Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A07
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: 93829987
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 4250000 characters in sequence are not A, C, G, or T
File 204 of 295
Found at i:65163268 original size:23 final size:24
Alignment explanation
Indices: 65163234--65163303 Score: 126
Period size: 23 Copynumber: 3.0 Consensus size: 24
65163224 GTAAGGAGGG
65163234 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
65163258 GAT-AGGGAGAAGA-TTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
65163280 GATAAGGGAGAAGATTTAGGAGCT
1 GATAAGGGAGAAGATTTAGGAGCT
65163304 TATCAAGGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
22 12 0.27
23 20 0.45
24 12 0.27
ACGTcount: A:0.37, C:0.04, G:0.39, T:0.20
Consensus pattern (24 bp):
GATAAGGGAGAAGATTTAGGAGCT
Found at i:65164691 original size:23 final size:25
Alignment explanation
Indices: 65164670--65164751 Score: 98
Period size: 26 Copynumber: 3.4 Consensus size: 25
65164660 GGCATGCCAT
*
65164670 TATCTGATCTGGTGGCTCGCCACAA
1 TATCTGTTCTGGTGGCTCGCCACAA
65164695 TAT-TGTTCTGGTGGCT--CCACAA
1 TATCTGTTCTGGTGGCTCGCCACAA
* * *
65164717 TATCTGTTCTGGTGACTCTGTCACAT
1 TATCTGTTCTGGTGGCTC-GCCACAA
65164743 TATCTGTTC
1 TATCTGTTC
65164752 GGCATGCTGC
Statistics
Matches: 49, Mismatches: 4, Indels: 7
0.82 0.07 0.12
Matches are distributed among these distances:
22 9 0.18
23 12 0.24
24 12 0.24
25 3 0.06
26 13 0.27
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (25 bp):
TATCTGTTCTGGTGGCTCGCCACAA
Found at i:65164717 original size:22 final size:24
Alignment explanation
Indices: 65164670--65164730 Score: 90
Period size: 24 Copynumber: 2.6 Consensus size: 24
65164660 GGCATGCCAT
*
65164670 TATCTGATCTGGTGGCTCGCCACAA
1 TATCTGTTCTGGTGGCTC-CCACAA
65164695 TAT-TGTTCTGGTGGCT-CCACAA
1 TATCTGTTCTGGTGGCTCCCACAA
65164717 TATCTGTTCTGGTG
1 TATCTGTTCTGGTG
65164731 ACTCTGTCAC
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
22 9 0.26
23 10 0.29
24 12 0.35
25 3 0.09
ACGTcount: A:0.16, C:0.23, G:0.25, T:0.36
Consensus pattern (24 bp):
TATCTGTTCTGGTGGCTCCCACAA
Found at i:65164748 original size:26 final size:24
Alignment explanation
Indices: 65164670--65164751 Score: 96
Period size: 23 Copynumber: 3.4 Consensus size: 24
65164660 GGCATGCCAT
*
65164670 TATCTGATCTGGTGGCTCGCCACAA
1 TATCTGTTCTGGTGGCTCG-CACAA
65164695 TAT-TGTTCTGGTGGCTC-CACAA
1 TATCTGTTCTGGTGGCTCGCACAA
* *
65164717 TATCTGTTCTGGTGACTCTGTCACAT
1 TATCTGTTCTGGTGGCTC-G-CACAA
65164743 TATCTGTTC
1 TATCTGTTC
65164752 GGCATGCTGC
Statistics
Matches: 50, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
22 8 0.16
23 13 0.26
24 13 0.26
25 3 0.06
26 13 0.26
ACGTcount: A:0.17, C:0.24, G:0.21, T:0.38
Consensus pattern (24 bp):
TATCTGTTCTGGTGGCTCGCACAA
Found at i:65182045 original size:29 final size:30
Alignment explanation
Indices: 65181988--65182106 Score: 115
Period size: 29 Copynumber: 4.2 Consensus size: 30
65181978 TACATACATG
* *
65181988 CATATGGTCCA-CTAGGCCCAA-TCTTATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
65182016 CAAATGGCCCATCTA-GCCCAGTTCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* * *
65182045 CTTATGGCCC-GCTAGGCCCAATTCACATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
* *
65182074 CATATGGCCCAT-TATGCCCAAATCATATT
1 CATATGGCCCATCTAGGCCCAATTCATATT
65182103 -ATAT
1 CATAT
65182107 TTGTGCTCAC
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
28 21 0.29
29 52 0.71
ACGTcount: A:0.27, C:0.29, G:0.13, T:0.30
Consensus pattern (30 bp):
CATATGGCCCATCTAGGCCCAATTCATATT
Found at i:65182062 original size:57 final size:58
Alignment explanation
Indices: 65181990--65182102 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 58
65181980 CATACATGCA
* ** **
65181990 TATGGTCCACTAGGCCCAA-TCTTATTCAAATGGCCCATCTA-GCCCAGTTCATATTCT
1 TATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCAT-TATGCCCAAATCATATTCT
* *
65182047 TATGGCCCGCTAGGCCCAATTCACATTCATATGGCCCATTATGCCCAAATCATATT
1 TATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTATGCCCAAATCATATT
65182103 ATATTTGTGC
Statistics
Matches: 47, Mismatches: 7, Indels: 3
0.82 0.12 0.05
Matches are distributed among these distances:
57 19 0.40
58 28 0.60
ACGTcount: A:0.26, C:0.30, G:0.14, T:0.30
Consensus pattern (58 bp):
TATGGCCCACTAGGCCCAATTCACATTCAAATGGCCCATTATGCCCAAATCATATTCT
Found at i:65187061 original size:25 final size:26
Alignment explanation
Indices: 65187033--65187083 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
65187023 AATATTGTAT
* * *
65187033 ATAATTTTTAT-TAATAATTTTAATA
1 ATAATTTATATATAAAAATTTGAATA
65187058 ATAATTTATATATAAAAATTTGAATA
1 ATAATTTATATATAAAAATTTGAATA
65187084 TAAAAATTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (26 bp):
ATAATTTATATATAAAAATTTGAATA
Found at i:65187077 original size:14 final size:14
Alignment explanation
Indices: 65187035--65187091 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
65187025 TATTGTATAT
* *
65187035 AATTTTTAT-TAAT
1 AATTTATATATAAA
*
65187048 AATTT-TA-ATAAT
1 AATTTATATATAAA
65187060 AATTTATATATAAA
1 AATTTATATATAAA
65187074 AATTTGA-ATATAAA
1 AATTT-ATATATAAA
65187088 AATT
1 AATT
65187092 ATTAATTCAA
Statistics
Matches: 39, Mismatches: 1, Indels: 7
0.83 0.02 0.15
Matches are distributed among these distances:
12 11 0.28
13 7 0.18
14 20 0.51
15 1 0.03
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (14 bp):
AATTTATATATAAA
Found at i:65187086 original size:25 final size:24
Alignment explanation
Indices: 65187031--65187086 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
65187021 GTAATATTGT
* * *
65187031 ATATAATTTTTATTAATAATTTTA
1 ATATAATTTATATTAAAAATTTGA
65187055 ATAATAATTTATATATAAAAATTTGA
1 AT-ATAATTTATAT-TAAAAATTTGA
65187081 ATATAA
1 ATATAA
65187087 AAATTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 2 0.07
25 14 0.52
26 11 0.41
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
ATATAATTTATATTAAAAATTTGA
Found at i:65187422 original size:12 final size:12
Alignment explanation
Indices: 65187405--65187433 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
65187395 TTTTATGCTG
65187405 ATGTGGCATGCC
1 ATGTGGCATGCC
65187417 ATGTGGCATGCC
1 ATGTGGCATGCC
65187429 ATGTG
1 ATGTG
65187434 TCATCTCTTG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.21, G:0.34, T:0.28
Consensus pattern (12 bp):
ATGTGGCATGCC
Found at i:65188763 original size:37 final size:37
Alignment explanation
Indices: 65188713--65188786 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
65188703 CCTATACTTG
65188713 CACACAAACTTAAATTAAAACTCAATAAACAAATCAT
1 CACACAAACTTAAATTAAAACTCAATAAACAAATCAT
65188750 CACACAAACTTAAATTAAAACTCAATAAACAAATCAT
1 CACACAAACTTAAATTAAAACTCAATAAACAAATCAT
65188787 TCTTTGGATC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.57, C:0.22, G:0.00, T:0.22
Consensus pattern (37 bp):
CACACAAACTTAAATTAAAACTCAATAAACAAATCAT
Found at i:65190604 original size:21 final size:23
Alignment explanation
Indices: 65190574--65190615 Score: 61
Period size: 21 Copynumber: 1.9 Consensus size: 23
65190564 ATAAAATATA
65190574 TATTAGATTAAATTAA-ATTTTG
1 TATTAGATTAAATTAAGATTTTG
*
65190596 TATTA-ATTAATTTAAGATTT
1 TATTAGATTAAATTAAGATTT
65190616 CACTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.52
Consensus pattern (23 bp):
TATTAGATTAAATTAAGATTTTG
Found at i:65198235 original size:29 final size:28
Alignment explanation
Indices: 65198203--65198260 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 28
65198193 CATATTCATC
*
65198203 TGGCCCATTTGGCCCAAATCACCTTTATA
1 TGGCCCATTAGGCCCAAATCACC-TTATA
*
65198232 TGGCCCGTTAGGCCCAAATCACCTTATA
1 TGGCCCATTAGGCCCAAATCACCTTATA
65198260 T
1 T
65198261 TCATGCTCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
28 6 0.22
29 21 0.78
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
TGGCCCATTAGGCCCAAATCACCTTATA
Found at i:65200975 original size:26 final size:26
Alignment explanation
Indices: 65200939--65201021 Score: 157
Period size: 26 Copynumber: 3.2 Consensus size: 26
65200929 TGAAATTCCA
65200939 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65200965 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
65200991 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
65201017 ATCAT
1 ATCAT
65201022 TTTGTACCAT
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.27, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:65203563 original size:56 final size:56
Alignment explanation
Indices: 65203502--65203612 Score: 177
Period size: 56 Copynumber: 2.0 Consensus size: 56
65203492 ACCATGGCAT
* * *
65203502 CGATATATGTGTACAAGTAAGATCATGTTTAATACGTTGGTATCGATATGTGATTC
1 CGATATATGTGTACAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
* *
65203558 CGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
1 CGATATATGTGTACAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATT
65203613 ACATGTAAGA
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (56 bp):
CGATATATGTGTACAAGTAAGACCACGTTTAATACGTTGGCATCGATATGTGATTC
Found at i:65204705 original size:46 final size:46
Alignment explanation
Indices: 65204652--65204788 Score: 211
Period size: 46 Copynumber: 3.0 Consensus size: 46
65204642 TATATATACA
* * * *
65204652 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
*
65204698 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
65204744 TATCTCATACACATTTCGCATTAGCCATTCGGCTTTGCCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATAT
65204789 ATACACTTCC
Statistics
Matches: 83, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 83 1.00
ACGTcount: A:0.26, C:0.31, G:0.09, T:0.35
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:65204833 original size:47 final size:47
Alignment explanation
Indices: 65204762--65205042 Score: 429
Period size: 47 Copynumber: 6.0 Consensus size: 47
65204752 ACACATTTCG
* * ** * * *
65204762 CATTAGCCATTCGGCTTTGCCACATATATACACT-TCCACGTTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCA-TGTTCACATTCATCA
**
65204809 CATTGGCCATTCTACCTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
65204856 CATTGGCCATTCGGCTTTATCACATATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
65204903 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
65204950 CATTGGCCATTCGGCCTTATCACACATATGCATGTTCACATTCATCA
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
*
65204997 CATTGACCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
1 CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATC
65205043 TCATAAAATC
Statistics
Matches: 217, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
46 1 0.00
47 216 1.00
ACGTcount: A:0.26, C:0.29, G:0.11, T:0.34
Consensus pattern (47 bp):
CATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCATCA
Found at i:65204950 original size:25 final size:25
Alignment explanation
Indices: 65204921--65204998 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
65204911 ATTCGGCCTT
65204921 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
* *
65204946 AT--CACAT-TGGCCA--TTCGGCCTT-
1 ATCACACATAT-G-CATGTTC-ACATTC
65204968 ATCACACATATGCATGTTCACATTC
1 ATCACACATATGCATGTTCACATTC
65204993 ATCACA
1 ATCACA
65204999 TTGACCATTC
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 6 0.15
23 11 0.28
24 11 0.28
25 12 0.30
ACGTcount: A:0.29, C:0.29, G:0.10, T:0.31
Consensus pattern (25 bp):
ATCACACATATGCATGTTCACATTC
Found at i:65204973 original size:22 final size:22
Alignment explanation
Indices: 65204899--65204973 Score: 57
Period size: 22 Copynumber: 3.3 Consensus size: 22
65204889 GTTCACATTC
65204899 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* *
65204921 ATCACACATAT-G-CATGTTC-ACATT
1 AT--CACAT-TGGCCA--TTCGGCCTT
65204945 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
65204968 ATCACA
1 ATCACA
65204974 CATATGCATG
Statistics
Matches: 40, Mismatches: 4, Indels: 18
0.65 0.06 0.29
Matches are distributed among these distances:
22 12 0.30
23 11 0.28
24 11 0.28
25 6 0.15
ACGTcount: A:0.25, C:0.31, G:0.13, T:0.31
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:65220839 original size:13 final size:13
Alignment explanation
Indices: 65220818--65220855 Score: 67
Period size: 13 Copynumber: 2.9 Consensus size: 13
65220808 CCTAAAGGAC
*
65220818 ACATGGCCGTGTA
1 ACATAGCCGTGTA
65220831 ACATAGCCGTGTA
1 ACATAGCCGTGTA
65220844 ACATAGCCGTGT
1 ACATAGCCGTGT
65220856 GTTGCACACG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.26, C:0.24, G:0.26, T:0.24
Consensus pattern (13 bp):
ACATAGCCGTGTA
Found at i:65230419 original size:40 final size:40
Alignment explanation
Indices: 65230345--65230565 Score: 261
Period size: 40 Copynumber: 5.6 Consensus size: 40
65230335 AACCCAAGTA
* *
65230345 CCTTCGGGATTTAG-CCGGATATAG-CAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
65230384 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
65230424 CCTTCAGGACTTAGCCCGGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
** * *
65230464 CCTTCGGGACTTAGCCTTGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * * *
65230504 CCTTCGAGATTTAGCCCGGATATAGTCACTAGCGC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65230543 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
65230566 CATCCGAATA
Statistics
Matches: 153, Mismatches: 25, Indels: 8
0.82 0.13 0.04
Matches are distributed among these distances:
39 36 0.24
40 115 0.75
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:65238849 original size:40 final size:40
Alignment explanation
Indices: 65238749--65238966 Score: 277
Period size: 39 Copynumber: 5.6 Consensus size: 40
65238739 AACCCAAGTA
* * * *
65238749 CCTTCGGGATTTAG-CCGGATATAATAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* *
65238788 CCTT-GGGTCTTAGCCCGGATATAGTCACTAGCACAAAAG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
* * *
65238827 CCTTCGGGACTTAGCCCAGATATAG-CAACTCGCACAAACG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
* *
65238867 CCTTC-GGACTTAGCCCGGATATAGTCAATAGCACAACTG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
65238906 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAC-CATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
65238945 CCTTC-GGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
65238967 CATCCGAATA
Statistics
Matches: 156, Mismatches: 18, Indels: 11
0.84 0.10 0.06
Matches are distributed among these distances:
38 24 0.15
39 69 0.44
40 63 0.40
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:65238879 original size:79 final size:79
Alignment explanation
Indices: 65238749--65238966 Score: 298
Period size: 79 Copynumber: 2.8 Consensus size: 79
65238739 AACCCAAGTA
* ** * *
65238749 CCTTCGGGATTTAG-CCGGATATAATAACTCGCACAAATGCCTTGGGTCTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGT
*
65238813 CACTAGCACAAAAG
66 CAATAGCACAAAAG
* *
65238827 CCTTCGGGACTTAGCCCAGATATAGCAACTCGCACAAACGCCTTCGGACTTAGCCCGGATATAGT
1 CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGT
**
65238892 CAATAGCACAACTG
66 CAATAGCACAAAAG
* *
65238906 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCAC-CATGCCTTCGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGACTTAGCCCGGATAT
65238967 CATCCGAATA
Statistics
Matches: 124, Mismatches: 14, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
78 37 0.30
79 86 0.69
80 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (79 bp):
CCTTCGGGACTTAGCCCGGATATAGCAACTCGCACAAATGCCTTCGGACTTAGCCCGGATATAGT
CAATAGCACAAAAG
Found at i:65238983 original size:38 final size:36
Alignment explanation
Indices: 65238785--65238966 Score: 159
Period size: 40 Copynumber: 4.7 Consensus size: 36
65238775 ACTCGCACAA
* * *
65238785 ATGCCTTGGGTCTTAGCCCGGATATAGTCACTAGCAC
1 ATGCCTTCGGACTTAGCCCGGATATAGTCAATA-CAC
* * *
65238822 AAAAGCCTTCGGGACTTAGCCCAGATATAG-CAACTCGCACAA
1 --ATGCCTTC-GGACTTAGCCCGGATATAGTCAA-T---ACAC
*
65238864 ACGCCTTCGGACTTAGCCCGGATATAGTCAATAGCAC
1 ATGCCTTCGGACTTAGCCCGGATATAGTCAATA-CAC
*
65238901 AACTGCCTTCGGGACTTAGCCCGGATATAGTCACTAGCACC
1 -A-TGCCTTC-GGACTTAGCCCGGATATAGTCAATA-CA-C
65238942 ATGCCTTCGGACTTAGCCCGGATAT
1 ATGCCTTCGGACTTAGCCCGGATAT
65238967 CATCCGAATA
Statistics
Matches: 121, Mismatches: 11, Indels: 23
0.78 0.07 0.15
Matches are distributed among these distances:
36 1 0.01
37 2 0.02
38 18 0.15
39 40 0.33
40 56 0.46
41 1 0.01
42 2 0.02
43 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (36 bp):
ATGCCTTCGGACTTAGCCCGGATATAGTCAATACAC
Found at i:65242465 original size:25 final size:25
Alignment explanation
Indices: 65242426--65242499 Score: 141
Period size: 25 Copynumber: 3.0 Consensus size: 25
65242416 GTAAGGAGGG
65242426 GATAA-GGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
65242450 GATAAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
65242475 GATAAGGGGAGAAGATTTAGGAGCT
1 GATAAGGGGAGAAGATTTAGGAGCT
65242500 TATCAAGGAG
Statistics
Matches: 49, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
24 5 0.10
25 44 0.90
ACGTcount: A:0.36, C:0.04, G:0.39, T:0.20
Consensus pattern (25 bp):
GATAAGGGGAGAAGATTTAGGAGCT
Found at i:65244016 original size:26 final size:27
Alignment explanation
Indices: 65243909--65244019 Score: 143
Period size: 27 Copynumber: 4.1 Consensus size: 27
65243899 AGGAAGCGTC
* * *
65243909 CTGGTGGCTATGCCACATTTATCTGAT
1 CTGGTGGCTCTGCCACACTTATCTGTT
* *
65243936 CTGGTGGCTCTGCCACACATATTTGTT
1 CTGGTGGCTCTGCCACACTTATCTGTT
*
65243963 CTGGTGGCTCTGCCACAATTATCTGTT
1 CTGGTGGCTCTGCCACACTTATCTGTT
* *
65243990 CTGGTGACTCTGTCACA-TTATCTGTT
1 CTGGTGGCTCTGCCACACTTATCTGTT
65244016 CTGG
1 CTGG
65244020 CAGTCATGCT
Statistics
Matches: 74, Mismatches: 10, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
26 13 0.18
27 61 0.82
ACGTcount: A:0.15, C:0.24, G:0.23, T:0.38
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACACTTATCTGTT
Found at i:65256657 original size:69 final size:68
Alignment explanation
Indices: 65256562--65257009 Score: 527
Period size: 69 Copynumber: 6.5 Consensus size: 68
65256552 GGGAAAGGTC
* * * * *
65256562 CATTGTTTGCAGATTCTGTTCCAAGCACCCCTGCCTACGCAGGTGACATGTTCCAGGGGAAGAGC
1 CATT-TTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
65256627 TCAT
65 TCAT
** * * * * *
65256631 CAGTTTTTGGGGAATCTGTTCCAAGCACCCCTGCTTATGCAGATAACATGTTCCAGGGGAAGGGC
1 CA-TTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
65256696 TCAT
65 TCAT
* * * * *
65256700 CTGTTTTTGCAGATTCTGTTCCAAGCACTCCGGCCTATGCAGATAGCATGTTTAAGGGGAAGAGT
1 C-ATTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
*
65256765 TCGT
65 TCAT
* * * ** * *
65256769 CCTTGTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACTTGTTTAAGGGTCAGGGT
1 CATT-TTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
65256834 TCAT
65 TCAT
* * * * *
65256838 CCATATTTGGAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACTTGTTCAAGGGGAAGGGT
1 -CATTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
*
65256903 TCGT
65 TCAT
* *
65256907 CCATATTTGCAGATTCTATTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
1 -CATTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGC
65256972 TCAT
65 TCAT
*
65256976 CTATTTTTGCAGATTCTGTTCCAAGCACCCCTGC
1 C-ATTTTTGCAGATTCTGTTCCAAGCACTCCTGC
65257010 TTATCATTAT
Statistics
Matches: 329, Mismatches: 45, Indels: 10
0.86 0.12 0.03
Matches are distributed among these distances:
68 3 0.01
69 322 0.98
70 4 0.01
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (68 bp):
CATTTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACATGTTCAAGGGGAAGAGCT
CAT
Found at i:65256919 original size:207 final size:207
Alignment explanation
Indices: 65256559--65257009 Score: 591
Period size: 207 Copynumber: 2.2 Consensus size: 207
65256549 CCAGGGAAAG
* * *
65256559 GTCCATTGTTTGCAGATTCTGTTCCAAGCACCCCTGCCTACGCAGGTGACATGTTCCAGGGGAAG
1 GTCC-TTGTTTGCAGATTCTGTTCCAAGCACCCCTGCCTACGCAGATAACATGTTCAAGGGGAAG
* * * *
65256624 AGCTCATCAGTTTTTGGGGAATCTGTTCCAAGCACCCCTGCTTATGCAGATAACATGTTCCAGGG
65 AGCTCATCAGTATTTGGAGAATCTGTTCCAAGCACCCCTGCCTATGCAGATAACATGTTCAAGGG
** * * * *
65256689 GAAGGGCTCATCTGTTTTTGCAGATTCTGTTCCAAGCACTCCGGCCTATGCAGATAGCATGTTTA
130 GAAGGGCTCATCCATATTTGCAGATTCTATTCCAAGCACTCCGGCCTATGCAGATAACATGTTCA
*
65256754 AGGGGAAGAGTTC
195 AGGGGAAGAGCTC
* * * * ** *
65256767 GTCCTTGTTTGCAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACTTGTTTAAGGGTCAGG
1 GTCCTTGTTTGCAGATTCTGTTCCAAGCACCCCTGCCTACGCAGATAACATGTTCAAGGGGAAGA
* * * *
65256832 GTTCATCCA-TATTTGGAGATTCTGTTCCAAGCACTCCTGCCTATGCAGATAACTTGTTCAAGGG
66 GCTCAT-CAGTATTTGGAGAATCTGTTCCAAGCACCCCTGCCTATGCAGATAACATGTTCAAGGG
* * *
65256896 GAAGGGTTCGTCCATATTTGCAGATTCTATTCCAAGCACTCCTGCCTATGCAGATAACATGTTCA
130 GAAGGGCTCATCCATATTTGCAGATTCTATTCCAAGCACTCCGGCCTATGCAGATAACATGTTCA
65256961 AGGGGAAGAGCTC
195 AGGGGAAGAGCTC
* *
65256974 AT-CTATTTTTGCAGATTCTGTTCCAAGCACCCCTGC
1 GTCCT-TGTTTGCAGATTCTGTTCCAAGCACCCCTGC
65257010 TTATCATTAT
Statistics
Matches: 210, Mismatches: 31, Indels: 5
0.85 0.13 0.02
Matches are distributed among these distances:
206 2 0.01
207 202 0.96
208 6 0.03
ACGTcount: A:0.23, C:0.24, G:0.23, T:0.30
Consensus pattern (207 bp):
GTCCTTGTTTGCAGATTCTGTTCCAAGCACCCCTGCCTACGCAGATAACATGTTCAAGGGGAAGA
GCTCATCAGTATTTGGAGAATCTGTTCCAAGCACCCCTGCCTATGCAGATAACATGTTCAAGGGG
AAGGGCTCATCCATATTTGCAGATTCTATTCCAAGCACTCCGGCCTATGCAGATAACATGTTCAA
GGGGAAGAGCTC
Found at i:65274354 original size:21 final size:22
Alignment explanation
Indices: 65274319--65274366 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
65274309 TTTTTAAAAA
* *
65274319 TAAAAAATATTATATATATTTT
1 TAAATAATATTATATATATATT
65274341 TAAATAAT-TTATATATATATT
1 TAAATAATATTATATATATATT
65274362 TAAAT
1 TAAAT
65274367 TTTTAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
TAAATAATATTATATATATATT
Found at i:65274500 original size:15 final size:15
Alignment explanation
Indices: 65274463--65274500 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
65274453 GTGATTTGAC
*
65274463 AAATAATATAAATTTA
1 AAATAAT-TAAAATTA
65274479 AAA-AATTAAAATTA
1 AAATAATTAAAATTA
65274493 AAATAATT
1 AAATAATT
65274501 CTTTTAAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 10 0.50
15 7 0.35
16 3 0.15
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (15 bp):
AAATAATTAAAATTA
Found at i:65277012 original size:1 final size:1
Alignment explanation
Indices: 65277002--65277082 Score: 144
Period size: 1 Copynumber: 81.0 Consensus size: 1
65276992 TTTGTTGTGA
*
65277002 TTTTTATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
65277067 TTTTTTTATTTTTTTT
1 TTTTTTTTTTTTTTTT
65277083 CAAATTTAAA
Statistics
Matches: 76, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 76 1.00
ACGTcount: A:0.02, C:0.00, G:0.00, T:0.98
Consensus pattern (1 bp):
T
Found at i:65277119 original size:1 final size:1
Alignment explanation
Indices: 65277113--65277171 Score: 73
Period size: 1 Copynumber: 59.0 Consensus size: 1
65277103 AAATAATAAA
* * * * *
65277113 TTTTTTTTATATTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTATATTTTTTGTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
65277172 ACGAATTTGG
Statistics
Matches: 48, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.07, C:0.00, G:0.02, T:0.92
Consensus pattern (1 bp):
T
Found at i:65292464 original size:53 final size:53
Alignment explanation
Indices: 65292384--65292489 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
65292374 GCCATATCCA
65292384 AAATAATGAAACTAACTATACCCAAATGTTTAATTGATAGTGTGATCGTGTCT
1 AAATAATGAAACTAACTATACCCAAATGTTTAATTGATAGTGTGATCGTGTCT
65292437 AAATAATGAAACTAACTATACCCAAATGTTTAATTGATAGTGTGATCGTGTCT
1 AAATAATGAAACTAACTATACCCAAATGTTTAATTGATAGTGTGATCGTGTCT
65292490 TCGATGTCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.38, C:0.13, G:0.15, T:0.34
Consensus pattern (53 bp):
AAATAATGAAACTAACTATACCCAAATGTTTAATTGATAGTGTGATCGTGTCT
Found at i:65297573 original size:54 final size:54
Alignment explanation
Indices: 65297504--65297609 Score: 185
Period size: 54 Copynumber: 2.0 Consensus size: 54
65297494 TTAGCACATT
* *
65297504 TTATGGATGATTTTTCCTTAAAATTGATGAATTCGATGCTCCTAATGCCATATG
1 TTATGGATAACTTTTCCTTAAAATTGATGAATTCGATGCTCCTAATGCCATATG
*
65297558 TTATGGATAACTTTTCCTTAAAATTGGTGAATTCGATGCTCCTAATGCCATA
1 TTATGGATAACTTTTCCTTAAAATTGATGAATTCGATGCTCCTAATGCCATA
65297610 CTTTCATATT
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (54 bp):
TTATGGATAACTTTTCCTTAAAATTGATGAATTCGATGCTCCTAATGCCATATG
Found at i:65303103 original size:25 final size:25
Alignment explanation
Indices: 65303073--65303176 Score: 102
Period size: 25 Copynumber: 4.2 Consensus size: 25
65303063 GAAACTCCTT
*
65303073 CGAGCTGAATATTGGAAAGCTCATG
1 CGAGCTGAATATCGGAAAGCTCATG
* * **
65303098 CGAGCTGAATAACGGGAAGCTCACA
1 CGAGCTGAATATCGGAAAGCTCATG
* * * *
65303123 CAAGTTGAATATCGGGAAGCTCATT
1 CGAGCTGAATATCGGAAAGCTCATG
*
65303148 TGAGCTGAATATC-GAGAAGCTCATG
1 CGAGCTGAATATCGGA-AAGCTCATG
65303173 CGAG
1 CGAG
65303177 ATGTGGTGTG
Statistics
Matches: 62, Mismatches: 16, Indels: 2
0.77 0.20 0.03
Matches are distributed among these distances:
24 1 0.02
25 61 0.98
ACGTcount: A:0.33, C:0.18, G:0.28, T:0.21
Consensus pattern (25 bp):
CGAGCTGAATATCGGAAAGCTCATG
Found at i:65316209 original size:25 final size:25
Alignment explanation
Indices: 65316181--65316299 Score: 116
Period size: 25 Copynumber: 4.8 Consensus size: 25
65316171 TCCTCCGAGT
*
65316181 TGAATAACGGGAAGCTTATGTGAAC
1 TGAATAACGGGAAGCTCATGTGAAC
* * *
65316206 TGAATAATGGGAAGCTCATGGGAGC
1 TGAATAACGGGAAGCTCATGTGAAC
* * * *
65316231 TGAATATCGAGAAGCTCATGCGAGC
1 TGAATAACGGGAAGCTCATGTGAAC
*
65316256 T-ATATAACGAGAAGCTCATGTGAGA-
1 TGA-ATAACGGGAAGCTCATGTGA-AC
*
65316281 TGTATAACGGGAAGCTCAT
1 TGAATAACGGGAAGCTCAT
65316300 ACGAGCTGAA
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
24 1 0.01
25 77 0.99
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (25 bp):
TGAATAACGGGAAGCTCATGTGAAC
Found at i:65316236 original size:50 final size:50
Alignment explanation
Indices: 65316181--65316299 Score: 132
Period size: 50 Copynumber: 2.4 Consensus size: 50
65316171 TCCTCCGAGT
* * * * *
65316181 TGAATAACGGGAAGCTTATGTGAACTGA-ATAATGGGAAGCTCATGGGAGC
1 TGAATAACGGGAAGCTCATGCGAACT-ATATAACGAGAAGCTCATGGGAGA
* * * *
65316231 TGAATATCGAGAAGCTCATGCGAGCTATATAACGAGAAGCTCATGTGAGA
1 TGAATAACGGGAAGCTCATGCGAACTATATAACGAGAAGCTCATGGGAGA
*
65316281 TGTATAACGGGAAGCTCAT
1 TGAATAACGGGAAGCTCAT
65316300 ACGAGCTGAA
Statistics
Matches: 56, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
49 1 0.02
50 55 0.98
ACGTcount: A:0.34, C:0.14, G:0.29, T:0.23
Consensus pattern (50 bp):
TGAATAACGGGAAGCTCATGCGAACTATATAACGAGAAGCTCATGGGAGA
Found at i:65323712 original size:39 final size:40
Alignment explanation
Indices: 65323532--65323773 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
65323522 CGGAATTTAA
* * *
65323532 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGA
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
65323572 CCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65323612 CCGGATTTAGTAATTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
65323652 CCGGATTTAGTAGCTCACACAAATGCCTTCGGGACTTA-C
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
65323691 CCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
65323730 CCGGA-ACTAGTCACTAGCACAATTGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
65323770 CCGG
1 CCGG
65323774 TTATCATCCA
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
38 1 0.01
39 68 0.38
40 108 0.61
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65331847 original size:39 final size:40
Alignment explanation
Indices: 65331675--65331916 Score: 303
Period size: 40 Copynumber: 6.1 Consensus size: 40
65331665 CGGAATTTAA
* *
65331675 CCGGATATAGCT-ACTCGCTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
65331715 CCGGTTAGAGTAACTCGCACAATTGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
65331755 CCGGATTTAGTAATTCGCACAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * *
65331795 CCGGATTTAGTAACACACACAAATGCCTTCGGGACTT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
65331834 CCGGATATAGTAACTTGCACAAATGCCTTCGGGACTT-GC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* * * *
65331873 CCGGA-ACTAGTCACTAGCGCAATTGCCTTCGGGACTTAGC
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGACTTAGC
65331913 CCGG
1 CCGG
65331917 TTATCATCCA
Statistics
Matches: 178, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
38 1 0.01
39 69 0.39
40 108 0.61
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:65344360 original size:93 final size:93
Alignment explanation
Indices: 65344248--65344417 Score: 270
Period size: 93 Copynumber: 1.8 Consensus size: 93
65344238 GCCCATAAGT
* *
65344248 GAACTCGGACTCAAATCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCAGACTCAAATCAACGAG-TCAGGACGTCCGCATCCATAAGTGAACTCGGACTCAACTCA
*
65344312 ACGAGTTTGGATGCCTAGTTACATTTCAC
65 ACGAGTTCGGATGCCTAGTTACATTTCAC
* **
65344341 GAACTCAGACTCAACTCAACGAGTTTGGACGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAAATCAACGAGTCAGGACGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
65344406 CGAGTTCGGATG
66 CGAGTTCGGATG
65344418 TTCGTATCCA
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
92 3 0.04
93 67 0.96
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAAATCAACGAGTCAGGACGTCCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATTTCAC
Found at i:65344461 original size:46 final size:46
Alignment explanation
Indices: 65344240--65344461 Score: 243
Period size: 46 Copynumber: 4.8 Consensus size: 46
65344230 TGTAACCCGC
* *
65344240 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGACGTTCGCAT
* * * * *
65344286 CCATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-TTCGCAT
* * * * * *
65344332 ACATTTCA-CGAACTCAGACTCAACTCAACGAGTTTGGACGTCCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
* *
65344379 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGTTCGTAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
*
65344425 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
65344462 ACTCAACCAT
Statistics
Matches: 145, Mismatches: 25, Indels: 12
0.80 0.14 0.07
Matches are distributed among these distances:
45 4 0.03
46 105 0.72
47 34 0.23
48 2 0.01
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGTTCGCAT
Found at i:65344473 original size:93 final size:90
Alignment explanation
Indices: 65344240--65344461 Score: 252
Period size: 93 Copynumber: 2.4 Consensus size: 90
65344230 TGTAACCCGC
* *
65344240 CCATAAGTGAACTCGGACTCAAATCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGAC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GGAC--TCCCATCCATAAGTGAACTCGGAC
*
65344304 TCAACTCAACGAGTTTGGATGCCTAGTT
63 TCAACTCAACGAGTTCGGATGCCTAGTT
* * * * * *
65344332 ACATTTCA-CGAACTCAGACTCAACTCAACGAGTTTGGACGTCCGCATCCATAAGTGAACTCGGA
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-TCC-CATCCATAAGTGAACTCGGA
* *
65344396 CTCAACTCAACGAGTTCGGATG-TTCGTAT
62 CTCAACTCAACGAGTTCGGATGCCTAGT-T
65344425 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGA
65344462 ACTCAACCAT
Statistics
Matches: 106, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
91 2 0.02
92 35 0.33
93 67 0.63
94 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.21, T:0.23
Consensus pattern (90 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACTCCCATCCATAAGTGAACTCGGACTCA
ACTCAACGAGTTCGGATGCCTAGTT
Found at i:65353904 original size:55 final size:55
Alignment explanation
Indices: 65353809--65353915 Score: 133
Period size: 55 Copynumber: 1.9 Consensus size: 55
65353799 CGAGCTTGCC
* * * *
65353809 AAAACAACACGGGAGGGTGACACGCCCGTATGGAAGACCCGTGGTTGAACCTGTT
1 AAAACAACACGGGAGGGTGACACGCCCATATCGAACACCCGTGGTCGAACCTGTT
* * * * *
65353864 AAAACAGCACGGGCGTGTGACACGCCCATGTCTAACACCCGTGGTCGAACCT
1 AAAACAACACGGGAGGGTGACACGCCCATATCGAACACCCGTGGTCGAACCT
65353916 ATTAGATTGC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
55 43 1.00
ACGTcount: A:0.28, C:0.28, G:0.28, T:0.16
Consensus pattern (55 bp):
AAAACAACACGGGAGGGTGACACGCCCATATCGAACACCCGTGGTCGAACCTGTT
Found at i:65354433 original size:27 final size:27
Alignment explanation
Indices: 65354383--65354434 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
65354373 TTATTAGGTT
* *
65354383 AGTTATCATACATTTCGTGCTAAATCA
1 AGTTATCATACATTCCATGCTAAATCA
* *
65354410 AGTTATCATATATTCCATGTTAAAT
1 AGTTATCATACATTCCATGCTAAAT
65354435 TGAGATTAGG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.35, C:0.15, G:0.10, T:0.40
Consensus pattern (27 bp):
AGTTATCATACATTCCATGCTAAATCA
Found at i:65361702 original size:37 final size:37
Alignment explanation
Indices: 65361652--65361730 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
65361642 TTATTACGAA
* * *
65361652 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
65361689 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
65361726 GTCTT
1 GTCTT
65361731 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:65361999 original size:47 final size:47
Alignment explanation
Indices: 65361849--65362275 Score: 678
Period size: 47 Copynumber: 9.1 Consensus size: 47
65361839 CCCTTCGGGA
* * * * * * *
65361849 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65361896 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65361942 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65361989 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362036 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362083 CTTATCACATACATATACACTTTCACATTCATCACATCGACCATT-GGC
1 CTTATCACAT--ATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362131 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362178 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362225 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
65362272 CTTA
1 CTTA
65362276 CTATCATTTC
Statistics
Matches: 358, Mismatches: 18, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 72 0.20
47 243 0.68
48 12 0.03
49 31 0.09
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65362119 original size:23 final size:23
Alignment explanation
Indices: 65362093--65362165 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
65362083 CTTATCACAT
65362093 ACATATACACTTTCACATTCATC
1 ACATATACACTTTCACATTCATC
** * *
65362116 ACATCGAC-CATTGGC-CTTATCA-C
1 ACATATACAC-TT-TCACAT-TCATC
65362139 ACATATACACTTTCACATTCATC
1 ACATATACACTTTCACATTCATC
65362162 ACAT
1 ACAT
65362166 CGGCCATTAG
Statistics
Matches: 36, Mismatches: 8, Indels: 12
0.64 0.14 0.21
Matches are distributed among these distances:
22 5 0.14
23 26 0.72
24 5 0.14
ACGTcount: A:0.33, C:0.32, G:0.04, T:0.32
Consensus pattern (23 bp):
ACATATACACTTTCACATTCATC
Found at i:65362167 original size:189 final size:187
Alignment explanation
Indices: 65361849--65362275 Score: 676
Period size: 189 Copynumber: 2.3 Consensus size: 187
65361839 CCCTTCGGGA
* * * * * * * * *
65361849 CTTATCACATTTATGCACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
* *
65361914 TTTCACATTCACACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTTCACATTCACACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
* * *
65361979 GCCATTAGGCCTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
131 GCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362036 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATACATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACAT--ATATAC
65362101 ACTTTCACATTCATCACATCGACCATT-GGCCTTATCACACATATACACTTTCACATTCATCACA
64 ACTTTCACATTCA-CACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACA
65362165 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
128 TCGGCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65362225 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
65362276 CTATCATTTC
Statistics
Matches: 220, Mismatches: 17, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
187 47 0.21
189 161 0.73
190 12 0.05
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (187 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCACACATCGACCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCG
GCCATTAGGCCTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65366180 original size:29 final size:29
Alignment explanation
Indices: 65366141--65366219 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
65366131 CTTAATAATC
*
65366141 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
65366171 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
65366200 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
65366220 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:65368163 original size:37 final size:37
Alignment explanation
Indices: 65368102--65368180 Score: 104
Period size: 37 Copynumber: 2.1 Consensus size: 37
65368092 TTATTACGAA
* * *
65368102 GTCTTACACAGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACACAGACAAAATCCCCACACGAAGTCATCGG
* * *
65368139 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACACAGACAAAATCCCCACACGAAGTCATCGG
65368176 GTCTT
1 GTCTT
65368181 TAGAGCTCGG
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.28, C:0.30, G:0.18, T:0.24
Consensus pattern (37 bp):
GTCTTACACAGACAAAATCCCCACACGAAGTCATCGG
Found at i:65368449 original size:47 final size:47
Alignment explanation
Indices: 65368299--65368794 Score: 782
Period size: 47 Copynumber: 10.6 Consensus size: 47
65368289 CCCTTCGGGA
* * * * ** * *
65368299 CTTATCACATTTATGCACTTTCACATCCATCACGTTAGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65368346 CCTGTCACATATATACACTTTCACATTCA-CACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368392 CTTATCACATATATACACTTTCACATTCATCACATCAGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65368439 CTTATTACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368486 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368533 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
65368580 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368627 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368674 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368721 CTTATCACACATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
65368768 C-TATCAC-CATATACACTTTCACATTCA
1 CTTATCACATATATACACTTTCACATTCA
65368795 CATCGCCATT
Statistics
Matches: 427, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
45 20 0.05
46 45 0.11
47 362 0.85
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:65372716 original size:27 final size:27
Alignment explanation
Indices: 65372647--65372759 Score: 149
Period size: 27 Copynumber: 4.1 Consensus size: 27
65372637 AGCATGGCTG
*
65372647 CCAGAACAGATATTGTGATAG-AGT-CACA
1 CCAGAACAGATATT-TG-TGGCAGTGC-CA
65372675 CCAGATACAGATATTTGTGGCAGTGCCA
1 CCAGA-ACAGATATTTGTGGCAGTGCCA
65372703 CCAGAACAGATATTTGTGGCAGTGCCA
1 CCAGAACAGATATTTGTGGCAGTGCCA
* *
65372730 CCAGAACAGATATTTGTGCCAGAGCCA
1 CCAGAACAGATATTTGTGGCAGTGCCA
65372757 CCA
1 CCA
65372760 AAACGCTTCC
Statistics
Matches: 79, Mismatches: 3, Indels: 7
0.89 0.03 0.08
Matches are distributed among these distances:
27 52 0.66
28 17 0.22
29 10 0.13
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (27 bp):
CCAGAACAGATATTTGTGGCAGTGCCA
Found at i:65377541 original size:35 final size:35
Alignment explanation
Indices: 65377501--65377571 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
65377491 ATATATATGT
65377501 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
65377536 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
65377571 G
1 G
65377572 TGTATATATA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.34, C:0.11, G:0.32, T:0.23
Consensus pattern (35 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
Found at i:65377694 original size:47 final size:47
Alignment explanation
Indices: 65377536--65377876 Score: 529
Period size: 47 Copynumber: 7.1 Consensus size: 47
65377526 GAATGTGAAA
65377536 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
65377585 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
65377634 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
65377681 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
* *
65377728 GATAGGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
65377775 GATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATAAGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GT
* * * * * * * *
65377824 GACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
65377871 GATAAG
1 GATAAG
65377877 TCCCGAAGGG
Statistics
Matches: 274, Mismatches: 16, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
47 149 0.54
49 125 0.46
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (47 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:65377716 original size:96 final size:96
Alignment explanation
Indices: 65377536--65377876 Score: 542
Period size: 96 Copynumber: 3.6 Consensus size: 96
65377526 GAATGTGAAA
65377536 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGC
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
65377601 CGATGTGATGAATGTGAAAGTGTATATATATGT
64 CGATGTGATGAATGTGAAAGTGTATATATATGT
65377634 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
65377699 ATGTGATGAATGTGAAAGTG--TATATATGT
66 ATGTGATGAATGTGAAAGTGTATATATATGT
* *
65377728 GATAGGGCCTAATGGCCTATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* *
65377793 ATGTGATGAATGTGGAAGTGTATATATAAGT
66 ATGTGATGAATGTGAAAGTGTATATATATGT
* * * * * * * *
65377824 GACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
65377877 TCCCGAAGGG
Statistics
Matches: 230, Mismatches: 11, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
94 91 0.40
96 101 0.44
98 38 0.17
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
ATGTGATGAATGTGAAAGTGTATATATATGT
Found at i:65379953 original size:43 final size:43
Alignment explanation
Indices: 65379900--65380002 Score: 188
Period size: 43 Copynumber: 2.4 Consensus size: 43
65379890 TTGGTTTTCA
* *
65379900 GCACTGAGTGTGCGGGCAATAAGTGTTCATGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
65379943 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
65379986 GCACTAAGTGTGCGGGC
1 GCACTAAGTGTGCGGGC
65380003 TTGAAATGCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 58 1.00
ACGTcount: A:0.21, C:0.15, G:0.37, T:0.27
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
Found at i:65380019 original size:29 final size:29
Alignment explanation
Indices: 65379984--65380057 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
65379974 GTTGTGAGAT
* *
65379984 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
65380013 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
65380042 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65380058 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65380454 original size:40 final size:39
Alignment explanation
Indices: 65380409--65380513 Score: 138
Period size: 39 Copynumber: 2.6 Consensus size: 39
65380399 AAGTGACCAT
* *
65380409 ATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAA
1 ATCCGGGCTAAG-TCCGAAGGCATTGGTGCGAGATACTAA
* * *
65380449 TTCCGGGCTAAGCCCGAAGGCATTGGTGCGAGTTACTAA
1 ATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAA
65380488 ATCCGGGCTAAGTCCCGAAGAGCATT
1 ATCCGGGCTAAGT-CCGAAG-GCATT
65380514 CATGCTAGTG
Statistics
Matches: 56, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
39 35 0.62
40 16 0.29
41 5 0.09
ACGTcount: A:0.28, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATCCGGGCTAAGTCCGAAGGCATTGGTGCGAGATACTAA
Found at i:65380471 original size:39 final size:40
Alignment explanation
Indices: 65380370--65380513 Score: 143
Period size: 40 Copynumber: 3.6 Consensus size: 40
65380360 TCGAATGATG
* * * * *
65380370 TCCGGGCAAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGA-T-ACTAAA
* * *
65380410 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTGGTGCGAGATACTAAA
*
65380450 TCCGGGCTAAG-CCCGAAGGCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAAA
65380489 TCCGGGCTAAGTCCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAG-GCATT
65380514 CATGCTAGTG
Statistics
Matches: 88, Mismatches: 10, Indels: 11
0.81 0.09 0.10
Matches are distributed among these distances:
39 35 0.40
40 37 0.42
41 15 0.17
42 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.22
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTGGTGCGAGATACTAAA
Found at i:65380532 original size:40 final size:40
Alignment explanation
Indices: 65380488--65380564 Score: 127
Period size: 40 Copynumber: 1.9 Consensus size: 40
65380478 GAGTTACTAA
*
65380488 ATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGT
1 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
* *
65380528 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTGA
1 ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGA
65380565 CGTGTATTCG
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.25, C:0.23, G:0.30, T:0.22
Consensus pattern (40 bp):
ATCCGGGCTAAGTCCCGAAGAGCAATCATGCTAGTGATGT
Found at i:65384086 original size:35 final size:35
Alignment explanation
Indices: 65384046--65384116 Score: 133
Period size: 35 Copynumber: 2.0 Consensus size: 35
65384036 ATATATATGT
*
65384046 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 GATAAGGCCTAATGGCCGATGTGAAGAATGTGAAA
65384081 GATAAGGCCTAATGGCCGATGTGAAGAATGTGAAA
1 GATAAGGCCTAATGGCCGATGTGAAGAATGTGAAA
65384116 G
1 G
65384117 TGTATATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.32, T:0.21
Consensus pattern (35 bp):
GATAAGGCCTAATGGCCGATGTGAAGAATGTGAAA
Found at i:65384239 original size:47 final size:47
Alignment explanation
Indices: 65384081--65384457 Score: 583
Period size: 47 Copynumber: 7.9 Consensus size: 47
65384071 GAATGTGAAA
*
65384081 GATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
65384130 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGT
*
65384179 GATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
65384226 GATAAGGCCTAATGGCCGATATGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
65384273 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
65384320 GATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
*
65384367 GATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATAAGT
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GT
* * * * * * *
65384416 GACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATA
1 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
65384458 AATGATATAA
Statistics
Matches: 308, Mismatches: 18, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
47 187 0.61
49 121 0.39
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.28
Consensus pattern (47 bp):
GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGT
Found at i:65384464 original size:94 final size:94
Alignment explanation
Indices: 65383995--65384464 Score: 635
Period size: 94 Copynumber: 5.1 Consensus size: 94
65383985 ATATGAAATG
65383995 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
1 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
65384060 GCCGATGTGATGAA--T----GTG---A-A-
64 GCCGATGTGATGAATGTGAAAGTGTATATAT
*
65384080 A-GATAAGGCCTAATGGCCGATGTGAAGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATG
1 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATG
65384144 GCCGATGTGATGAATGTGAAAGTGTATATAT
64 GCCGATGTGATGAATGTGAAAGTGTATATAT
*
65384175 ATGTGATAGGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
1 A--TGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATG
*
65384240 GCCGATATGATGAATGTGAAAGTGTATATAT
64 GCCGATGTGATGAATGTGAAAGTGTATATAT
* * *
65384271 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAGGTGTATATATGTGATAGGGCCTAATGGC
1 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
65384336 CGATGTGATGAATGTGAAAGTGTATATAT
66 CGATGTGATGAATGTGAAAGTGTATATAT
* * * * * *
65384365 GTGATAAGGCCTAATGGCCGATGTGATGAATGTGGAAGTGTATATATAAGTGACAGGGCCGAGTG
1 ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATAT--GTGATAAGGCCTAATG
* * *
65384430 GCCAACGTGATGGATGTGAAAGTGTATA-A-
64 GCCGATGTGATGAATGTGAAAGTGTATATAT
65384459 ATGATA
1 ATGATA
65384465 TAAGTCCCGA
Statistics
Matches: 351, Mismatches: 18, Indels: 23
0.90 0.05 0.06
Matches are distributed among these distances:
84 76 0.22
85 1 0.00
86 1 0.00
90 3 0.01
93 1 0.00
94 140 0.40
95 2 0.01
96 91 0.26
98 36 0.10
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (94 bp):
ATGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGC
CGATGTGATGAATGTGAAAGTGTATATAT
Found at i:65392773 original size:29 final size:29
Alignment explanation
Indices: 65392738--65392811 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
65392728 GTTGTGAGAT
* *
65392738 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
65392767 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
65392796 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
65392812 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:65395226 original size:33 final size:33
Alignment explanation
Indices: 65395174--65395237 Score: 83
Period size: 33 Copynumber: 1.9 Consensus size: 33
65395164 ATACAGTAGC
* * *
65395174 AGTCTGGGCCAGAGTCCTATTCAGCAACAGTTT
1 AGTCTGGGCCAGAGCCCTATACAGAAACAGTTT
**
65395207 AGTCTGGGCCTTAGCCCTATACAGAAACAGT
1 AGTCTGGGCCAGAGCCCTATACAGAAACAGT
65395238 GTGGGCTTAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
33 26 1.00
ACGTcount: A:0.27, C:0.25, G:0.23, T:0.25
Consensus pattern (33 bp):
AGTCTGGGCCAGAGCCCTATACAGAAACAGTTT
Found at i:65395470 original size:27 final size:26
Alignment explanation
Indices: 65395430--65395509 Score: 81
Period size: 27 Copynumber: 3.0 Consensus size: 26
65395420 TAGAACAGTA
* *
65395430 AATGTAGCAAAGCCACCAGTACTAGT
1 AATGTGGCATAGCCACCAGTACTAGT
* *
65395456 AATTGTGGCATAGCCACCAATAATAGT
1 AA-TGTGGCATAGCCACCAGTACTAGT
* *
65395483 GAATGTGACATAGTCACCAGTAC-AGT
1 -AATGTGGCATAGCCACCAGTACTAGT
65395509 A
1 A
65395510 CTTCCTCCAT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.02
26 5 0.11
27 36 0.82
28 2 0.05
ACGTcount: A:0.38, C:0.20, G:0.20, T:0.23
Consensus pattern (26 bp):
AATGTGGCATAGCCACCAGTACTAGT
Found at i:65395746 original size:27 final size:27
Alignment explanation
Indices: 65395657--65395782 Score: 119
Period size: 27 Copynumber: 4.7 Consensus size: 27
65395647 CATATTACAA
* **
65395657 TACAGGGGTATTCCAATCATTTTACCC
1 TACAGGGGTATTACGGTCATTTTACCC
* * * *
65395684 TATAGAGGCATTACAGTCATTTTACCC
1 TACAGGGGTATTACGGTCATTTTACCC
* *
65395711 TACAAGGGTATTACGGTTATTTTACCC
1 TACAGGGGTATTACGGTCATTTTACCC
** *
65395738 TACAGGGGTATTGTGGTCATTTTAGCC
1 TACAGGGGTATTACGGTCATTTTACCC
**
65395765 TA-TTGGGTATTACGGTCA
1 TACAGGGGTATTACGGTCA
65395783 GATAATGTCC
Statistics
Matches: 79, Mismatches: 20, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
26 12 0.15
27 67 0.85
ACGTcount: A:0.25, C:0.19, G:0.21, T:0.36
Consensus pattern (27 bp):
TACAGGGGTATTACGGTCATTTTACCC
Found at i:65399291 original size:1 final size:1
Alignment explanation
Indices: 65399287--65399321 Score: 61
Period size: 1 Copynumber: 35.0 Consensus size: 1
65399277 AAACAATAAC
*
65399287 AAAAAAAAAAAAAATAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
65399322 TAATAGTAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
1 32 1.00
ACGTcount: A:0.97, C:0.00, G:0.00, T:0.03
Consensus pattern (1 bp):
A
Found at i:65399297 original size:18 final size:17
Alignment explanation
Indices: 65399274--65399321 Score: 71
Period size: 17 Copynumber: 2.8 Consensus size: 17
65399264 TCTATCATAT
*
65399274 AAAAAACAATAACAAAAA
1 AAAAAAAAATAA-AAAAA
65399292 AAAAAAAAATAAAAAAA
1 AAAAAAAAATAAAAAAA
65399309 AAAAAAAAA-AAAA
1 AAAAAAAAATAAAA
65399322 TAATAGTAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
16 4 0.14
17 14 0.48
18 11 0.38
ACGTcount: A:0.92, C:0.04, G:0.00, T:0.04
Consensus pattern (17 bp):
AAAAAAAAATAAAAAAA
Found at i:65399300 original size:21 final size:19
Alignment explanation
Indices: 65399274--65399324 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
65399264 TCTATCATAT
*
65399274 AAAAAACAATAACAAAAAAA
1 AAAAAAAAATAA-AAAAAAA
65399294 AAAAAAATAA-AAAAAAAAA
1 AAAAAAA-AATAAAAAAAAA
65399313 AAAAAAAAATAA
1 AAAAAAAAATAA
65399325 TAGTAACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 2 0.07
19 16 0.57
20 8 0.29
21 2 0.07
ACGTcount: A:0.90, C:0.04, G:0.00, T:0.06
Consensus pattern (19 bp):
AAAAAAAAATAAAAAAAAA
Found at i:65401367 original size:28 final size:28
Alignment explanation
Indices: 65401336--65401414 Score: 113
Period size: 28 Copynumber: 2.8 Consensus size: 28
65401326 TGAATCATTC
* *
65401336 ATATTTTGCACACTAAGTGTCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
*
65401364 ATATCTCGCACACTAAGTGCCATTCTCA
1 ATATTTCGCACACTAAGTGCCATTCTCA
* *
65401392 ATATTTCGTACACTGAGTGCCAT
1 ATATTTCGCACACTAAGTGCCAT
65401415 ATTTGATTGC
Statistics
Matches: 45, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 45 1.00
ACGTcount: A:0.28, C:0.25, G:0.13, T:0.34
Consensus pattern (28 bp):
ATATTTCGCACACTAAGTGCCATTCTCA
Found at i:65405806 original size:27 final size:26
Alignment explanation
Indices: 65405776--65406108 Score: 331
Period size: 27 Copynumber: 12.6 Consensus size: 26
65405766 AAAGTACTCC
65405776 CGATTTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
*
65405803 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTAC-GTTTTACCCT
** *
65405830 CGATTTTTAAAATTACTGTTTTACCCT
1 CGATTTACAGAATTAC-GTTTTACCCT
65405857 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
*
65405884 CGATTTACAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
* *
65405911 CAATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
* *
65405938 C-AGTTTAAAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTAC-GTTTTACCCT
*
65405965 CGAATTACAGAATTATCGTTTTACCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
*
65405992 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTA-CGTTTTACCCT
65406019 CGA-TTACAGAATTACGTTTTACCCT
1 CGATTTACAGAATTACGTTTTACCCT
** * * *
65406044 CGATTTGTAAAATTACCATTTTATCCT
1 CGATTTACAGAATTA-CGTTTTACCCT
*
65406071 TGATTTACA-AA-TAC-TGTTTACCCT
1 CGATTTACAGAATTACGT-TTTACCCT
65406095 C-AGTTTACA-AATTA
1 CGA-TTTACAGAATTA
65406109 TCGTNNNNNN
Statistics
Matches: 266, Mismatches: 27, Indels: 28
0.83 0.08 0.09
Matches are distributed among these distances:
23 2 0.01
24 16 0.06
25 17 0.06
26 25 0.09
27 202 0.76
28 4 0.02
ACGTcount: A:0.29, C:0.21, G:0.09, T:0.41
Consensus pattern (26 bp):
CGATTTACAGAATTACGTTTTACCCT
Found at i:65417313 original size:13 final size:13
Alignment explanation
Indices: 65417295--65417319 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65417285 TAATGGTATA
65417295 TTGAATCCATGAC
1 TTGAATCCATGAC
65417308 TTGAATCCATGA
1 TTGAATCCATGA
65417320 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:65417900 original size:27 final size:27
Alignment explanation
Indices: 65417865--65418043 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
65417855 TTAAATTGTA
65417865 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
65417892 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
65417919 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
65417946 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
65417974 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
65418001 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
65418028 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
65418044 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:65417981 original size:82 final size:81
Alignment explanation
Indices: 65417867--65418017 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
65417857 AAATTGTATA
* *
65417867 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65417931 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
65417948 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
65418013 TGCGA
65 TGCGA
65418018 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65418034 original size:82 final size:81
Alignment explanation
Indices: 65417863--65418043 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
65417853 GATTAAATTG
* *
65417863 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65417928 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
65417944 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
65418008 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
65418026 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
65418044 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65425213 original size:13 final size:13
Alignment explanation
Indices: 65425195--65425219 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65425185 TAATGGTATA
65425195 TTGAATCCATGAC
1 TTGAATCCATGAC
65425208 TTGAATCCATGA
1 TTGAATCCATGA
65425220 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:65425802 original size:27 final size:27
Alignment explanation
Indices: 65425767--65425945 Score: 191
Period size: 27 Copynumber: 6.6 Consensus size: 27
65425757 TTAAATTGTA
65425767 TAGCACTAAGTGTGCGATATGACTATG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
65425794 TTGCACTAAGTGTGCGAAATGAATATG
1 TAGCACTAAGTGTGCGATATGACTATG
*
65425821 -ATGCACTAAGTGTGCGA-ATTGACCATG
1 TA-GCACTAAGTGTGCGATA-TGACTATG
** *
65425848 CGGCACTAAGTGTGCGAGTTTGACTATG
1 TAGCACTAAGTGTGCGA-TATGACTATG
* * *
65425876 TAGCACTAAGTGTGCGATTTGATTACG
1 TAGCACTAAGTGTGCGATATGACTATG
* * *
65425903 TAGCACTAAGTGTGCGAGATGATTATA
1 TAGCACTAAGTGTGCGATATGACTATG
*
65425930 TAGCACTGAGTGTGCG
1 TAGCACTAAGTGTGCG
65425946 GGCTCAATAT
Statistics
Matches: 129, Mismatches: 18, Indels: 10
0.82 0.11 0.06
Matches are distributed among these distances:
26 1 0.01
27 106 0.82
28 22 0.17
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (27 bp):
TAGCACTAAGTGTGCGATATGACTATG
Found at i:65425883 original size:82 final size:81
Alignment explanation
Indices: 65425769--65425919 Score: 223
Period size: 82 Copynumber: 1.9 Consensus size: 81
65425759 AAATTGTATA
* *
65425769 GCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
65425833 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
65425850 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
65425915 TGCGA
65 TGCGA
65425920 GATGATTATA
Statistics
Matches: 62, Mismatches: 6, Indels: 3
0.87 0.08 0.04
Matches are distributed among these distances:
81 15 0.24
82 46 0.74
83 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (81 bp):
GCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:65425936 original size:82 final size:81
Alignment explanation
Indices: 65425765--65425945 Score: 213
Period size: 82 Copynumber: 2.2 Consensus size: 81
65425755 GATTAAATTG
* *
65425765 TATAGCACTAAGTGTGCGATATGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
65425830 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
*** * ** *
65425846 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TATAGCACTAAGTGTGCGA-TATGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
**
65425910 AAGTGTGCGAGA-TGATTA
64 AAGTGTGCGA-ATTGACCA
*
65425928 TATAGCACTGAGTGTGCG
1 TATAGCACTAAGTGTGCG
65425946 GGCTCAATAT
Statistics
Matches: 82, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
81 17 0.21
82 64 0.78
83 1 0.01
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
TATAGCACTAAGTGTGCGATATGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:65428471 original size:21 final size:20
Alignment explanation
Indices: 65428433--65428475 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
65428423 TTACCCCAAG
*
65428433 GAAGCCGATTGATCCATCTCA
1 GAAGCCGATTCATCCATC-CA
65428454 GAAGCCGGATTCAT-CATCCA
1 GAAGCC-GATTCATCCATCCA
65428474 GA
1 GA
65428476 CTGAAAATCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (20 bp):
GAAGCCGATTCATCCATCCA
Found at i:65428677 original size:14 final size:13
Alignment explanation
Indices: 65428657--65428688 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
65428647 AATATTTAAC
65428657 TTGTTCTTAATTA
1 TTGTTCTTAATTA
65428670 TGTGTTCTTAATTA
1 T-TGTTCTTAATTA
65428684 TTGTT
1 TTGTT
65428689 TTGATATCCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.19, C:0.06, G:0.12, T:0.62
Consensus pattern (13 bp):
TTGTTCTTAATTA
Found at i:65439177 original size:29 final size:28
Alignment explanation
Indices: 65439139--65439216 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
65439129 TCATGAGATT
*
65439139 GGCACCAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
65439169 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
65439196 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
65439217 GATTATTAAG
Statistics
Matches: 42, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 5 0.12
29 34 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:65439435 original size:174 final size:174
Alignment explanation
Indices: 65439169--65439496 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
65439159 AAATTGTACA
*
65439169 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* **
65439234 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTACCGAGTTGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
65439299 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
65439343 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
* * *
65439408 TGTGCGAACCCGATATATATTTTCTATAAATTATTTATATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
65439473 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
65439497 ACCTTGAGTA
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGACACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:65446141 original size:17 final size:17
Alignment explanation
Indices: 65446115--65446148 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
65446105 TATATATTTG
*
65446115 AAATATGTTACAATATA
1 AAATAAGTTACAATATA
*
65446132 AAATAAGTTATAATATA
1 AAATAAGTTACAATATA
65446149 TTAAGTGGGG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.03, G:0.06, T:0.35
Consensus pattern (17 bp):
AAATAAGTTACAATATA
Found at i:65447498 original size:24 final size:24
Alignment explanation
Indices: 65447466--65447642 Score: 230
Period size: 24 Copynumber: 7.4 Consensus size: 24
65447456 GAAATGACAT
65447466 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
65447490 TGGCACTATGTGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
*
65447514 TGGCACTATGCGTGCGGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
65447538 TGGCACTATGTGTACAGATTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* *
65447562 TGGCACTATGTGTCCGGACTTGAA
1 TGGCACTATGTGTGCGGATTTGAA
* * *
65447586 TGGCACTACGTGTGTGGATTAGCAA
1 TGGCACTATGTGTGCGGATTTG-AA
* * * *
65447611 -GGCACTATGTGTGTGGGTTAGCA
1 TGGCACTATGTGTGCGGATTTGAA
65447634 TGGCACTAT
1 TGGCACTAT
65447643 ATGTACGAAT
Statistics
Matches: 136, Mismatches: 15, Indels: 4
0.88 0.10 0.03
Matches are distributed among these distances:
23 1 0.01
24 133 0.98
25 2 0.01
ACGTcount: A:0.22, C:0.15, G:0.32, T:0.31
Consensus pattern (24 bp):
TGGCACTATGTGTGCGGATTTGAA
Found at i:65448796 original size:30 final size:29
Alignment explanation
Indices: 65448762--65448825 Score: 101
Period size: 30 Copynumber: 2.2 Consensus size: 29
65448752 ATGAATCGGA
*
65448762 AGCTTTGACACTAAGTGTGTGATTTAAACT
1 AGCTTTGACACTAAGTGTGCGATTT-AACT
*
65448792 AGCTTTGGCACTAAGTGTGCGATTTAACT
1 AGCTTTGACACTAAGTGTGCGATTTAACT
65448821 AGCTT
1 AGCTT
65448826 CGGCTACTTG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 9 0.28
30 23 0.72
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.36
Consensus pattern (29 bp):
AGCTTTGACACTAAGTGTGCGATTTAACT
Found at i:65456018 original size:30 final size:30
Alignment explanation
Indices: 65455984--65456040 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
65455974 ATGAATTGGA
*
65455984 AGCTTTGGCACTAAGTGTGCGATTTAAACG
1 AGCTTTGGCACTAAGTGTACGATTTAAACG
65456014 AGCTTTGGCACTAAGTGTACGATTTAA
1 AGCTTTGGCACTAAGTGTACGATTTAA
65456041 CTAGCTTCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.28, C:0.16, G:0.25, T:0.32
Consensus pattern (30 bp):
AGCTTTGGCACTAAGTGTACGATTTAAACG
Found at i:65465283 original size:49 final size:49
Alignment explanation
Indices: 65465211--65465398 Score: 268
Period size: 49 Copynumber: 3.8 Consensus size: 49
65465201 TGAGGTCACG
* *
65465211 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
* * * * * *
65465260 TGTGTGGTACTAAGTGCAGGCTACTATGTGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAA-T-TGGTCGCA
*
65465311 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
*
65465360 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATA
65465399 GCTTCGGCTA
Statistics
Matches: 121, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
49 78 0.64
50 2 0.02
51 41 0.34
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
Found at i:65465379 original size:100 final size:100
Alignment explanation
Indices: 65465206--65465393 Score: 331
Period size: 100 Copynumber: 1.9 Consensus size: 100
65465196 TATTGTGAGG
* *
65465206 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTGTGGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
*
65465271 AAGTGCAGGCTACTATGTGTACCCGAAAACTGTGA
66 AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
* *
65465306 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATTATTGGTCGCATGTGTAGTACT
1 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
65465371 AAGTGCAGGCTACTATGCGTACC
66 AAGTGCAGGCTACTATGCGTACC
65465394 AGATAGCTTC
Statistics
Matches: 83, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
100 83 1.00
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.29
Consensus pattern (100 bp):
TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCGCATGTGTAGTACT
AAGTGCAGGCTACTATGCGTACCCGAAAACTGTGA
Found at i:65469713 original size:16 final size:17
Alignment explanation
Indices: 65469681--65469713 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
65469671 ATTGACTAAA
*
65469681 TGTTATATATGTATATT
1 TGTTATATATCTATATT
65469698 TGTTATA-ATCTATATT
1 TGTTATATATCTATATT
65469714 GGATGGCCTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
TGTTATATATCTATATT
Found at i:65469856 original size:43 final size:44
Alignment explanation
Indices: 65469809--65469892 Score: 116
Period size: 44 Copynumber: 1.9 Consensus size: 44
65469799 GGAACGTTGT
* *
65469809 CTTCGATCTGAAATAT-CGTGTAAGACCGTGTTTGGGACATAGG
1 CTTCGATCTGAAATATACGTGTAAGACCATGTCTGGGACATAGG
* * *
65469852 CTTCGATTTGATATTTACGTGTAAGACCATGTCTGGGACAT
1 CTTCGATCTGAAATATACGTGTAAGACCATGTCTGGGACAT
65469893 CAACATCGTA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
43 13 0.37
44 22 0.63
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (44 bp):
CTTCGATCTGAAATATACGTGTAAGACCATGTCTGGGACATAGG
Found at i:65477122 original size:43 final size:44
Alignment explanation
Indices: 65477058--65477175 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 44
65477048 CTGAAATATC
** * *
65477058 GTGTAAGACTGTGTCTTGGACACAGGCTTCGATT-TCAGATTTA
1 GTGTAAGACCATGTCTGGGACACAGGCATCGATTATCAGATTTA
* *
65477101 GTGTAAGACCATGTCTGGGACATC-GGCATC--TTATCTGATTTC
1 GTGTAAGACCATGTCTGGGACA-CAGGCATCGATTATCAGATTTA
* *
65477143 GTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 GTGTAAGACCATGTCTGGGACACAGGCATCGAT
65477176 ATTGAATTAC
Statistics
Matches: 62, Mismatches: 8, Indels: 9
0.78 0.10 0.11
Matches are distributed among these distances:
41 2 0.03
42 34 0.55
43 24 0.39
44 2 0.03
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (44 bp):
GTGTAAGACCATGTCTGGGACACAGGCATCGATTATCAGATTTA
Found at i:65479850 original size:15 final size:15
Alignment explanation
Indices: 65479830--65479885 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
65479820 GTATCTTGGG
65479830 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
65479845 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
65479860 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
65479875 TTTCTTTATTC
1 TTTCTTTATTC
65479886 GGTTTCCTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:65482329 original size:46 final size:46
Alignment explanation
Indices: 65482279--65482454 Score: 173
Period size: 46 Copynumber: 3.8 Consensus size: 46
65482269 TGGTTGAGCA
*
65482279 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
65482325 TCCGAACTCGTTGAGTTGAGTCCGAG-T-AC--ATGAGATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCAA--A--CG
* * *
65482372 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
65482418 -CCTGAGCTTGTTGAGTTGATTCCGAGTTCGCTTATGG
1 TCC-GAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
65482455 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 13, Indels: 20
0.76 0.09 0.14
Matches are distributed among these distances:
42 3 0.03
43 6 0.06
44 2 0.02
45 4 0.04
46 55 0.51
47 25 0.23
48 2 0.02
49 2 0.02
50 5 0.05
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:65482435 original size:93 final size:93
Alignment explanation
Indices: 65482276--65482444 Score: 259
Period size: 93 Copynumber: 1.8 Consensus size: 93
65482266 GGATGGTTGA
* *
65482276 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
65482341 TGAGTCCGAGTACATGAGATGTAACTAG
66 TGAGTCCGAGTACATGAGATGTAACTAG
* * * *
65482369 GCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTCATGGATGCGAACG-CCTGAGCTTGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCC-GAACTCGTTGAG
*
65482433 TTGATTCCGAGT
65 TTGAGTCCGAGT
65482445 TCGCTTATGG
Statistics
Matches: 68, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
92 2 0.03
93 66 0.97
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTACATGAGATGTAACTAG
Found at i:65483409 original size:6 final size:6
Alignment explanation
Indices: 65483400--65483516 Score: 78
Period size: 6 Copynumber: 18.8 Consensus size: 6
65483390 TATTAGAACT
* * *
65483400 AGAATC AGAATC AGAATC AGAATC AGAATT AGGTGAT- AGAATT AGAATC
1 AGAATC AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC
* * * *
65483449 AGAATT AGTATC AGGTAA-C AGAATC AAAATC AGAATC AGTATC AAGTAA-C
1 AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAATC AGAATC -AG-AATC
*
65483499 AGAATC TAAAATC AGAAT
1 AGAATC -AGAATC AGAAT
65483517 GTGAATGCAA
Statistics
Matches: 87, Mismatches: 14, Indels: 20
0.72 0.12 0.17
Matches are distributed among these distances:
5 6 0.07
6 64 0.74
7 13 0.15
8 4 0.05
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (6 bp):
AGAATC
Found at i:65483415 original size:18 final size:18
Alignment explanation
Indices: 65483400--65483516 Score: 78
Period size: 19 Copynumber: 6.3 Consensus size: 18
65483390 TATTAGAACT
65483400 AGAATCAGAATCAGAATC
1 AGAATCAGAATCAGAATC
* *
65483418 AGAATCAGAATTAGGTGAT-
1 AGAATCAGAATCA-G-AATC
* *
65483437 AGAATTAGAATCAGAATT
1 AGAATCAGAATCAGAATC
*
65483455 AGTATCAGGTAA-CAGAATC
1 AGAATCA-G-AATCAGAATC
* *
65483474 AAAATCAGAATCAGTATC
1 AGAATCAGAATCAGAATC
*
65483492 AAGTAA-CAGAATCTAAAATC
1 -AG-AATCAGAATC-AGAATC
65483512 AGAAT
1 AGAAT
65483517 GTGAATGCAA
Statistics
Matches: 75, Mismatches: 14, Indels: 19
0.69 0.13 0.18
Matches are distributed among these distances:
17 4 0.05
18 27 0.36
19 34 0.45
20 10 0.13
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.22
Consensus pattern (18 bp):
AGAATCAGAATCAGAATC
Found at i:65483447 original size:31 final size:31
Alignment explanation
Indices: 65483405--65483516 Score: 125
Period size: 31 Copynumber: 3.6 Consensus size: 31
65483395 GAACTAGAAT
* *
65483405 CAGAATCAGAATCAGAATCAGAATTAGGTGA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * * *
65483436 TAGAATTAGAATCAGAATTAGTATCAGGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
* * *
65483467 CAGAATCAAAATCAGAATCAGTATCAAGTAA
1 CAGAATCAGAATCAGAATCAGAATCAGGTAA
*
65483498 CAGAATCTAAAATCAGAAT
1 CAGAATC-AGAATCAGAAT
65483517 GTGAATGCAA
Statistics
Matches: 69, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
31 58 0.84
32 11 0.16
ACGTcount: A:0.48, C:0.12, G:0.17, T:0.22
Consensus pattern (31 bp):
CAGAATCAGAATCAGAATCAGAATCAGGTAA
Found at i:65483695 original size:27 final size:26
Alignment explanation
Indices: 65483653--65483762 Score: 98
Period size: 27 Copynumber: 4.2 Consensus size: 26
65483643 GCTCAGTTAT
*
65483653 CAGATATTG-TGACAGAGTCACCAGATA
1 CAGATATTGTTG-CAGAGCCACCAGA-A
*
65483680 TAGATATTGTTGCAGAGCCACCAGAA
1 CAGATATTGTTGCAGAGCCACCAGAA
* *
65483706 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTTGCAGAGCCACCAG-AA
* * * *
65483734 CAGATAATGTAGCAAAGCCA-CTGAA
1 CAGATATTGTTGCAGAGCCACCAGAA
65483759 CAGA
1 CAGA
65483763 ATACGTGGCA
Statistics
Matches: 71, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
25 6 0.08
26 8 0.11
27 47 0.66
28 10 0.14
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTTGCAGAGCCACCAGAA
Found at i:65483729 original size:54 final size:52
Alignment explanation
Indices: 65483653--65483762 Score: 121
Period size: 54 Copynumber: 2.1 Consensus size: 52
65483643 GCTCAGTTAT
* * * * * *
65483653 CAGATATTGTGACAGAGTCACCAGATATAGATATTGTTGCAGAGCCACCAGAA
1 CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCA-CAGAA
* * *
65483706 CAGATATTTGTGGCATAGCCACCAGAAACAGATAATGTAGCAAAGCCACTGAA
1 CAGATA-TTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACAGAA
65483759 CAGA
1 CAGA
65483763 ATACGTGGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
53 14 0.30
54 33 0.70
ACGTcount: A:0.38, C:0.20, G:0.22, T:0.20
Consensus pattern (52 bp):
CAGATATTGTGACAGAGCCACCAGAAACAGATAATGTAGCAAAGCCACAGAA
Found at i:65483941 original size:22 final size:21
Alignment explanation
Indices: 65483913--65483977 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 21
65483903 GCAAATACGT
65483913 TTGGCACACAGCCATAATCAGG
1 TTGGCACA-AGCCATAATCAGG
* *
65483935 TTGGCACAGAGCTAT-ATGTAGG
1 TTGGCACA-AGCCATAAT-CAGG
*
65483957 TTGACACGAAGCCATAATCAG
1 TTGGCAC-AAGCCATAATCAG
65483978 AAGGCTTTAA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
21 2 0.06
22 29 0.85
23 3 0.09
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (21 bp):
TTGGCACAAGCCATAATCAGG
Found at i:65484469 original size:27 final size:27
Alignment explanation
Indices: 65484405--65484733 Score: 394
Period size: 27 Copynumber: 12.2 Consensus size: 27
65484395 GGGCAAAATG
* * * * *
65484405 GTAATTTTACCCTACA-AGGTGTCTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65484431 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
65484458 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65484485 GAAATTCTACCCTACAGGGGTATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
65484511 GATACTTCTACCCTACAGGGTTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
65484539 GTAATTCTACCCTACAGGAGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65484566 GTAATTCTACCCTACAGGGGTATTCCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
65484593 GTAATTCTACCCTACAGGAGTATTGCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * * *
65484620 ATAATTCTACCGTACAGGGGTATTGCG
1 GTAATTCTACCCTACAGGGGTATTTCA
65484647 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
65484673 GATAATTCTACCCTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* * *
65484701 GTATTTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
65484728 GTAATT
1 GTAATT
65484734 TTGTAAATCG
Statistics
Matches: 261, Mismatches: 37, Indels: 9
0.85 0.12 0.03
Matches are distributed among these distances:
26 16 0.06
27 243 0.93
28 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:65484536 original size:81 final size:81
Alignment explanation
Indices: 65484432--65484733 Score: 442
Period size: 81 Copynumber: 3.7 Consensus size: 81
65484422 GGTGTCTCGG
* * *
65484432 TAATTCCACCCTACAGGGGTATTTTAGTAATTCTACCCTACAGGGGTATTTCGGAAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
65484497 TACAGGGGTATTGCGA
66 TACAGGGGTATTCCGA
* * * * *
65484513 TACTTCTACCCTACAGGGTTATTTCGGTAATTCTACCCTACAGGAGTATTTCAGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
65484578 TACAGGGGTATTCCGG
66 TACAGGGGTATTCCGA
* * * * *
65484594 TAATTCTACCCTACAGGAGTATTGCAATAATTCTACCGTACAGGGGTATTGCGGTAATTCTACCC
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
*
65484659 TACAGGGGTATTTCGA
66 TACAGGGGTATTCCGA
* *
65484675 TAATTCTACCCTACAGGGGTATTTCAGTATTTCTACCCTACAAGGGTATTTCGGTAATT
1 TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATT
65484734 TTGTAAATCG
Statistics
Matches: 192, Mismatches: 29, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
81 192 1.00
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (81 bp):
TAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCC
TACAGGGGTATTCCGA
Found at i:65484801 original size:27 final size:27
Alignment explanation
Indices: 65484783--65484874 Score: 105
Period size: 27 Copynumber: 3.4 Consensus size: 27
65484773 GGTACTTTGG
65484783 TAATTTTACAAGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* *
65484810 TAATTTTATAGGTCGAGGGTATTTCAA
1 TAATTTTACAAGTCGAGGGTATTTCAA
* * ***
65484837 TAATTTCACAAATC-AGGGATATTTTGG
1 TAATTTTACAAGTCGAGGG-TATTTCAA
65484864 TAATTTTACAA
1 TAATTTTACAA
65484875 ACAAGGGGTA
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
26 4 0.07
27 50 0.93
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (27 bp):
TAATTTTACAAGTCGAGGGTATTTCAA
Found at i:65484875 original size:27 final size:27
Alignment explanation
Indices: 65484837--65485085 Score: 309
Period size: 27 Copynumber: 9.2 Consensus size: 27
65484827 GGTATTTCAA
* * *
65484837 TAATTTCACAAATCAGGGATATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* *
65484864 TAATTTTACAAACAAGGGGTATTTTGA
1 TAATTTTACAAACCAGGGGTATTTTGG
*
65484891 TAACTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
*
65484918 CAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * * *
65484945 TGATTTTATAAACAAAGGGTATTTTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
65484972 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
**
65484999 TAATTTTGTAAACCAGGGGTATTTTGG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * * *
65485026 TAATTTTATAAACCAAGGGTATTCTAG
1 TAATTTTACAAACCAGGGGTATTTTGG
* * *
65485053 TAATTTTACAAACCAAGGATATTTTGT
1 TAATTTTACAAACCAGGGGTATTTTGG
65485080 TAATTT
1 TAATTT
65485086 GGTAAACTAA
Statistics
Matches: 190, Mismatches: 32, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 190 1.00
ACGTcount: A:0.33, C:0.10, G:0.19, T:0.38
Consensus pattern (27 bp):
TAATTTTACAAACCAGGGGTATTTTGG
Found at i:65485092 original size:54 final size:54
Alignment explanation
Indices: 65484754--65485085 Score: 281
Period size: 54 Copynumber: 6.1 Consensus size: 54
65484744 AGCGTAAAAC
* * * * ** *
65484754 GGTAATTCTGTAAATCAAGGGTACTTTGGTAATTTTACAAGTC-GAGGGTATTTC
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTT
** *** * *** * * *
65484808 AATAATTTTATAGGTCGAGGGTATTTCAATAATTTCACAAATCAGGGATATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * *
65484862 GGTAATTTTACAAA-CAAGGGGTATTTTGATAACTTTACAAACCAGGGGTATTTT
1 GGTAATTTTATAAACCAA-GGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * * * * *
65484916 GGCAATTTTACAAACCAGGGGTATTTTGGTGATTTTATAAACAAAGGGTATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * **
65484970 AGTAATTTTACAAACCAGGGGTATTTTGGTAATTTTGTAAACCAGGGGTATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
* * * *
65485024 GGTAATTTTATAAACCAAGGGTATTCTAGTAATTTTACAAACCAAGGATATTTT
1 GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
*
65485078 GTTAATTT
1 GGTAATTT
65485086 GGTAAACTAA
Statistics
Matches: 224, Mismatches: 51, Indels: 6
0.80 0.18 0.02
Matches are distributed among these distances:
53 2 0.01
54 219 0.98
55 3 0.01
ACGTcount: A:0.32, C:0.10, G:0.20, T:0.38
Consensus pattern (54 bp):
GGTAATTTTATAAACCAAGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTT
Found at i:65489073 original size:56 final size:56
Alignment explanation
Indices: 65488934--65489086 Score: 179
Period size: 56 Copynumber: 2.8 Consensus size: 56
65488924 TGATGACATA
*
65488934 ATGCATGCTAGGTCCGGGAGCT-TGTGTAGCCC-GTTGAGAGGCATGTAATTATGTG
1 ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATG-AATTATGTG
* * * * * *
65488989 GTACATGATATGCCCGGGAGCT-TTTGTAGCCCTGTTGAGAGGCATG-GTTATGTG
1 ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATGAATTATGTG
* *
65489043 ATGCATGCTAGGTCCGGGTGCTCTTATGTAGCCTTGTTGAGAGG
1 ATGCATGCTAGGTCCGGGAGCTCTT-TGTAGCCCTGTTGAGAGG
65489087 TGTGCTATAT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
54 23 0.28
55 28 0.35
56 30 0.37
ACGTcount: A:0.18, C:0.17, G:0.34, T:0.31
Consensus pattern (56 bp):
ATGCATGCTAGGTCCGGGAGCTCTTTGTAGCCCTGTTGAGAGGCATGAATTATGTG
Found at i:65495487 original size:39 final size:39
Alignment explanation
Indices: 65495433--65495563 Score: 165
Period size: 39 Copynumber: 3.3 Consensus size: 39
65495423 GTGCAAACAG
* * *
65495433 GGGTACAAAAGTACAAATAGGGGTACCAAAATACAAATA
1 GGGTACCAAAGTACAAACAGGGGTACCAAAGTACAAATA
*
65495472 GGGTACCAAAGTACAAACAGGGGTACCGAAGTACAAATA
1 GGGTACCAAAGTACAAACAGGGGTACCAAAGTACAAATA
* * *
65495511 CGGTA-CAGAAGTACAAACAGGGGTACCAAAGTACATACA
1 GGGTACCA-AAGTACAAACAGGGGTACCAAAGTACAAATA
*
65495550 GGAGTACCGAAGTA
1 GG-GTACCAAAGTA
65495564 AATTCCCATA
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.03
39 68 0.86
40 8 0.10
41 1 0.01
ACGTcount: A:0.45, C:0.17, G:0.24, T:0.14
Consensus pattern (39 bp):
GGGTACCAAAGTACAAACAGGGGTACCAAAGTACAAATA
Found at i:65495535 original size:59 final size:59
Alignment explanation
Indices: 65495426--65495563 Score: 181
Period size: 59 Copynumber: 2.3 Consensus size: 59
65495416 CACAAATGTG
** * *
65495426 CAAACAGGGGTACAAAAGTACAAATAGGGGTACCAAAATACAAATAGGGTACCAAAGTA
1 CAAACAGGGGTACCGAAGTACAAATAGCGGTACCAAAATACAAACAGGGTACCAAAGTA
*
65495485 CAAACAGGGGTACCGAAGTACAAATA-CGGTA-CAGAAGTACAAACAGGGGTACCAAAGTA
1 CAAACAGGGGTACCGAAGTACAAATAGCGGTACCA-AAATACAAACA-GGGTACCAAAGTA
* *
65495544 CATACAGGAGTACCGAAGTA
1 CAAACAGGGGTACCGAAGTA
65495564 AATTCCCATA
Statistics
Matches: 70, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
57 2 0.03
58 13 0.19
59 55 0.79
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (59 bp):
CAAACAGGGGTACCGAAGTACAAATAGCGGTACCAAAATACAAACAGGGTACCAAAGTA
Found at i:65495557 original size:20 final size:20
Alignment explanation
Indices: 65495426--65495563 Score: 156
Period size: 20 Copynumber: 7.0 Consensus size: 20
65495416 CACAAATGTG
*
65495426 CAAACAGGGGTACAAAAGTA
1 CAAACAGGGGTACCAAAGTA
* *
65495446 CAAATAGGGGTACCAAAATA
1 CAAACAGGGGTACCAAAGTA
*
65495466 CAAATA-GGGTACCAAAGTA
1 CAAACAGGGGTACCAAAGTA
*
65495485 CAAACAGGGGTACCGAAGTA
1 CAAACAGGGGTACCAAAGTA
* *
65495505 CAAATA-CGGTA-CAGAAGTA
1 CAAACAGGGGTACCA-AAGTA
65495524 CAAACAGGGGTACCAAAGTA
1 CAAACAGGGGTACCAAAGTA
* * *
65495544 CATACAGGAGTACCGAAGTA
1 CAAACAGGGGTACCAAAGTA
65495564 AATTCCCATA
Statistics
Matches: 100, Mismatches: 14, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
18 1 0.01
19 31 0.31
20 66 0.66
21 2 0.02
ACGTcount: A:0.46, C:0.17, G:0.24, T:0.13
Consensus pattern (20 bp):
CAAACAGGGGTACCAAAGTA
Found at i:65510303 original size:29 final size:29
Alignment explanation
Indices: 65510244--65510372 Score: 172
Period size: 29 Copynumber: 4.5 Consensus size: 29
65510234 ATAGTAAGTC
* *
65510244 CGCACACTTAGTG-TTATATAATAAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
65510272 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
65510301 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTGCTTACATAATCAAACT
* * * * *
65510330 TGCACACTTAGTGCTATGCA-ATTTAAACC
1 CGCACACTTAGTGCT-TACATAATCAAACT
65510359 CGCACACTTAGTGC
1 CGCACACTTAGTGC
65510373 CAATCTCATG
Statistics
Matches: 91, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
28 13 0.14
29 75 0.82
30 3 0.03
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (29 bp):
CGCACACTTAGTGCTTACATAATCAAACT
Found at i:65511513 original size:23 final size:22
Alignment explanation
Indices: 65511476--65511518 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
65511466 AACATTTTGT
65511476 CTTTCTTTTGTTTTTCTCTTATC
1 CTTTCTTTTGTTTTTC-CTTATC
65511499 CTTTCTTTT-TCTTTTCCTTA
1 CTTTCTTTTGT-TTTTCCTTA
65511519 GCTCACGGCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.05, C:0.23, G:0.02, T:0.70
Consensus pattern (22 bp):
CTTTCTTTTGTTTTTCCTTATC
Found at i:65528028 original size:30 final size:30
Alignment explanation
Indices: 65527992--65528052 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 30
65527982 TTCCCGAGCC
*
65527992 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
65528022 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
65528052 T
1 T
65528053 GTATTAAACA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:65534009 original size:43 final size:43
Alignment explanation
Indices: 65533866--65534014 Score: 123
Period size: 43 Copynumber: 3.5 Consensus size: 43
65533856 TCTCAGATAT
** * *
65533866 CATGTAAGACCGTGTCTAGGACACAGGCCTCGAT-TTGAGATTTA
1 CATGTAAGACCACGTCTGGGACACAGGCATCGATATTGA-A-TTA
* * *
65533910 CGTGTAAGACCA--T-TGGGACATAGGCATCG-TATTTG-ATTT
1 CATGTAAGACCACGTCTGGGACACAGGCATCGATA-TTGAATTA
* *
65533949 CATGTAAGACC-CTGTCTGGGACAGAGGCATCGATACTGAATTA
1 CATGTAAGACCAC-GTCTGGGACACAGGCATCGATATTGAATTA
*
65533992 CATGTAAGACCACGTCTGAGACA
1 CATGTAAGACCACGTCTGGGACA
65534015 TCGGCATTGT
Statistics
Matches: 85, Mismatches: 11, Indels: 19
0.74 0.10 0.17
Matches are distributed among these distances:
39 12 0.14
40 2 0.02
41 14 0.16
42 21 0.25
43 25 0.29
44 11 0.13
ACGTcount: A:0.29, C:0.20, G:0.25, T:0.26
Consensus pattern (43 bp):
CATGTAAGACCACGTCTGGGACACAGGCATCGATATTGAATTA
Found at i:65545786 original size:27 final size:26
Alignment explanation
Indices: 65545742--65545793 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
65545732 CTCGCTACAA
*
65545742 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
65545769 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
65545794 GCTGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:65546330 original size:21 final size:21
Alignment explanation
Indices: 65546305--65546346 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
65546295 TTGTAATAAG
65546305 GCCGCTATTTAAATTTCTTTT
1 GCCGCTATTTAAATTTCTTTT
65546326 GCCGCTATTTAAATTTCTTTT
1 GCCGCTATTTAAATTTCTTTT
65546347 TCAAAATTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.10, T:0.52
Consensus pattern (21 bp):
GCCGCTATTTAAATTTCTTTT
Found at i:65547502 original size:27 final size:27
Alignment explanation
Indices: 65547464--65547626 Score: 152
Period size: 27 Copynumber: 6.0 Consensus size: 27
65547454 GTCGTTAAGA
* *
65547464 CCTCGGTTTGTAAAATTACTGAGATAC
1 CCTCGATTTGTAAAATTACTGAAATAC
65547491 CCTCGATTTGTAAAATTACTGAAATAC
1 CCTCGATTTGTAAAATTACTGAAATAC
** **
65547518 CCTTAATTTGTAAAATTACCAAAATAC
1 CCTCGATTTGTAAAATTACTGAAATAC
* *
65547545 CC-CTGGTTTGTAAAATTACTAAAATAC
1 CCTC-GATTTGTAAAATTACTGAAATAC
* * * *
65547572 CCCCAAATTGTAAAATTACCGAAATAC
1 CCTCGATTTGTAAAATTACTGAAATAC
* *
65547599 CC-CCAGTTTATAAAATTA-TCGAAATAC
1 CCTCGA-TTTGTAAAATTACT-GAAATAC
65547626 C
1 C
65547627 TCTGTAGGGT
Statistics
Matches: 113, Mismatches: 19, Indels: 8
0.81 0.14 0.06
Matches are distributed among these distances:
26 2 0.02
27 110 0.97
28 1 0.01
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.31
Consensus pattern (27 bp):
CCTCGATTTGTAAAATTACTGAAATAC
Found at i:65547555 original size:54 final size:54
Alignment explanation
Indices: 65547470--65547626 Score: 183
Period size: 54 Copynumber: 2.9 Consensus size: 54
65547460 AAGACCTCGG
* * * **
65547470 TTTGTAAAATTACTGAGATA-CCCTCGATTTGTAAAATTACTGAAATACCCTTAA
1 TTTGTAAAATTACCGAAATACCCCT-GGTTTGTAAAATTACTGAAATACCCCCAA
* *
65547524 TTTGTAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCCAA
1 TTTGTAAAATTACCGAAATACCCCTGGTTTGTAAAATTACTGAAATACCCCCAA
* ** *
65547578 ATTGTAAAATTACCGAAATACCCCCAGTTTATAAAATTA-TCGAAATACC
1 TTTGTAAAATTACCGAAATACCCCTGGTTTGTAAAATTACT-GAAATACC
65547627 TCTGTAGGGT
Statistics
Matches: 88, Mismatches: 13, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
53 1 0.01
54 83 0.94
55 4 0.05
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (54 bp):
TTTGTAAAATTACCGAAATACCCCTGGTTTGTAAAATTACTGAAATACCCCCAA
Found at i:65547613 original size:81 final size:81
Alignment explanation
Indices: 65547468--65547626 Score: 210
Period size: 81 Copynumber: 2.0 Consensus size: 81
65547458 TTAAGACCTC
* * * * * * ** *
65547468 GGTTTGTAAAATTACTGAGATACCCTCGATTTGTAAAATTACTGAAATACCCTTAATTTGTAAAA
1 GGTTTGTAAAATTACTAAAATACCCCCAAATTGTAAAATTACCGAAATACCCCCAATTTATAAAA
65547533 TTACCAAAATACCCCT
66 TTACCAAAATACCCCT
*
65547549 GGTTTGTAAAATTACTAAAATACCCCCAAATTGTAAAATTACCGAAATACCCCCAGTTTATAAAA
1 GGTTTGTAAAATTACTAAAATACCCCCAAATTGTAAAATTACCGAAATACCCCCAATTTATAAAA
* *
65547614 TTATCGAAATACC
66 TTACCAAAATACC
65547627 TCTGTAGGGT
Statistics
Matches: 66, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
81 66 1.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (81 bp):
GGTTTGTAAAATTACTAAAATACCCCCAAATTGTAAAATTACCGAAATACCCCCAATTTATAAAA
TTACCAAAATACCCCT
Done.