Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 137 of 198
Found at i:43612803 original size:34 final size:35
Alignment explanation
Indices: 43612759--43612825 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
43612749 CAGTAAAATA
*
43612759 TTTTCCGTAAAATGATTT-CGGGAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
* *
43612793 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACGGGAAAATATTTT
43612826 CTAGTGTTTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.31, C:0.09, G:0.15, T:0.45
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACGGGAAAATATTTTAC
Found at i:43614026 original size:6 final size:6
Alignment explanation
Indices: 43614015--43614053 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
43614005 ATAACAAAAA
* *
43614015 AAATTT AAATTT AAATTT AAA-TT AAATCT AAATCT AAAT
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAATTT AAAT
43614054 ATATTTTGAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 5 0.16
6 26 0.84
ACGTcount: A:0.54, C:0.05, G:0.00, T:0.41
Consensus pattern (6 bp):
AAATTT
Found at i:43614041 original size:17 final size:17
Alignment explanation
Indices: 43614019--43614053 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
43614009 CAAAAAAAAT
* *
43614019 TTAAATTTAAATTTAAA
1 TTAAATCTAAATCTAAA
43614036 TTAAATCTAAATCTAAA
1 TTAAATCTAAATCTAAA
43614053 T
1 T
43614054 ATATTTTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.51, C:0.06, G:0.00, T:0.43
Consensus pattern (17 bp):
TTAAATCTAAATCTAAA
Found at i:43631972 original size:24 final size:24
Alignment explanation
Indices: 43631945--43631993 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
43631935 TGAACCTCTA
43631945 CTTCTATCACTGCTTCTCTCGCTG
1 CTTCTATCACTGCTTCTCTCGCTG
* * *
43631969 CTTCTCTCGCTGCTTCTCTCTCTG
1 CTTCTATCACTGCTTCTCTCGCTG
43631993 C
1 C
43631994 GGCCTCTGCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.04, C:0.41, G:0.12, T:0.43
Consensus pattern (24 bp):
CTTCTATCACTGCTTCTCTCGCTG
Found at i:43631988 original size:14 final size:12
Alignment explanation
Indices: 43631954--43631993 Score: 71
Period size: 12 Copynumber: 3.3 Consensus size: 12
43631944 ACTTCTATCA
43631954 CTGCTTCTCTCG
1 CTGCTTCTCTCG
43631966 CTGCTTCTCTCG
1 CTGCTTCTCTCG
*
43631978 CTGCTTCTCTCT
1 CTGCTTCTCTCG
43631990 CTGC
1 CTGC
43631994 GGCCTCTGCT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.00, C:0.42, G:0.15, T:0.42
Consensus pattern (12 bp):
CTGCTTCTCTCG
Found at i:43632004 original size:21 final size:21
Alignment explanation
Indices: 43631954--43632046 Score: 87
Period size: 21 Copynumber: 4.3 Consensus size: 21
43631944 ACTTCTATCA
**
43631954 CTGCTTCTCTCGCTGCTTCTCT
1 CTGCTTCTCTCGCTGCAGC-CT
* *
43631976 CGCTGCTTCTCTCTCTGCGGCCT
1 --CTGCTTCTCTCGCTGCAGCCT
* *
43631999 CTGCTTGTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
43632020 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
43632041 CTGCTT
1 CTGCTT
43632047 TAAGTTGTTG
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
21 40 0.69
23 2 0.03
24 16 0.28
ACGTcount: A:0.01, C:0.42, G:0.19, T:0.38
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:43634565 original size:8 final size:7
Alignment explanation
Indices: 43634547--43634584 Score: 53
Period size: 7 Copynumber: 5.6 Consensus size: 7
43634537 ATAATATAAG
43634547 TTATGTA
1 TTATGTA
43634554 TTATGTTA
1 TTATG-TA
43634562 TTATGTA
1 TTATGTA
43634569 TTATGTA
1 TTATGTA
43634576 --ATGTA
1 TTATGTA
43634581 TTAT
1 TTAT
43634585 CAGATTATAT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
5 5 0.18
7 16 0.57
8 7 0.25
ACGTcount: A:0.29, C:0.00, G:0.13, T:0.58
Consensus pattern (7 bp):
TTATGTA
Found at i:43634565 original size:27 final size:26
Alignment explanation
Indices: 43634532--43634604 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
43634522 AAGTTATGCA
*
43634532 ATATTATAATATAAGTTATGTATTATG
1 ATATTAT-ATATAAGTTATGTATTATC
* * * *
43634559 TTATTATGTATTATGTAATGTATTATC
1 ATATTATATA-TAAGTTATGTATTATC
*
43634586 AGATTATATATAAGTTATG
1 ATATTATATATAAGTTATG
43634605 GAAGTTATTA
Statistics
Matches: 35, Mismatches: 10, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
26 9 0.26
27 26 0.74
ACGTcount: A:0.37, C:0.01, G:0.12, T:0.49
Consensus pattern (26 bp):
ATATTATATATAAGTTATGTATTATC
Found at i:43634621 original size:21 final size:21
Alignment explanation
Indices: 43634596--43634681 Score: 70
Period size: 21 Copynumber: 4.0 Consensus size: 21
43634586 AGATTATATA
*
43634596 TAAGTTATGGAAGTTATTATG
1 TAAGTTATGTAAGTTATTATG
** *
43634617 TAAGTTATACAAGCTTA-TATA
1 TAAGTTATGTAAG-TTATTATG
43634638 TAAGTTATGTATTATGTTATTATG
1 TAAGTTATGTA--A-GTTATTATG
*
43634662 T-A-TTATGTAATTTATTATG
1 TAAGTTATGTAAGTTATTATG
43634681 T
1 T
43634682 TATTATTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 12
0.74 0.10 0.17
Matches are distributed among these distances:
19 9 0.17
20 1 0.02
21 23 0.43
22 10 0.19
23 5 0.09
24 5 0.09
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (21 bp):
TAAGTTATGTAAGTTATTATG
Found at i:43634668 original size:95 final size:96
Alignment explanation
Indices: 43634504--43634698 Score: 311
Period size: 95 Copynumber: 2.0 Consensus size: 96
43634494 GCTTAACAAT
* *
43634504 TTATGGAAGTTATTATGTAAGTTATGCAATATTATAATATAAGTTATGTATTATGTTATTATGTA
1 TTATGGAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGTTATTATGTA
43634569 TTATGTAATGTATTATCAGATTATATATAAG
66 TTATGTAATGTATTATCAGATTATATATAAG
*
43634600 TTATGGAAGTTATTATGTAAGTTATACAAGCTTAT-ATATAAGTTATGTATTATGTTATTATGTA
1 TTATGGAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGTTATTATGTA
* *** *
43634664 TTATGTAATTTATTATGTTATTATTTATAAG
66 TTATGTAATGTATTATCAGATTATATATAAG
43634695 TTAT
1 TTAT
43634699 CGTATGATTG
Statistics
Matches: 91, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
95 59 0.65
96 32 0.35
ACGTcount: A:0.35, C:0.02, G:0.14, T:0.49
Consensus pattern (96 bp):
TTATGGAAGTTATTATGTAAGTTATACAAGATTATAATATAAGTTATGTATTATGTTATTATGTA
TTATGTAATGTATTATCAGATTATATATAAG
Found at i:43634691 original size:15 final size:15
Alignment explanation
Indices: 43634642--43634687 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
43634632 TATATATAAG
43634642 TTATGTATTATGTTA
1 TTATGTATTATGTTA
43634657 TTATGTATTATG-TA
1 TTATGTATTATGTTA
*
43634671 --ATTTATTATGTTA
1 TTATGTATTATGTTA
43634684 TTAT
1 TTAT
43634688 TTATAAGTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
12 9 0.33
13 2 0.07
14 2 0.07
15 14 0.52
ACGTcount: A:0.28, C:0.00, G:0.11, T:0.61
Consensus pattern (15 bp):
TTATGTATTATGTTA
Found at i:43634867 original size:61 final size:61
Alignment explanation
Indices: 43634792--43634935 Score: 161
Period size: 61 Copynumber: 2.4 Consensus size: 61
43634782 TAAAAAATAT
* *
43634792 AATTATTT-GCAAAACTTGTAAAATTGATACTTA-TAAA-TTTTATTAATAATAAATCTAGAACA
1 AATTATTTAG-AAAACTTATAAAATTAATAC-TACTAAATTTTTA-TAATAATAAATCTAGAA-A
* * * *
43634854 ACTT-TTTAGAAAACTTATAAATTTAATACTACTAAATTTTTATACTAATAAATTTAGAAA
1 AATTATTTAGAAAACTTATAAAATTAATACTACTAAATTTTTATAATAATAAATCTAGAAA
*
43634914 AATTATTTAGAAAACCTATAAA
1 AATTATTTAGAAAACTTATAAA
43634936 TTTAGAAAAC
Statistics
Matches: 70, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
60 6 0.09
61 55 0.79
62 9 0.13
ACGTcount: A:0.48, C:0.08, G:0.05, T:0.39
Consensus pattern (61 bp):
AATTATTTAGAAAACTTATAAAATTAATACTACTAAATTTTTATAATAATAAATCTAGAAA
Found at i:43634891 original size:15 final size:15
Alignment explanation
Indices: 43634870--43634909 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
43634860 TAGAAAACTT
43634870 ATAAATTTAATACTA
1 ATAAATTTAATACTA
* *
43634885 CTAAATTTTTATACTA
1 ATAAA-TTTAATACTA
43634901 ATAAATTTA
1 ATAAATTTA
43634910 GAAAAATTAT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.47, C:0.07, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:43634936 original size:61 final size:61
Alignment explanation
Indices: 43634825--43634939 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
43634815 TTGATACTTA
* *
43634825 TAAATTTTATTAATAATAAATCTAGAACAACTTTTTAGAAAACTTATAAATTTAATACTAC
1 TAAATTTTATTAATAATAAATCTAGAACAAATTTTTAGAAAACCTATAAATTTAATACTAC
* *
43634886 TAAATTTT-TATACTAATAAATTTAGAA-AAATTATTTAGAAAACCTATAAATTTA
1 TAAATTTTAT-TAATAATAAATCTAGAACAAATT-TTTAGAAAACCTATAAATTTA
43634940 GAAAACTTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
60 5 0.10
61 43 0.90
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.40
Consensus pattern (61 bp):
TAAATTTTATTAATAATAAATCTAGAACAAATTTTTAGAAAACCTATAAATTTAATACTAC
Found at i:43634937 original size:30 final size:30
Alignment explanation
Indices: 43634901--43634957 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
43634891 TTTTATACTA
*
43634901 ATAAATTTAGAAAAATTATTTAGAAAACCT
1 ATAAATTTAGAAAAATTATATAGAAAACCT
*
43634931 ATAAATTTAGAAAACTTATATAGAAAA
1 ATAAATTTAGAAAAATTATATAGAAAA
43634958 TAAAACACTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.56, C:0.05, G:0.07, T:0.32
Consensus pattern (30 bp):
ATAAATTTAGAAAAATTATATAGAAAACCT
Found at i:43634940 original size:17 final size:17
Alignment explanation
Indices: 43634918--43634950 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
43634908 TAGAAAAATT
43634918 ATTTAGAAAACCTATAA
1 ATTTAGAAAACCTATAA
*
43634935 ATTTAGAAAACTTATA
1 ATTTAGAAAACCTATA
43634951 TAGAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (17 bp):
ATTTAGAAAACCTATAA
Found at i:43637511 original size:23 final size:24
Alignment explanation
Indices: 43637485--43637535 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
43637475 TAATTTAAAT
43637485 ATTATCAA-TATTTAAAATTATT-A
1 ATTATCAATTATTT-AAATTATTCA
* *
43637508 ATTATTAATTATTTATATTATTCA
1 ATTATCAATTATTTAAATTATTCA
43637532 ATTA
1 ATTA
43637536 ATGTATTATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 14 0.58
24 10 0.42
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (24 bp):
ATTATCAATTATTTAAATTATTCA
Found at i:43637519 original size:14 final size:17
Alignment explanation
Indices: 43637500--43637535 Score: 51
Period size: 16 Copynumber: 2.3 Consensus size: 17
43637490 CAATATTTAA
43637500 AATTA-TTA-ATTATT-
1 AATTATTTATATTATTC
43637514 AATTATTTATATTATTC
1 AATTATTTATATTATTC
43637531 AATTA
1 AATTA
43637536 ATGTATTATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
14 5 0.26
15 3 0.16
16 6 0.32
17 5 0.26
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.56
Consensus pattern (17 bp):
AATTATTTATATTATTC
Found at i:43637935 original size:14 final size:15
Alignment explanation
Indices: 43637912--43637953 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 15
43637902 TCTAAACCCC
*
43637912 AAACCCCAAA-TCTT
1 AAACCCCAAACTCCT
*
43637926 AAACCTCAAACTCCT
1 AAACCCCAAACTCCT
*
43637941 AAACCCTAAACTC
1 AAACCCCAAACTC
43637954 AAAACACCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
14 9 0.39
15 14 0.61
ACGTcount: A:0.43, C:0.38, G:0.00, T:0.19
Consensus pattern (15 bp):
AAACCCCAAACTCCT
Found at i:43638571 original size:113 final size:113
Alignment explanation
Indices: 43638410--43638974 Score: 482
Period size: 113 Copynumber: 5.0 Consensus size: 113
43638400 TTCGGTTAAT
* * * *
43638410 ATATCTTGCGGCGCTTCTAGGAAAGCGCCGCTAATA--GTATACTTTAGCGGCGTTTT-TCAATA
1 ATATCTTGCGGCGCTT-AACGTAAGCGCCGCTAATACTGT-TA--TTAGCGGCGTTTTAT-TATA
*
43638472 AGCGCCACTAATCTA-A-TATACATCAATACC-AAACTCTGCGTTTTGGTGTGC
61 AGCGCCACTAAT-TATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGC
* * *
43638523 ATATCTTGCGGCGCTTAACGTTAAGCACCGCTAATACTGTTATGTAGCGGCGTTTTATTGTAAAC
1 ATATCTTGCGGCGCTTAACG-TAAGCGCCGCTAATACTGTTAT-TAGCGGCGTTTTATTATAAGC
* * *
43638588 GTCACTAATTATAGTATACATCAAGACCAAAACGCTGAGTTTTGGT-TAAG-
64 GCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGT--GC
* * * * **
43638638 AAATATAGCGGCGCTTTATCAG-AAGCGCCGCTAATA--GTATACTTTAGCGGCG-TTTCCTATA
1 ATATCTTGCGGCGC-TTAAC-GTAAGCGCCGCTAATACTGT-TA--TTAGCGGCGTTTTATTATA
* * * *
43638699 AGCGCCACTAATTCTAATATACCTCAATACC-AAACTCTGCGTTTTGGTGTGC
61 AGCGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGC
* *
43638751 ATATCTTGCGGCGCTTAACTGAAAGCGCCGCTAATACTGTTATTGAGCGGCGTTTTATTGTAAGC
1 ATATCTTGCGGCGCTTAAC-GTAAGCGCCGCTAATACTGTTATT-AGCGGCGTTTTATTATAAGC
*
43638816 GCCACTAATTATAGTATACATCGATACCAAAACGCTGCGTTTTGGT-TAAG-
64 GCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGT--GC
* * ** ** * * *
43638866 AT-TTTTGCAGCGCTTCCCACAATGCGCCGCTATTAC--TTACTTTAGCGGCGTTTTATCATAAT
1 ATATCTTGCGGCGCTTAACGTAA-GCGCCGCTAATACTGTTA--TTAGCGGCGTTTTATTATAAG
* * *
43638928 CGCCACTAATTATTGTATACATCAATACAAAAACGATGCGTTTTGGT
63 CGCCACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGT
43638975 CTTGAGATTC
Statistics
Matches: 370, Mismatches: 54, Indels: 56
0.77 0.11 0.12
Matches are distributed among these distances:
112 16 0.04
113 164 0.44
114 113 0.31
115 69 0.19
116 7 0.02
117 1 0.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (113 bp):
ATATCTTGCGGCGCTTAACGTAAGCGCCGCTAATACTGTTATTAGCGGCGTTTTATTATAAGCGC
CACTAATTATAGTATACATCAATACCAAAACGCTGCGTTTTGGTGTGC
Found at i:43638677 original size:228 final size:225
Alignment explanation
Indices: 43638432--43638974 Score: 736
Period size: 228 Copynumber: 2.4 Consensus size: 225
43638422 GCTTCTAGGA
43638432 AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCAATAAGCGCCACTAATCTAATATACATCA
1 AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTC-ATAAGCGCCACTAATCTAATATACATCA
*
43638497 ATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAAC-GTTAAGCACCGCTAATACT
65 ATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACTG-AAAGCACCGCTAATACT
*
43638561 GTTA-TGTAGCGGCGTTTTATTGTAAACGTCACTAATTATAGTATACATCAAGACCAAAACGCTG
129 GTTATTG-AGCGGCGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTG
* * *
43638625 AGTTTTGGTTAAGAAATATAGCGGCGCTTTATCAG
193 AGTTTTGGTTAAG-AATATAGCAGCGC-TTACCAC
* *
43638660 AAGCGCCGCTAATAGTATACTTTAGCGGCG-TTTCCTATAAGCGCCACTAATTCTAATATACCTC
1 AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTC-ATAAGCGCCACTAA-TCTAATATACATC
*
43638724 AATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACTGAAAGCGCCGCTAATACT
64 AATACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACTGAAAGCACCGCTAATACT
* * * *
43638789 GTTATTGAGCGGCGTTTTATTGTAAGCGCCACTAATTATAGTATACATCGATACCAAAACGCTGC
129 GTTATTGAGCGGCGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTGA
* * * *
43638854 GTTTTGGTTAAGATTTTTGCAGCGCTTCCCAC
194 GTTTTGGTTAAGAATATAGCAGCGCTTACCAC
* * * *
43638886 AATGCGCCGCTATTACT-TACTTTAGCGGCGTTTTATCATAATCGCCACTAAT-TATTGTATACA
1 AA-GCGCCGCTAATAGTATACTTTAGCGGCGTTTT-TCATAAGCGCCACTAATCTA--ATATACA
* **
43638949 TCAATACAAAAACGATGCGTTTTGGT
62 TCAATAC-CAAACTCTGCGTTTTGGT
43638975 CTTGAGATTC
Statistics
Matches: 280, Mismatches: 26, Indels: 18
0.86 0.08 0.06
Matches are distributed among these distances:
225 2 0.01
226 20 0.07
227 67 0.24
228 188 0.67
229 3 0.01
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.32
Consensus pattern (225 bp):
AAGCGCCGCTAATAGTATACTTTAGCGGCGTTTTTCATAAGCGCCACTAATCTAATATACATCAA
TACCAAACTCTGCGTTTTGGTGTGCATATCTTGCGGCGCTTAACTGAAAGCACCGCTAATACTGT
TATTGAGCGGCGTTTTATTGTAAACGCCACTAATTATAGTATACATCAAGACCAAAACGCTGAGT
TTTGGTTAAGAATATAGCAGCGCTTACCAC
Found at i:43646081 original size:2 final size:2
Alignment explanation
Indices: 43646074--43646101 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43646064 TATTTATCTG
43646074 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
43646102 TCAGAATACC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43649159 original size:17 final size:18
Alignment explanation
Indices: 43649093--43649162 Score: 60
Period size: 17 Copynumber: 4.0 Consensus size: 18
43649083 TTACGACTTG
*
43649093 AATATGAAATG-AAATTGA
1 AATA-GAAATGAAAATGGA
43649111 AATCAG-AATGAAAAT-GA
1 AAT-AGAAATGAAAATGGA
*
43649128 GAAT-GATATGAAAATGGA
1 -AATAGAAATGAAAATGGA
43649146 AATAGAAATG-AAATGGA
1 AATAGAAATGAAAATGGA
43649163 TGTTACAATC
Statistics
Matches: 44, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
16 1 0.02
17 24 0.55
18 18 0.41
19 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.21, T:0.21
Consensus pattern (18 bp):
AATAGAAATGAAAATGGA
Found at i:43650838 original size:37 final size:37
Alignment explanation
Indices: 43650788--43650863 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
43650778 AACTGCAACA
43650788 TATAAAAAGATTACATCTTTTGATTTTGTTTTTATCT
1 TATAAAAAGATTACATCTTTTGATTTTGTTTTTATCT
43650825 TATAAAAAGATTACATCTTTTGATTTTGTTTTTATCT
1 TATAAAAAGATTACATCTTTTGATTTTGTTTTTATCT
43650862 TA
1 TA
43650864 CATCTAGTGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.08, T:0.54
Consensus pattern (37 bp):
TATAAAAAGATTACATCTTTTGATTTTGTTTTTATCT
Found at i:43651877 original size:55 final size:55
Alignment explanation
Indices: 43651714--43651878 Score: 267
Period size: 55 Copynumber: 3.0 Consensus size: 55
43651704 TCTTCTTAGT
* * * *
43651714 TGTTGGAATACTGCTTATTTTGAATTGATTTTTTATATGTTTAAATCGATTGTCA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
* *
43651769 TGTTGGAATACTGATTCTTTTGAATCGATTATTTATATGTTTAATTCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
*
43651824 TGTTGGAATGCTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
1 TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
43651879 CATAACACGT
Statistics
Matches: 101, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 101 1.00
ACGTcount: A:0.25, C:0.08, G:0.17, T:0.50
Consensus pattern (55 bp):
TGTTGGAATACTGCTTCTTTTGAATCGATTATTTATATGTTTAAATCGATTGTTA
Found at i:43655591 original size:26 final size:26
Alignment explanation
Indices: 43655537--43655597 Score: 70
Period size: 26 Copynumber: 2.3 Consensus size: 26
43655527 AGCCATATCA
*
43655537 GGAAGCTCACAAAGAGCCTTTAATCG
1 GGAAGCTCACAAAGAGCCTATAATCG
* *
43655563 GGAATCTCACGAAGAGCCATATAAT-G
1 GGAAGCTCACAAAGAGCC-TATAATCG
*
43655589 GGACGCTCA
1 GGAAGCTCA
43655598 TAAGAGTTGT
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
26 24 0.83
27 5 0.17
ACGTcount: A:0.34, C:0.23, G:0.25, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACAAAGAGCCTATAATCG
Found at i:43657625 original size:48 final size:48
Alignment explanation
Indices: 43657569--43657712 Score: 252
Period size: 48 Copynumber: 3.0 Consensus size: 48
43657559 ATAGAATAGC
* *
43657569 AGTACACTTAAATACTTCCCAAGATTAGTCACAAAGGAATAACCCAGT
1 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
* *
43657617 AGTACACTTAAATACTTCCTAAGATTACTCACAGAGGAATAACCCAAT
1 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
43657665 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
1 AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
43657713 TTCATACTAA
Statistics
Matches: 90, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 90 1.00
ACGTcount: A:0.42, C:0.23, G:0.12, T:0.24
Consensus pattern (48 bp):
AGTACACTTAAATACTTCCCAAGATTAGTCACAGAGGAATAACCCAAT
Found at i:43664425 original size:13 final size:13
Alignment explanation
Indices: 43664409--43664433 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
43664399 TTTTTTTAAA
43664409 TTTTAATTAATAT
1 TTTTAATTAATAT
43664422 TTTTAATTAATA
1 TTTTAATTAATA
43664434 AACATATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (13 bp):
TTTTAATTAATAT
Found at i:43665858 original size:49 final size:49
Alignment explanation
Indices: 43665751--43665862 Score: 143
Period size: 49 Copynumber: 2.3 Consensus size: 49
43665741 TACACGGTGC
* * ** **
43665751 TTATAAGGTCACAGGTTGAAGTATAACTAGGGCTCTTAGTTGACGGTGG
1 TTATACGGTCACGGGTTGAAGTATAACTAGGGAGCTTAGTTGACAATGG
* *
43665800 TTATACGGTCACGGGTTGGAGTATAACTCGGGAGCTTAGTTGACAATGG
1 TTATACGGTCACGGGTTGAAGTATAACTAGGGAGCTTAGTTGACAATGG
*
43665849 TTATGCGGTCACGG
1 TTATACGGTCACGG
43665863 ATTTAAGTTT
Statistics
Matches: 54, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 54 1.00
ACGTcount: A:0.24, C:0.14, G:0.32, T:0.29
Consensus pattern (49 bp):
TTATACGGTCACGGGTTGAAGTATAACTAGGGAGCTTAGTTGACAATGG
Found at i:43675471 original size:26 final size:25
Alignment explanation
Indices: 43675436--43675508 Score: 85
Period size: 26 Copynumber: 2.9 Consensus size: 25
43675426 GCACACCGCA
* *
43675436 GCTC-TTATGAGCGTCCCATTATATG
1 GCTCTTTATGAGCTTCCCATTA-AAG
43675461 GCTCTTTATGAGCTTCCCAATTAAAG
1 GCTCTTTATGAGCTTCCC-ATTAAAG
* *
43675487 GCTCTTTGTGAGCTTCCTATTA
1 GCTCTTTATGAGCTTCCCATTA
43675509 GTGCTCGCTT
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 8 0.19
26 30 0.71
27 4 0.10
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.38
Consensus pattern (25 bp):
GCTCTTTATGAGCTTCCCATTAAAG
Found at i:43679290 original size:18 final size:18
Alignment explanation
Indices: 43679267--43679302 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
43679257 TGCACCCTTA
43679267 CACTTATCA-TATTCATAT
1 CACTTATCACT-TTCATAT
43679285 CACTTATCACTTTCATAT
1 CACTTATCACTTTCATAT
43679303 AATGGACCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 16 0.94
19 1 0.06
ACGTcount: A:0.31, C:0.25, G:0.00, T:0.44
Consensus pattern (18 bp):
CACTTATCACTTTCATAT
Found at i:43680554 original size:14 final size:14
Alignment explanation
Indices: 43680537--43680583 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
43680527 TTCTTGAGCA
43680537 CTTAATCTTAATTT
1 CTTAATCTTAATTT
* *
43680551 CTTAACCTAAATTT
1 CTTAATCTTAATTT
* *
43680565 TTTAATATTAATTT
1 CTTAATCTTAATTT
43680579 -TTAAT
1 CTTAAT
43680584 ATTTTATTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
13 5 0.19
14 22 0.81
ACGTcount: A:0.34, C:0.11, G:0.00, T:0.55
Consensus pattern (14 bp):
CTTAATCTTAATTT
Found at i:43689576 original size:9 final size:9
Alignment explanation
Indices: 43689562--43689586 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
43689552 AACTAATAAG
43689562 TTGAGAGAA
1 TTGAGAGAA
43689571 TTGAGAGAA
1 TTGAGAGAA
43689580 TTGAGAG
1 TTGAGAG
43689587 GATTAGGAGA
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:0.40, C:0.00, G:0.36, T:0.24
Consensus pattern (9 bp):
TTGAGAGAA
Found at i:43689940 original size:24 final size:24
Alignment explanation
Indices: 43689903--43689960 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
43689893 CAAGACCCAC
*
43689903 AAAATTATAAA-TTTAGGGTGTTTGA
1 AAAATTA-AAATTTTA-AGTGTTTGA
*
43689928 TAAATTAAAATTTTAAGTGTTTGA
1 AAAATTAAAATTTTAAGTGTTTGA
43689952 AAAATTAAA
1 AAAATTAAA
43689961 GTTATTGTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
24 19 0.66
25 10 0.34
ACGTcount: A:0.47, C:0.00, G:0.14, T:0.40
Consensus pattern (24 bp):
AAAATTAAAATTTTAAGTGTTTGA
Found at i:43694328 original size:20 final size:20
Alignment explanation
Indices: 43694300--43694344 Score: 72
Period size: 20 Copynumber: 2.2 Consensus size: 20
43694290 AAGCAACTCC
*
43694300 ACTTCACTCTCACATAGATG
1 ACTTAACTCTCACATAGATG
*
43694320 ACTTAACTCTCACATAGGTG
1 ACTTAACTCTCACATAGATG
43694340 ACTTA
1 ACTTA
43694345 TGTTGTTCGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (20 bp):
ACTTAACTCTCACATAGATG
Found at i:43697129 original size:87 final size:86
Alignment explanation
Indices: 43696830--43697238 Score: 406
Period size: 84 Copynumber: 4.8 Consensus size: 86
43696820 TCTTTGTTTG
* * * * *
43696830 GAAACAAAACAATATCGAATAAAATCTTATTAAACGG-CAGAAATAAATCCCAAAACAGATTTTA
1 GAAACAAAATAAAATCAAATAAAATCTTATTAAACGGTGAG-AATAAATCCCGAAACAGATTTTA
* *
43696894 TTTAATTCAATTC-AAATTTT-
65 TTTAATTTAATTCTCAATTTTA
* * *
43696914 GAAACAAAATAAAATCAAATAAAATCTTATTAAACGATGGGAATAAATCTCGAAACAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTATTAAACGGTGAGAATAAATCCCGAAACAGATTTTAT
*
43696979 TTAATTCT-ATTCT-AA-TTTG
66 TTAATT-TAATTCTCAATTTTA
* * * *
43696998 GAAACAAAATAAAATCAAATAAAATTTTGTTAAACGGTGGGAATAAAACCCGAAACAGATTTTAT
1 GAAACAAAATAAAATCAAATAAAATCTTATTAAACGGTGAGAATAAATCCCGAAACAGATTTTAT
**
43697063 TTAATTTAATTTCTCGTTTTTA
66 TTAATTTAA-TTCTCAATTTTA
* * *
43697085 GCAACAAAATCAAATCAAAT-AAATCTTTATTAAACGGTGAGAATAAATCCCGAAACATATTTTA
1 GAAACAAAATAAAATCAAATAAAATC-TTATTAAACGGTGAGAATAAATCCCGAAACAGATTTTA
* *
43697149 TTTTATTTAATTTCTCATTTTTA
65 TTTAATTTAA-TTCTCAATTTTA
* * ** * * * *
43697172 GAAATAAAACAAAATTTGGAATAAAATC--ATTGAACGGCGGGAATAAATCCTGAAAC-GAATTT
1 GAAACAAAATAAAA--TCAAATAAAATCTTATTAAACGGTGAGAATAAATCCCGAAACAG-ATTT
43697234 TATTT
63 TATTT
43697239 TACTCGTTTT
Statistics
Matches: 275, Mismatches: 37, Indels: 23
0.82 0.11 0.07
Matches are distributed among these distances:
83 4 0.01
84 134 0.49
85 5 0.02
86 4 0.01
87 119 0.43
89 4 0.01
90 5 0.02
ACGTcount: A:0.45, C:0.12, G:0.10, T:0.33
Consensus pattern (86 bp):
GAAACAAAATAAAATCAAATAAAATCTTATTAAACGGTGAGAATAAATCCCGAAACAGATTTTAT
TTAATTTAATTCTCAATTTTA
Found at i:43697239 original size:87 final size:87
Alignment explanation
Indices: 43697030--43697489 Score: 335
Period size: 79 Copynumber: 5.5 Consensus size: 87
43697020 AATTTTGTTA
* * * * *
43697030 AACGGTGGGAATAAAACCCGAAAC-AGATTTTATTTAATTTAATTTCTCGTTTTTAGCAACAAAA
1 AACGGCGGGAATAAATCCCGAAACGAGATTTTATTT-ATTTAATTTCTCGTTTTTGGAAATAAAA
** *
43697094 TC-AAA--TCAAAT-AAATCTTTATTA
65 -CAAAATTTGGAATAAAATC---ATTG
* * * * *
43697117 AACGGTGAGAATAAATCCCGAAAC-ATATTTTATTTTATTTAATTTCTCATTTTTAGAAATAAAA
1 AACGGCGGGAATAAATCCCGAAACGAGATTTTA-TTTATTTAATTTCTCGTTTTTGGAAATAAAA
43697181 CAAAATTTGGAATAAAATCATTG
65 CAAAATTTGGAATAAAATCATTG
* *
43697204 AACGGCGGGAATAAATCCTGAAACGA-ATTTTA--T-TTT-A---CTCGTTTTTGGAAATAAAAT
1 AACGGCGGGAATAAATCCCGAAACGAGATTTTATTTATTTAATTTCTCGTTTTTGGAAATAAAAC
*
43697261 AAAATTTGGAATAAAATCGTTG
66 AAAATTTGGAATAAAATCATTG
* * * *
43697283 AACGGCGAGAATCAATCCCGAAACG-GACTTTA--T-TTT-A---CTCGTTTTTGGAAATACAAC
1 AACGGCGGGAATAAATCCCGAAACGAGATTTTATTTATTTAATTTCTCGTTTTTGGAAATAAAAC
* * * *
43697340 CAAATTTGGAATAGAATCGTTA
66 AAAATTTGGAATAAAATCATTG
* * **
43697362 AACGGCAGGG-ATCAATCCCGAAA-TAGATTTTATTTACCTTTAATTTC-C-CATTTGGAAATAA
1 AACGGC-GGGAATAAATCCCGAAACGAGATTTTATTTA--TTTAATTTCTCGTTTTTGGAAATAA
*
43697423 AATCAAAATAGTGGAATAAAATCCATTG
63 AA-CAAAAT-TTGGAATAAAAT-CATTG
* * *
43697451 AACGACGGGAATAAATCTCGAAAC-TGATTTTATTTATTT
1 AACGGCGGGAATAAATCCCGAAACGAGATTTTATTTATTT
43697490 TTAATTTTGG
Statistics
Matches: 310, Mismatches: 40, Indels: 46
0.78 0.10 0.12
Matches are distributed among these distances:
79 132 0.43
80 2 0.01
81 1 0.00
82 1 0.00
83 3 0.01
84 4 0.01
85 1 0.00
86 13 0.04
87 96 0.31
88 18 0.06
89 34 0.11
90 5 0.02
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.33
Consensus pattern (87 bp):
AACGGCGGGAATAAATCCCGAAACGAGATTTTATTTATTTAATTTCTCGTTTTTGGAAATAAAAC
AAAATTTGGAATAAAATCATTG
Found at i:43697653 original size:160 final size:161
Alignment explanation
Indices: 43697348--43697653 Score: 354
Period size: 160 Copynumber: 1.9 Consensus size: 161
43697338 ACCAAATTTG
* ** *
43697348 GAATAGAATCGTTAAACGGCAGGGATCAATCCCGAAATAGATTTTATTTACCTTTAATTTCCCAT
1 GAATAAAATCGTTAAACGGCAGGGAAAAATCCAGAAATAGATTTTATTTACCTTTAATTT-CCAT
* * * * **
43697413 TTGGAAATAAAATCAAAATAGTGGAATAAAATCCATTGAACGACGGGAATAAATCTCGAAACTGA
65 TTGGAAATAAAATCAAAATAGAGGAAAAAAATCCATTGAACGACGGGAATAAATCCCAAAACAAA
*
43697478 TTTTATTTATTTTTAATTTTGGAAACAAAATC
130 TTTCATTTATTTTTAATTTTGGAAACAAAATC
* **
43697510 GAATAAAATCTGTTCAACGGC-GGGAAAAATCCAGAAATAGATTTT-TTTAGTTTTAATATT-CA
1 GAATAAAATC-GTTAAACGGCAGGGAAAAATCCAGAAATAGATTTTATTTACCTTTAAT-TTCCA
** * *
43697572 TTTGGAAATAAAA-CAAAATAGAGGAAAAATAAATCTGTTGAACGGCGGGAA-AATTCCCAAAAC
64 TTTGGAAATAAAATCAAAATAGAGG-AAAA-AAATCCATTGAACGACGGGAATAAATCCCAAAAC
43697635 AAATTTCA-TTACTTTTTAA
127 AAATTTCATTTA-TTTTTAA
43697654 AAGAAAATTA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
159 13 0.11
160 39 0.32
161 28 0.23
162 32 0.26
163 9 0.07
ACGTcount: A:0.41, C:0.13, G:0.15, T:0.31
Consensus pattern (161 bp):
GAATAAAATCGTTAAACGGCAGGGAAAAATCCAGAAATAGATTTTATTTACCTTTAATTTCCATT
TGGAAATAAAATCAAAATAGAGGAAAAAAATCCATTGAACGACGGGAATAAATCCCAAAACAAAT
TTCATTTATTTTTAATTTTGGAAACAAAATC
Found at i:43708673 original size:8 final size:8
Alignment explanation
Indices: 43708660--43708688 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
43708650 CACTAGAGAC
43708660 CAGTGTTA
1 CAGTGTTA
43708668 CAGTGTTA
1 CAGTGTTA
43708676 CAGTGTTA
1 CAGTGTTA
43708684 CAGTG
1 CAGTG
43708689 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:43708802 original size:23 final size:23
Alignment explanation
Indices: 43708775--43708850 Score: 143
Period size: 23 Copynumber: 3.3 Consensus size: 23
43708765 AGTGTTATTG
43708775 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
*
43708798 TTCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
43708821 ATCAGTGGTAGCTTCGGCTACAT
1 ATCAGTGGTAGCTTCGGCTACAT
43708844 ATCAGTG
1 ATCAGTG
43708851 TGGCACTTAT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.26, T:0.32
Consensus pattern (23 bp):
ATCAGTGGTAGCTTCGGCTACAT
Found at i:43712349 original size:152 final size:151
Alignment explanation
Indices: 43712047--43712392 Score: 539
Period size: 152 Copynumber: 2.3 Consensus size: 151
43712037 TAAATGATAC
* * *
43712047 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCATCCAATACACGTAGT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTTTCATCCAATACACGTAGT
*
43712112 AGCCTAACAAAGTACTACACACATGATCAAAGCTATCCGGTACACATAGTAGCCTGCACATAGTA
66 AGCCTAACAAAGTACTACACACATGATCAAAGCTATCCAGTACACATAGTAGCCTGCACATAGTA
*
43712177 TTACACATGCGACCTATCATT
131 CTACACATGCGACCTATCATT
* *
43712198 CCGGTACACATAGTAGCCTACACATAGTTCTACACACGTGACCATTTTCATCCGATACACGTAGT
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTTTCATCCAATACACGTAGT
* * * * * *
43712263 AGCCTGCACATAGTACTACACACGTGATCGAAGCTATTCAGTACGCATAGTAGCCTGCACATAGT
66 AGCCT-AACAAAGTACTACACACATGATCAAAGCTATCCAGTACACATAGTAGCCTGCACATAGT
43712328 ACTACACATGCGACCTATCATT
130 ACTACACATGCGACCTATCATT
** *
43712350 TTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACC
1 CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACC
43712393 TAGCAACTTC
Statistics
Matches: 177, Mismatches: 17, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
151 65 0.37
152 112 0.63
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (151 bp):
CCGGTACACATAGTAGCCTACACATAGTACTACACACGTGACCATTTTCATCCAATACACGTAGT
AGCCTAACAAAGTACTACACACATGATCAAAGCTATCCAGTACACATAGTAGCCTGCACATAGTA
CTACACATGCGACCTATCATT
Found at i:43712358 original size:101 final size:100
Alignment explanation
Indices: 43712047--43712397 Score: 323
Period size: 101 Copynumber: 3.5 Consensus size: 100
43712037 TAAATGATAC
* * * ** * *
43712047 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGTGACCATTTTCA-TCCAATACACGTAG
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCA--AGCATTCCAGTACACATAG
* ** * * *
43712111 TAGCCTA-ACAAAGTACTACACACATGATCAAAGCTAT
64 TAGCCTACACATAGTACTACACACGCGACCATATC-AT
* * * * * * *
43712148 CCGGTACACATAGTAGCCTGCACATAGTATTACACATGCGACCTATCATTCCGGTACACATAGTA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTACACATAGTA
* * *
43712213 GCCTACACATAGTTCTACACACGTGACCATTTTCAT
66 GCCTACACATAGTACTACACACGCGACCA-TATCAT
* * *
43712249 CCGATACACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATT-CAGTACGCATAG
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGA-CCAAGC-ATTCCAGTACACATAG
* *
43712313 TAGCCTGCACATAGTACTACACATGCGACC-TATCATT
64 TAGCCTACACATAGTACTACACACGCGACCATATCA-T
** * *
43712350 TTGGTACACGTAGTAGCCTACACATAGTACTACACACGTGACCTAGCA
1 CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCA
43712398 ACTTCACTCG
Statistics
Matches: 208, Mismatches: 36, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
99 4 0.02
100 26 0.12
101 135 0.65
102 40 0.19
103 3 0.01
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.25
Consensus pattern (100 bp):
CCGGTACACGTAGTAGCCTGCACATAGTACTACACACGTGACCAAGCATTCCAGTACACATAGTA
GCCTACACATAGTACTACACACGCGACCATATCAT
Found at i:43714420 original size:26 final size:27
Alignment explanation
Indices: 43714376--43714439 Score: 94
Period size: 26 Copynumber: 2.3 Consensus size: 27
43714366 AGTCTTATGT
*
43714376 TTAACTTTTTTTCATATATAGTGTAGCGA
1 TTAAC-TTTTTTCA-ATATAGTGTAGCAA
43714405 TTAACTTTTTTC-ATATAGTGTAGCAA
1 TTAACTTTTTTCAATATAGTGTAGCAA
43714431 TTAACTTTT
1 TTAACTTTT
43714440 AGGCCTTTGA
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
26 22 0.65
28 7 0.21
29 5 0.15
ACGTcount: A:0.28, C:0.11, G:0.11, T:0.50
Consensus pattern (27 bp):
TTAACTTTTTTCAATATAGTGTAGCAA
Found at i:43720360 original size:54 final size:54
Alignment explanation
Indices: 43720278--43720385 Score: 216
Period size: 54 Copynumber: 2.0 Consensus size: 54
43720268 TCTCTCTTGT
43720278 GGAGTTGAAGGACACATTTCCTTTGAGAGTGAAATACCATGTCTCATAGGTAGG
1 GGAGTTGAAGGACACATTTCCTTTGAGAGTGAAATACCATGTCTCATAGGTAGG
43720332 GGAGTTGAAGGACACATTTCCTTTGAGAGTGAAATACCATGTCTCATAGGTAGG
1 GGAGTTGAAGGACACATTTCCTTTGAGAGTGAAATACCATGTCTCATAGGTAGG
43720386 AATCCTCTCT
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.30, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
GGAGTTGAAGGACACATTTCCTTTGAGAGTGAAATACCATGTCTCATAGGTAGG
Found at i:43734816 original size:26 final size:27
Alignment explanation
Indices: 43734771--43734822 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
43734761 AAACCCCAAA
*
43734771 TTTTCTTTCTTTCCTTCCCT-TTTTCT
1 TTTTCTTTCTTTCCTCCCCTGTTTTCT
43734797 TTTTCTTTCCTTT-CTCCCCTGTTTTC
1 TTTTCTTT-CTTTCCTCCCCTGTTTTC
43734823 GTTTGCCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 14 0.61
27 9 0.39
ACGTcount: A:0.00, C:0.33, G:0.02, T:0.65
Consensus pattern (27 bp):
TTTTCTTTCTTTCCTCCCCTGTTTTCT
Found at i:43745957 original size:37 final size:37
Alignment explanation
Indices: 43745907--43746026 Score: 231
Period size: 37 Copynumber: 3.2 Consensus size: 37
43745897 GTGCCCATAA
43745907 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGAT
1 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGAT
43745944 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGAT
1 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGAT
*
43745981 AAGTGTAGCCACTTATCACTTTGTCTCTTGATCAGAT
1 AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGAT
43746018 AAGTGTAGC
1 AAGTGTAGC
43746027 TAAAGCTATT
Statistics
Matches: 82, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
37 82 1.00
ACGTcount: A:0.25, C:0.19, G:0.17, T:0.38
Consensus pattern (37 bp):
AAGTGTAGCCACTTATCACTTTGTTTCTTGATCAGAT
Found at i:43746044 original size:46 final size:46
Alignment explanation
Indices: 43745990--43746146 Score: 215
Period size: 46 Copynumber: 3.3 Consensus size: 46
43745980 TAAGTGTAGC
**
43745990 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCTAAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
* *
43746036 TACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTAT
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
*
43746082 CACTTATCACTTTTCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTAT
1 CACTTATCAC---T---TTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
43746134 CACTTATCACTTT
1 CACTTATCACTTT
43746147 CCACTTTCCA
Statistics
Matches: 98, Mismatches: 7, Indels: 12
0.84 0.06 0.10
Matches are distributed among these distances:
46 53 0.54
49 2 0.02
52 43 0.44
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (46 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCCGAAGCTAT
Found at i:43746103 original size:52 final size:53
Alignment explanation
Indices: 43746042--43746213 Score: 247
Period size: 59 Copynumber: 3.1 Consensus size: 53
43746032 CTATTACTTA
* *
43746042 TCACTTTGTCTCTTGATCAGATAAGTATAGCCGAAGCTATCACTTATCAC-TTT
1 TCAC-TTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTT
43746095 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCCACTT
1 TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCAC-TT----TT
*
43746153 TCCACTTGTCACTTGATCAGATAAGTGTAGCTGAAGCTATCACTTATCACTTTT
1 T-CACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTT
43746207 TCACTTG
1 TCACTTG
43746214 ATCAGAAGTA
Statistics
Matches: 109, Mismatches: 3, Indels: 14
0.87 0.02 0.11
Matches are distributed among these distances:
52 43 0.39
53 10 0.09
54 4 0.04
58 5 0.05
59 47 0.43
ACGTcount: A:0.26, C:0.24, G:0.14, T:0.37
Consensus pattern (53 bp):
TCACTTGTCACTTGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTT
Found at i:43753276 original size:63 final size:63
Alignment explanation
Indices: 43753150--43753282 Score: 158
Period size: 63 Copynumber: 2.1 Consensus size: 63
43753140 GTGTCCCTAG
* * * * * * * *
43753150 CCATGTGGTTTTATTCCACAAACAGTGAGTTAGACGGCCAAGACACACGCCCGTTTGCTTTGC
1 CCATGTGGTCTTATACCACAAACAATGAGTTACACGGCCAAGACACACGCCCATGTCCATTGC
* **
43753213 CCATGTGGTCTTGTACCACAAACAATGAGTTACACGGCCCCGACACACGCCCATGTCCATTGC
1 CCATGTGGTCTTATACCACAAACAATGAGTTACACGGCCAAGACACACGCCCATGTCCATTGC
*
43753276 CCGTGTG
1 CCATGTG
43753283 AACCCTGCAC
Statistics
Matches: 58, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (63 bp):
CCATGTGGTCTTATACCACAAACAATGAGTTACACGGCCAAGACACACGCCCATGTCCATTGC
Found at i:43760407 original size:21 final size:20
Alignment explanation
Indices: 43760383--43760429 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
43760373 AAGATAATGG
*
43760383 AATATATATAGA-ATAATAAAA
1 AATATATATA-ACAAAAT-AAA
*
43760404 AATATTTATAACAAAATAAA
1 AATATATATAACAAAATAAA
43760424 AATATA
1 AATATA
43760430 AAAAGGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (20 bp):
AATATATATAACAAAATAAA
Found at i:43760524 original size:2 final size:2
Alignment explanation
Indices: 43760511--43760546 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
43760501 AATGTGTATG
*
43760511 TA TA TT TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
43760547 CATTGGTAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:43760694 original size:3 final size:3
Alignment explanation
Indices: 43760681--43760748 Score: 127
Period size: 3 Copynumber: 22.7 Consensus size: 3
43760671 TTGTATGTAC
*
43760681 ATA AAA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
43760729 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
43760749 GAGGAGAAAA
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:43765555 original size:3 final size:3
Alignment explanation
Indices: 43765547--43765581 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
43765537 AACAAAAAGA
43765547 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CT
43765582 CTTTCTGTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
CTT
Found at i:43767773 original size:30 final size:29
Alignment explanation
Indices: 43767714--43767809 Score: 95
Period size: 30 Copynumber: 3.2 Consensus size: 29
43767704 TTATTTTTAA
* * *
43767714 AATTTTAAAATATTTTTACATACTATTTTT
1 AATTTTAAAATATTTTAAAATAAT-TTTTT
43767744 AATTTTAAAATATTTTAAAAATAATTTTTTT
1 AATTTTAAAATATTTT-AAAATAA-TTTTTT
***
43767775 AATTTTTTTA-ATTTTAAAATATATTTTTT
1 AATTTTAAAATATTTTAAAATA-ATTTTTT
43767804 AATTTT
1 AATTTT
43767810 TTTAATTTTA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
29 18 0.32
30 22 0.39
31 16 0.28
32 1 0.02
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (29 bp):
AATTTTAAAATATTTTAAAATAATTTTTT
Found at i:43767779 original size:9 final size:9
Alignment explanation
Indices: 43767765--43767818 Score: 63
Period size: 9 Copynumber: 5.8 Consensus size: 9
43767755 ATTTTAAAAA
43767765 TAATTTTTT
1 TAATTTTTT
43767774 TAATTTTTT
1 TAATTTTTT
**
43767783 TAATTTTAA
1 TAATTTTTT
*
43767792 AATATATTTTT
1 TA-AT-TTTTT
43767803 TAATTTTTT
1 TAATTTTTT
43767812 TAATTTT
1 TAATTTT
43767819 AAAATATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
9 29 0.78
10 4 0.11
11 4 0.11
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (9 bp):
TAATTTTTT
Found at i:43767783 original size:40 final size:39
Alignment explanation
Indices: 43767739--43767851 Score: 129
Period size: 40 Copynumber: 3.1 Consensus size: 39
43767729 TTACATACTA
43767739 TTTTTAATTTTAAAATATTTTAAAAATAATTTTTTTAATT
1 TTTTTAATTTTAAAATATTTT-AAAATAATTTTTTTAATT
43767779 TTTTTAATTTT-AAA-A---T---AT-A-TTTTTTAATT
1 TTTTTAATTTTAAAATATTTTAAAATAATTTTTTTAATT
*
43767808 TTTTTAATTTTAAAATATTTTTAAAATATTTTTTTTAATT
1 TTTTTAATTTTAAAATA-TTTTAAAATAATTTTTTTAATT
43767848 TTTT
1 TTTT
43767852 AAAAATTTTT
Statistics
Matches: 61, Mismatches: 1, Indels: 22
0.73 0.01 0.26
Matches are distributed among these distances:
29 21 0.34
30 4 0.07
31 3 0.05
35 2 0.03
38 3 0.05
39 3 0.05
40 25 0.41
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (39 bp):
TTTTTAATTTTAAAATATTTTAAAATAATTTTTTTAATT
Found at i:43767811 original size:30 final size:29
Alignment explanation
Indices: 43767755--43767829 Score: 118
Period size: 29 Copynumber: 2.6 Consensus size: 29
43767745 ATTTTAAAAT
43767755 ATTTTAAAA-ATAATTTTTTTAATTTTTTTA
1 ATTTTAAAATAT-A-TTTTTTAATTTTTTTA
43767785 ATTTTAAAATATATTTTTTAATTTTTTTA
1 ATTTTAAAATATATTTTTTAATTTTTTTA
43767814 ATTTTAAAATAT-TTTT
1 ATTTTAAAATATATTTT
43767830 AAAATATTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
28 4 0.09
29 28 0.64
30 10 0.23
31 2 0.05
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (29 bp):
ATTTTAAAATATATTTTTTAATTTTTTTA
Found at i:43767860 original size:10 final size:11
Alignment explanation
Indices: 43767815--43767867 Score: 65
Period size: 10 Copynumber: 4.9 Consensus size: 11
43767805 ATTTTTTTAA
43767815 TTTTAAAATAT
1 TTTTAAAATAT
43767826 TTTTAAAATATT
1 TTTTAAAATA-T
**
43767838 TTTTTTAAT-T
1 TTTTAAAATAT
43767848 TTTTAAAA-AT
1 TTTTAAAATAT
43767858 TTTTAAAATA
1 TTTTAAAATA
43767868 AAAATGGGCC
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
10 16 0.46
11 11 0.31
12 8 0.23
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:43767860 original size:32 final size:31
Alignment explanation
Indices: 43767777--43767867 Score: 109
Period size: 29 Copynumber: 3.0 Consensus size: 31
43767767 ATTTTTTTAA
* *
43767777 TTTTTTTAATTTTAAAATATATTTT---TTAA
1 TTTTTTTAATTTTAAAATAT-TTTTAAAATAT
43767806 TTTTTTTAATTTTAAAATATTTTTAAAATAT
1 TTTTTTTAATTTTAAAATATTTTTAAAATAT
43767837 TTTTTTTAATTTTTTAAAA-ATTTTTAAAATA
1 TTTTTTTAA--TTTTAAAATATTTTTAAAATA
43767868 AAAATGGGCC
Statistics
Matches: 55, Mismatches: 2, Indels: 7
0.86 0.03 0.11
Matches are distributed among these distances:
28 4 0.07
29 20 0.36
31 11 0.20
32 12 0.22
33 8 0.15
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAT
Found at i:43768344 original size:14 final size:14
Alignment explanation
Indices: 43768325--43768353 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43768315 TCATTCGGTA
43768325 TTCTTAATTAGGTG
1 TTCTTAATTAGGTG
43768339 TTCTTAATTAGGTG
1 TTCTTAATTAGGTG
43768353 T
1 T
43768354 ATTTATCTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.07, G:0.21, T:0.52
Consensus pattern (14 bp):
TTCTTAATTAGGTG
Found at i:43768704 original size:19 final size:19
Alignment explanation
Indices: 43768680--43768726 Score: 58
Period size: 19 Copynumber: 2.5 Consensus size: 19
43768670 GTCCTACTTA
*
43768680 TAAAAATTATAAAAATATT
1 TAAAAAGTATAAAAATATT
* * *
43768699 TAAAAAGTCTTAAAATTTT
1 TAAAAAGTATAAAAATATT
43768718 TAAAAAGTA
1 TAAAAAGTA
43768727 AATATAAATT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.36
Consensus pattern (19 bp):
TAAAAAGTATAAAAATATT
Found at i:43797527 original size:20 final size:20
Alignment explanation
Indices: 43797475--43797534 Score: 88
Period size: 20 Copynumber: 3.0 Consensus size: 20
43797465 GGGGCACCAC
*
43797475 AGTGCAATCAGGAGCAC-GAG
1 AGTGCAATCAGGGGCACTG-G
43797495 AGTGCAATCAGGGGCACTGG
1 AGTGCAATCAGGGGCACTGG
43797515 AGTGCAATCAGGGGCA-TGG
1 AGTGCAATCAGGGGCACTGG
43797534 A
1 A
43797535 TGTACAAACA
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
19 4 0.11
20 33 0.87
21 1 0.03
ACGTcount: A:0.30, C:0.18, G:0.38, T:0.13
Consensus pattern (20 bp):
AGTGCAATCAGGGGCACTGG
Found at i:43797620 original size:40 final size:40
Alignment explanation
Indices: 43797523--43797621 Score: 110
Period size: 40 Copynumber: 2.5 Consensus size: 40
43797513 GGAGTGCAAT
* * *
43797523 CAGGGGCATGGATGTACAAACAAGGACACCGAAGTGTTTA
1 CAGGGGCATCGATGTGCAAACAAGGACACCAAAGTGTTTA
** *
43797563 CAAAGGCA-CAACTGTGCAAACAAGGACACCAAAGTGTTTA
1 CAGGGGCATCGA-TGTGCAAACAAGGACACCAAAGTGTTTA
* *
43797603 TAGGGGCATCGAGGTGCAA
1 CAGGGGCATCGATGTGCAA
43797622 TGAAATCACT
Statistics
Matches: 46, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
39 1 0.02
40 43 0.93
41 2 0.04
ACGTcount: A:0.36, C:0.19, G:0.28, T:0.16
Consensus pattern (40 bp):
CAGGGGCATCGATGTGCAAACAAGGACACCAAAGTGTTTA
Found at i:43806133 original size:69 final size:69
Alignment explanation
Indices: 43806015--43806219 Score: 313
Period size: 69 Copynumber: 3.0 Consensus size: 69
43806005 CTCAGAATCG
* * * * *
43806015 AGAGTCCGCCAAGACAATAAACATAGAG-TTACATTGTGTAAGACCATAGCTTGGCTATGGCAAC
1 AGAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAAC
43806079 ATAT
66 ATAT
*
43806083 AGAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGAAAC
1 AGAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAAC
43806148 ATAT
66 ATAT
* * * *
43806152 GGAGTTCACCAGGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATTGCAAC
1 AGAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAAC
43806217 ATA
66 ATA
43806220 AGGAGTCTGC
Statistics
Matches: 125, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
68 24 0.19
69 101 0.81
ACGTcount: A:0.36, C:0.18, G:0.22, T:0.24
Consensus pattern (69 bp):
AGAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAAC
ATAT
Found at i:43806233 original size:69 final size:69
Alignment explanation
Indices: 43806016--43806245 Score: 304
Period size: 69 Copynumber: 3.3 Consensus size: 69
43806006 TCAGAATCGA
* * * *
43806016 GAGTCCGCCAAGACAATAAACATAGAG-TTACATTGTGTAAGACCATAGCTTGGCTATGGCAACA
1 GAGTTCGCCAAGACAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAACA
43806080 TATA-
66 TA-AG
* *
43806084 GAGTTCGCCAAGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGAAACA
1 GAGTTCGCCAAGACAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAACA
*
43806149 TATG
66 TAAG
* * * *
43806153 GAGTTCACCAGGATAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATTGCAACA
1 GAGTTCGCCAAGACAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAACA
43806218 TAAG
66 TAAG
* *
43806222 GAG-TCTGCCAGGACAACAAACATG
1 GAGTTC-GCCAAGACAATAAACATG
43806246 AGGCTACATT
Statistics
Matches: 144, Mismatches: 15, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
68 25 0.17
69 119 0.83
ACGTcount: A:0.36, C:0.18, G:0.23, T:0.23
Consensus pattern (69 bp):
GAGTTCGCCAAGACAATAAACATGGGGATTACATTGTGTAAGACCATAGCTCGGCTATGGCAACA
TAAG
Found at i:43809840 original size:25 final size:25
Alignment explanation
Indices: 43809812--43809869 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
43809802 TGATGGAGTT
* *
43809812 ACACGGCCTGTCACACGGGAGCGTG
1 ACACGGCCTGGCACACGAGAGCGTG
* * *
43809837 ACACGGCATGGCACACGAGCGTGTG
1 ACACGGCCTGGCACACGAGAGCGTG
43809862 ACACGGCC
1 ACACGGCC
43809870 GTGTGACTTT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.22, C:0.33, G:0.34, T:0.10
Consensus pattern (25 bp):
ACACGGCCTGGCACACGAGAGCGTG
Found at i:43814812 original size:49 final size:49
Alignment explanation
Indices: 43814731--43814824 Score: 143
Period size: 49 Copynumber: 1.9 Consensus size: 49
43814721 TCAAGAAGAG
* * * *
43814731 ATAAATAGTGATAAGAGTGTAGGCAGTGGAAGACTAAGTTTAGCAATGT
1 ATAAATAGTGAAAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
*
43814780 ATAAATAGTGAAAAGAGTGTAGACGGTAGAAGACCAAGTTTAGCA
1 ATAAATAGTGAAAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCA
43814825 TTGCATAGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.41, C:0.07, G:0.28, T:0.23
Consensus pattern (49 bp):
ATAAATAGTGAAAAGAGTGTAGACAGTAGAAGACCAAGTTTAGCAATGT
Found at i:43816179 original size:25 final size:25
Alignment explanation
Indices: 43816151--43816222 Score: 85
Period size: 25 Copynumber: 2.9 Consensus size: 25
43816141 TTGTATGAGT
*
43816151 TTACCGATTTATAGCTCATGAGAGC
1 TTACCGATTTACAGCTCATGAGAGC
*
43816176 TTACCGATTCT-CAGCTCGT-ATGAGC
1 TTACCGATT-TACAGCTCATGA-GAGC
*
43816201 TTACTGATTTACAGCTCATGAG
1 TTACCGATTTACAGCTCATGAG
43816223 GGCATATCGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
24 2 0.05
25 35 0.90
26 2 0.05
ACGTcount: A:0.25, C:0.22, G:0.19, T:0.33
Consensus pattern (25 bp):
TTACCGATTTACAGCTCATGAGAGC
Found at i:43816217 original size:50 final size:51
Alignment explanation
Indices: 43816137--43816248 Score: 147
Period size: 50 Copynumber: 2.2 Consensus size: 51
43816127 AAACACGCCA
* * * *
43816137 CAGCTTGTATGAGTTTACCGATTTATAGCTCATGAGAGCTTACCGATTC-T
1 CAGCTCGTATGAGCTTACCGATTTACAGCTCATGAGAGCATACCGATTCAT
* * *
43816187 CAGCTCGTATGAGCTTACTGATTTACAGCTCATGAGGGCATATCGATTCAT
1 CAGCTCGTATGAGCTTACCGATTTACAGCTCATGAGAGCATACCGATTCAT
43816238 -AGCTCGTATGA
1 CAGCTCGTATGA
43816249 ACATACATGT
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
50 53 0.98
51 1 0.02
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (51 bp):
CAGCTCGTATGAGCTTACCGATTTACAGCTCATGAGAGCATACCGATTCAT
Found at i:43823826 original size:29 final size:30
Alignment explanation
Indices: 43823769--43823826 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
43823759 GAGGTTAGGA
**
43823769 TGAGAAGGGAGTAAAAGTTTTAGGTGAAAT
1 TGAGAAGGGAGTAAAAGTTTTAGAAGAAAT
43823799 TGAGAA-GGAGTAAAAGTTTT-GAAAGAAA
1 TGAGAAGGGAGTAAAAGTTTTAG-AAGAAA
43823827 AGTAAAAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.04
29 18 0.72
30 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.31, T:0.24
Consensus pattern (30 bp):
TGAGAAGGGAGTAAAAGTTTTAGAAGAAAT
Found at i:43825547 original size:90 final size:90
Alignment explanation
Indices: 43825394--43825576 Score: 330
Period size: 90 Copynumber: 2.0 Consensus size: 90
43825384 GATCTCTACT
* *
43825394 TCTTTCTCATCCTGTACACCGTTGTTTGATTTTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
1 TCTTTCTCATCCTCTACACCGTTGTTTGATTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
*
43825459 TGGCAACTCTTTGAACGAGTCGATC
66 TGGCAACTCTTTGAACAAGTCGATC
*
43825484 TCTTTCTCATCCTCTACACCGTTGTTTGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
1 TCTTTCTCATCCTCTACACCGTTGTTTGATTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
43825549 TGGCAACTCTTTGAACAAGTCGATC
66 TGGCAACTCTTTGAACAAGTCGATC
43825574 TCT
1 TCT
43825577 GGTTCTGCTT
Statistics
Matches: 89, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
90 89 1.00
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.37
Consensus pattern (90 bp):
TCTTTCTCATCCTCTACACCGTTGTTTGATTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGC
TGGCAACTCTTTGAACAAGTCGATC
Found at i:43825616 original size:66 final size:66
Alignment explanation
Indices: 43825510--43825642 Score: 266
Period size: 66 Copynumber: 2.0 Consensus size: 66
43825500 CACCGTTGTT
43825510 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
1 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
43825575 C
66 C
43825576 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
1 TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
43825641 C
66 C
43825642 T
1 T
43825643 CTCTCATCCT
Statistics
Matches: 67, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 67 1.00
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.32
Consensus pattern (66 bp):
TGGTTCTGCTTCAAGTAAATGCTCATCAATTACTCCAGCTGGCAACTCTTTGAACAAGTCGATCT
C
Found at i:43831450 original size:51 final size:51
Alignment explanation
Indices: 43831369--43831482 Score: 201
Period size: 51 Copynumber: 2.2 Consensus size: 51
43831359 AAGGGACCAA
43831369 GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
1 GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
* *
43831420 GTTGTACATTTTCAAAAGTGTCAAGTACCCTATGAGTATTTACATTAATCT
1 GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
*
43831471 ATTGCACATTTT
1 GTTGCACATTTT
43831483 TTAAAGGGAC
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 59 1.00
ACGTcount: A:0.31, C:0.18, G:0.12, T:0.39
Consensus pattern (51 bp):
GTTGCACATTTTCAAAACTGTCAAGTACCCTATGAGTATTTACATTAATCT
Found at i:43832872 original size:28 final size:31
Alignment explanation
Indices: 43832817--43832876 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
43832807 TATACTTATA
*
43832817 TCAAATATCAAATAATACATTTAGATAAATT
1 TCAAATATAAAATAATACATTTAGATAAATT
*
43832848 TCAAATATAAAATACT-C-TTTA-ATAAATT
1 TCAAATATAAAATAATACATTTAGATAAATT
43832876 T
1 T
43832877 AACAAATACA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
28 8 0.30
29 4 0.15
30 1 0.04
31 14 0.52
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (31 bp):
TCAAATATAAAATAATACATTTAGATAAATT
Found at i:43833203 original size:19 final size:19
Alignment explanation
Indices: 43833179--43833216 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
43833169 CCTCAAAATT
* *
43833179 ATACATGAATTTTAATTTA
1 ATACATAAACTTTAATTTA
43833198 ATACATAAACTTTAATTTA
1 ATACATAAACTTTAATTTA
43833217 GTGTAATTAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (19 bp):
ATACATAAACTTTAATTTA
Found at i:43834198 original size:108 final size:108
Alignment explanation
Indices: 43834004--43834219 Score: 378
Period size: 108 Copynumber: 2.0 Consensus size: 108
43833994 TTAAGCTCCG
* *
43834004 ACCTTCCTAATAGCGGTCCTACATGGCAGTCCAGATGAGTTTTAAATGCCAACTTAGATGTCCTA
1 ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTAGATGTCCTA
* *
43834069 CGTGGTAGTCCAAATTAAATTTATTTAATTAAAAACTTATTTT
66 CGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTT
*
43834112 ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTGGATGTCCTA
1 ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTAGATGTCCTA
*
43834177 TGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTT
66 CGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTT
43834220 CATCCCAACA
Statistics
Matches: 102, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 102 1.00
ACGTcount: A:0.31, C:0.19, G:0.15, T:0.34
Consensus pattern (108 bp):
ACCTCCCTAATAGCGGTCCTACATGGCAGTCCAAATGAGTTTTAAATGCCAACTTAGATGTCCTA
CGTGGCAGTCCAAATTAAATTTATTTAATTAAAAACCTATTTT
Found at i:43835370 original size:12 final size:11
Alignment explanation
Indices: 43835353--43835409 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
43835343 AACAAATCCT
43835353 CTCTCATATTTC
1 CTCTCA-ATTTC
43835365 CTCTCAA-TTC
1 CTCTCAATTTC
43835375 CTCTCAATTTC
1 CTCTCAATTTC
*
43835386 CT-TCCAAAATT-
1 CTCT-C-AATTTC
43835397 CTCTCAATTTC
1 CTCTCAATTTC
43835408 CT
1 CT
43835410 TCCAAAATTC
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 15 0.39
11 12 0.32
12 11 0.29
ACGTcount: A:0.21, C:0.35, G:0.00, T:0.44
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:43835400 original size:22 final size:22
Alignment explanation
Indices: 43835370--43835425 Score: 103
Period size: 22 Copynumber: 2.5 Consensus size: 22
43835360 ATTTCCTCTC
43835370 AATTCCTCTCAATTTCCTTCCAA
1 AATT-CTCTCAATTTCCTTCCAA
43835393 AATTCTCTCAATTTCCTTCCAA
1 AATTCTCTCAATTTCCTTCCAA
43835415 AATTCTCTCAA
1 AATTCTCTCAA
43835426 ATCTATATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 29 0.88
23 4 0.12
ACGTcount: A:0.29, C:0.32, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTCTCTCAATTTCCTTCCAA
Found at i:43835454 original size:51 final size:51
Alignment explanation
Indices: 43835397--43835512 Score: 196
Period size: 51 Copynumber: 2.3 Consensus size: 51
43835387 TTCCAAAATT
* *
43835397 CTCTCAATTTCCTTCCAAAATTCTCTCAAATCTATATTTAATTTTAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTTAATTTC
*
43835448 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCGTATTTAATTTTAATTTC
1 CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTTAATTTC
*
43835499 TTCTCAATTTCCTT
1 CTCTCAATTTCCTT
43835513 TTTTAAAATA
Statistics
Matches: 61, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 61 1.00
ACGTcount: A:0.28, C:0.24, G:0.01, T:0.47
Consensus pattern (51 bp):
CTCTCAATTTCCTTCAAAAATTCTCTCAAATCCATATTTAATTTTAATTTC
Found at i:43836663 original size:7 final size:7
Alignment explanation
Indices: 43836653--43836677 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
43836643 ATTCGATTGA
43836653 TATTTAG
1 TATTTAG
43836660 TATTTAG
1 TATTTAG
43836667 TATTTAG
1 TATTTAG
43836674 TATT
1 TATT
43836678 ATGTATGTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:43837953 original size:12 final size:13
Alignment explanation
Indices: 43837929--43837957 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
43837919 AAAAATTCTA
43837929 AACCCTAAACCCT
1 AACCCTAAACCCT
43837942 AACCCT-AACCCT
1 AACCCTAAACCCT
43837954 AACC
1 AACC
43837958 TAATTCAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.38, C:0.48, G:0.00, T:0.14
Consensus pattern (13 bp):
AACCCTAAACCCT
Found at i:43838014 original size:23 final size:23
Alignment explanation
Indices: 43837948--43838534 Score: 454
Period size: 23 Copynumber: 25.3 Consensus size: 23
43837938 CCCTAACCCT
*
43837948 AACCCTAACCTAATTCAATTAAA
1 AACCCTAACCTAATTTAATTAAA
** *
43837971 AACTATAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
*
43837993 AACTCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
43838016 TACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
43838039 AACCTTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
43838062 AACCCTAAACC---CTTAATTAAA
1 AACCCT-AACCTAATTTAATTAAA
43838083 AACCCTAACTCTAACCTAATTCAATTAAA
1 AACCCTAAC-CTAA--T--TT-AATTAAA
* *
43838112 AACCATAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
43838134 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
43838157 AACCCTAAACCCTTAA-TTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
43838180 CCCTAACCCTAACCTAATTTAATT-AA
1 ----AACCCTAACCTAATTTAATTAAA
* * *
43838206 AGCCATAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
43838228 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
43838251 AGCCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* * * *
43838274 AGCCATAAACT--CTTAACTTAAA
1 AACCCTAACCTAATTTAA-TTAAA
43838296 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* *
43838319 AACCTTAGCCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
43838342 AACCCTAAACCCTTAA-TTAA--AAA
1 AACCCT-AA-CC-TAATTTAATTAAA
43838365 CCCTAACCCTAACCTAATTTAATTAAA
1 ----AACCCTAACCTAATTTAATTAAA
* * *
43838392 AGCCATAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
43838414 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
43838437 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
* * *
43838460 AGCCATAAACC---CTTAACTTAAA
1 AACCCT-AACCTAATTTAA-TTAAA
43838482 AACCCTAACCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
*
43838505 AACCCTAGCCTAATTTAATTAAA
1 AACCCTAACCTAATTTAATTAAA
43838528 AACCCTA
1 AACCCTA
43838535 TCCTTAACGT
Statistics
Matches: 457, Mismatches: 48, Indels: 118
0.73 0.08 0.19
Matches are distributed among these distances:
20 7 0.02
21 55 0.12
22 63 0.14
23 214 0.47
24 49 0.11
25 24 0.05
26 12 0.03
27 15 0.03
28 2 0.00
29 13 0.03
30 3 0.01
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (23 bp):
AACCCTAACCTAATTTAATTAAA
Found at i:43838014 original size:45 final size:44
Alignment explanation
Indices: 43837952--43838534 Score: 422
Period size: 45 Copynumber: 12.6 Consensus size: 44
43837942 AACCCTAACC
* **
43837952 CTAACCTAATTCAATTAAAAACTATAAACCCTTAACTTAAAAACT
1 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACT
* *
43837997 CTAACCTAATTTAATTAAATACCCT-AACCTAATTTAATTAAAAAC-
1 CTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACT
43838042 CTTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACT
1 C-TAACCTAATTTAATTAAAAACCCTAAACCCTTAATT--AAA----AACT
* * *
43838093 CTAACCTAATTCAATTAAAAACCATAAACCCTTAACTTAAAAACC
1 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACT
43838138 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCT
1 CTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAA--CT
* * *
43838184 AACCCTAACCTAATTTAATT-AAAGCCATAAACCCTTAACTTAAAAACC
1 ----CTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACT
* * *
43838232 CTAACCTAATTTAATTAAAAGCCCT-AACCTAATTTAATTAAAAGC-
1 CTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACT
* * *
43838277 CATAAACT--CTTAACTTAAAAACCCT-AACCTAATTTAATTAAAAAC-
1 C-TAACCTAATTTAA-TTAAAAACCCTAAACC---CTTAATTAAAAACT
*
43838322 CTTAGCCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCT
1 C-TAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAA--CT
* * *
43838369 AACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACC
1 ----CTAACCTAATTTAATTAAAAACCCTAAACCCTTAA-TTAAAAACT
* *
43838418 CTAACCTAATTTAATTAAAAACCCT-AACCTAATTTAATTAAAAGC-
1 CTAACCTAATTTAATTAAAAACCCTAAACC---CTTAATTAAAAACT
* * *
43838463 CATAAACC---CTTAACTTAAAAACCCT-AACCTAATTTAATTAAAAACC
1 C-T-AACCTAATTTAA-TTAAAAACCCTAAACC---CTTAATTAAAAACT
*
43838509 CTAGCCTAATTTAATTAAAAACCCTA
1 CTAACCTAATTTAATTAAAAACCCTA
43838535 TCCTTAACGT
Statistics
Matches: 450, Mismatches: 40, Indels: 94
0.77 0.07 0.16
Matches are distributed among these distances:
44 63 0.14
45 155 0.34
46 79 0.18
47 32 0.07
48 1 0.00
49 20 0.04
50 89 0.20
51 11 0.02
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (44 bp):
CTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACT
Found at i:43838036 original size:68 final size:67
Alignment explanation
Indices: 43837948--43838531 Score: 482
Period size: 68 Copynumber: 8.4 Consensus size: 67
43837938 CCCTAACCCT
* * *
43837948 AACCCTAACCTAATTCAATTAAAAACTATAAACCCTTAACTTAAAAACTCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATTAAAAACCAT-AACCCTTAACTTAAAAACCCTAACCTAATTTAATT
43838013 AAA
65 AAA
* * * *
43838016 TACCCTAACCTAATTTAATTAAAAACCTTAACCTAATTTAA-TTAAAAACCCTAAACC---CTTA
1 AACCCTAACCTAATTTAATTAAAAACCATAACC---CTTAACTTAAAAACCCT-AACCTAATTTA
43838077 ATTAAA
62 ATTAAA
43838083 AACCCTAACTCTAACCTAATTCAATTAAAAACCATAAACCCTTAACTTAAAAACCCTAACCTAAT
1 AACCCTAAC-CTAA--T--TT-AATTAAAAACCAT-AACCCTTAACTTAAAAACCCTAACCTAAT
43838148 TTAATTAAA
59 TTAATTAAA
* * * *
43838157 AACCCTAAACC---CTTAATTAAAAACCCTAACCCTAACCTAATTTAATTAAAGCCATAAACC--
1 AACCCT-AACCTAATTTAATTAAAAACCATAACCCT----TAACTTAA--AAA-CCCT-AACCTA
*
43838217 -CTTAACTTAAA
57 ATTTAA-TTAAA
* * * * * * *
43838228 AACCCTAACCTAATTTAATTAAAAGCCCTAACCTAATTTAA-TTAAAAGCCATAAACT--CTTAA
1 AACCCTAACCTAATTTAATTAAAAACCATAACC---CTTAACTTAAAAACCCTAACCTAATTTAA
43838290 CTTAAA
63 -TTAAA
* * *
43838296 AACCCTAACCTAATTTAATTAAAAACCTTAGCCTAATTTAA-TTAAAAACCCTAAACCCTTAA-T
1 AACCCTAACCTAATTTAATTAAAAACCATAACC---CTTAACTTAAAAACCCT-AA-CC-TAATT
43838359 TAA--AAA
60 TAATTAAA
*
43838365 CCCTAACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTT
1 ----AACCCTAACCTAATTTAATTAAAAACCAT-AACCCTTAACTTAAAAACCCTAACCTAATTT
43838430 AATTAAA
61 AATTAAA
*
43838437 AACCCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTTAATT
1 AACCCTAACCTAATTTAATTAAAAACCAT-AACCCTTAACTTAAAAACCCTAACCTAATTTAATT
43838502 AAA
65 AAA
*
43838505 AACCCTAGCCTAATTTAATTAAAAACC
1 AACCCTAACCTAATTTAATTAAAAACC
43838532 CTATCCTTAA
Statistics
Matches: 437, Mismatches: 33, Indels: 92
0.78 0.06 0.16
Matches are distributed among these distances:
65 6 0.01
66 12 0.03
67 26 0.06
68 184 0.42
69 27 0.06
70 24 0.05
71 33 0.08
72 37 0.08
73 61 0.14
74 23 0.05
75 3 0.01
76 1 0.00
ACGTcount: A:0.46, C:0.24, G:0.01, T:0.28
Consensus pattern (67 bp):
AACCCTAACCTAATTTAATTAAAAACCATAACCCTTAACTTAAAAACCCTAACCTAATTTAATTA
AA
Found at i:43838464 original size:186 final size:185
Alignment explanation
Indices: 43838124--43838534 Score: 768
Period size: 186 Copynumber: 2.2 Consensus size: 185
43838114 CCATAAACCC
*
43838124 TTAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCC
1 TTAA-TTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCC
*
43838189 TAACCTAATTTAATTAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAGC
65 TAACCTAATTTAATTAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAAC
*
43838254 CCTAACCTAATTTAATTAAAAGCCATAAACTCTTAACTTAAAAACCCTAACCTAAT
130 CCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAAT
*
43838310 TTAATTAAAAACCTTAGCCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCT
1 TTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCT
43838375 AACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAAC
66 AACCTAATTTAATT-AAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAAC
43838440 CCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAAT
130 CCTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAAT
43838496 TTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTA
1 TTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTA
43838535 TCCTTAACGT
Statistics
Matches: 219, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
185 73 0.33
186 146 0.67
ACGTcount: A:0.46, C:0.24, G:0.02, T:0.28
Consensus pattern (185 bp):
TTAATTAAAAACCCTAGCCTAATTTAATTAAAAACCCTAAACCCTTAATTAAAAACCCTAACCCT
AACCTAATTTAATTAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAATTTAATTAAAAACC
CTAACCTAATTTAATTAAAAGCCATAAACCCTTAACTTAAAAACCCTAACCTAAT
Found at i:43838769 original size:118 final size:118
Alignment explanation
Indices: 43838544--43838763 Score: 363
Period size: 118 Copynumber: 1.9 Consensus size: 118
43838534 ATCCTTAACG
* *
43838544 TAATGTTAGATTTGGAAAAATGTTTTGACTGGTACTAACAAATAATAATTTTACATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
* *
43838609 CTATTGCCATAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
66 ATATTGACATAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
* *
43838662 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAATTAATAATTGTATATAATTTGATA
1 TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
*
43838727 AT-TTTAC-TAACCATTAATACAATTTTTTGACTTAATA
66 ATATTGACATAACCATTAATACAATTTTTTGACTTAATA
43838764 CAATTTATCA
Statistics
Matches: 95, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
116 30 0.32
117 3 0.03
118 62 0.65
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.42
Consensus pattern (118 bp):
TAATGTTAGATTTGGAAAAATATTTTGACTGGTACTAACAAATAATAATTGTACATAATTTGATA
ATATTGACATAACCATTAATACAATTTTTTGACTTAATAATTTTACATTCACA
Found at i:43838780 original size:17 final size:18
Alignment explanation
Indices: 43838739--43838780 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
43838729 TTTACTAACC
* *
43838739 ATTAATACAATTTTTTGA
1 ATTAATACAATTTTATCA
*
43838757 CTTAATACAA-TTTATCA
1 ATTAATACAATTTTATCA
43838774 ATTAATA
1 ATTAATA
43838781 ATTTCACAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 11 0.55
18 9 0.45
ACGTcount: A:0.43, C:0.10, G:0.02, T:0.45
Consensus pattern (18 bp):
ATTAATACAATTTTATCA
Found at i:43842102 original size:125 final size:124
Alignment explanation
Indices: 43841793--43842142 Score: 533
Period size: 125 Copynumber: 2.8 Consensus size: 124
43841783 CCCAAACATG
*
43841793 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGA
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
*
43841858 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTC-AAAAAAATTATTTCTTACATGAC
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATAAC
* * *
43841916 CTACTGTAGCAAAAGCGCG-CTGACGAGGCCGTAATTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAGCGCGTC-CACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTG
* * * * *
43841980 CTAGAAGTGATTTTATACTATTTGCTCAAAAACGTCAAAAAATAATTATTTCTTCCGTAAC
65 CTAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAA-AATTATTTCTTACATAAC
* * *
43842041 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCATAAATTCTTCTCAAATACCATCCTGC
1 CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
**
43842106 TAGAAGCGATTTTATATTATTTTATCAGAAACGTCAA
66 TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAA
43842143 CTCGAAATTA
Statistics
Matches: 202, Mismatches: 21, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
122 1 0.00
123 91 0.45
124 5 0.02
125 104 0.51
126 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.16, T:0.30
Consensus pattern (124 bp):
CTACTGTAGCAAAAGCGCGTCCACGAGGGCGTGATTTCACAAATTCTTCTCAAATAGCATCCTGC
TAGAAGCGATTTTATATTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTACATAAC
Found at i:43845187 original size:27 final size:27
Alignment explanation
Indices: 43845157--43845275 Score: 107
Period size: 27 Copynumber: 4.4 Consensus size: 27
43845147 TTATGAATGA
43845157 CTCACACAAGCCTTCGTATTTGGGTTG
1 CTCACACAAGCCTTCGTATTTGGGTTG
* **
43845184 CTCACACAAG-CTTTGTATCAGGGTTG
1 CTCACACAAGCCTTCGTATTTGGGTTG
* * ** *
43845210 CTCACACAAGCTTTTGT-TTATGAAATGG
1 CTCACACAAGCCTTCGTATT-TG-GGTTG
* *
43845238 CTCACACAAGCCTTCGTATTTAGGTTA
1 CTCACACAAGCCTTCGTATTTGGGTTG
*
43845265 CTCACTCAAGC
1 CTCACACAAGC
43845276 TTCAGATCAG
Statistics
Matches: 71, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
26 24 0.34
27 27 0.38
28 18 0.25
29 2 0.03
ACGTcount: A:0.24, C:0.25, G:0.18, T:0.32
Consensus pattern (27 bp):
CTCACACAAGCCTTCGTATTTGGGTTG
Found at i:43845208 original size:26 final size:26
Alignment explanation
Indices: 43845157--43845223 Score: 98
Period size: 26 Copynumber: 2.5 Consensus size: 26
43845147 TTATGAATGA
* **
43845157 CTCACACAAGCCTTCGTATTTGGGTTG
1 CTCACACAAG-CTTTGTATCAGGGTTG
43845184 CTCACACAAGCTTTGTATCAGGGTTG
1 CTCACACAAGCTTTGTATCAGGGTTG
43845210 CTCACACAAGCTTT
1 CTCACACAAGCTTT
43845224 TGTTTATGAA
Statistics
Matches: 37, Mismatches: 3, Indels: 1
0.90 0.07 0.02
Matches are distributed among these distances:
26 27 0.73
27 10 0.27
ACGTcount: A:0.22, C:0.27, G:0.19, T:0.31
Consensus pattern (26 bp):
CTCACACAAGCTTTGTATCAGGGTTG
Found at i:43845269 original size:81 final size:80
Alignment explanation
Indices: 43845133--43845303 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 80
43845123 TGTTTCGCTT
* *
43845133 ACACAAGCTTTTGTTTATGAATGACTCACACAAGCCTTCGTATTTGGGTTGCTCACACAAGCTT-
1 ACACAAGCTTTTGTTTATGAATGACTCACACAAGCCTTCGTATTTAGGTTACTCACACAAGCTTC
*
43845197 TGTATCAGGGTTGCTC
66 AG-ATCAGGGTTGCTC
* *
43845213 ACACAAGCTTTTGTTTATGAAATGGCTCACACAAGCCTTCGTATTTAGGTTACTCACTCAAGCTT
1 ACACAAGCTTTTGTTTATG-AATGACTCACACAAGCCTTCGTATTTAGGTTACTCACACAAGCTT
43845278 CAGATCAGGGTTGCTC
65 CAGATCAGGGTTGCTC
* *
43845294 AAAGAAGCTT
1 ACACAAGCTT
43845304 AGTTCGATTT
Statistics
Matches: 82, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
80 19 0.23
81 62 0.76
82 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.32
Consensus pattern (80 bp):
ACACAAGCTTTTGTTTATGAATGACTCACACAAGCCTTCGTATTTAGGTTACTCACACAAGCTTC
AGATCAGGGTTGCTC
Found at i:43846700 original size:5 final size:5
Alignment explanation
Indices: 43846692--43846738 Score: 94
Period size: 5 Copynumber: 9.4 Consensus size: 5
43846682 TATATAAAAG
43846692 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TA
43846739 TAAACATAAA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 42 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (5 bp):
TAATA
Found at i:43847320 original size:14 final size:14
Alignment explanation
Indices: 43847301--43847329 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
43847291 ATCCAAACAT
43847301 TAACAACATAATAG
1 TAACAACATAATAG
43847315 TAACAACATAATAG
1 TAACAACATAATAG
43847329 T
1 T
43847330 GAAATGGTAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.14, G:0.07, T:0.24
Consensus pattern (14 bp):
TAACAACATAATAG
Found at i:43847376 original size:21 final size:21
Alignment explanation
Indices: 43847358--43847397 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
43847348 TGGTAAAAAG
43847358 TGGAAAAACAG-TAGCAAAACA
1 TGGAAAAACAGCT-GCAAAACA
43847379 TGGAAAAACAGCTGCAAAA
1 TGGAAAAACAGCTGCAAAA
43847398 TAGTAGGGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.55, C:0.15, G:0.20, T:0.10
Consensus pattern (21 bp):
TGGAAAAACAGCTGCAAAACA
Found at i:43852801 original size:40 final size:40
Alignment explanation
Indices: 43852752--43852889 Score: 129
Period size: 40 Copynumber: 3.5 Consensus size: 40
43852742 AACACACCAG
* * *
43852752 TTTGGCACCCAGTGCCTCATCGGATAATTCAAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
43852792 TTTGACACCCAATGTCTCATCGGCTAAACCGAAG---TAA
1 TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
* * * *
43852829 GTTGGCACACAGTGCCTCATCGAATATATCCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATA-ATCCGAAGTAATAA
* *
43852870 TTTGACACCTAGTGTCTCAT
1 TTTGACACCCAGTGCCTCAT
43852890 AGACTCGAAA
Statistics
Matches: 74, Mismatches: 20, Indels: 7
0.73 0.20 0.07
Matches are distributed among these distances:
37 22 0.30
38 7 0.09
40 27 0.36
41 18 0.24
ACGTcount: A:0.31, C:0.24, G:0.17, T:0.28
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATCCGAAGTAATAA
Found at i:43853786 original size:12 final size:12
Alignment explanation
Indices: 43853769--43853793 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
43853759 CTTGTCTTTC
43853769 TCCTTCTTTCTT
1 TCCTTCTTTCTT
43853781 TCCTTCTTTCTT
1 TCCTTCTTTCTT
43853793 T
1 T
43853794 TTCCCTTCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (12 bp):
TCCTTCTTTCTT
Found at i:43853821 original size:25 final size:26
Alignment explanation
Indices: 43853784--43853841 Score: 64
Period size: 25 Copynumber: 2.2 Consensus size: 26
43853774 CTTTCTTTCC
*
43853784 TTCTTTCTTTTTCCCTTCTGTTTCGTT
1 TTCTTTC-TTTTCCCTTCTATTTCGTT
** *
43853811 TTCTTTC-TTTCTTTTCTATTTCTTT
1 TTCTTTCTTTTCCCTTCTATTTCGTT
43853836 TTCTTT
1 TTCTTT
43853842 TATTTCTTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 20 0.74
27 7 0.26
ACGTcount: A:0.02, C:0.22, G:0.03, T:0.72
Consensus pattern (26 bp):
TTCTTTCTTTTCCCTTCTATTTCGTT
Found at i:43853848 original size:30 final size:31
Alignment explanation
Indices: 43853799--43853860 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
43853789 TCTTTTTCCC
* *
43853799 TTCTGTTTCGTTTTCTTTCTTTCTTTTCTAT
1 TTCTGTTTCGTTTTATTTCTTTCTTTTATAT
* *
43853830 TTCTTTTTC-TTTTATTTCTTTGTTTTATAT
1 TTCTGTTTCGTTTTATTTCTTTCTTTTATAT
43853860 T
1 T
43853861 ATAACATAAT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
30 19 0.70
31 8 0.30
ACGTcount: A:0.06, C:0.15, G:0.05, T:0.74
Consensus pattern (31 bp):
TTCTGTTTCGTTTTATTTCTTTCTTTTATAT
Found at i:43860203 original size:24 final size:24
Alignment explanation
Indices: 43860176--43860247 Score: 66
Period size: 24 Copynumber: 3.2 Consensus size: 24
43860166 TTAATATTAA
43860176 ATTAAATTTAATATTTATCTAGAC
1 ATTAAATTTAATATTTATCTAGAC
* * * *
43860200 ATTAAA-ATGAGA--CAT-TA-A-
1 ATTAAATTTAATATTTATCTAGAC
43860218 ATTAAATTTAATATTTATCTAGAC
1 ATTAAATTTAATATTTATCTAGAC
43860242 ATTAAA
1 ATTAAA
43860248 ATGAGACATT
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
18 6 0.18
19 4 0.12
20 2 0.06
21 4 0.12
22 2 0.06
23 4 0.12
24 12 0.35
ACGTcount: A:0.47, C:0.07, G:0.06, T:0.40
Consensus pattern (24 bp):
ATTAAATTTAATATTTATCTAGAC
Found at i:43860326 original size:42 final size:42
Alignment explanation
Indices: 43860171--43860324 Score: 263
Period size: 42 Copynumber: 3.7 Consensus size: 42
43860161 TGAATTTAAT
43860171 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
1 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
43860213 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
1 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
* * * *
43860255 ATTAAATTAAATTAAATATTTATCTAGATATTAATATGAGAT
1 ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
*
43860297 ATTAAATTTAATTTAATATTTATCTAGA
1 ATTAAATTAAATTTAATATTTATCTAGA
43860325 TAATATTTTA
Statistics
Matches: 106, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
42 106 1.00
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (42 bp):
ATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAGAC
Found at i:43860337 original size:37 final size:40
Alignment explanation
Indices: 43860169--43860352 Score: 187
Period size: 42 Copynumber: 4.5 Consensus size: 40
43860159 AATGAATTTA
* *
43860169 ATATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAG
1 ATATTAAATTTAATTTAATATTTATCTAGA-ATTAATAT-AG
* * *
43860211 ACATTAAATTAAATTTAATATTTATCTAGACATTAAAATGAG
1 ATATTAAATTTAATTTAATATTTATCTAGA-ATTAATAT-AG
* * *
43860253 ACATTAAATTAAATTAAATATTTATCTAGATATTAATATGAG
1 ATATTAAATTTAATTTAATATTTATCTAGA-ATTAATAT-AG
*
43860295 ATATTAAATTTAATTTAATATTTATCTAG-A-TAATAT-T
1 ATATTAAATTTAATTTAATATTTATCTAGAATTAATATAG
*
43860332 TTATT-AATTTAATATTAATAT
1 ATATTAAATTTAAT-TTAATAT
43860353 GATTAATTTT
Statistics
Matches: 132, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
36 8 0.06
37 11 0.08
39 6 0.05
40 1 0.01
42 106 0.80
ACGTcount: A:0.46, C:0.04, G:0.05, T:0.44
Consensus pattern (40 bp):
ATATTAAATTTAATTTAATATTTATCTAGAATTAATATAG
Found at i:43863007 original size:10 final size:9
Alignment explanation
Indices: 43862980--43863011 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
43862970 GATTAATTAA
43862980 AATAAAATT
1 AATAAAATT
43862989 AATAAAATT
1 AATAAAATT
43862998 AATCAAAATT
1 AAT-AAAATT
43863008 AATA
1 AATA
43863012 TGATTTTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
9 13 0.59
10 9 0.41
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (9 bp):
AATAAAATT
Found at i:43867091 original size:44 final size:44
Alignment explanation
Indices: 43867022--43867176 Score: 265
Period size: 44 Copynumber: 3.5 Consensus size: 44
43867012 TGAATACTTT
*
43867022 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
* * *
43867066 TGATCAGTAACAAGTGACAAATGGTAACTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
*
43867110 TGATCAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
43867154 TGATCAGTGACAAGTGACAAGTG
1 TGATCAGTGACAAGTGACAAGTG
43867177 ATAAATGTGA
Statistics
Matches: 102, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 102 1.00
ACGTcount: A:0.32, C:0.16, G:0.22, T:0.30
Consensus pattern (44 bp):
TGATCAGTGACAAGTGACAAGTGGTAGCTTTAGCTACACTTATC
Found at i:43870725 original size:18 final size:18
Alignment explanation
Indices: 43870699--43870750 Score: 52
Period size: 18 Copynumber: 2.8 Consensus size: 18
43870689 TGTAAAAAAG
43870699 AAAGAAAAATAAAGAGAGA
1 AAAG-AAAATAAAGAGAGA
* *
43870718 AAAGAAAAT-GAGATGAGT
1 AAAGAAAATAAAGA-GAGA
*
43870736 AAAGAAAAGAAAGAG
1 AAAGAAAATAAAGAG
43870751 TATGAAAATG
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
17 3 0.11
18 17 0.63
19 7 0.26
ACGTcount: A:0.67, C:0.00, G:0.25, T:0.08
Consensus pattern (18 bp):
AAAGAAAATAAAGAGAGA
Found at i:43876144 original size:14 final size:15
Alignment explanation
Indices: 43876125--43876157 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43876115 CTGTTCCAAA
43876125 AATAATATT-ATTTT
1 AATAATATTAATTTT
*
43876139 AATAATTTTAATTTT
1 AATAATATTAATTTT
43876154 AATA
1 AATA
43876158 TTAAATTAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATAATATTAATTTT
Found at i:43876355 original size:58 final size:58
Alignment explanation
Indices: 43876222--43876356 Score: 157
Period size: 58 Copynumber: 2.3 Consensus size: 58
43876212 TAATTATCTT
* * *
43876222 AATATTAAATTTAATTTAATATTTATCTTGTAAATAAATATTCTATTAATTTAATAGATTT
1 AATATTAAATTTAATCTAATATTTATCTTG--AATAAATATTATATTAATTTAATA-ATTA
* *
43876283 AATATTAAATTTAATCTAATATTTTTCTTG-ATAAGTATTATATTAATTTAAT-ATTA
1 AATATTAAATTTAATCTAATATTTATCTTGAATAAATATTATATTAATTTAATAATTA
*
43876339 AATTGATTAAGTTTAATC
1 AA-T-ATTAAATTTAATC
43876357 ATAGTTGAAC
Statistics
Matches: 66, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
56 5 0.08
57 1 0.02
58 32 0.48
61 28 0.42
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.50
Consensus pattern (58 bp):
AATATTAAATTTAATCTAATATTTATCTTGAATAAATATTATATTAATTTAATAATTA
Found at i:43884377 original size:245 final size:245
Alignment explanation
Indices: 43883941--43884431 Score: 901
Period size: 245 Copynumber: 2.0 Consensus size: 245
43883931 TTCTTATCAT
* *
43883941 TTCCGTTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTGTTTTCTTCTTTGTTAAGTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTCTTTTCTTCTTTGTTAAGTTGA
*
43884006 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAGTTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAATTTCAG
*
43884071 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACGTGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
43884136 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
*
43884186 TTCCATTTTAGGTTGTAGCATATACCCCTAATATTTCTCATTTCTTTTCTTCTTTGTTAAGTTGA
1 TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTCTTTTCTTCTTTGTTAAGTTGA
* *
43884251 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAGCTCCTCAAGGTTTGGAATTTCAG
66 AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAATTTCAG
* *
43884316 ACAATATCCTGTGCTTGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
131 ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
43884381 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
196 TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
43884431 T
1 T
43884432 GTGTAATTGC
Statistics
Matches: 237, Mismatches: 9, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
245 237 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (245 bp):
TTCCATTTTAGGTTGTAGCATATACCCCTAATAGTTCTCATTTCTTTTCTTCTTTGTTAAGTTGA
AATTTTATGCCACATTTGCCTGTGTTCCTGAATTGTGGCTAACTCCTCAAGGTTCGGAATTTCAG
ACAATATCCCGTGCATGTTCTACATGCCATAATTTGAAAAAACTTTGCTAATACATGTACATCCT
TTGATCAGCGCTGCACTTAGTGCATTCATATTCAAATGAATTCTCAGTAG
Found at i:43902729 original size:29 final size:30
Alignment explanation
Indices: 43902692--43902761 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 30
43902682 CATGATAACG
* *
43902692 TAAGTGACTAAAACGTAA-TATTTCAAACA
1 TAAGTGACTAAAACGTAACTAATGCAAACA
*
43902721 TAAGTGACTAAAATGTAACCTAATGCAAACA
1 TAAGTGACTAAAACGTAA-CTAATGCAAACA
*
43902752 AAAGTGACTA
1 TAAGTGACTA
43902762 TTTTGATAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 17 0.49
31 18 0.51
ACGTcount: A:0.49, C:0.14, G:0.13, T:0.24
Consensus pattern (30 bp):
TAAGTGACTAAAACGTAACTAATGCAAACA
Found at i:43924982 original size:28 final size:28
Alignment explanation
Indices: 43924942--43925013 Score: 83
Period size: 28 Copynumber: 2.6 Consensus size: 28
43924932 CACGGCAATT
* **
43924942 AAGAATAACCTTTGTGGTGAACTCTGAA
1 AAGAATAGCCTTTGTGGAAAACTCTGAA
*
43924970 AAGAATAGCCTTTATGGAAAACTCTGAA
1 AAGAATAGCCTTTGTGGAAAACTCTGAA
* *
43924998 AGGGAT-GCCTTTGTGG
1 AAGAATAGCCTTTGTGG
43925014 CGTGTTCTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
27 9 0.24
28 28 0.76
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (28 bp):
AAGAATAGCCTTTGTGGAAAACTCTGAA
Found at i:43927686 original size:20 final size:20
Alignment explanation
Indices: 43927663--43927850 Score: 96
Period size: 20 Copynumber: 9.4 Consensus size: 20
43927653 ACATGTAGTT
* *
43927663 AGGGGCACCGAAGTACAAAC
1 AGGGGCACCAAAGTGCAAAC
*
43927683 AGGGGCA-CAGATGTGCAAAC
1 AGGGGCACCA-AAGTGCAAAC
* * *
43927703 AGGGACACCAAAGTGTATAC
1 AGGGGCACCAAAGTGCAAAC
* *
43927723 AGGGGCATCAAAGTGCGAAC
1 AGGGGCACCAAAGTGCAAAC
* * *
43927743 AGGGGCACCAGAGTTCGAAC
1 AGGGGCACCAAAGTGCAAAC
* * ** *
43927763 AAGGGCA-TAGTCGTGCAAAT
1 AGGGGCACCA-AAGTGCAAAC
* * * *
43927783 AGGGACACCGAAGTGTATAC
1 AGGGGCACCAAAGTGCAAAC
* *
43927803 AGGGG-ATCCGAAGTGCGAAC
1 AGGGGCA-CCAAAGTGCAAAC
* *
43927823 AAGGGCA-CAATCGTGCAAAC
1 AGGGGCACCAA-AGTGCAAAC
43927843 AGGGGCAC
1 AGGGGCAC
43927851 TTCTTCATTT
Statistics
Matches: 120, Mismatches: 40, Indels: 15
0.69 0.23 0.09
Matches are distributed among these distances:
19 5 0.04
20 112 0.93
21 3 0.03
ACGTcount: A:0.35, C:0.21, G:0.32, T:0.11
Consensus pattern (20 bp):
AGGGGCACCAAAGTGCAAAC
Found at i:43927725 original size:40 final size:40
Alignment explanation
Indices: 43927681--43927807 Score: 118
Period size: 40 Copynumber: 3.2 Consensus size: 40
43927671 CGAAGTACAA
43927681 ACAGGGGCACAGATGTGCAAACAGGGACACCAAAGTGTAT
1 ACAGGGGCACAGATGTGCAAACAGGGACACCAAAGTGTAT
* * * *
43927721 ACAGGGGCATCA-AAGTGCGAACAGGGGCACCAGAGT-TCGA-
1 ACAGGGGCA-CAGATGTGCAAACAGGGACACCAAAGTGT--AT
* * * *
43927761 ACAAGGGCATAG-TCGTGCAAATAGGGACACCGAAGTGTAT
1 ACAGGGGCACAGAT-GTGCAAACAGGGACACCAAAGTGTAT
43927801 ACAGGGG
1 ACAGGGG
43927808 ATCCGAAGTG
Statistics
Matches: 67, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
39 3 0.04
40 60 0.90
41 4 0.06
ACGTcount: A:0.35, C:0.20, G:0.33, T:0.13
Consensus pattern (40 bp):
ACAGGGGCACAGATGTGCAAACAGGGACACCAAAGTGTAT
Found at i:43927849 original size:80 final size:80
Alignment explanation
Indices: 43927678--43927850 Score: 215
Period size: 80 Copynumber: 2.2 Consensus size: 80
43927668 CACCGAAGTA
43927678 CAAACAGGGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAGGGGCATCAAAGTGCGAAC
1 CAAACAGGGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAGGGGCATCAAAGTGCGAAC
* * *
43927743 AGGGGCACCAGAGTT
66 AAGGGCACAAGAGTG
* * * * * *
43927758 CGAACAAGGGCATAG-TCGTGCAAATAGGGACACCGAAGTGTATACAGGGG-ATCCGAAGTGCGA
1 CAAACAGGGGCACAGAT-GTGCAAACAGGGACACCAAAGTGTATACAGGGGCAT-CAAAGTGCGA
**
43927821 ACAAGGGCACAATCGTG
64 ACAAGGGCACAAGAGTG
43927838 CAAACAGGGGCAC
1 CAAACAGGGGCAC
43927851 TTCTTCATTT
Statistics
Matches: 77, Mismatches: 14, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
79 3 0.04
80 74 0.96
ACGTcount: A:0.35, C:0.21, G:0.32, T:0.12
Consensus pattern (80 bp):
CAAACAGGGGCACAGATGTGCAAACAGGGACACCAAAGTGTATACAGGGGCATCAAAGTGCGAAC
AAGGGCACAAGAGTG
Found at i:43933992 original size:22 final size:23
Alignment explanation
Indices: 43933964--43934007 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
43933954 TGCAATCTTG
43933964 GATATGACT-TGTAATATTAGAA
1 GATATGACTATGTAATATTAGAA
* *
43933986 GATATGATTATGTAATCTTAGA
1 GATATGACTATGTAATATTAGA
43934008 GATTTGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 8 0.42
23 11 0.58
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.39
Consensus pattern (23 bp):
GATATGACTATGTAATATTAGAA
Found at i:43934010 original size:22 final size:22
Alignment explanation
Indices: 43933952--43934021 Score: 65
Period size: 22 Copynumber: 3.3 Consensus size: 22
43933942 TCTTCAAAGA
* *
43933952 TATGCAATCTT-G-GATATGAC
1 TATGTAATCTTAGAGATATGAT
*
43933972 T-TGTAATATTAGAAGATATGAT
1 TATGTAATCTTAG-AGATATGAT
*
43933994 TATGTAATCTTAGAGATTTGAT
1 TATGTAATCTTAGAGATATGAT
*
43934016 TTTGTA
1 TATGTA
43934022 GATAGCTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 6
0.77 0.12 0.12
Matches are distributed among these distances:
19 7 0.17
20 2 0.05
22 21 0.52
23 10 0.25
ACGTcount: A:0.33, C:0.06, G:0.19, T:0.43
Consensus pattern (22 bp):
TATGTAATCTTAGAGATATGAT
Found at i:43934418 original size:20 final size:21
Alignment explanation
Indices: 43934382--43934421 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
43934372 GACACTTAAC
43934382 ACAAAGTAAAAATGAAGATAA
1 ACAAAGTAAAAATGAAGATAA
43934403 ACAAAG-AAAACA-GAAGATA
1 ACAAAGTAAAA-ATGAAGATA
43934422 GAAATGCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.61
21 7 0.39
ACGTcount: A:0.68, C:0.07, G:0.15, T:0.10
Consensus pattern (21 bp):
ACAAAGTAAAAATGAAGATAA
Found at i:43940353 original size:43 final size:42
Alignment explanation
Indices: 43940304--43940438 Score: 128
Period size: 43 Copynumber: 3.2 Consensus size: 42
43940294 TAGGGACATG
* *
43940304 GTCGTGTGGCCAAACCGTGTACAATTCAAAATAGGGTCACAC
1 GTCGTGTCGCCAGACCGTGTACAATTCAAAATAGGGTCACAC
* ** * * *
43940346 AGTCGTGTTGCCAGGTCGTGCATAATTCAAAATAGAGTCACAC
1 -GTCGTGTCGCCAGACCGTGTACAATTCAAAATAGGGTCACAC
* * * *
43940389 GATCATGTCGCTAGACCGTGTACAATTCGAAATA-GGTCACATG
1 G-TCGTGTCGCCAGACCGTGTACAATTCAAAATAGGGTCACA-C
43940432 GTCGTGT
1 GTCGTGT
43940439 TGAGTGATCA
Statistics
Matches: 72, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
42 12 0.17
43 60 0.83
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.25
Consensus pattern (42 bp):
GTCGTGTCGCCAGACCGTGTACAATTCAAAATAGGGTCACAC
Found at i:43943137 original size:14 final size:14
Alignment explanation
Indices: 43943118--43943147 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
43943108 TTTTCAAATT
43943118 TTGAGTTAATCGAA
1 TTGAGTTAATCGAA
*
43943132 TTGAGTTATTCGAA
1 TTGAGTTAATCGAA
43943146 TT
1 TT
43943148 ATTCGTGTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (14 bp):
TTGAGTTAATCGAA
Found at i:43943341 original size:20 final size:20
Alignment explanation
Indices: 43943316--43943358 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
43943306 AAAACTTACA
43943316 AAAAAAATCAAAATAAATTT
1 AAAAAAATCAAAATAAATTT
* *
43943336 AAAAAATTCAAAATAATTTT
1 AAAAAAATCAAAATAAATTT
43943356 AAA
1 AAA
43943359 TTTAGAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (20 bp):
AAAAAAATCAAAATAAATTT
Found at i:43943410 original size:25 final size:24
Alignment explanation
Indices: 43943365--43943416 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 24
43943355 TAAATTTAGA
*
43943365 ATATTTATAAAAAATTGAAAATTT
1 ATATTTATAAAAAATTGAAAAATT
*
43943389 ATATTT-TAAGAAAATTATAAAAATT
1 ATATTTATAA-AAAATT-GAAAAATT
43943414 ATA
1 ATA
43943417 AAAAATTACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 3 0.12
24 12 0.50
25 9 0.38
ACGTcount: A:0.56, C:0.00, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATTTATAAAAAATTGAAAAATT
Found at i:43943419 original size:8 final size:9
Alignment explanation
Indices: 43943399--43943459 Score: 54
Period size: 10 Copynumber: 6.7 Consensus size: 9
43943389 ATATTTTAAG
43943399 AAAATTATA
1 AAAATTATA
43943408 AAAATTATAA
1 AAAATTAT-A
*
43943418 AAAATTACAA
1 AAAATTA-TA
43943428 AAAATTATTA
1 AAAATTA-TA
*
43943438 AAAAGT-T-
1 AAAATTATA
*
43943445 AAAATTTTA
1 AAAATTATA
43943454 AAAATT
1 AAAATT
43943460 TTCTAAAATA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
7 5 0.12
8 2 0.05
9 14 0.33
10 22 0.51
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAATTATA
Done.