Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A12
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: 103038859
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4950000 characters in sequence are not A, C, G, or T
File 257 of 320
Found at i:83807909 original size:19 final size:20
Alignment explanation
Indices: 83807885--83807927 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
83807875 CGAAAAAAGA
83807885 AAAATC-CCTCTTGAATCTC
1 AAAATCTCCTCTTGAATCTC
*
83807904 AAAATCTCTTCTTGAATCTC
1 AAAATCTCCTCTTGAATCTC
83807924 AAAA
1 AAAA
83807928 AAAATCTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.33
Consensus pattern (20 bp):
AAAATCTCCTCTTGAATCTC
Found at i:83808409 original size:44 final size:43
Alignment explanation
Indices: 83808345--83808430 Score: 120
Period size: 44 Copynumber: 2.0 Consensus size: 43
83808335 TGAGTTCTTG
*
83808345 ATCTGCTTCTTCGATCTGTTCCCCATAAACACAGGGATGCCAA
1 ATCTGCTTCTTCAATCTGTTCCCCATAAACACAGGGATGCCAA
**
83808388 ATCTGCTGTCTTCAA-CTTGTTCCTTATAAACACAGGGATGCCA
1 ATCTGCT-TCTTCAATC-TGTTCCCCATAAACACAGGGATGCCA
83808431 TGCTGAAATC
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
43 8 0.21
44 30 0.79
ACGTcount: A:0.26, C:0.28, G:0.16, T:0.30
Consensus pattern (43 bp):
ATCTGCTTCTTCAATCTGTTCCCCATAAACACAGGGATGCCAA
Found at i:83808854 original size:205 final size:204
Alignment explanation
Indices: 83808484--83808863 Score: 600
Period size: 205 Copynumber: 1.9 Consensus size: 204
83808474 AGATCTATTT
* * **
83808484 CTTCGATTTGTTCCCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTAACGTAAGCAC
1 CTTCGATTCGTTCCCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTTAACGTAAGCAC
* *
83808549 GTGAAAGCCAAATCAACTATGATTCGATTTGCTCCTTGTAAGCATAAGGATGCCAAACCATCTTG
66 GTGAAAGCCAAATCAACTATGATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTG
* *
83808614 GATCCGCTTCAGCATAAACATTCGAAGGTGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
131 AATCCGCTTCAGCATAAACATTCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
83808679 GATGCCAAA
196 GATGCCAAA
* * ** *
83808688 CTTCGATTCGTTCTCTGACGATACAGAGACGAAAAATCATCTTAGATTTGCTTTCTCGTAATCAC
1 CTTCGATTCGTTCCCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTTAACGTAAGCAC
* *
83808753 GTGAAAGCCAAATCAACTATGTCTTCGATTTGTTCCTTGTAAACACAAGGATGCCAAACCATCTT
66 GTGAAAGCCAAATCAACTATG-ATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTT
83808818 GAATCCGCTTCAGCATAAACA-TCTGAAGGCGAGATCTGCTATGTGT
130 GAATCCGCTTCAGCATAAACATTC-GAAGGCGAGATCTGCTATGTGT
83808864 GGCCTATTAC
Statistics
Matches: 159, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
204 79 0.50
205 80 0.50
ACGTcount: A:0.30, C:0.23, G:0.18, T:0.29
Consensus pattern (204 bp):
CTTCGATTCGTTCCCTGACAATACAGAGACGAAAAATCATCTTAGATTTGCTTTAACGTAAGCAC
GTGAAAGCCAAATCAACTATGATTCGATTTGCTCCTTGTAAACACAAGGATGCCAAACCATCTTG
AATCCGCTTCAGCATAAACATTCGAAGGCGAGATCTGCTATGTGTCTGCTCTCCATCAAAGTGAA
GATGCCAAA
Found at i:83816781 original size:13 final size:15
Alignment explanation
Indices: 83816751--83816781 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83816741 TTTCAGATTT
83816751 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
83816766 TCTTTTCTACCTCTC
1 TCTTTTCTACCTCTC
83816781 T
1 T
83816782 GGAAAGTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.39, G:0.00, T:0.55
Consensus pattern (15 bp):
TCTTTTCTACCTCTC
Found at i:83816867 original size:15 final size:14
Alignment explanation
Indices: 83816825--83816874 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
83816815 ATAACTTTGA
*
83816825 ATGCAAATGATGTG
1 ATGCAAATGATGAG
83816839 ATG-AAATGTTATGAG
1 ATGCAAATG--ATGAG
83816854 ATGCAAATGCATGA-
1 ATGCAAATG-ATGAG
83816868 ATGCAAA
1 ATGCAAA
83816875 AAGAATATCG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
13 5 0.16
14 10 0.32
15 11 0.35
16 5 0.16
ACGTcount: A:0.42, C:0.08, G:0.24, T:0.26
Consensus pattern (14 bp):
ATGCAAATGATGAG
Found at i:83819761 original size:27 final size:28
Alignment explanation
Indices: 83819706--83819761 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
83819696 AGTTTTGGTC
83819706 CACGAAGTAAAAGAACGGGTTCGGGAGT
1 CACGAAGTAAAAGAACGGGTTCGGGAGT
83819734 CACGAAGTAAAAGAAC-GGTTCGGGAGT
1 CACGAAGTAAAAGAACGGGTTCGGGAGT
83819761 C
1 C
83819762 GGTTACGTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 12 0.43
28 16 0.57
ACGTcount: A:0.36, C:0.16, G:0.34, T:0.14
Consensus pattern (28 bp):
CACGAAGTAAAAGAACGGGTTCGGGAGT
Found at i:83820757 original size:22 final size:22
Alignment explanation
Indices: 83820706--83820766 Score: 61
Period size: 22 Copynumber: 2.8 Consensus size: 22
83820696 ATAAGTAAAT
* *
83820706 ACAAAAATAA-AGGAAAATATA
1 ACAAAAATAATAGAAAAATACA
* *
83820727 ATAACAATAATAGAAAAATACA
1 ACAAAAATAATAGAAAAATACA
* *
83820749 ACAATAATAATAGTAAAA
1 ACAAAAATAATAGAAAAA
83820767 GATATAATAA
Statistics
Matches: 32, Mismatches: 7, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 8 0.25
22 24 0.75
ACGTcount: A:0.69, C:0.07, G:0.07, T:0.18
Consensus pattern (22 bp):
ACAAAAATAATAGAAAAATACA
Found at i:83820853 original size:27 final size:27
Alignment explanation
Indices: 83820812--83820879 Score: 75
Period size: 27 Copynumber: 2.5 Consensus size: 27
83820802 CAATATGACG
* *
83820812 ATAATAGTAAAAATAATATATTAAATA
1 ATAATAATAATAATAATATATTAAATA
* * *
83820839 ATAATAATAATAATAATCTATTAAGTT
1 ATAATAATAATAATAATATATTAAATA
83820866 ATAATGAA-AATAAT
1 ATAAT-AATAATAAT
83820880 GGTAATGATG
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
27 33 0.94
28 2 0.06
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.35
Consensus pattern (27 bp):
ATAATAATAATAATAATATATTAAATA
Found at i:83820963 original size:16 final size:16
Alignment explanation
Indices: 83820944--83820975 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
83820934 TTATAATAAT
83820944 AGTGATGAGAATAACA
1 AGTGATGAGAATAACA
*
83820960 AGTGATGATAATAACA
1 AGTGATGAGAATAACA
83820976 GTAACAATAG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.50, C:0.06, G:0.22, T:0.22
Consensus pattern (16 bp):
AGTGATGAGAATAACA
Found at i:83821108 original size:16 final size:15
Alignment explanation
Indices: 83821079--83821121 Score: 59
Period size: 16 Copynumber: 2.8 Consensus size: 15
83821069 TATACGTATG
*
83821079 AAAAATAATGATAGT
1 AAAAATAATAATAGT
83821094 AAAATATAATAATAGT
1 AAAA-ATAATAATAGT
*
83821110 AATAATAATAAT
1 AAAAATAATAAT
83821122 GGAATGAAGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.48
16 13 0.52
ACGTcount: A:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (15 bp):
AAAAATAATAATAGT
Found at i:83821877 original size:24 final size:24
Alignment explanation
Indices: 83821826--83821886 Score: 83
Period size: 21 Copynumber: 2.7 Consensus size: 24
83821816 AATCTCGAAA
* *
83821826 AAAAAAAATCCCCTCTTGAATCTC
1 AAAAAAAATCTCTTCTTGAATCTC
83821850 ---AAAAATCTCTTCTTGAATCTC
1 AAAAAAAATCTCTTCTTGAATCTC
83821871 AAAAAAAATCTCTTCT
1 AAAAAAAATCTCTTCT
83821887 CTCCAAAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
21 19 0.59
24 13 0.41
ACGTcount: A:0.41, C:0.25, G:0.03, T:0.31
Consensus pattern (24 bp):
AAAAAAAATCTCTTCTTGAATCTC
Found at i:83824774 original size:25 final size:23
Alignment explanation
Indices: 83824732--83824777 Score: 65
Period size: 25 Copynumber: 1.9 Consensus size: 23
83824722 TTTTTTTTAA
*
83824732 TATTTGTTTTTATGTTTTAAATG
1 TATTTGTTTTTATATTTTAAATG
83824755 TATTTGATTTATTATATTTTAAA
1 TATTTG-TTT-TTATATTTTAAA
83824778 GTTTTTATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 3 0.15
25 11 0.55
ACGTcount: A:0.28, C:0.00, G:0.09, T:0.63
Consensus pattern (23 bp):
TATTTGTTTTTATATTTTAAATG
Found at i:83827603 original size:43 final size:43
Alignment explanation
Indices: 83827547--83827682 Score: 141
Period size: 43 Copynumber: 3.2 Consensus size: 43
83827537 CTTACATGTT
* *
83827547 ATCACATATCGATGCCACTGTCCCAAACAGGGTCTTACACGAA
1 ATCACATAACGATGCCAATGTCCCAAACAGGGTCTTACACGAA
* * *
83827590 ATCATATAACGATGCCAATGTCCCAGACATGGTCTTACAC-ATA
1 ATCACATAACGATGCCAATGTCCCAAACAGGGTCTTACACGA-A
* * * * * *
83827633 ATCACA-ATACAATGCCAATGTCCTAGACATGGTCTTACATGTA
1 ATCACATA-ACGATGCCAATGTCCCAAACAGGGTCTTACACGAA
83827676 ATCACAT
1 ATCACAT
83827683 CTCAGTAACC
Statistics
Matches: 79, Mismatches: 10, Indels: 7
0.82 0.10 0.07
Matches are distributed among these distances:
42 2 0.03
43 77 0.97
ACGTcount: A:0.35, C:0.26, G:0.14, T:0.25
Consensus pattern (43 bp):
ATCACATAACGATGCCAATGTCCCAAACAGGGTCTTACACGAA
Found at i:83838275 original size:40 final size:40
Alignment explanation
Indices: 83838220--83838360 Score: 228
Period size: 40 Copynumber: 3.5 Consensus size: 40
83838210 TATGTGCATA
83838220 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
83838260 GCATTCGTGCGGGTTATTATAATCGGGTTAAGTCCCAAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
83838300 GCATTTGTGCGGGTTATTATAACCGAGTTAAGTCCCGAAG
1 GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
* *
83838340 GCATTCGTGCTGGTTGTTATA
1 GCATTCGTGCGGGTTATTATA
83838361 TCCGAGCCAA
Statistics
Matches: 92, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
40 92 1.00
ACGTcount: A:0.23, C:0.18, G:0.28, T:0.31
Consensus pattern (40 bp):
GCATTCGTGCGGGTTATTATAACCGGGTTAAGTCCCGAAG
Found at i:83844059 original size:18 final size:18
Alignment explanation
Indices: 83844036--83844071 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
83844026 TAACATATAA
83844036 AAGTATATAATACATACC
1 AAGTATATAATACATACC
83844054 AAGTATATAATACATACC
1 AAGTATATAATACATACC
83844072 TGACCAACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.17, G:0.06, T:0.28
Consensus pattern (18 bp):
AAGTATATAATACATACC
Found at i:83844459 original size:39 final size:39
Alignment explanation
Indices: 83844204--83844437 Score: 328
Period size: 39 Copynumber: 6.0 Consensus size: 39
83844194 AGAAAGCATG
* * *
83844204 CGGGACTTTAAGCCCGGATATAATACCAGCATAAA-GCCTG
1 CGGGAC-TT-AGCCCGGATATAACACCAGCACAAATGCCTT
* *
83844244 CGGGACTTTAGCCCGGATATAATACCAGCATAAATGCCTT
1 CGGGAC-TTAGCCCGGATATAACACCAGCACAAATGCCTT
83844284 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* *
83844323 CGAGACTTAGCCCGGATATAACACCAGAACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
*
83844362 CGGGACTTAGCCCAGATATAACACCAGCACAAATGCCTT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
* * *
83844401 CGGGACTTAGCTCGGATATAATACCAGCATAAA-GCCT
1 CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCT
83844438 GCGGACCTCA
Statistics
Matches: 181, Mismatches: 12, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
38 4 0.02
39 158 0.87
40 19 0.10
ACGTcount: A:0.32, C:0.27, G:0.20, T:0.20
Consensus pattern (39 bp):
CGGGACTTAGCCCGGATATAACACCAGCACAAATGCCTT
Found at i:83852527 original size:21 final size:21
Alignment explanation
Indices: 83852502--83852542 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
83852492 AAGTCCAAAG
*
83852502 GCTAAATAGAAGCACATAAGT
1 GCTAAATAGAAACACATAAGT
*
83852523 GCTAAATAGAAACCCATAAG
1 GCTAAATAGAAACACATAAG
83852543 GGTTAAACAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.49, C:0.17, G:0.17, T:0.17
Consensus pattern (21 bp):
GCTAAATAGAAACACATAAGT
Found at i:83852549 original size:21 final size:21
Alignment explanation
Indices: 83852501--83852549 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
83852491 GAAGTCCAAA
*
83852501 GGCTAAATAGAAGCACATAAG
1 GGCTAAATAGAAACACATAAG
* *
83852522 TGCTAAATAGAAACCCATAAG
1 GGCTAAATAGAAACACATAAG
*
83852543 GGTTAAA
1 GGCTAAA
83852550 CAAAAGCTTA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.18
Consensus pattern (21 bp):
GGCTAAATAGAAACACATAAG
Found at i:83858006 original size:47 final size:47
Alignment explanation
Indices: 83857934--83858057 Score: 149
Period size: 47 Copynumber: 2.6 Consensus size: 47
83857924 AATCAATAAG
* * * **
83857934 TACCTATACCATAGCCCGTACCCAAATCAAGGTAACTTATCCCGGAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
* * * * *
83857981 TACCTGTACCATGGCCCATAGCCAAATCAAGGTAGCTCCTCTCAAAA
1 TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
*
83858028 TACCTATACCATGGCCCGTGGCCAAATCAA
1 TACCTATACCATGGCCCGTAGCCAAATCAA
83858058 TGTATTATTC
Statistics
Matches: 64, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.32, C:0.32, G:0.15, T:0.21
Consensus pattern (47 bp):
TACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCAAAA
Found at i:83858668 original size:28 final size:29
Alignment explanation
Indices: 83858604--83858668 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
83858594 TTTTCATTTA
* *
83858604 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
* * *
83858633 TTTCTCAATTTAATCTCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
83858661 TTTGTCAA
1 TTTCTCAA
83858669 AAATCACTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:83873828 original size:37 final size:37
Alignment explanation
Indices: 83873778--83873856 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
83873768 TTATTACGAA
* * *
83873778 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
83873815 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
83873852 GTCTT
1 GTCTT
83873857 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:83874062 original size:47 final size:47
Alignment explanation
Indices: 83873975--83874450 Score: 709
Period size: 47 Copynumber: 10.1 Consensus size: 47
83873965 CCTTTCGGGA
* * * * * * * * *
83873975 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83874022 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83874069 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
83874116 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
83874163 CTTATCACACACATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
83874210 CCTATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83874257 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83874304 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83874351 CTTATCACGTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
83874398 CCTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
83874447 CTTA
1 CTTA
83874451 CTATCATTTC
Statistics
Matches: 402, Mismatches: 25, Indels: 2
0.94 0.06 0.00
Matches are distributed among these distances:
47 361 0.90
49 41 0.10
ACGTcount: A:0.28, C:0.31, G:0.10, T:0.31
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:83893785 original size:25 final size:25
Alignment explanation
Indices: 83893751--83893801 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
83893741 TAGAAAAATT
*
83893751 TATTCTGATTAATTTTTATAATTTA
1 TATTCCGATTAATTTTTATAATTTA
83893776 TATTCCGATTAATTTTTATAATTTA
1 TATTCCGATTAATTTTTATAATTTA
83893801 T
1 T
83893802 TGAGTGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.31, C:0.06, G:0.04, T:0.59
Consensus pattern (25 bp):
TATTCCGATTAATTTTTATAATTTA
Found at i:83893810 original size:25 final size:23
Alignment explanation
Indices: 83893747--83893811 Score: 67
Period size: 25 Copynumber: 2.7 Consensus size: 23
83893737 TAAGTAGAAA
**
83893747 AATTTATTCTGATTAATTTTTAT
1 AATTTATAGTGATTAATTTTTAT
*
83893770 AATTTATATTCCGATTAATTTTTAT
1 AATTTATAGT--GATTAATTTTTAT
83893795 AATTTATTGAGTGATTA
1 AATTTA-T-AGTGATTA
83893812 GATGCATGTG
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
23 8 0.23
25 24 0.69
26 1 0.03
27 2 0.06
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (23 bp):
AATTTATAGTGATTAATTTTTAT
Found at i:83895019 original size:28 final size:29
Alignment explanation
Indices: 83894955--83895019 Score: 69
Period size: 28 Copynumber: 2.3 Consensus size: 29
83894945 TTTTCATTTA
* *
83894955 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCTCAATTTAACCCCTCAATTGACACT
** *
83894984 TTTCTCAATTTAATTCCT-AATTGACATT
1 TTTCTCAATTTAACCCCTCAATTGACACT
*
83895012 TTTGTCAA
1 TTTCTCAA
83895020 AAATCACTTT
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
28 15 0.50
29 15 0.50
ACGTcount: A:0.29, C:0.23, G:0.03, T:0.45
Consensus pattern (29 bp):
TTTCTCAATTTAACCCCTCAATTGACACT
Found at i:83898046 original size:25 final size:25
Alignment explanation
Indices: 83898012--83898085 Score: 98
Period size: 25 Copynumber: 3.0 Consensus size: 25
83898002 GCAAGAGACA
* *
83898012 CACGCTCGTGTGGCCAGGCTGTGTG
1 CACGCCCGTGTGGCCAGGCCGTGTG
83898037 CACGCCCGTGTGGCCAGGCCGTGTG
1 CACGCCCGTGTGGCCAGGCCGTGTG
*
83898062 CACGTCCGTGT--CCTAGGCCGTGTG
1 CACGCCCGTGTGGCC-AGGCCGTGTG
83898086 GACATTCGAT
Statistics
Matches: 45, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
23 2 0.04
24 10 0.22
25 33 0.73
ACGTcount: A:0.08, C:0.32, G:0.38, T:0.22
Consensus pattern (25 bp):
CACGCCCGTGTGGCCAGGCCGTGTG
Found at i:83901690 original size:172 final size:175
Alignment explanation
Indices: 83901394--83901733 Score: 479
Period size: 172 Copynumber: 2.0 Consensus size: 175
83901384 TTTTGAAGAG
* * *
83901394 ATTATTCTAAAAATTTTCTAAAGATATTTTTTTGATTTACAACTTTACCCAAAAGTTTAGAGAAA
1 ATTATTCTAAAAAATTTCTAAAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
* * *** * * *
83901459 TTGTAATATTACCCTAATAGTAATTTTTGTGAATTTTTTTTTTATTTGAAGCGAGCCCAC-CTC-
66 TTGTAAAATTACCCCAATAGTAATTTTTGTGAAAAATTTTCTAATTAGAAGCGAGCCCACACTCG
* *
83901522 A-AAAAATGAGCTTGAGGATAGCGAAGACGACTACTCGATTAAAT
131 ACAAAAATGAGCTTAAGGATAGCGAAGAAGACTACTCGATTAAAT
*
83901566 ATTATTCTAAAAAATTTCTAGAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
1 ATTATTCTAAAAAATTTCTAAAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
* * *
83901631 TTGTAAAATTACCCCACTGGTAATTTTTGTGAAAAATTTTCTAATTAGAAGCTAGCCCACACTCG
66 TTGTAAAATTACCCCAATAGTAATTTTTGTGAAAAATTTTCTAATTAGAAGCGAGCCCACACTCG
** *
83901696 ACAAACGTGATCTTAAGGATAGCGAAGAAGACTACTCG
131 ACAAAAATGAGCTTAAGGATAGCGAAGAAGACTACTCG
83901734 GTCGAATAAA
Statistics
Matches: 145, Mismatches: 20, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
172 110 0.76
173 3 0.02
174 1 0.01
175 31 0.21
ACGTcount: A:0.36, C:0.15, G:0.14, T:0.35
Consensus pattern (175 bp):
ATTATTCTAAAAAATTTCTAAAGATATTTTTCTGATTTACAACTTGACCCAAAAGTTTAGAGAAA
TTGTAAAATTACCCCAATAGTAATTTTTGTGAAAAATTTTCTAATTAGAAGCGAGCCCACACTCG
ACAAAAATGAGCTTAAGGATAGCGAAGAAGACTACTCGATTAAAT
Found at i:83905266 original size:25 final size:27
Alignment explanation
Indices: 83905232--83905283 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
83905222 AATTGGTAAA
*
83905232 ATTTTTCTATCA-AT-ATTTTCATGCG
1 ATTTTCCTATCATATAATTTTCATGCG
83905257 ATTTTCCTATCATATCAATTTTCATGC
1 ATTTTCCTATCATAT-AATTTTCATGC
83905284 AAAAATATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
28 10 0.43
ACGTcount: A:0.25, C:0.19, G:0.06, T:0.50
Consensus pattern (27 bp):
ATTTTCCTATCATATAATTTTCATGCG
Found at i:83905734 original size:11 final size:11
Alignment explanation
Indices: 83905714--83905745 Score: 55
Period size: 11 Copynumber: 2.9 Consensus size: 11
83905704 AGAAATTGCA
*
83905714 TTAATGGCATG
1 TTAATTGCATG
83905725 TTAATTGCATG
1 TTAATTGCATG
83905736 TTAATTGCAT
1 TTAATTGCAT
83905746 ATTACCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.28, C:0.09, G:0.19, T:0.44
Consensus pattern (11 bp):
TTAATTGCATG
Found at i:83912384 original size:12 final size:12
Alignment explanation
Indices: 83912367--83912399 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
83912357 TATTTTTTAG
83912367 TTATTTACTCAC
1 TTATTTACTCAC
*
83912379 TTATTTATTCAC
1 TTATTTACTCAC
83912391 TTATTTACT
1 TTATTTACT
83912400 TCAATTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.18, G:0.00, T:0.58
Consensus pattern (12 bp):
TTATTTACTCAC
Found at i:83913334 original size:64 final size:64
Alignment explanation
Indices: 83913256--83913391 Score: 157
Period size: 63 Copynumber: 2.1 Consensus size: 64
83913246 ATAGAAATAG
* * * **
83913256 TGAAAACGGAGAAATGGGAAACATTTAGAAATGAATGCAGTTTTCTCTGAAATGAAAATG-AAAA
1 TGAAAATGGAGAAAT-AGAAACATTTAGAAATGAATACAGTTTTCTCCAAAATGAAAATGAAAAA
* * * * **
83913320 TGAAAATGGTGAAATAGAATCATTTGGGAATGAATATGGTTTTCTCCAAAATGAAAATGAAAAA
1 TGAAAATGGAGAAATAGAAACATTTAGAAATGAATACAGTTTTCTCCAAAATGAAAATGAAAAA
83913384 TGAAAATG
1 TGAAAATG
83913392 ACCTGGAAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
63 35 0.58
64 25 0.42
ACGTcount: A:0.46, C:0.07, G:0.21, T:0.26
Consensus pattern (64 bp):
TGAAAATGGAGAAATAGAAACATTTAGAAATGAATACAGTTTTCTCCAAAATGAAAATGAAAAA
Found at i:83913385 original size:13 final size:13
Alignment explanation
Indices: 83913367--83913392 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
83913357 GGTTTTCTCC
83913367 AAAATGAAAATGA
1 AAAATGAAAATGA
83913380 AAAATGAAAATGA
1 AAAATGAAAATGA
83913393 CCTGGAAATG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (13 bp):
AAAATGAAAATGA
Found at i:83914586 original size:18 final size:17
Alignment explanation
Indices: 83914564--83914608 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
83914554 AAAAAAATTA
83914564 AAAATTTTTAAAAATAT
1 AAAATTTTTAAAAATAT
**
83914581 ATAAATTCATAAAAAGTAT
1 A-AAATTTTTAAAAA-TAT
83914600 AAAATTTTT
1 AAAATTTTT
83914609 CACATCAAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.05
18 17 0.77
19 4 0.18
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (17 bp):
AAAATTTTTAAAAATAT
Found at i:83916192 original size:33 final size:33
Alignment explanation
Indices: 83916139--83916203 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
83916129 AATAAAATAG
*
83916139 TTTAAATTTTAGTAGGACAATTAAAGGAAACAT
1 TTTAAATTTTAGTAGAACAATTAAAGGAAACAT
*
83916172 TTTAAAGTTTT-GTAGAACAATTAAATGAAACA
1 TTTAAA-TTTTAGTAGAACAATTAAAGGAAACA
83916204 GTCAAATTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 25 0.86
34 4 0.14
ACGTcount: A:0.46, C:0.06, G:0.14, T:0.34
Consensus pattern (33 bp):
TTTAAATTTTAGTAGAACAATTAAAGGAAACAT
Found at i:83917086 original size:24 final size:22
Alignment explanation
Indices: 83917009--83917086 Score: 59
Period size: 24 Copynumber: 3.3 Consensus size: 22
83916999 ATGTATAATA
*
83917009 AATATAAAAATTAATAATTATTT
1 AATATAAAAATTAA-AATTATAT
*
83917032 AATATTACAAAATTTAAATT-TAAT
1 AATA-TA-AAAATTAAAATTAT-AT
*
83917056 GATTATATAAAATATAAAATTATAT
1 -AATATA-AAAAT-TAAAATTATAT
83917081 AATATA
1 AATATA
83917087 CTAATTTAAT
Statistics
Matches: 43, Mismatches: 6, Indels: 11
0.72 0.10 0.18
Matches are distributed among these distances:
23 5 0.12
24 19 0.44
25 18 0.42
26 1 0.02
ACGTcount: A:0.56, C:0.01, G:0.01, T:0.41
Consensus pattern (22 bp):
AATATAAAAATTAAAATTATAT
Found at i:83919216 original size:20 final size:23
Alignment explanation
Indices: 83919193--83919236 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
83919183 CCAATATTTG
83919193 CAAACA-TAT-ACCAA-CCAATT
1 CAAACATTATAACCAAGCCAATT
83919213 CAAACATTATAACCAAGCCAATT
1 CAAACATTATAACCAAGCCAATT
83919236 C
1 C
83919237 TAACTTCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.29
21 3 0.14
22 5 0.24
23 7 0.33
ACGTcount: A:0.48, C:0.30, G:0.02, T:0.20
Consensus pattern (23 bp):
CAAACATTATAACCAAGCCAATT
Found at i:83920607 original size:13 final size:13
Alignment explanation
Indices: 83920589--83920621 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
83920579 GCATATGGGT
*
83920589 GTGTGTCTTGGCC
1 GTGTGTCTAGGCC
83920602 GTGTGTCTAGGCC
1 GTGTGTCTAGGCC
83920615 GTGTGTC
1 GTGTGTC
83920622 CCTAAATGCA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.03, C:0.21, G:0.39, T:0.36
Consensus pattern (13 bp):
GTGTGTCTAGGCC
Found at i:83922220 original size:22 final size:22
Alignment explanation
Indices: 83922194--83922239 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 22
83922184 TAAAATTATA
*
83922194 TTTTAATTAAA-AATATTTTAAT
1 TTTTAACTAAATAATA-TTTAAT
83922216 TTTTAACTAAATTAATATTTAAT
1 TTTTAACTAAA-TAATATTTAAT
83922239 T
1 T
83922240 AATTCATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 10 0.48
23 7 0.33
24 4 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TTTTAACTAAATAATATTTAAT
Found at i:83924939 original size:37 final size:37
Alignment explanation
Indices: 83924882--83924952 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
83924872 ATAATCACGT
* *
83924882 AAACTTATTACATGCAAACCCTAGGATTATGACAAGC
1 AAACTTATTACATACAAACCCTAGGACTATGACAAGC
*
83924919 AAACTTATTACATACGAACCCTAGGACTATGACA
1 AAACTTATTACATACAAACCCTAGGACTATGACA
83924953 CGTGAACCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.41, C:0.23, G:0.13, T:0.24
Consensus pattern (37 bp):
AAACTTATTACATACAAACCCTAGGACTATGACAAGC
Found at i:83924981 original size:22 final size:22
Alignment explanation
Indices: 83924923--83924987 Score: 76
Period size: 22 Copynumber: 3.0 Consensus size: 22
83924913 ACAAGCAAAC
*
83924923 TTATTACATACGAACCCTAGGA
1 TTATGACATACGAACCCTAGGA
* ***
83924945 CTATGACACGTGAACCCTAGGA
1 TTATGACATACGAACCCTAGGA
*
83924967 TTATGACATACGAACCTTAGG
1 TTATGACATACGAACCCTAGG
83924988 TCATGCTATA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (22 bp):
TTATGACATACGAACCCTAGGA
Found at i:83928590 original size:31 final size:30
Alignment explanation
Indices: 83928514--83928595 Score: 85
Period size: 31 Copynumber: 2.7 Consensus size: 30
83928504 TTTAATTATT
*
83928514 TATATTTTTATAATTTTTAAAATATTAAAA
1 TATATTTTTATTATTTTTAAAATATTAAAA
* *
83928544 TAATTTTTTTTTTATTTTTGAAAA-ATTTAAAA
1 T-ATATTTTTATTATTTTT-AAAATA-TTAAAA
* *
83928576 TATAATTTTATTATTATTAA
1 TATATTTTTATTATTTTTAA
83928596 TTTAAAATTT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
30 3 0.07
31 28 0.67
32 11 0.26
ACGTcount: A:0.41, C:0.00, G:0.01, T:0.57
Consensus pattern (30 bp):
TATATTTTTATTATTTTTAAAATATTAAAA
Found at i:83934022 original size:33 final size:33
Alignment explanation
Indices: 83933983--83934052 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
83933973 ACAAACATAC
83933983 AAAGTAATAATTAAATAATGCATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGATATACAAA
*
83934016 AAAGTAATAATTAAATAATGTATGATATACAAA
1 AAAGTAATAATTAAATAATGCATGATATACAAA
83934049 AAAG
1 AAAG
83934053 AGTAATACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.59, C:0.04, G:0.10, T:0.27
Consensus pattern (33 bp):
AAAGTAATAATTAAATAATGCATGATATACAAA
Found at i:83934289 original size:24 final size:24
Alignment explanation
Indices: 83934243--83934290 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
83934233 CTATACAATA
*
83934243 TATAAAACATGATAACAAAATATT
1 TATAAAAAATGATAACAAAATATT
*
83934267 TATAAAAGAATGATAA-AATATATT
1 TATAAAA-AATGATAACAAAATATT
83934291 GGGTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
25 7 0.33
ACGTcount: A:0.58, C:0.04, G:0.06, T:0.31
Consensus pattern (24 bp):
TATAAAAAATGATAACAAAATATT
Found at i:83934408 original size:12 final size:12
Alignment explanation
Indices: 83934368--83934470 Score: 50
Period size: 12 Copynumber: 8.2 Consensus size: 12
83934358 TATCCTTTTA
*
83934368 AAATAAAATAAT
1 AAATAATATAAT
**
83934380 ACTTAATA-AAT
1 AAATAATATAAT
83934391 AAATAATATAAT
1 AAATAATATAAT
*
83934403 AGATAATATATAAT
1 AAAT-A-ATATAAT
*
83934417 ATACATAACATATAT
1 A-A-ATAATATA-AT
*
83934432 AAA-AAAATAAT
1 AAATAATATAAT
*
83934443 AAGTAATATAGAAT
1 AAATAATAT--AAT
*
83934457 AAA-AATAAAAT
1 AAATAATATAAT
83934468 AAA
1 AAA
83934471 ATAAATGTTA
Statistics
Matches: 69, Mismatches: 13, Indels: 19
0.68 0.13 0.19
Matches are distributed among these distances:
11 19 0.28
12 20 0.29
13 6 0.09
14 18 0.26
15 4 0.06
16 2 0.03
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (12 bp):
AAATAATATAAT
Found at i:83934409 original size:23 final size:23
Alignment explanation
Indices: 83934368--83934469 Score: 61
Period size: 23 Copynumber: 4.5 Consensus size: 23
83934358 TATCCTTTTA
*
83934368 AAATAAAATAATACTTAATAAAT
1 AAATAAAATAATACATAATAAAT
* * *
83934391 AAATAATATAATAGATAATATAT
1 AAATAAAATAATACATAATAAAT
* *
83934414 -AATATACAT-A-ACATATATAAAA
1 AAATA-AAATAATACATA-ATAAAT
* *
83934436 AAATAATAAGTAATATAGAAT-AA-
1 AAATAA-AA-TAATACATAATAAAT
83934459 AAATAAAATAA
1 AAATAAAATAA
83934470 AATAAATGTT
Statistics
Matches: 61, Mismatches: 11, Indels: 16
0.69 0.12 0.18
Matches are distributed among these distances:
21 7 0.11
22 12 0.20
23 33 0.54
24 3 0.05
25 3 0.05
26 3 0.05
ACGTcount: A:0.66, C:0.03, G:0.03, T:0.28
Consensus pattern (23 bp):
AAATAAAATAATACATAATAAAT
Found at i:83937727 original size:3 final size:3
Alignment explanation
Indices: 83937721--83937992 Score: 131
Period size: 3 Copynumber: 91.7 Consensus size: 3
83937711 TTTTCTGTTC
* * ** *
83937721 TTA TTA TTA TCA CTA TTA TCG TTA TTA CTA TTA TTA TT- TT- TTA -TA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
83937766 TTA TTA TT- TATA TTA TTG TTG TTA TTA TTA TTA TTCC TGA TT- TTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* * * *
83937811 TTG TTA TTAA TGTA TTA TTG TTA TTCT TTA TT- TTA TTA TTA CTA TTA
1 TTA TTA TT-A T-TA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA
** * * *
83937858 TT- TCTA TTA TTA TTA TTA TGG CTA TTA TTT TTA TTA TGA TTA -TA
1 TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
83937902 TT- TTC TT- TT- TTAA GT- TTA TCTA CTTA TTA TT- TTA TTA TTAA TTA
1 TTA TTA TTA TTA TT-A TTA TTA T-TA -TTA TTA TTA TTA TTA TT-A TTA
** * *
83937946 TT- TTA GCA TTA TTTA TTA TTA TTA TTA TTT TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
83937991 TT
1 TT
83937993 TTTGATATCT
Statistics
Matches: 202, Mismatches: 44, Indels: 46
0.69 0.15 0.16
Matches are distributed among these distances:
2 25 0.12
3 155 0.77
4 20 0.10
5 2 0.01
ACGTcount: A:0.26, C:0.06, G:0.04, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:83938513 original size:15 final size:15
Alignment explanation
Indices: 83938490--83938529 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
83938480 TTCATCATTG
* *
83938490 TTATCATTGTTATTC
1 TTATTATTGTTATTA
83938505 TTATTATTGTTATTA
1 TTATTATTGTTATTA
*
83938520 TTATTTTTGT
1 TTATTATTGT
83938530 GTCATTATCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.20, C:0.05, G:0.07, T:0.68
Consensus pattern (15 bp):
TTATTATTGTTATTA
Found at i:83940298 original size:43 final size:43
Alignment explanation
Indices: 83940240--83940434 Score: 216
Period size: 43 Copynumber: 4.5 Consensus size: 43
83940230 AAATACCATA
* *
83940240 AAAGATCATGACTTTTAGCGGCGTTTGTAAGAAAAGCGTCGCT
1 AAAGATCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
* * * *
83940283 AAAGATCATGGCTTTTAGCGGCATTTGTGGGGAAAGTGTCGCT
1 AAAGATCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
* *
83940326 AAA-AGTCATGGCTTTTAGCAGCGTTTGTGAGGAAAGCGTCGCT
1 AAAGA-TCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
* ** * * *
83940369 AAAGATCATGACTTTTAGCAACTTTTGTGGGAAAAGC-ACTGCT
1 AAAGATCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGTC-GCT
83940412 AAA-AGTCATGGCTTTTAGCGGCG
1 AAAGA-TCATGGCTTTTAGCGGCG
83940435 CTTTTTTTAC
Statistics
Matches: 128, Mismatches: 20, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.02
43 124 0.97
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.29
Consensus pattern (43 bp):
AAAGATCATGGCTTTTAGCGGCGTTTGTGAGAAAAGCGTCGCT
Found at i:83940396 original size:86 final size:86
Alignment explanation
Indices: 83940238--83940430 Score: 262
Period size: 86 Copynumber: 2.2 Consensus size: 86
83940228 AAAAATACCA
* * * *
83940238 TAAAAGATCATGACTTTTAGCGGCGTTTGTAAGAAAAGCGTCGCTAAAGATCATGGCTTTTAGCG
1 TAAAAG-TCATGGCTTTTAGCAGCGTTTGTAAGAAAAGCGTCGCTAAAGATCATGACTTTTAGCA
* * **
83940303 GCATTTGTGGGGAAAG-TGTCGC
65 ACATTTGTGGGAAAAGCACT-GC
* *
83940325 TAAAAGTCATGGCTTTTAGCAGCGTTTGTGAGGAAAGCGTCGCTAAAGATCATGACTTTTAGCAA
1 TAAAAGTCATGGCTTTTAGCAGCGTTTGTAAGAAAAGCGTCGCTAAAGATCATGACTTTTAGCAA
*
83940390 CTTTTGTGGGAAAAGCACTGC
66 CATTTGTGGGAAAAGCACTGC
83940411 TAAAAGTCATGGCTTTTAGC
1 TAAAAGTCATGGCTTTTAGC
83940431 GGCGCTTTTT
Statistics
Matches: 94, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
86 87 0.93
87 7 0.07
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (86 bp):
TAAAAGTCATGGCTTTTAGCAGCGTTTGTAAGAAAAGCGTCGCTAAAGATCATGACTTTTAGCAA
CATTTGTGGGAAAAGCACTGC
Found at i:83940541 original size:31 final size:31
Alignment explanation
Indices: 83940506--83940571 Score: 96
Period size: 31 Copynumber: 2.1 Consensus size: 31
83940496 AACCCTTCCT
* *
83940506 GCATTAAATCCAACCAAATACAACTAATATA
1 GCATTAAATCCAACCAAAAACAACAAATATA
* *
83940537 GCATTGAATCCAACCAAAAACAACAAATGTA
1 GCATTAAATCCAACCAAAAACAACAAATATA
83940568 GCAT
1 GCAT
83940572 AAAAAATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.50, C:0.23, G:0.08, T:0.20
Consensus pattern (31 bp):
GCATTAAATCCAACCAAAAACAACAAATATA
Found at i:83940848 original size:21 final size:21
Alignment explanation
Indices: 83940824--83940875 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
83940814 TCTACTGCCA
83940824 TCGCTGCTGCCGCTACCTCCC
1 TCGCTGCTGCCGCTACCTCCC
* **
83940845 TCGCTGTTGCCGCTGTCTCCC
1 TCGCTGCTGCCGCTACCTCCC
*
83940866 TTGCTGCTGC
1 TCGCTGCTGC
83940876 ATCCGTTCTA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.02, C:0.44, G:0.23, T:0.31
Consensus pattern (21 bp):
TCGCTGCTGCCGCTACCTCCC
Found at i:83941309 original size:13 final size:14
Alignment explanation
Indices: 83941283--83941311 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
83941273 ACTAACGACG
83941283 AATTAAACCATTAT
1 AATTAAACCATTAT
83941297 AATTAAA-CATTAT
1 AATTAAACCATTAT
83941310 AA
1 AA
83941312 ATATTTATAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.55, C:0.10, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACCATTAT
Found at i:83946453 original size:64 final size:64
Alignment explanation
Indices: 83946376--83946795 Score: 723
Period size: 64 Copynumber: 6.6 Consensus size: 64
83946366 TGATATATAT
83946376 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
*
83946440 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATAAAATTTGATCTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
*
83946504 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTATATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
* * *
83946568 TTATGTATTATGAAAGTTATGTAAATTATGTAAGTTATGAAATCTGATCTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
* *
83946632 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTTAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
* * * *
83946696 TTATGTATTATGTACGTTTTTTAAATTATGTAAGTTATGAAATTTGAACTTTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
* *
83946760 TTATGTATTATGTAAATTATGTAAATTATGTGAGTT
1 TTATGTATTATGTAAGTTATGTAAATTATGTAAGTT
83946796 GCTGGTGAAC
Statistics
Matches: 337, Mismatches: 19, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
64 337 1.00
ACGTcount: A:0.35, C:0.02, G:0.15, T:0.47
Consensus pattern (64 bp):
TTATGTATTATGTAAGTTATGTAAATTATGTAAGTTATGAAATTTGATCTTTAAATTATGTAAG
Found at i:83946857 original size:43 final size:43
Alignment explanation
Indices: 83946810--83946891 Score: 121
Period size: 43 Copynumber: 1.9 Consensus size: 43
83946800 GTGAACTTGA
83946810 AAATAAAACTTAATTTAATTAGGTAAAT-TGAAAATAAAACTTT
1 AAATAAAACTTAATTTAATTAGGT-AATGTGAAAATAAAACTTT
* * *
83946853 AAATACAACTTAATTTAATTATGTAATGTTAAAATAAAA
1 AAATAAAACTTAATTTAATTAGGTAATGTGAAAATAAAA
83946892 TAAAATATTG
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
42 3 0.09
43 32 0.91
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.35
Consensus pattern (43 bp):
AAATAAAACTTAATTTAATTAGGTAATGTGAAAATAAAACTTT
Found at i:83946954 original size:99 final size:99
Alignment explanation
Indices: 83946840--83947200 Score: 431
Period size: 99 Copynumber: 3.5 Consensus size: 99
83946830 AGGTAAATTG
* *
83946840 AAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAATAAAATATTGAA
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATAAAATATTGAA
83946904 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
65 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
* * * ***
83946939 AAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAATTAAAGA-AAACA
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAA-TAAA-ATATTGA
* * *
83947003 AAATATTTTTCGTGATTAAATTTAAGTGAAATAAATTAAAATATTT
64 AATTAATTTTCGTGATT-CA---AA-T---A-AAA-TAAAATATTT
* *
83947049 AAAATAAAACTTTAAATACAACTTAATTTAATTATGT-AATGTTAAAATAAAATAAAATATTGAA
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAAT-TGAAAATAAAATAAAATATTGAA
83947113 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
65 ATTAATTTTCGTGATTCAAATAAAATAAAATATTT
* * *
83947148 AAAATGAAACTTTAAATATAATTTAATTTAATTAGGTAAATTGAAAATAAAAT
1 AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAAT
83947201 TAAAGAAAAC
Statistics
Matches: 219, Mismatches: 27, Indels: 32
0.79 0.10 0.12
Matches are distributed among these distances:
99 97 0.44
100 30 0.14
101 3 0.01
104 3 0.01
105 3 0.01
108 3 0.01
109 27 0.12
110 53 0.24
ACGTcount: A:0.53, C:0.04, G:0.06, T:0.37
Consensus pattern (99 bp):
AAAATAAAACTTTAAATACAACTTAATTTAATTAGGTAAATTGAAAATAAAATAAAATATTGAAA
TTAATTTTCGTGATTCAAATAAAATAAAATATTT
Found at i:83950881 original size:14 final size:13
Alignment explanation
Indices: 83950862--83950905 Score: 52
Period size: 14 Copynumber: 3.2 Consensus size: 13
83950852 AACCCTTATC
83950862 CCATAAACACTAAA
1 CCATAAAC-CTAAA
83950876 CCATAAACCCTAAA
1 CCATAAA-CCTAAA
*
83950890 TCATAAATCCTAAA
1 CCATAAA-CCTAAA
83950904 CC
1 CC
83950906 CTTAACCCCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
14 25 0.96
15 1 0.04
ACGTcount: A:0.50, C:0.32, G:0.00, T:0.18
Consensus pattern (13 bp):
CCATAAACCTAAA
Found at i:83951003 original size:20 final size:21
Alignment explanation
Indices: 83950946--83951004 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
83950936 TAAACCATAA
* * *
83950946 AACCTCTAACCCTTAACCTCC
1 AACCCCTAAACCTTAAACTCC
83950967 AACCCCTAAACCTTAAACTCC
1 AACCCCTAAACCTTAAACTCC
83950988 AA-CCCTAAATCC-TAAAC
1 AACCCCTAAA-CCTTAAAC
83951005 CATAATCCCT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 12 0.35
21 22 0.65
ACGTcount: A:0.37, C:0.42, G:0.00, T:0.20
Consensus pattern (21 bp):
AACCCCTAAACCTTAAACTCC
Found at i:83951066 original size:14 final size:14
Alignment explanation
Indices: 83951049--83951090 Score: 57
Period size: 14 Copynumber: 3.0 Consensus size: 14
83951039 AATATTAACT
*
83951049 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
* *
83951063 CCTAAACCATATAT
1 CCTAAACCATAAAC
83951077 CCTAAACCATAAAC
1 CCTAAACCATAAAC
83951091 ATTAAACTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:83951222 original size:15 final size:15
Alignment explanation
Indices: 83951202--83951232 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
83951192 ACCAAAAAAT
83951202 AATAAAATTATTTTA
1 AATAAAATTATTTTA
83951217 AATAAAATTATTTTA
1 AATAAAATTATTTTA
83951232 A
1 A
83951233 TTTTTTTCAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATAAAATTATTTTA
Found at i:83951809 original size:174 final size:176
Alignment explanation
Indices: 83951552--83951869 Score: 469
Period size: 174 Copynumber: 1.8 Consensus size: 176
83951542 CGGCGTTTTT
*
83951552 AAAAAAGCGCCACTAATGCTTAGTACAAAACGACGACGTTGCGCATAATTTTTTGTGGCACTTTC
1 AAAAAAGCGCCACTAATGCTTAGTACAAAACGACAACGTTGCGCATAATTTTTTGTGGCACTTTC
* * ** *
83951617 TAAGAAACACTGCTAAAGGTGTTCCTATAGCGAC-ATTTTTAAAAAGTGCCGCTATTGATCGATA
66 TAAAAAACACCGCTAAAGGTGTTCCTATAAAGACGATTTTTAAAAAGTGCCGCTAATGATCGATA
*
83951681 TTTAG-GGCTTTTTTAAATAAGCGCCGCTAAAAGTCGATCTATAGC
131 TTTAGCGGCATTTTTAAATAAGCGCCGCTAAAAGTCGATCTATAGC
* * * **
83951726 AAAAAATCGCCGCTAATGCTTAGTACAAAATGACAACGTTGCGCATAATTTTTTGTGGTGCTTTC
1 AAAAAAGCGCCACTAATGCTTAGTACAAAACGACAACGTTGCGCATAATTTTTTGTGGCACTTTC
* * * * *
83951791 TAAAAAACGCCGCTAAAGGTGTTCCTATAAAGGCGTTTTTTAGAAAGTGCCGCTAATGCTCGATA
66 TAAAAAACACCGCTAAAGGTGTTCCTATAAAGACGATTTTTAAAAAGTGCCGCTAATGATCGATA
83951856 TTTAGCGGCATTTT
131 TTTAGCGGCATTTT
83951870 AAAGAAAGTG
Statistics
Matches: 125, Mismatches: 17, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
174 87 0.70
175 31 0.25
176 7 0.06
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (176 bp):
AAAAAAGCGCCACTAATGCTTAGTACAAAACGACAACGTTGCGCATAATTTTTTGTGGCACTTTC
TAAAAAACACCGCTAAAGGTGTTCCTATAAAGACGATTTTTAAAAAGTGCCGCTAATGATCGATA
TTTAGCGGCATTTTTAAATAAGCGCCGCTAAAAGTCGATCTATAGC
Found at i:83954717 original size:13 final size:13
Alignment explanation
Indices: 83954696--83954761 Score: 87
Period size: 13 Copynumber: 5.1 Consensus size: 13
83954686 AGTTTGGCAA
83954696 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
*
83954709 TGATTTTGAAAAG
1 TGCTTTTGAAAAG
* * *
83954722 TGCTGTGGAAAAA
1 TGCTTTTGAAAAG
*
83954735 TGCTTTTGAGAAG
1 TGCTTTTGAAAAG
83954748 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
83954761 T
1 T
83954762 TTGATTTAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 43 1.00
ACGTcount: A:0.32, C:0.06, G:0.26, T:0.36
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:83955414 original size:13 final size:13
Alignment explanation
Indices: 83955391--83955455 Score: 78
Period size: 13 Copynumber: 5.1 Consensus size: 13
83955381 TCTAATCAAA
*
83955391 ACTTTTTAAAAGC
1 ACTTTTCAAAAGC
*
83955404 ACTTCTCAAAAGC
1 ACTTTTCAAAAGC
* *
83955417 AC-TTTCCACAGC
1 ACTTTTCAAAAGC
*
83955429 ATTTTTCAAAAGC
1 ACTTTTCAAAAGC
83955442 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
83955455 A
1 A
83955456 TTTGAAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
12 8 0.19
13 34 0.81
ACGTcount: A:0.37, C:0.25, G:0.08, T:0.31
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:83964338 original size:40 final size:40
Alignment explanation
Indices: 83964268--83964493 Score: 312
Period size: 40 Copynumber: 5.7 Consensus size: 40
83964258 CGGATATAAC
* * * *
83964268 CACTCGCAC-AAGGCCGTCGGGTCTTAGCCCGG-ATATGGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT
*
83964307 CACTAGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
83964347 GACTCGCAGAAATGCCTTCGGGACTTAGCCCGGAATTAGT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
83964387 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTACT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
83964427 AACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAAT
1 CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
* *
83964467 CACTAGCACAAATGTCTTCGGGACTTA
1 CACTCGCACAAATGCCTTCGGGACTTA
83964494 ACCCCGTTAG
Statistics
Matches: 170, Mismatches: 15, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
39 8 0.05
40 160 0.94
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CACTCGCACAAATGCCTTCGGGACTTAGCCCGGAATTAGT
Found at i:83972175 original size:39 final size:40
Alignment explanation
Indices: 83972103--83972312 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
83972093 ACCCAATTAT
* * ** *
83972103 CTTCGGGATTTAG-CTGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* * * *
83972141 CGTCGGGTCTTAGCCCGGATATGGTCACTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
*
83972181 CTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
* *
83972221 CTTCGGAACTTAGCCCGGA-ATTAGTGACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
* * * *
83972261 CTTCGGGACTTAGCCC-GAAATTAATCACTAGCACAAATGT
1 CTTCGGGACTTAGCCCGGATA-TAGTCACTCGCACAAATGC
83972301 CTTCGGGACTTA
1 CTTCGGGACTTA
83972313 ACCCCGTTAG
Statistics
Matches: 147, Mismatches: 21, Indels: 6
0.84 0.12 0.03
Matches are distributed among these distances:
38 10 0.07
39 18 0.12
40 119 0.81
ACGTcount: A:0.27, C:0.27, G:0.23, T:0.24
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTCGCACAAATGC
Found at i:83975240 original size:26 final size:26
Alignment explanation
Indices: 83975211--83975260 Score: 73
Period size: 26 Copynumber: 1.9 Consensus size: 26
83975201 CCAGCACACC
*
83975211 AATATCGCAGCAAAGCTGCCAGTAAT
1 AATAACGCAGCAAAGCTGCCAGTAAT
**
83975237 AATAACGCAGCGTAGCTGCCAGTA
1 AATAACGCAGCAAAGCTGCCAGTA
83975261 GCAGTAAGTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.36, C:0.24, G:0.22, T:0.18
Consensus pattern (26 bp):
AATAACGCAGCAAAGCTGCCAGTAAT
Found at i:83989656 original size:18 final size:18
Alignment explanation
Indices: 83989635--83989669 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83989625 CTGAATAATT
*
83989635 GACTGTTACAGAATAAAC
1 GACTGGTACAGAATAAAC
*
83989653 GACTGGTACTGAATAAA
1 GACTGGTACAGAATAAA
83989670 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (18 bp):
GACTGGTACAGAATAAAC
Found at i:83995355 original size:18 final size:18
Alignment explanation
Indices: 83995334--83995368 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
83995324 TTGAATAATT
*
83995334 GACTGTTACAGAATAAAC
1 GACTGGTACAGAATAAAC
*
83995352 GACTGGTACTGAATAAA
1 GACTGGTACAGAATAAA
83995369 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.14, G:0.20, T:0.23
Consensus pattern (18 bp):
GACTGGTACAGAATAAAC
Found at i:83997646 original size:4 final size:4
Alignment explanation
Indices: 83997622--83997726 Score: 70
Period size: 4 Copynumber: 26.5 Consensus size: 4
83997612 TTTTAATTCT
* * * * *
83997622 TTTA TTCA TTTA TTTA CTTA TTTA TTTA TTTA TTTA TTTA CTCA TATA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
* * * * * * * *
83997670 CTTA TCTA TTTA TATA -TTA TTCA CTTA TTT- TTTA ATCA TTTTA TTCA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA -TTTA TTTA
83997717 TTTA TTTA TT
1 TTTA TTTA TT
83997727 ATTCCTTCAT
Statistics
Matches: 72, Mismatches: 26, Indels: 6
0.69 0.25 0.06
Matches are distributed among these distances:
3 5 0.07
4 65 0.90
5 2 0.03
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.64
Consensus pattern (4 bp):
TTTA
Found at i:83997656 original size:24 final size:24
Alignment explanation
Indices: 83997617--83997726 Score: 82
Period size: 24 Copynumber: 4.6 Consensus size: 24
83997607 TTTTATTTTA
* *
83997617 ATTCTTTTATTCATTTATTTACTT
1 ATTCATTTATTTATTTATTTACTT
* *
83997641 ATTTATTTATTTATTTATTTACTC
1 ATTCATTTATTTATTTATTTACTT
* * *
83997665 ATAT-ACTTATCTATTTATATA-TT
1 AT-TCATTTATTTATTTATTTACTT
* * * *
83997688 ATTCACTTATTT-TTTAATCATTTT
1 ATTCATTTATTTATTTATTTA-CTT
83997712 ATTCATTTATTTATT
1 ATTCATTTATTTATT
83997727 ATTCCTTCAT
Statistics
Matches: 68, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
22 6 0.09
23 10 0.15
24 49 0.72
25 3 0.04
ACGTcount: A:0.26, C:0.10, G:0.00, T:0.64
Consensus pattern (24 bp):
ATTCATTTATTTATTTATTTACTT
Found at i:84002790 original size:49 final size:47
Alignment explanation
Indices: 84002662--84003015 Score: 593
Period size: 47 Copynumber: 7.4 Consensus size: 47
84002652 GTGTGTATAC
84002662 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
84002709 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
84002756 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
84002805 GTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
84002854 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
84002901 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
* * * * * *
84002948 GTGAAAGTGTATATATGTGACAGGGCCGAGTGG-CGAACGTGATGGAT
1 GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG-ATGTGATGAAT
*
84002995 GTGAAAGTGTATAAATGTGAT
1 GTGAAAGTGTATATATGTGAT
84003016 TAGTCCCGAA
Statistics
Matches: 296, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
46 2 0.01
47 198 0.67
49 96 0.32
ACGTcount: A:0.32, C:0.08, G:0.31, T:0.29
Consensus pattern (47 bp):
GTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAAT
Found at i:84003193 original size:37 final size:37
Alignment explanation
Indices: 84003137--84003215 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
84003127 CCGAGCTCTA
* * *
84003137 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
84003174 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
84003211 AAGAC
1 AAGAC
84003216 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:84004709 original size:22 final size:22
Alignment explanation
Indices: 84004645--84004701 Score: 87
Period size: 22 Copynumber: 2.6 Consensus size: 22
84004635 TACAAAGTCA
* *
84004645 ACAGAACGGCTCAACACCCTAG
1 ACAGGACGGCTCAACACCGTAG
*
84004667 ACAAGACGGCTCAACACCGTAG
1 ACAGGACGGCTCAACACCGTAG
84004689 ACAGGACGGCTCA
1 ACAGGACGGCTCA
84004702 TCGCCGTAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.35, C:0.33, G:0.23, T:0.09
Consensus pattern (22 bp):
ACAGGACGGCTCAACACCGTAG
Found at i:84004991 original size:27 final size:27
Alignment explanation
Indices: 84004953--84005004 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
84004943 CATTCTACCA
*
84004953 TACAGGGGTATTAC-GATAATTTTACAC
1 TACAAGGGTATTACAG-TAATTTTACAC
*
84004980 TACAAGGGTATTTCAGTAATTTTAC
1 TACAAGGGTATTACAGTAATTTTAC
84005005 CAATATTAGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
27 21 0.95
28 1 0.05
ACGTcount: A:0.33, C:0.13, G:0.17, T:0.37
Consensus pattern (27 bp):
TACAAGGGTATTACAGTAATTTTACAC
Found at i:84017678 original size:22 final size:23
Alignment explanation
Indices: 84017653--84017698 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
84017643 CAACCAAATC
84017653 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTAT-AAGATA
*
84017675 AATTCATGCATATTTATAAGATA
1 AATTCATACATATTTATAAGATA
84017698 A
1 A
84017699 CGTCATCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTATAAGATA
Found at i:84017704 original size:23 final size:23
Alignment explanation
Indices: 84017660--84017704 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
84017650 ATCAATTCAA
*
84017660 CATATTTTCAAGATAAATTCATG
1 CATATTTTCAAGATAAAGTCATG
*
84017683 CATATTTAT-AAGATAACGTCAT
1 CATATTT-TCAAGATAAAGTCAT
84017705 CACATATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (23 bp):
CATATTTTCAAGATAAAGTCATG
Found at i:84031079 original size:19 final size:19
Alignment explanation
Indices: 84031030--84031080 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
84031020 TAAAGAAGAC
*
84031030 ATTTTCTGGAGAAGCATTA
1 ATTTTCTGGAGGAGCATTA
*
84031049 ATTTTCTGGAGGAGCGTTA
1 ATTTTCTGGAGGAGCATTA
84031068 ATTTTCTGGAGGA
1 ATTTTCTGGAGGA
84031081 CCTTTTGTGG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.25, C:0.10, G:0.27, T:0.37
Consensus pattern (19 bp):
ATTTTCTGGAGGAGCATTA
Found at i:84032222 original size:134 final size:132
Alignment explanation
Indices: 84032009--84032292 Score: 338
Period size: 134 Copynumber: 2.1 Consensus size: 132
84031999 CCATCGTGGA
* * ** *
84032009 AAATCTTATCTCCCTGAATTTGTAATGGAGCAAATTAAAGCCACAAATCTTATCTCCCTAAATTT
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAAATTAAAAACACAAATCTTATCTCCCTAAAGTT
* * *
84032074 GTAGTGTAATAGATT-AAAGCCACAAATCGTATCTC-CTTGAGGTTGCAATAGAGCAGATTAAAG
66 GTAGTGGAACAGATTGAAA-CCACAAATCGTATCTCGCTAGA-GTTGCAATAGAGCAGATTAAAG
84032137 CCAC
129 CCAC
* * * *
84032141 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAAATAGCGAGTCTTATCTCCCTAAAG
1 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAAATT-AAAAACA-CAAATCTTATCTCCCTAAAG
* * * * *
84032206 TTGTAGTGGAACAGATTGAAACGACAAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTGAAG
64 TTGTAGTGGAACAGATTGAAACCACAAATCGTATCTCGCTAGAGTTGCAATAGAGCAGATTAAAG
*
84032271 CTAC
129 CCAC
* *
84032275 AAATATTATTTCCCTGAA
1 AAATCTTATCTCCCTGAA
84032293 ATTACAGTAG
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
132 33 0.26
133 4 0.03
134 84 0.66
135 7 0.05
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.29
Consensus pattern (132 bp):
AAATCTTATCTCCCTGAAGTTGCAATGGAGCAAATTAAAAACACAAATCTTATCTCCCTAAAGTT
GTAGTGGAACAGATTGAAACCACAAATCGTATCTCGCTAGAGTTGCAATAGAGCAGATTAAAGCC
AC
Found at i:84032593 original size:51 final size:46
Alignment explanation
Indices: 84032009--84033056 Score: 505
Period size: 44 Copynumber: 22.8 Consensus size: 46
84031999 CCATCGTGGA
* * * * * * *
84032009 AAATCTTATCTCCCTGAATTTGTAATGGAGCAAATTAAAGC--CAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * ** * *
84032053 AAATCTTATCTCCCTAAATTTGTAGTGTAATAGATTAAAGC--CAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * * * *
84032097 AAATCGTATCTCCTTGAGGTTGCAATAGAGCAGATTAAAGC--CAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * ** *
84032141 AAATCTTATCTCCCTGAAGTTGCAATGGAGCAGATTGAAAAATAGC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * **
84032187 GAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGATTGAA--ACGAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* *
84032231 AAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
84032275 AAATATTATTTCCCTGAAA-TTACAGTAGAACAGA-TGAAAGCTACAAGTTAC
1 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTG-AAG---C-A-TAAC
* * * *
84032326 AAATCTTATCTTCCTAGAGTTACAGTGGAGTAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * ** ** *
84032370 AAACCTTATCTCTCTGTAGTTGCAGTGGAATAGATTGAA--ACAAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* ** * ** *
84032414 AAATCTTATCTCCTTGGAGTTGTAGTGGAATAGATTGAA--ATGAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * ** * *
84032458 AAATTTTATCTCCTTGGAGTTGCAGTGCAGCAGATTGAAGC-T-AT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
84032502 AAATTTTGT-TTCCTAAAATTGCAGTGGAACAGATTAAAGCTATAAGTTTC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC-ATAA----C
84032552 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * *
84032596 AAATTTTATCTCTCTGAAGTTGCAGTGGAGAAGCATATTGAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGT-G-G-AGCAGATTGAAGCATAAC
* **
84032643 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAAATAAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * **
84032689 AAATCTTATCTCACTGAAGTTGCAATGGAACAGATTGAA--ACGAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
** * *
84032733 AAATCTTATCTCCCTGGAGTTGCAGTGGAGCAAATTAAAGC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * * *
84032777 AAATCTTATTTCCGTAAAGTTTCAGAGGAACAGATTAAAGCTACAAGTTAC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---C-A-TAAC
* *
84032828 AAATCTTATC-CCTCTAGAA-TTACAGTGGAGCATATTGAAGC-T-AC
1 AAATCTTATCTCC-CTA-AAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * * *
84032872 AAATCTTATTTTCCTGAAGTTGCAGTGGAACAGATTAAAGCTACAAGTTAT
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAG---C-A-TAAC
* * *
84032923 AAATCTTATCCCCCTAAAGTTGTAGTGGAGCAGATTGAAAC-T-AC
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
* * * * * *
84032967 AAATCTTATTTCCCT-GAGATTGCAGTGG-GATAAATTAAAGTTACAAGTTAC
1 AAATCTTATCTCCCTAAAG-TTGCAGTGGAG-CAGATTGAAG---C-A-TAAC
*
84033018 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
84033057 ACGTGATATT
Statistics
Matches: 778, Mismatches: 163, Indels: 119
0.73 0.15 0.11
Matches are distributed among these distances:
43 30 0.04
44 446 0.57
45 11 0.01
46 73 0.09
47 42 0.05
48 4 0.01
49 1 0.00
50 15 0.02
51 149 0.19
52 7 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (46 bp):
AAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCATAAC
Found at i:84032622 original size:226 final size:226
Alignment explanation
Indices: 84032095--84033056 Score: 733
Period size: 229 Copynumber: 4.2 Consensus size: 226
84032085 GATTAAAGCC
* * * * * * * * *
84032095 ACAAATCGTATCTCCTTGAGGTTGCAATAGAGCAGATTAAAGCCACAAATCTTATCTCCCTGAAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAG
* * * * *
84032160 TTGCAATGGAGCAGATTGAAAAATAGCGAGTCTTATCTCCCTAAAGTTGTAGTGGAACAGATTGA
66 TTGCAGTGGA-AAGATTGAAACA-A-CAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTGA
*
84032225 AACGACAAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATATTATTTCCCT
128 AACGACAAATCTTATCTCGCTAGAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCT
*
84032290 GAAATTACAGTAGAACAGATGAAAGCTACAAGTT
193 AAAATTACAGTAGAACAGATGAAAGCTACAAGTT
* * * * * *
84032324 ACAAATCTTATCTTCCTAGAGTTACAGTGGAGTAGATTGAAGCTACAAACCTTATCTCTCTGTAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAG
* ** *
84032389 TTGCAGTGGAATAGATTGAAACAACAAATCTTATCTCCTTGGAGTTGTAGTGGAATAGATTGAAA
66 TTGCAGTGGAA-AGATTGAAACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTGAAA
* * * * * *
84032454 TGACAAATTTTATCTC-CTTGGAGTTGCAGTGCAGCAGATTGAAGCTATAAATTTTGTTT-CCTA
130 CGACAAATCTTATCTCGC-TAGAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTA
* * * *
84032517 AAATTGCAGTGGAACAGATTAAAGCTATAAGTT
194 AAATTACAGTAGAACAGATGAAAGCTACAAGTT
* *
84032550 TCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCTCTGAAG
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAG
* * * * *
84032615 TTGCAGTGGAGAAGCATATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTG
66 TTGCAGTGGA-AAG---ATTGAAACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTG
** * * * * * * * *
84032680 AAAAATAACAAATCTTATCTCACT-GAAGTTGCAATGGAACAGATTGAAACGACAAATCTTATCT
127 --AAACGACAAATCTTATCTCGCTAG-AGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTT
** * * * *
84032744 CCCTGGAGTTGCAGT-G----GA-GCAAA-TTA-AAGCT
189 CCCTAAAATTACAGTAGAACAGATG-AAAGCTACAAGTT
* * * * * * *
84032775 ACAAATCTTATTTCCGTAAAGTTTCAGAGGAACAGATTAAAGCTACAAGTTACAAATCTTATCCC
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATT---G----AAGCTACAAATCTTATCTC
* * * * * * * * *
84032840 TCTAGAA-TTACAGTGGAGCATATTGAAGCTACAAATCTTATTTTCCTGAAGTTGCAGTGGAACA
59 TCT-GAAGTTGCAGTGGA-AAGATTGAAACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACA
* * * * * * * *
84032904 GATTAAAGCTACAAGTTATAAATCTTATCCCCCTAAAGTTGTAGTGGAGCAGATTGAAACTACAA
122 GATTGAA---AC--G--ACAAATCTTATCTCGCTAGAGTTGCAGTGCAGCAGATTGAAGCTACAA
* * * * * * * * * *
84032969 ATCTTATTTCCCTGAGATTGCAGTGGGATAAATTAAAGTTACAAGTT
180 ATATTATTTCCCTAAAATTACAGTAGAACAGATGAAAGCTACAAGTT
*
84033016 ACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA
1 ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAA
84033057 ACGTGATATT
Statistics
Matches: 586, Mismatches: 111, Indels: 67
0.77 0.15 0.09
Matches are distributed among these distances:
225 36 0.06
226 104 0.18
227 93 0.16
228 2 0.00
229 150 0.26
230 2 0.00
231 48 0.08
232 42 0.07
233 3 0.01
234 61 0.10
235 1 0.00
238 1 0.00
239 4 0.01
240 3 0.01
241 36 0.06
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.29
Consensus pattern (226 bp):
ACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATCTCTCTGAAG
TTGCAGTGGAAAGATTGAAACAACAAATCTTATCTCCCTAAAGTTGTAGTGGAACAGATTGAAAC
GACAAATCTTATCTCGCTAGAGTTGCAGTGCAGCAGATTGAAGCTACAAATATTATTTCCCTAAA
ATTACAGTAGAACAGATGAAAGCTACAAGTT
Found at i:84032993 original size:139 final size:134
Alignment explanation
Indices: 84032009--84032994 Score: 475
Period size: 139 Copynumber: 7.2 Consensus size: 134
84031999 CCATCGTGGA
* * * * * * * * * *
84032009 AAATCTTATCTCCCTGA-ATTTGTAATGGAGCAAATTAAAGCCACAAATCTTATCTCCCTAAATT
1 AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGT
* * * * * * * * * * * * *
84032073 TGTAGTGTAATAGATTAAAGCCACAAATCGTATCTCCTTGAGGTTGCAATAGAGCAGATT-AAAG
66 TGCAGTGGAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAAA
**
84032137 CCAC
131 ATAC
* ** * * * * *
84032141 AAATCTTATCTCCCTGA-AGTTGCAATGGAGCAGATTGAAAAATAGCGAGTCTTATCTCCCTAAA
1 AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTG-AAGCTA-CAAATCTTATTTTCCTGAA
* * * * * *
84032205 GTTGTAGTGGAACAGATTGAAA-CGACAAATCTTATCTCGCTAGAGTTGCAGTGGAGCAGATTG-
64 GTTGCAGTGGAACAAATT-AAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGA
**
84032268 AAGCTAC
128 AAAATAC
* * * * * * *
84032275 AAATATTATTTCCCTGA-AATTACAGTAGAACAGA-TGAAAGCTACAAGTTACAAATCTTATCTT
1 AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTG-AAG---C----TACAAATCTTATTTT
* ** * * * * ** * **
84032338 CCT-AGAGTTACAGTGGAGTAGATTGAAGCTACAAACCTTATCTCTCTGTAGTTGCAGTGGAATA
58 CCTGA-AGTTGCAGTGGAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCA
*
84032402 GATTGAAACA-AC
122 GATTGAAAAATAC
* * ** * * * *
84032414 AAATCTTATCTCCTTG-GAGTTGTAGTGGAATAGATTGAA-ATGACAAATTTTA-TCTCCTTGGA
1 AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTGAAGCT-ACAAATCTTATTTTCC-TGAA
* * * * * * * * * * * *
84032476 GTTGCAGTGCAGCAGATTGAAGCTATAAATTTTGT-TTCCTAAAATTGCAGTGGAACAGATTAAA
64 GTTGCAGTGGAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAA
*
84032540 GCTATAAGTTTC
129 ---A-AA--TAC
* * *
84032552 AAATCTTATCTCCCT-AAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTA-TCTCTCTGAAG
1 AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTC-CTGAAG
* * * *
84032615 TTGCAGTGGAGAAGCATATTGAAGCTACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTG
65 TTGCAGT-G-GAA-CAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTG
84032680 AAAAATAAC
127 AAAAAT-AC
* * * * * * * *
84032689 AAATCTTATCTCACTGA-AGTTGCAATGGAACAGATTGAAACGACAAATCTTATCTCCCTGGAGT
1 AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGT
* * * * * *
84032753 TGCAGTGGAGCAAATTAAAGCTACAAATCTTATTTCCGTAAAGTT-TCAGAGGAACAGATTAAAG
66 TGCAGTGGAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGT-AGTGGAGCAGATTGAA-
84032817 CTACAAGTTAC
129 --A-AA--TAC
* * *
84032828 AAATCTTATC-CCTCT-AGAATTACAGTGGAGCATATTGAAGCTACAAATCTTATTTTCCTGAAG
1 AAATCTTATCTCC-CTGAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAG
* *
84032891 TTGCAGTGGAACAGATTAAAGCTACAAGTTATAAATCTTATCCCCCTAAAGTTGTAGTGGAGCAG
65 TTGCAGTGGAACAAATTAAAGCTAC-------AAATCTTATCTCCCTAAAGTTGTAGTGGAGCAG
*
84032956 ATTG-AAACTAC
123 ATTGAAAAATAC
*
84032967 AAATCTTATTTCCCTGAGA-TTGCAGTGG
1 AAATCTTATCTCCCTGAGAGTTGCAGTGG
84032995 GATAAATTAA
Statistics
Matches: 661, Mismatches: 138, Indels: 103
0.73 0.15 0.11
Matches are distributed among these distances:
131 26 0.04
132 72 0.11
133 8 0.01
134 140 0.21
135 6 0.01
136 2 0.00
137 58 0.09
138 70 0.11
139 190 0.29
140 13 0.02
141 20 0.03
142 25 0.04
145 1 0.00
146 29 0.04
147 1 0.00
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (134 bp):
AAATCTTATCTCCCTGAGAGTTGCAGTGGAGCAGATTGAAGCTACAAATCTTATTTTCCTGAAGT
TGCAGTGGAACAAATTAAAGCTACAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTGAAAA
ATAC
Found at i:84033057 original size:95 final size:95
Alignment explanation
Indices: 84032367--84033058 Score: 624
Period size: 95 Copynumber: 7.5 Consensus size: 95
84032357 AGATTGAAGC
* * * ** * * * *
84032367 TACAAACCTTATCTCTCTGTAGTTGCAGTGGAATAGATTGAAACAACAAATCTTATCTCCTTGGA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
* *
84032432 GTTGTAGTGGAATAGATT---G--A-AA-T
66 GTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * * * * * * * *
84032455 GACAAATTTTATCTCCTTGGAGTTGCAGTGCAGCAGATTGAAGCTATAAATTTTGTTT-CCTAAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
* *
84032519 ATTGCAGTGGAACAGATTAAAGCTATAAGT
66 GTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * * * *
84032549 TTCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCTACAAATTTTATCTCTCTGAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
** *
84032614 GTTGCAGTGGAGA-AGCA-T--A--TTGAAGC
66 GTTGCAGTGGA-ACAG-ATTAAAGCTACAAGT
* * * * *
84032640 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGCGGATTGAAAAATAACAAATCTTATCTCACTG
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTG-AAACT-ACAAATCTTATTTCCCTG
* *
84032705 AAGTTGCAATGGAACAGATTGAA---AC--G-
64 AAGTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * *
84032731 -ACAAATCTTATCTCCCTGGAGTTGCAGTGGAGCAAATT-AAAGCTACAAATCTTATTTCCGTAA
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-CTACAAATCTTATTTCCCTGA
* *
84032794 AGTTTCAGAGGAACAGATTAAAGCTACAAGT
65 AGTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * *
84032825 TACAAATCTTATC-CCTCTAGAA-TTACAGTGGAGCATATTGAAGCTACAAATCTTATTTTCCTG
1 TACAAATCTTATCTCC-CT-GAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTG
84032888 AAGTTGCAGTGGAACAGATTAAAGCTACAAGT
64 AAGTTGCAGTGGAACAGATTAAAGCTACAAGT
* * * *
84032920 TATAAATCTTATCCCCCTAAAGTTGTAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTG-A
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
* * * *
84032984 GATTGCAGTGGGATAAATTAAAGTTACAAGT
66 G-TTGCAGTGGAACAGATTAAAGCTACAAGT
84033015 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAC
1 TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAC
84033059 GTGATATTCG
Statistics
Matches: 491, Mismatches: 83, Indels: 53
0.78 0.13 0.08
Matches are distributed among these distances:
87 18 0.04
88 79 0.16
89 1 0.00
90 35 0.07
91 44 0.09
92 7 0.01
93 35 0.07
94 55 0.11
95 209 0.43
96 8 0.02
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (95 bp):
TACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAACTACAAATCTTATTTCCCTGAA
GTTGCAGTGGAACAGATTAAAGCTACAAGT
Found at i:84036026 original size:53 final size:51
Alignment explanation
Indices: 84035914--84036028 Score: 124
Period size: 53 Copynumber: 2.2 Consensus size: 51
84035904 TTTTTATTTT
* * * *
84035914 AATTCTTTTATTCATTTATATACTTATTTACTTATTAATTTATTCATTATTCC
1 AATTATTTTATTCATTTATATACTCATATACTTATTAATTTATTCATTA-T-A
**
84035967 TTTTATTTTATTCATTTATATACTCATATACTTATTAATTTTAATTTCATTA-A
1 AATTATTTTATTCATTTATATACTCATATACTTATTAA-TTT-A-TTCATTATA
84036020 AATTATTTT
1 AATTATTTT
84036029 TTTATTTTCT
Statistics
Matches: 51, Mismatches: 8, Indels: 6
0.78 0.12 0.09
Matches are distributed among these distances:
53 40 0.78
54 3 0.06
55 1 0.02
56 7 0.14
ACGTcount: A:0.30, C:0.10, G:0.00, T:0.59
Consensus pattern (51 bp):
AATTATTTTATTCATTTATATACTCATATACTTATTAATTTATTCATTATA
Found at i:84036113 original size:14 final size:15
Alignment explanation
Indices: 84036089--84036123 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
84036079 TTTGTGCCAT
84036089 TATTATTATTATTA-C
1 TATT-TTATTATTATC
84036104 TATTTTATTATTATC
1 TATTTTATTATTATC
84036119 TATTT
1 TATTT
84036124 ATCTATTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.47
15 10 0.53
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.66
Consensus pattern (15 bp):
TATTTTATTATTATC
Found at i:84036155 original size:23 final size:23
Alignment explanation
Indices: 84036106--84036156 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
84036096 ATTATTACTA
*
84036106 TTTTA-TTATTATCTATTTATCT
1 TTTTATTTATTACCTATTTATCT
* * *
84036128 ATTTATTTATTACCTCTTTATTT
1 TTTTATTTATTACCTATTTATCT
84036151 TTTTAT
1 TTTTAT
84036157 ACATACTTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
22 4 0.17
23 19 0.83
ACGTcount: A:0.22, C:0.10, G:0.00, T:0.69
Consensus pattern (23 bp):
TTTTATTTATTACCTATTTATCT
Found at i:84036405 original size:17 final size:15
Alignment explanation
Indices: 84036361--84036425 Score: 55
Period size: 17 Copynumber: 4.3 Consensus size: 15
84036351 TTACTTCATT
84036361 TATTTATTATTATAA
1 TATTTATTATTATAA
* *
84036376 CA-TGATTA-T-TAA
1 TATTTATTATTATAA
84036388 TATTAATATTATTATAA
1 TATT--TATTATTATAA
84036405 TTATGTTATTATTATAA
1 -TAT-TTATTATTATAA
84036422 TATT
1 TATT
84036426 CCTTTTTTAC
Statistics
Matches: 39, Mismatches: 4, Indels: 14
0.68 0.07 0.25
Matches are distributed among these distances:
12 4 0.10
13 2 0.05
14 5 0.13
15 6 0.15
16 4 0.10
17 14 0.36
18 3 0.08
19 1 0.03
ACGTcount: A:0.40, C:0.02, G:0.03, T:0.55
Consensus pattern (15 bp):
TATTTATTATTATAA
Found at i:84038440 original size:42 final size:42
Alignment explanation
Indices: 84038392--84038643 Score: 387
Period size: 42 Copynumber: 6.0 Consensus size: 42
84038382 GGCGTTTATT
*
84038392 AAAAAAAGGGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
*
84038434 AAAAAAAGGGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
* *
84038476 GAAAAAAGCGCCACTAAAAGTCATGGCCTTTAGCGGCGTTTG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
* * * *
84038518 GAAAAAAGCACCGCTAAAAGTCATGGCCTTTAACGGCATTTGG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT-G
* *
84038561 AAGAAAAGCGCCGCTAAAAGTCAAGGCCTTTAGCGGCGTTTG
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
* *
84038603 GAAAAAACCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
1 AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTT
84038644 TTCCCACAAA
Statistics
Matches: 192, Mismatches: 17, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
42 156 0.81
43 36 0.19
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (42 bp):
AAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTG
Found at i:84038662 original size:85 final size:85
Alignment explanation
Indices: 84038382--84038645 Score: 386
Period size: 85 Copynumber: 3.1 Consensus size: 85
84038372 AAAAATTGGT
* * *
84038382 GGCGTTTATTAAAAAAAGGGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGAAAAAAAGGGCCG
1 GGCGTTT-TTAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCG
84038447 CTAAAAGTCATGGCCTTTAGC
65 CTAAAAGTCATGGCCTTTAGC
** * *
84038468 GGCG-TTTGGAAAAAAGCGCCACTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCACCGC
1 GGCGTTTTTAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGC
*
84038532 TAAAAGTCATGGCCTTTAAC
66 TAAAAGTCATGGCCTTTAGC
* ** * * *
84038552 GGCATTTGGAAGAAAAGCGCCGCTAAAAGTCAAGGCCTTTAGCGGCGTTTGGAAAAAACCGCCGC
1 GGCGTTTTTAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGC
84038617 TAAAAGTCATGGCCTTTAGC
66 TAAAAGTCATGGCCTTTAGC
84038637 GGCGTTTTT
1 GGCGTTTTT
84038646 CCCACAAACG
Statistics
Matches: 157, Mismatches: 20, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
84 73 0.46
85 80 0.51
86 4 0.03
ACGTcount: A:0.30, C:0.20, G:0.27, T:0.23
Consensus pattern (85 bp):
GGCGTTTTTAAAAAAAGCGCCGCTAAAAGTCATGGCCTTTAGCGGCGTTTGGAAAAAAGCGCCGC
TAAAAGTCATGGCCTTTAGC
Found at i:84038790 original size:32 final size:29
Alignment explanation
Indices: 84038716--84038791 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 29
84038706 CTTCTTGCAT
*
84038716 TAAAATCCAA-CAAAATACAAATATAGCA
1 TAAAATACAACCAAAATACAAATATAGCA
* * *
84038744 TAAAATGCAGCCAAAATAGCAAATTTAGCA
1 TAAAATACAACCAAAATA-CAAATATAGCA
84038774 TAAAAAATACAACCAAAA
1 T--AAAATACAACCAAAA
84038792 ATATTAATTC
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
28 8 0.21
29 7 0.18
30 11 0.28
32 13 0.33
ACGTcount: A:0.59, C:0.17, G:0.07, T:0.17
Consensus pattern (29 bp):
TAAAATACAACCAAAATACAAATATAGCA
Found at i:84039040 original size:21 final size:21
Alignment explanation
Indices: 84039014--84039095 Score: 146
Period size: 21 Copynumber: 3.9 Consensus size: 21
84039004 TCCTATGCTT
*
84039014 TGCCTCCCTCGCTGCTGCCGC
1 TGCCTCCCTCTCTGCTGCCGC
84039035 TGCCTCCCTCTCTGCTGCCGC
1 TGCCTCCCTCTCTGCTGCCGC
*
84039056 TGCCTCCCTCTCTCCTGCCGC
1 TGCCTCCCTCTCTGCTGCCGC
84039077 TGCCTCCCTCTCTGCTGCC
1 TGCCTCCCTCTCTGCTGCC
84039096 TCCGCTCTAA
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 58 1.00
ACGTcount: A:0.00, C:0.54, G:0.18, T:0.28
Consensus pattern (21 bp):
TGCCTCCCTCTCTGCTGCCGC
Found at i:84039531 original size:13 final size:14
Alignment explanation
Indices: 84039506--84039534 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
84039496 TGATGAATTG
84039506 AATTAAACAATTAT
1 AATTAAACAATTAT
84039520 AATTAAAC-ATTAT
1 AATTAAACAATTAT
84039533 AA
1 AA
84039535 ATATTTAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
AATTAAACAATTAT
Found at i:84044754 original size:9 final size:9
Alignment explanation
Indices: 84044740--84044965 Score: 143
Period size: 9 Copynumber: 24.6 Consensus size: 9
84044730 TATTTAAGTA
84044740 TTATGTAAG
1 TTATGTAAG
*
84044749 TTATGTAAT
1 TTATGTAAG
*
84044758 TTATGATATG
1 TTATG-TAAG
* * *
84044768 ATATAT-AT
1 TTATGTAAG
*
84044776 TTATGTAAA
1 TTATGTAAG
* *
84044785 TTATAT-AT
1 TTATGTAAG
*
84044793 TTATCTAAG
1 TTATGTAAG
*
84044802 TTATATAAG
1 TTATGTAAG
84044811 TTATGTAAG
1 TTATGTAAG
*
84044820 TTATGTAAA
1 TTATGTAAG
*
84044829 TTATGATATAAAA
1 TTATG---T-AAG
*
84044842 TATATTTAAG
1 T-TATGTAAG
84044852 TATTATGTAAG
1 --TTATGTAAG
84044863 TTATGTAAG
1 TTATGTAAG
* *
84044872 TTATAT-AT
1 TTATGTAAG
*
84044880 TTATCTAAG
1 TTATGTAAG
*
84044889 TTATATAAG
1 TTATGTAAG
*
84044898 TTATATAAG
1 TTATGTAAG
*
84044907 TTATGTATG
1 TTATGTAAG
*
84044916 TTATATAAG
1 TTATGTAAG
84044925 TTATGTAAG
1 TTATGTAAG
* *
84044934 TTATATATG
1 TTATGTAAG
*
84044943 TTATATAAG
1 TTATGTAAG
*
84044952 TTATGTAAA
1 TTATGTAAG
84044961 TTATG
1 TTATG
84044966 ATATCAAATA
Statistics
Matches: 171, Mismatches: 35, Indels: 22
0.75 0.15 0.10
Matches are distributed among these distances:
8 16 0.09
9 131 0.77
10 7 0.04
11 8 0.05
12 2 0.01
13 4 0.02
14 3 0.02
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (9 bp):
TTATGTAAG
Found at i:84044819 original size:18 final size:18
Alignment explanation
Indices: 84044740--84044965 Score: 161
Period size: 18 Copynumber: 12.3 Consensus size: 18
84044730 TATTTAAGTA
* *
84044740 TTATGTAAGTTATGTAAT
1 TTATGTAAGTTATATAAG
* * *
84044758 TTATGATATGATATAT-AT
1 TTATG-TAAGTTATATAAG
* *
84044776 TTATGTAAATTATAT-AT
1 TTATGTAAGTTATATAAG
*
84044793 TTATCTAAGTTATATAAG
1 TTATGTAAGTTATATAAG
* *
84044811 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
* *
84044829 TTATGATATAAAATATATTTAAG
1 TTATG---T-AAGT-TATATAAG
*
84044852 TATTATGTAAGTTATGTAAG
1 --TTATGTAAGTTATATAAG
* * *
84044872 TTATAT-ATTTATCTAAG
1 TTATGTAAGTTATATAAG
*
84044889 TTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAG
*
84044907 TTATGTATGTTATATAAG
1 TTATGTAAGTTATATAAG
*
84044925 TTATGTAAGTTATATATG
1 TTATGTAAGTTATATAAG
* * *
84044943 TTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAG
84044961 TTATG
1 TTATG
84044966 ATATCAAATA
Statistics
Matches: 167, Mismatches: 31, Indels: 20
0.77 0.14 0.09
Matches are distributed among these distances:
17 37 0.22
18 97 0.58
19 7 0.04
20 7 0.04
21 4 0.02
22 4 0.02
23 6 0.04
25 5 0.03
ACGTcount: A:0.38, C:0.01, G:0.13, T:0.48
Consensus pattern (18 bp):
TTATGTAAGTTATATAAG
Found at i:84044832 original size:27 final size:27
Alignment explanation
Indices: 84044793--84044965 Score: 159
Period size: 27 Copynumber: 6.2 Consensus size: 27
84044783 AATTATATAT
*
84044793 TTATCTAAGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
84044820 TTATGTAAATTATGATATAAAATATATTTAAG
1 TTATGT-AAGT-T-ATAT-AAGT-TATGTAAG
* * *
84044852 TATTATGTAAGTTATGTAAGTTATAT-AT
1 --TTATGTAAGTTATATAAGTTATGTAAG
* *
84044880 TTATCTAAGTTATATAAGTTATATAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
*
84044907 TTATGTATGTTATATAAGTTATGTAAG
1 TTATGTAAGTTATATAAGTTATGTAAG
* * *
84044934 TTATATATGTTATATAAGTTATGTAAA
1 TTATGTAAGTTATATAAGTTATGTAAG
84044961 TTATG
1 TTATG
84044966 ATATCAAATA
Statistics
Matches: 120, Mismatches: 18, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
26 22 0.18
27 59 0.49
28 4 0.03
29 5 0.04
30 7 0.06
31 6 0.05
32 8 0.07
33 3 0.03
34 6 0.05
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.47
Consensus pattern (27 bp):
TTATGTAAGTTATATAAGTTATGTAAG
Found at i:84044850 original size:114 final size:114
Alignment explanation
Indices: 84044716--84044937 Score: 313
Period size: 114 Copynumber: 1.9 Consensus size: 114
84044706 ACTAGTTATG
* * * *
84044716 TATGATATGATATATATTTAAGTATTATGTAAGTTATGTAATTTATGATATGATATAT-ATTTAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTAT-ATAT-ATATATAAGTTAT
* *
84044780 GTAAATTATAT-ATTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
64 ATAAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
* *
84044830 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATTTATCTAAGTTATAT
1 TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
* * *
84044895 AAGTTATATAAGTTATGTATGTTATATAAGTTATGTAAGTTAT
66 AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTAT
84044938 ATATGTTATA
Statistics
Matches: 95, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
112 4 0.04
113 18 0.19
114 73 0.77
ACGTcount: A:0.39, C:0.01, G:0.13, T:0.48
Consensus pattern (114 bp):
TATGATATAAAATATATTTAAGTATTATGTAAGTTATGTAAGTTATATATATATATAAGTTATAT
AAATTATATAAGTTATCTAAGTTATATAAGTTATGTAAGTTATGTAAAT
Found at i:84045090 original size:15 final size:15
Alignment explanation
Indices: 84045070--84045125 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
84045060 AAGTAGCGGG
84045070 ATTAAATAATATTTA
1 ATTAAATAATATTTA
84045085 ATTAAATAATATTT-
1 ATTAAATAATATTTA
84045099 A-TAAA-AATTATTTTA
1 ATTAAATAA-TA-TTTA
84045114 ATTAAATAATAT
1 ATTAAATAATAT
84045126 ACATGTCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
12 2 0.06
13 6 0.17
14 4 0.11
15 16 0.44
16 6 0.17
17 2 0.06
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTAAATAATATTTA
Found at i:84045334 original size:24 final size:24
Alignment explanation
Indices: 84045302--84045369 Score: 111
Period size: 24 Copynumber: 2.8 Consensus size: 24
84045292 ACTTAAACGG
84045302 TAAAACGGACGATAATATTTGTGA
1 TAAAACGGACGATAATATTTGTGA
84045326 TAAAACGGA-GAATAATATTTGTGA
1 TAAAACGGACG-ATAATATTTGTGA
*
84045350 TAAAACGGACGAGAATATTT
1 TAAAACGGACGATAATATTT
84045370 CAAAAATAAT
Statistics
Matches: 41, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
23 1 0.02
24 39 0.95
25 1 0.02
ACGTcount: A:0.44, C:0.07, G:0.21, T:0.28
Consensus pattern (24 bp):
TAAAACGGACGATAATATTTGTGA
Found at i:84046146 original size:373 final size:373
Alignment explanation
Indices: 84045461--84046371 Score: 1743
Period size: 373 Copynumber: 2.4 Consensus size: 373
84045451 GAAACATACA
84045461 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
*
84045526 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTAGAATCTTTAAAATATTTAAAATA
*
84045591 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAGTTATAACTTTTAAAGAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAATTATAACTTTTAAAGAAA
84045656 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
196 TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
84045721 AATGTCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
261 AATGTCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
84045786 ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
326 ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
84045834 AATTTTTTAAGATTCATCATACGTGGCGTTGTTATACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
*
84045899 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTGGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTAGAATCTTTAAAATATTTAAAATA
*
84045964 AGGTTAGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAAGTAATTATAACTTTTAAAGAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGAT-AAAAAGTAATTATAACTTTTAAAGAA
84046029 ATTTAAAAATATTAAATATTAAAATAAAACATTATTAATAT-AAAAAATAGTAATTTGAATATAA
195 ATTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAA
84046093 TAATGTCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATA
260 TAATGTCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATA
84046158 AATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
325 AATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
*
84046207 AATTTTTTAAGATTCATCATACGTGGTGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
84046272 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTAGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTAGAATCTTTAAAATATTTAAAATA
*
84046337 AGGTTGGAGAGAAAGTCAGCTATTGTTGTAATTTT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTT
84046372 AATGGATAAG
Statistics
Matches: 528, Mismatches: 9, Indels: 2
0.98 0.02 0.00
Matches are distributed among these distances:
373 462 0.88
374 66 0.12
ACGTcount: A:0.39, C:0.11, G:0.15, T:0.36
Consensus pattern (373 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTGCAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTAGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTGATAAAAAGTAATTATAACTTTTAAAGAAA
TTTAAAAATATTAAATATTAAAATAAAACATTATTAATATAAAAAAATAGTAATTTGAATATAAT
AATGTCAAAAAAGAATCGTAGTTTAATTTTTATAAGTAAATTGGAAATAAATTAAGGTTATATAA
ATATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTTTTG
Found at i:84050618 original size:15 final size:15
Alignment explanation
Indices: 84050598--84050629 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
84050588 AAATAATAAT
*
84050598 TTATATATATTTATC
1 TTATATACATTTATC
84050613 TTATATACATTTATC
1 TTATATACATTTATC
84050628 TT
1 TT
84050630 CTACATTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.09, G:0.00, T:0.59
Consensus pattern (15 bp):
TTATATACATTTATC
Found at i:84051075 original size:20 final size:18
Alignment explanation
Indices: 84051049--84051099 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
84051039 TTACACCCTA
84051049 AATATATATTATAA-TCTT
1 AATATATATTATAAGT-TT
*
84051067 AATATATATTAGAAGTTT
1 AATATATATTATAAGTTT
84051085 AATATATATATATAA
1 AATATATAT-TATAA
84051100 CAAGGGACAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.49, C:0.02, G:0.04, T:0.45
Consensus pattern (18 bp):
AATATATATTATAAGTTT
Found at i:84051452 original size:41 final size:41
Alignment explanation
Indices: 84051407--84051555 Score: 226
Period size: 41 Copynumber: 3.6 Consensus size: 41
84051397 TTACTTTTTT
*
84051407 GCGGCGTTTTCCCAAAAGCGCCGCTAAAACATCGGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
* * *
84051448 GCGGCGTTTTTCCGAAAGCGGCGCTAAAACATCCGCCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
* * *
84051489 GCGGCGTTTTTCCAGAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
*
84051530 GCGGCGTTTTTCCAGAAGCGCCGCTA
1 GCGGCGTTTTTCCAAAAGCGCCGCTA
84051556 TTGTTCAGTT
Statistics
Matches: 98, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 98 1.00
ACGTcount: A:0.23, C:0.31, G:0.24, T:0.21
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCCGCTAAAACATCGGCCTATA
Found at i:84051630 original size:41 final size:40
Alignment explanation
Indices: 84051548--84051640 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 40
84051538 TTTCCAGAAG
* * *
84051548 CGCCGCTATTGTTCAGTTTTTAGCGGCATTTTTGGCCAAAA
1 CGCCGCTATTGGTCAGTTTTTAGCGGCA-GTTTGGCAAAAA
*
84051589 CGTCGCTATTGGTCAGTTTTTAGCGGC-GTTTGGATCAAAAA
1 CGCCGCTATTGGTCAGTTTTTAGCGGCAGTTTGG--CAAAAA
*
84051630 CGCCCCTATTG
1 CGCCGCTATTG
84051641 CTCTATTTTT
Statistics
Matches: 44, Mismatches: 6, Indels: 4
0.81 0.11 0.07
Matches are distributed among these distances:
39 5 0.11
41 39 0.89
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.34
Consensus pattern (40 bp):
CGCCGCTATTGGTCAGTTTTTAGCGGCAGTTTGGCAAAAA
Found at i:84057960 original size:15 final size:15
Alignment explanation
Indices: 84057937--84057984 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
84057927 TATCAAATTT
84057937 ATATTGATTGAAATC
1 ATATTGATTGAAATC
* * *
84057952 ATTTTGATTGAATTT
1 ATATTGATTGAAATC
84057967 ATATTGATTGAAAT-
1 ATATTGATTGAAATC
84057981 ATAT
1 ATAT
84057985 ATTATATATA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
14 4 0.14
15 24 0.86
ACGTcount: A:0.38, C:0.02, G:0.12, T:0.48
Consensus pattern (15 bp):
ATATTGATTGAAATC
Found at i:84058640 original size:18 final size:19
Alignment explanation
Indices: 84058619--84058659 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
84058609 AATGAAATGA
84058619 GAAATTGA-AT-TGAGAATT
1 GAAATTGAGATATGAG-ATT
84058637 GAAATTGAGATATGAGATT
1 GAAATTGAGATATGAGATT
84058656 GAAA
1 GAAA
84058660 ACATGAATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 9 0.43
20 4 0.19
ACGTcount: A:0.46, C:0.00, G:0.24, T:0.29
Consensus pattern (19 bp):
GAAATTGAGATATGAGATT
Found at i:84063159 original size:20 final size:20
Alignment explanation
Indices: 84063116--84063164 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
84063106 AATTATTAAT
* * *
84063116 AATATGTTATAGATTAATCG
1 AATATATTAGAGATTAATCC
*
84063136 AATATATTAGAGATTAGTCC
1 AATATATTAGAGATTAATCC
*
84063156 AATACATTA
1 AATATATTA
84063165 TATAAGCCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.43, C:0.08, G:0.12, T:0.37
Consensus pattern (20 bp):
AATATATTAGAGATTAATCC
Found at i:84064862 original size:3 final size:3
Alignment explanation
Indices: 84064854--84064894 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
84064844 ACTTGTGCCT
84064854 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
84064895 TAAATCATCT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:84066236 original size:23 final size:23
Alignment explanation
Indices: 84066206--84066252 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
84066196 GCCTCTTAGA
84066206 CTTCCTTCTCTTCACAACAATCC
1 CTTCCTTCTCTTCACAACAATCC
84066229 CTTCCTTCTCTTCACAACAATCC
1 CTTCCTTCTCTTCACAACAATCC
84066252 C
1 C
84066253 AACCCTACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.21, C:0.45, G:0.00, T:0.34
Consensus pattern (23 bp):
CTTCCTTCTCTTCACAACAATCC
Found at i:84089988 original size:5 final size:5
Alignment explanation
Indices: 84089978--84090019 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
84089968 GGTTTTATTA
84089978 TTTAT TTTA- TTTATT TTTATT TTTAT TTTAT TTTAT TTTAT T
1 TTTAT TTTAT TTTA-T TTTA-T TTTAT TTTAT TTTAT TTTAT T
84090020 AATTTAGGAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 10 0.29
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTAT
Found at i:84089992 original size:16 final size:16
Alignment explanation
Indices: 84089971--84090019 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
84089961 ATATTTTGGT
84089971 TTTATTATTTATTTTA
1 TTTATTATTTATTTTA
84089987 TTTATT-TTTATTTT-
1 TTTATTATTTATTTTA
84090001 TATT-TTATTTTATTTTA
1 T-TTATTA-TTTATTTTA
84090018 TT
1 TT
84090020 AATTTAGGAT
Statistics
Matches: 29, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
14 3 0.10
15 10 0.34
16 15 0.52
17 1 0.03
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (16 bp):
TTTATTATTTATTTTA
Found at i:84090002 original size:21 final size:23
Alignment explanation
Indices: 84089979--84090025 Score: 64
Period size: 21 Copynumber: 2.1 Consensus size: 23
84089969 GTTTTATTAT
84089979 TTATTTTA-TTTATTTTTATT-T
1 TTATTTTATTTTATTTTTATTAT
84090000 TTATTTTATTTTA-TTTTATTAAT
1 TTATTTTATTTTATTTTTATT-AT
84090023 TTA
1 TTA
84090026 GGATTAGGCT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 15 0.65
22 4 0.17
23 4 0.17
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (23 bp):
TTATTTTATTTTATTTTTATTAT
Found at i:84091647 original size:21 final size:21
Alignment explanation
Indices: 84091623--84091720 Score: 53
Period size: 21 Copynumber: 4.7 Consensus size: 21
84091613 AAACTTTTTA
84091623 TTTATTATTTTTATTTTCAC-
1 TTTATTATTTTTATTTTCACT
*
84091643 -TT-TTATCTTTATTTATCACAT
1 TTTATTATTTTTATTT-TCAC-T
* * * *
84091664 TTAAGTACTTTT-TTTTCATT
1 TTTATTATTTTTATTTTCACT
* *
84091684 TATTATTATTTTAATTTT-AGTT
1 T-TTATTATTTTTATTTTCA-CT
*
84091706 TTTATAATTTTTATT
1 TTTATTATTTTTATT
84091721 GAATAATTTA
Statistics
Matches: 58, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
18 11 0.19
19 6 0.10
20 2 0.03
21 23 0.40
22 11 0.19
23 5 0.09
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTATTATTTTTATTTTCACT
Found at i:84091648 original size:18 final size:19
Alignment explanation
Indices: 84091627--84091666 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
84091617 TTTTTATTTA
* *
84091627 TTATTTTTATTT-TCACTT
1 TTATCTTTATTTATCACAT
84091645 TTATCTTTATTTATCACAT
1 TTATCTTTATTTATCACAT
84091664 TTA
1 TTA
84091667 AGTACTTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 11 0.58
19 8 0.42
ACGTcount: A:0.23, C:0.12, G:0.00, T:0.65
Consensus pattern (19 bp):
TTATCTTTATTTATCACAT
Found at i:84095483 original size:39 final size:39
Alignment explanation
Indices: 84095422--84095498 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
84095412 TTAAGCATAT
84095422 GATAATTATATGATTGTTCTATATTTATTTTGAAAGGTG
1 GATAATTATATGATTGTTCTATATTTATTTTGAAAGGTG
84095461 GATAATTATATGATT-TTCCTATATTTATTTTGAAAGGT
1 GATAATTATATGATTGTT-CTATATTTATTTTGAAAGGT
84095499 AGAGGGATTG
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
38 2 0.05
39 35 0.95
ACGTcount: A:0.31, C:0.04, G:0.16, T:0.49
Consensus pattern (39 bp):
GATAATTATATGATTGTTCTATATTTATTTTGAAAGGTG
Found at i:84099559 original size:46 final size:46
Alignment explanation
Indices: 84099506--84099598 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
84099496 GGTACTCTAA
*
84099506 TATTGTAATATTTTAACTTCACAAGTAGAGTTATAAATTTATCGTG
1 TATTGTAATATTTTAACTTCACAAGTAGAATTATAAATTTATCGTG
84099552 TATTGTAATATTTTAACTTCACAAGTAGAATTATAAATTTATCGTG
1 TATTGTAATATTTTAACTTCACAAGTAGAATTATAAATTTATCGTG
84099598 T
1 T
84099599 GTCTCATTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (46 bp):
TATTGTAATATTTTAACTTCACAAGTAGAATTATAAATTTATCGTG
Found at i:84101676 original size:21 final size:21
Alignment explanation
Indices: 84101627--84101676 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
84101617 GACTGGACAA
* *
84101627 ACTAAACACTACAAAAGTGTGG
1 ACTAAA-ACCACAAAAGTGTAG
**
84101649 AAAAAAACCACAAAAGTGTAG
1 ACTAAAACCACAAAAGTGTAG
84101670 ACTAAAA
1 ACTAAAA
84101677 TTAAATAAAA
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
21 18 0.82
22 4 0.18
ACGTcount: A:0.56, C:0.16, G:0.14, T:0.14
Consensus pattern (21 bp):
ACTAAAACCACAAAAGTGTAG
Found at i:84104717 original size:20 final size:22
Alignment explanation
Indices: 84104682--84104729 Score: 64
Period size: 20 Copynumber: 2.3 Consensus size: 22
84104672 ATGTAAAGTA
84104682 TATAAAAAGATAAAA-TTATTT
1 TATAAAAAGATAAAATTTATTT
* *
84104703 T-TAAAATGATCAAATTTATTT
1 TATAAAAAGATAAAATTTATTT
84104724 TATAAA
1 TATAAA
84104730 GTAATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 11 0.48
21 8 0.35
22 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (22 bp):
TATAAAAAGATAAAATTTATTT
Found at i:84104723 original size:21 final size:21
Alignment explanation
Indices: 84104682--84104729 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
84104672 ATGTAAAGTA
84104682 TATAAAAAGATAAAATTATTT
1 TATAAAAAGATAAAATTATTT
* *
84104703 T-TAAAATGATCAAATTTATTT
1 TATAAAAAGAT-AAAATTATTT
84104724 TATAAA
1 TATAAA
84104730 GTAATGATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 8 0.35
21 11 0.48
22 4 0.17
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.42
Consensus pattern (21 bp):
TATAAAAAGATAAAATTATTT
Found at i:84109149 original size:6 final size:6
Alignment explanation
Indices: 84109138--84109176 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
84109128 CCCTCATGTG
* *
84109138 CCTGAC CCTGAC CCTGAC CCTGAC CCTCAC CCTCAC CCT
1 CCTGAC CCTGAC CCTGAC CCTGAC CCTGAC CCTGAC CCT
84109177 CACTCCATCC
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.15, C:0.56, G:0.10, T:0.18
Consensus pattern (6 bp):
CCTGAC
Found at i:84111961 original size:16 final size:17
Alignment explanation
Indices: 84111930--84111967 Score: 53
Period size: 16 Copynumber: 2.3 Consensus size: 17
84111920 TTATTTTTCT
84111930 TAAATTGTTTTATTT-A
1 TAAATTGTTTTATTTAA
84111946 TAAATT-TTTTATTTTAA
1 TAAATTGTTTTA-TTTAA
84111963 TAAAT
1 TAAAT
84111968 AATGTCATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 5 0.25
16 9 0.45
17 6 0.30
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
TAAATTGTTTTATTTAA
Found at i:84111967 original size:17 final size:16
Alignment explanation
Indices: 84111930--84111959 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
84111920 TTATTTTTCT
84111930 TAAATTGTTTTATTTA
1 TAAATTGTTTTATTTA
84111946 TAAATT-TTTTATTT
1 TAAATTGTTTTATTT
84111960 TAATAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.67
Consensus pattern (16 bp):
TAAATTGTTTTATTTA
Found at i:84116169 original size:83 final size:84
Alignment explanation
Indices: 84115926--84116348 Score: 321
Period size: 91 Copynumber: 4.9 Consensus size: 84
84115916 GAGTTAATTT
* * * * *
84115926 TTGACAAACAGAAATTTAAAATACCTCAGCGTGTCATGATGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
*** *
84115991 GTTGA--TTTAAAAACAGACA
66 GTTGATTTTTTTGAA-A-ATA
* * * *
84116010 TT-AAAAA-AGAAATTGAAAATAGCTCAGTACGTGAGCC-AAGGCTCAACTCACCTCTCGCCATA
1 TTGAAAAACAGAAATTGAAAATACCTCAG--CGTG-CCCTGAGGCTCAACTCACCTCTCGCAATA
* *
84116072 TGAGTTGGTCTTTTTG-AAAT-
63 TGAGTTGATTTTTTTGAAAATA
* **
84116092 TT-AAAAGCAGATTTTGAAAATACCTC-GACATGTGACCC-GAGGCTCAACTCACCTCTCGCAAT
1 TTGAAAAACAGAAATTGAAAATACCTCAG-C--GTG-CCCTGAGGCTCAACTCACCTCTCGCAAT
84116154 ATGAGTTGATTTTTTTTTGAAAAATAAAAA
62 ATGAGTTGA--TTTTTTTG-AAAAT----A
84116184 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
1 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
** *
84116249 GTTGACTTTTTTCAAAAGCAGAAA
66 GTTGA-TTTTTT-TGAA--A-ATA
* * *
84116273 TTGAAAAACAGAAATTGAAAATACCTCAGCGTGTGAGCC-AAGGCTCAACTCACCTCTC-AAGAT
1 TTGAAAAACAGAAATTGAAAATACCTCAGC--GTG-CCCTGAGGCTCAACTCACCTCTCGCA-AT
84116336 ATGAGTTGATTTT
62 ATGAGTTGATTTT
84116349 GGAAAAGTAG
Statistics
Matches: 279, Mismatches: 32, Indels: 50
0.77 0.09 0.14
Matches are distributed among these distances:
81 2 0.01
82 25 0.09
83 56 0.20
84 36 0.13
85 9 0.03
86 3 0.01
87 4 0.01
89 31 0.11
90 16 0.06
91 68 0.24
92 5 0.02
93 23 0.08
94 1 0.00
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.27
Consensus pattern (84 bp):
TTGAAAAACAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGCAATATGA
GTTGATTTTTTTGAAAATA
Done.