26
Alignment explanation
Indices: 49252772--49252879 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
49252762 TGAAATGCCC
* *
49252772 ATCATGGAACATTTACTTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
49252798 ATCATGGAACATTGACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
49252824 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
49252850 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
49252876 ATCA
1 ATCA
49252880 ATTTGTACCA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.23, G:0.08, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:49259080 original size:27 final size:27
Alignment explanation
Indices: 49259036--49259173 Score: 181
Period size: 27 Copynumber: 5.1 Consensus size: 27
49259026 GCATGGCTGT
*
49259036 CAGAATAGATA-ATCGTGGCAGAGCCAC
1 CAGAACAGATATAT-GTGGCAGAGCCAC
*
49259063 CAGAACAGATATATGTGGTAGAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCAC
* *
49259090 CAGATCAGATA-ATCGTGACAGAGCCAC
1 CAGAACAGATATAT-GTGGCAGAGCCAC
49259117 CAGAACAGATATATGTGGCAGAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCAC
* * *
49259144 CAGATCAGATATTTGTGGCATAGCCAC
1 CAGAACAGATATATGTGGCAGAGCCAC
49259171 CAG
1 CAG
49259174 GACGCTTCCT
Statistics
Matches: 98, Mismatches: 10, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
26 2 0.02
27 92 0.94
28 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.25, T:0.17
Consensus pattern (27 bp):
CAGAACAGATATATGTGGCAGAGCCAC
Found at i:49259100 original size:54 final size:54
Alignment explanation
Indices: 49259042--49259173 Score: 219
Period size: 54 Copynumber: 2.4 Consensus size: 54
49259032 CTGTCAGAAT
*
49259042 AGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGTAGAGCCACCAGATC
1 AGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATC
*
49259096 AGATAATCGTGACAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATC
1 AGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATC
* * *
49259150 AGATATTTGTGGCATAGCCACCAG
1 AGATAATCGTGGCAGAGCCACCAG
49259174 GACGCTTCCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.35, C:0.23, G:0.25, T:0.17
Consensus pattern (54 bp):
AGATAATCGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGCCACCAGATC
Found at i:49262127 original size:27 final size:27
Alignment explanation
Indices: 49262097--49262272 Score: 192
Period size: 27 Copynumber: 6.5 Consensus size: 27
49262087 AATTGTACAA
**
49262097 CACTAAGTGTGCGATTTGACTATGTTT
1 CACTAAGTGTGCGATTTGACTATGTAG
** *
49262124 CACTAAGTGTGCGAAATGAATATG-ATG
1 CACTAAGTGTGCGATTTGACTATGTA-G
* * **
49262151 CACTAAGTGTGCGAATTGACCATGCGG
1 CACTAAGTGTGCGATTTGACTATGTAG
49262178 CACTAAGTGTGCGAGTTTGACTATGTAG
1 CACTAAGTGTGCGA-TTTGACTATGTAG
* *
49262206 CACTAAGTGTGCGATTTGATTACGTAG
1 CACTAAGTGTGCGATTTGACTATGTAG
* * *
49262233 CACTAAGTGTGCGAGTTGATTATATAG
1 CACTAAGTGTGCGATTTGACTATGTAG
*
49262260 CACTGAGTGTGCG
1 CACTAAGTGTGCG
49262273 GACTCAATAT
Statistics
Matches: 127, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.31
Consensus pattern (27 bp):
CACTAAGTGTGCGATTTGACTATGTAG
Found at i:49262210 original size:82 final size:81
Alignment explanation
Indices: 49262097--49262251 Score: 222
Period size: 82 Copynumber: 1.9 Consensus size: 81
49262087 AATTGTACAA
** *
49262097 CACTAAGTGTGCGATTTGACTATGTTTCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTGT
1 CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTGT
49262161 GCGAATTGACCATGCGG
65 GCGAATTGACCATGCGG
** *
49262178 CACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTGT
1 CACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
*
49262243 GCGAGTTGA
65 GCGAATTGA
49262252 TTATATAGCA
Statistics
Matches: 65, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 14 0.22
82 50 0.77
83 1 0.02
ACGTcount: A:0.27, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
CACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGTG
CGAATTGACCATGCGG
Found at i:49262263 original size:82 final size:81
Alignment explanation
Indices: 49262092--49262272 Score: 211
Period size: 82 Copynumber: 2.2 Consensus size: 81
49262082 GATTGAATTG
* ** *
49262092 TACAACACTAAGTGTGCGATTTGACTATGTTTCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
49262157 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
49262173 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
49262237 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
49262255 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
49262273 GACTCAATAT
Statistics
Matches: 82, Mismatches: 16, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
81 17 0.21
82 65 0.79
ACGTcount: A:0.28, C:0.15, G:0.27, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:49273051 original size:43 final size:43
Alignment explanation
Indices: 49272957--49273052 Score: 113
Period size: 43 Copynumber: 2.2 Consensus size: 43
49272947 TTCCATAAAC
* * * **
49272957 GCCGCCAAAGAACATGACTTTTAGTGGTGTTTTTATTAAAAAA
1 GCCGCTAAAGAACATGACCTTTAGTGGTGTTTGTAGGAAAAAA
* *
49273000 GCCACTAAAGCACATGACCTTTAGTGGTGTTTGTAGGAAAAGAA
1 GCCGCTAAAGAACATGACCTTTAGTGGTGTTTGTAGGAAAA-AA
49273044 -CCGCTAAAG
1 GCCGCTAAAG
49273053 GTCATGTTCT
Statistics
Matches: 44, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
43 42 0.95
44 2 0.05
ACGTcount: A:0.34, C:0.17, G:0.22, T:0.27
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGTGGTGTTTGTAGGAAAAAA
Found at i:49281638 original size:45 final size:45
Alignment explanation
Indices: 49281589--49281692 Score: 127
Period size: 49 Copynumber: 2.2 Consensus size: 45
49281579 AAATAGCATG
* *
49281589 AAACATGTTCACACACTTGTCCTATCAGAATGGTTGAGGAACATA
1 AAACATGTTCACACACTTGTCCTATCAGAATGGGTAAGGAACATA
* * *
49281634 AAACATGTTCTCGCCCACACTTGTCTTATCAGAATGGGTAAGGAACTTA
1 AAACATG-T-T--CACACACTTGTCCTATCAGAATGGGTAAGGAACATA
49281683 AAACATGTTC
1 AAACATGTTC
49281693 TCACCCACAC
Statistics
Matches: 50, Mismatches: 5, Indels: 8
0.79 0.08 0.13
Matches are distributed among these distances:
45 8 0.16
46 1 0.02
47 2 0.04
48 1 0.02
49 38 0.76
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.28
Consensus pattern (45 bp):
AAACATGTTCACACACTTGTCCTATCAGAATGGGTAAGGAACATA
Done.