Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr3
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: 100348136
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3062571 characters in sequence are not A, C, G, or T
File 191 of 290
Found at i:65398031 original size:27 final size:27
Alignment explanation
Indices: 65398001--65398178 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65397991 ATATTGAGTC
* * * *
65398001 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65398028 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65398055 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65398083 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65398110 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65398137 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65398164 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65398179 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65398140 original size:82 final size:81
Alignment explanation
Indices: 65398022--65398177 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65398012 TGCTATATAA
* *
65398022 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65398087 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65398104 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65398168 CACTTAGTGC
65 CACTTAGTGC
65398178 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65399207 original size:126 final size:126
Alignment explanation
Indices: 65399053--65399306 Score: 499
Period size: 126 Copynumber: 2.0 Consensus size: 126
65399043 GTTAATGTTG
65399053 CCATGAATGAATGTTAGAGAATTTAGAGAAAGTAATTCTTGATTATGGCTGCATAGTTGTTTTAA
1 CCATGAATGAATGTTAGAGAATTTAGAGAAAGTAATTCTTGATTATGGCTGCATAGTTGTTTTAA
*
65399118 GCTTGAATTATGGTAGGTATAAAGCTGCATGGTAAAAGGTTGAGTACATCATCAAGTTTTT
66 GCTTGAATTATGGTAGGTATAAAGCTGCATGGTAAAAGGTTGAGTACAACATCAAGTTTTT
65399179 CCATGAATGAATGTTAGAGAATTTAGAGAAAGTAATTCTTGATTATGGCTGCATAGTTGTTTTAA
1 CCATGAATGAATGTTAGAGAATTTAGAGAAAGTAATTCTTGATTATGGCTGCATAGTTGTTTTAA
65399244 GCTTGAATTATGGTAGGTATAAAGCTGCATGGTAAAAGGTTGAGTACAACATCAAGTTTTT
66 GCTTGAATTATGGTAGGTATAAAGCTGCATGGTAAAAGGTTGAGTACAACATCAAGTTTTT
65399305 CC
1 CC
65399307 TCAAGTTGTT
Statistics
Matches: 127, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
126 127 1.00
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.35
Consensus pattern (126 bp):
CCATGAATGAATGTTAGAGAATTTAGAGAAAGTAATTCTTGATTATGGCTGCATAGTTGTTTTAA
GCTTGAATTATGGTAGGTATAAAGCTGCATGGTAAAAGGTTGAGTACAACATCAAGTTTTT
Found at i:65401835 original size:22 final size:22
Alignment explanation
Indices: 65401807--65401852 Score: 76
Period size: 22 Copynumber: 2.1 Consensus size: 22
65401797 GGTTCATGAG
65401807 TTGAACCAAAAATGT-TGTTGGT
1 TTGAACCAAAAAT-TATGTTGGT
65401829 TTGAACCAAAAATTATGTTGGT
1 TTGAACCAAAAATTATGTTGGT
65401851 TT
1 TT
65401853 TGGATGTCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 1 0.04
22 22 0.96
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (22 bp):
TTGAACCAAAAATTATGTTGGT
Found at i:65404899 original size:6 final size:6
Alignment explanation
Indices: 65404888--65404921 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
65404878 TATAAAACCC
65404888 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AAAA
65404922 GGCAAACAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:65410343 original size:43 final size:41
Alignment explanation
Indices: 65410259--65410393 Score: 137
Period size: 43 Copynumber: 3.2 Consensus size: 41
65410249 GCTTGGAATT
* * *
65410259 TATGTGTTCTCGTGTAAGACGATGTTTGGGACGTTAGCATCGA
1 TATGTGAT-TCGTGTAAGACGATGTTTGGGACATGA-CATCGA
*
65410302 TATGTGATTACGTGTAAGACGATGTCTGGGACATCGACATCG-
1 TATGTGATT-CGTGTAAGACGATGTTTGGGACAT-GACATCGA
* * ** *
65410344 TATTTGATTCGTGTAAAACCCTGTTTGGGACAGTGGCATCGA
1 TATGTGATTCGTGTAAGACGATGTTTGGGACA-TGACATCGA
65410386 TATGTGAT
1 TATGTGAT
65410394 AGCATGTAAG
Statistics
Matches: 77, Mismatches: 11, Indels: 9
0.79 0.11 0.09
Matches are distributed among these distances:
41 25 0.32
42 17 0.22
43 34 0.44
44 1 0.01
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (41 bp):
TATGTGATTCGTGTAAGACGATGTTTGGGACATGACATCGA
Found at i:65410373 original size:41 final size:43
Alignment explanation
Indices: 65410296--65410393 Score: 112
Period size: 41 Copynumber: 2.3 Consensus size: 43
65410286 GGGACGTTAG
* *
65410296 CATCGATATGTGATTACGTGTAAGACGATGTCTGGGACATCGA
1 CATCGATATGTGATTACGTGTAAAACCATGTCTGGGACATCGA
* * * *
65410339 CATCG-TATTTGATT-CGTGTAAAACCCTGTTTGGGACAGT-GG
1 CATCGATATGTGATTACGTGTAAAACCATGTCTGGGACA-TCGA
65410380 CATCGATATGTGAT
1 CATCGATATGTGAT
65410394 AGCATGTAAG
Statistics
Matches: 46, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
41 25 0.54
42 16 0.35
43 5 0.11
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
CATCGATATGTGATTACGTGTAAAACCATGTCTGGGACATCGA
Found at i:65413400 original size:907 final size:901
Alignment explanation
Indices: 65411749--65413474 Score: 3245
Period size: 907 Copynumber: 1.9 Consensus size: 901
65411739 AAATCCGAAC
65411749 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAA
1 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAA
65411814 TTTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCTTCAAAAATCATATCTTGAGTTTCACAAC
66 TTTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCTTCAAAAATCATATCTTGAGTTTCACAAC
65411879 TCAAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGGATTTTTTTC
131 TCAAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGGATTTTTTTC
*
65411944 TAGAATTTTTGGTCTGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCG
196 TAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCG
65412009 ACTACACTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
261 ACTACACTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
65412074 GTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATACATATATGGTATGACCCCTAATTAT
326 GTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATACATATATGGTATGACCCCTAATTAT
65412139 CTCTGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTG
391 CTCTGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTG
*
65412204 TTCCACAAGAACCCGAATATCTCTTTCTGTACTGTTCCTATAATTGTTTCGTTACTTCCATATGA
456 TTCCACAAGAACCCGAATATCTCTTACTGTACTGTTCCTATAATTGTTTCGTTACTTCCATATGA
65412269 AAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCT
521 AAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCT
65412334 TGTGATTTTTCCAATCCACACCACTGCTGCTATCAGCTTCTGTTTTCAAAGTGAACCTTACCTAA
586 TGTGATTTTTCCAATCCACACCACTGCTGCTATCAGCTTCTGTTTTCAAAGTGAACCTTACCTAA
65412399 TTTGGGGTTTCATGGACCAACTAGGGCCTTGTCATACATAAGCCCACATATGATCATACTTAGCC
651 TTTGGGGTTTCATGGACCAACTAGGGCCTTGTCATACATAAGCCCACATATGATCATACTTAGCC
65412464 ATTCCAATGGCTGATCATTAGCCCAACACTTCCATTTCAAACCATAGTCACATCATGAAACCATA
716 ATTCCAATGGCTGATCATTAGCCCAACACTTCCA-TTCAAA-CATAGTCACATCATGAAACC---
65412529 TATATATACATACATAAACACAAATGGTCTAATGCCATACTCCACATAAAATGGCATGTATAGCT
776 -ATATATACATACATAAACACAAATGGTCTAATGCCATACTCCACATAAAATGGCATGTATAGCT
65412594 AGACCCCAACACATTACGGTAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAA
840 AGACCCCAACACATTACGGTAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAA
65412656 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAA
1 TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAA
65412721 TTTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCTTCAAAAATCATATCTTGAGTTTCACAAC
66 TTTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCTTCAAAAATCATATCTTGAGTTTCACAAC
* *
65412786 TCGAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGTATTTTTTTC
131 TCAAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGGATTTTTTTC
65412851 TAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCG
196 TAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCG
65412916 ACTACACTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
261 ACTACACTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
65412981 GTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATACATATATGGTATGACCCCTAATTAT
326 GTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATACATATATGGTATGACCCCTAATTAT
*
65413046 CTCTGGTCAATTTATAGTGAATTTCCAAAGTCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTG
391 CTCTGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTG
*
65413111 TTCCACAAGAACCCGAATATCTCTTACTGTACTGTTCCTATGATTGTTTCGTTACTTCCATATGA
456 TTCCACAAGAACCCGAATATCTCTTACTGTACTGTTCCTATAATTGTTTCGTTACTTCCATATGA
65413176 AAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCT
521 AAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCT
65413241 TGTGATTTTTCCAATCCACACCACTGCTGCTATCAGCTTCTGTTTTCAAAGTGAACCTTACCTAA
586 TGTGATTTTTCCAATCCACACCACTGCTGCTATCAGCTTCTGTTTTCAAAGTGAACCTTACCTAA
65413306 TTTGGGGTTTCATGGACCAACTAGGGCCTTGTCATACATAAGCCCACATATGATCATACTTAGCC
651 TTTGGGGTTTCATGGACCAACTAGGGCCTTGTCATACATAAGCCCACATATGATCATACTTAGCC
* * * * * * *
65413371 ATTCTAGTGGCTGATCATTTGCTCAACACTTCCATTCCAACATAGTTACATCATGAAACCATCTA
716 ATTCCAATGGCTGATCATTAGCCCAACACTTCCATTCAAACATAGTCACATCATGAAACCATATA
* * **
65413436 TACATTCATAAATACGCATGGTCTAATGCCATACTCCAC
781 TACATACATAAACACAAATGGTCTAATGCCATACTCCAC
65413475 TTCTACAAGC
Statistics
Matches: 802, Mismatches: 17, Indels: 6
0.97 0.02 0.01
Matches are distributed among these distances:
901 39 0.05
905 19 0.02
906 5 0.01
907 739 0.92
ACGTcount: A:0.29, C:0.24, G:0.16, T:0.31
Consensus pattern (901 bp):
TGTAACACCCCGAACCCGAGACCGACACCGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAA
TTTTTCCAGACACTGCCCAGTCTGAGTACTAGTCGCTTCAAAAATCATATCTTGAGTTTCACAAC
TCAAAAATCAGTTTTGTGATTTTTCCCTGAAACTAGACTCATGTCCCCACCTATGGATTTTTTTC
TAGAATTTTTGGTCGGGCCAATTAGTACAGTTTATTAGTCAAAGTCTCCCATGTTACAGGGGTCG
ACTACACTGACCTTTTCCCATTACGACTGGGATATCTCTCTGCACAGAGCTTCAATACTGATGCC
GTTTGTTTCTATGGAAACTAGACTCAGAGAGGAATCCATACATATATGGTATGACCCCTAATTAT
CTCTGGTCAATTTATAGTGAATTTCCAAAGGCGGAACAGGGAATCCAGAAACTGTTCTGGCCCTG
TTCCACAAGAACCCGAATATCTCTTACTGTACTGTTCCTATAATTGTTTCGTTACTTCCATATGA
AAGTAGATTCATCAAGGTTCGATTACATAATTTATTCACTATTTAATTCCACTCCTACGAATTCT
TGTGATTTTTCCAATCCACACCACTGCTGCTATCAGCTTCTGTTTTCAAAGTGAACCTTACCTAA
TTTGGGGTTTCATGGACCAACTAGGGCCTTGTCATACATAAGCCCACATATGATCATACTTAGCC
ATTCCAATGGCTGATCATTAGCCCAACACTTCCATTCAAACATAGTCACATCATGAAACCATATA
TACATACATAAACACAAATGGTCTAATGCCATACTCCACATAAAATGGCATGTATAGCTAGACCC
CAACACATTACGGTAGTCCTAGAATCGACTAAACCGTAGCTCTGATACCAATAAAA
Found at i:65414136 original size:40 final size:39
Alignment explanation
Indices: 65414038--65414300 Score: 278
Period size: 40 Copynumber: 6.6 Consensus size: 39
65414028 TCCTCGTTCA
* * * *
65414038 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
65414077 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
65414116 GAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
65414156 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
65414196 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
65414236 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
65414277 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65414301 CAGCATTCAA
Statistics
Matches: 197, Mismatches: 21, Indels: 11
0.86 0.09 0.05
Matches are distributed among these distances:
39 40 0.20
40 145 0.74
41 12 0.06
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:65414260 original size:120 final size:119
Alignment explanation
Indices: 65414038--65414300 Score: 307
Period size: 120 Copynumber: 2.2 Consensus size: 119
65414028 TCCTCGTTCA
* * *
65414038 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGGATT
1 AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
* * *
65414103 TAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAAC-TCGCAC
66 TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
* * * * *
65414156 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGGA
1 -AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACAC-AAGGCCTTCGGGACATAACCCGG-
* * ** * *
65414221 ATTT-GTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
63 ATTTAATAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGATATAATAACTTAGCAC
*
65414277 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
65414301 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 37 0.31
120 75 0.62
121 9 0.07
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.25
Consensus pattern (119 bp):
AATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCACACAAGGCCTTCGGGACATAACCCGGATT
TAATAACTCGCACAAATGCCTTCGGGACTTAACCCGGATATAATAACTTAGCAC
Found at i:65414309 original size:41 final size:41
Alignment explanation
Indices: 65414232--65414309 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
65414222 TTTGTATCTC
* * *
65414232 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
65414273 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
65414310 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:65422082 original size:40 final size:40
Alignment explanation
Indices: 65421984--65422366 Score: 565
Period size: 40 Copynumber: 9.6 Consensus size: 40
65421974 TCCTCGTTCA
* * * * *
65421984 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
65422023 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65422063 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65422103 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65422143 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65422183 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
65422223 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
65422263 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
65422303 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
65422343 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
65422367 CAGCATTCAA
Statistics
Matches: 320, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
39 37 0.12
40 275 0.86
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:65425768 original size:17 final size:18
Alignment explanation
Indices: 65425736--65425770 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
65425726 CGTTGGGCTA
*
65425736 AATGGGCTGTGTGGGCCC
1 AATGGGCTGAGTGGGCCC
65425754 AATGGGCT-AGTGGGCCC
1 AATGGGCTGAGTGGGCCC
65425771 CACACAGATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.14, C:0.23, G:0.43, T:0.20
Consensus pattern (18 bp):
AATGGGCTGAGTGGGCCC
Found at i:65426011 original size:28 final size:27
Alignment explanation
Indices: 65425958--65426020 Score: 74
Period size: 28 Copynumber: 2.3 Consensus size: 27
65425948 GACCCTGATT
*
65425958 TGTAAAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAA
*
65425985 TGTAAAATTATCGAAAATATCCC-TGTAA
1 TGTAAAATTACCG-AAATA-CCCTTGTAA
*
65426013 AGTAAAAT
1 TGTAAAAT
65426021 GATTATTTTG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 12 0.39
28 16 0.52
29 3 0.10
ACGTcount: A:0.43, C:0.14, G:0.13, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAA
Found at i:65430428 original size:28 final size:27
Alignment explanation
Indices: 65430370--65430430 Score: 77
Period size: 28 Copynumber: 2.2 Consensus size: 27
65430360 CCCCGGTTTT
* *
65430370 TAAAATTACCGAAATACCCTTGCAGTG
1 TAAAATTACCGAAATACCCCTGCAGGG
* *
65430397 TAAAATTACCGAAAATGCCCCTGTAGGG
1 TAAAATTACCG-AAATACCCCTGCAGGG
65430425 TAAAAT
1 TAAAAT
65430431 GATTGTTTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
27 11 0.38
28 18 0.62
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (27 bp):
TAAAATTACCGAAATACCCCTGCAGGG
Found at i:65432119 original size:46 final size:48
Alignment explanation
Indices: 65432034--65432154 Score: 140
Period size: 46 Copynumber: 2.6 Consensus size: 48
65432024 TGATATGTGT
* * *
65432034 GCTAGTGTAAGACATGTCTGAGACATGCATCTACTTTGAGAT-GA-GA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCTACCTTGAGATAGACAA
* *
65432080 GCTAGTGTAAGACATGTCTGGGACATGTATC-AGCCTTGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCTA-CCTTGAGATAGACAA
* * *
65432128 GCTAGTGTAAGACCTATTTGGGACATG
1 GCTAGTGTAAGACATGTCTGGGACATG
65432155 GTTATGTGTG
Statistics
Matches: 64, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
45 1 0.02
46 37 0.58
47 1 0.02
48 25 0.39
ACGTcount: A:0.30, C:0.16, G:0.26, T:0.28
Consensus pattern (48 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCTACCTTGAGATAGACAA
Found at i:65435710 original size:46 final size:46
Alignment explanation
Indices: 65435612--65435823 Score: 175
Period size: 46 Copynumber: 4.5 Consensus size: 46
65435602 ATTGTGAGCT
* * *
65435612 AGTGTAAGATCATGTCTGGGACATGGCATCAGCATCGAGAC-AAGTCC
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGACGAAG-CC
*
65435659 TAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGGCGTAAGCC
1 -AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACG-AAGCC
* * *
65435706 AGTGTAAGA-CATGTCTGGGACAAGCATCGG-CTACGAGATGATAGTC
1 AGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGACGA-AGCC
* * * * * *
65435752 AATGTAAGACCATGTCTAGGACATGGCATC-GACTTGAGGTATG-AGCT
1 AGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGA-G-ACGAAGCC
*
65435799 AGTGTAAGACCATGTCTGTGACATG
1 AGTGTAAGACCATGTCTGGGACATG
65435824 GCATTGGCAC
Statistics
Matches: 139, Mismatches: 16, Indels: 20
0.79 0.09 0.11
Matches are distributed among these distances:
45 3 0.02
46 59 0.42
47 54 0.39
48 20 0.14
49 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
AGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGACGAAGCC
Found at i:65435803 original size:93 final size:94
Alignment explanation
Indices: 65435606--65435827 Score: 231
Period size: 93 Copynumber: 2.4 Consensus size: 94
65435596 TGGGTTATTG
* * *
65435606 TGAGCTAGTGTAAGATCATGTCTGGGACATGGCATCAGCATCGAGACAAGTCCTAGTGTAAGACA
1 TGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCATCGAGACAAGTCCTAATGTAAGACA
* * *
65435671 TGTCTGGGACATGCATCGGCCTCGAGGCG
66 TGTCTAGGACATGCATCGGACTCGAGGCA
* * * *
65435700 TAAGCCAGTGTAAGA-CATGTCTGGGACA-AGCATCGGC-TACGAGATGATAGT-C-AATGTAAG
1 TGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCAT-CGAGA-CA-AGTCCTAATGTAAG
* *
65435760 ACCATGTCTAGGACATGGCATC-GACTTGAGGTA
63 A-CATGTCTAGGACAT-GCATCGGACTCGAGGCA
* *
65435793 TGAGCTAGTGTAAGACCATGTCTGTGACATGGCAT
1 TGAGCTAGTGTAAGACCATGTCTGGGACATAGCAT
65435828 TGGCACCTTA
Statistics
Matches: 106, Mismatches: 15, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
91 1 0.01
92 20 0.19
93 48 0.45
94 33 0.31
95 4 0.04
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (94 bp):
TGAGCTAGTGTAAGACCATGTCTGGGACATAGCATCAGCATCGAGACAAGTCCTAATGTAAGACA
TGTCTAGGACATGCATCGGACTCGAGGCA
Found at i:65435805 original size:47 final size:46
Alignment explanation
Indices: 65435606--65435827 Score: 175
Period size: 47 Copynumber: 4.7 Consensus size: 46
65435596 TGGGTTATTG
65435606 TGAGCTAGTGTAAGATCATGTCTGGGACATGGCATC-AGCATCGAGACA
1 TGAGCTAGTGTAAGA-CATGTCTGGGACATGGCATCGA-C-TCGAGACA
* ** * * *
65435654 AGTCCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCTCGAGGCG
1 TGAGCTAGTGTAAGACATGTCTGGGACATGGCATC-GACTCGAGACA
* * * * *
65435700 TAAGCCAGTGTAAGACATGTCTGGGACA-AGCATCGGCTACGAGATGA
1 TGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACT-CGAGA-CA
* * * **
65435747 T-AG-TCAATGTAAGACCATGTCTAGGACATGGCATCGACTTGAGGTA
1 TGAGCT-AGTGTAAGA-CATGTCTGGGACATGGCATCGACTCGAGACA
*
65435793 TGAGCTAGTGTAAGACCATGTCTGTGACATGGCAT
1 TGAGCTAGTGTAAGA-CATGTCTGGGACATGGCAT
65435828 TGGCACCTTA
Statistics
Matches: 138, Mismatches: 26, Indels: 21
0.75 0.14 0.11
Matches are distributed among these distances:
45 3 0.02
46 55 0.40
47 59 0.43
48 21 0.15
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (46 bp):
TGAGCTAGTGTAAGACATGTCTGGGACATGGCATCGACTCGAGACA
Found at i:65439149 original size:9 final size:9
Alignment explanation
Indices: 65439135--65439163 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
65439125 TGGCCCCAAC
65439135 AGAGTTGAA
1 AGAGTTGAA
65439144 AGAGTTGAA
1 AGAGTTGAA
65439153 AGAGTTGAA
1 AGAGTTGAA
65439162 AG
1 AG
65439164 TACAACTGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.34, T:0.21
Consensus pattern (9 bp):
AGAGTTGAA
Found at i:65442661 original size:27 final size:28
Alignment explanation
Indices: 65442614--65442690 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 28
65442604 GGAAGTAGTT
* * *
65442614 GGGCCTGATGGGCCATATGAATGTGATC
1 GGGCCTAATGGGCCATATGAACGAGATC
* *
65442642 GGGCCTAAT-GGCCATGTGAACGAGATT
1 GGGCCTAATGGGCCATATGAACGAGATC
* *
65442669 GGGCCTAAAGGGGCCAAATGAA
1 GGGCCT-AATGGGCCATATGAA
65442691 TAAGTGTGGA
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
27 20 0.51
28 10 0.26
29 9 0.23
ACGTcount: A:0.27, C:0.18, G:0.35, T:0.19
Consensus pattern (28 bp):
GGGCCTAATGGGCCATATGAACGAGATC
Found at i:65443007 original size:27 final size:27
Alignment explanation
Indices: 65442949--65443288 Score: 330
Period size: 27 Copynumber: 12.7 Consensus size: 27
65442939 TAATAAAGAG
65442949 AAATTACCGAAATACCC-C-AGTTTGTA
1 AAATTACCGAAATACCCTCGA-TTTGTA
* * *
65442975 AAATTACCGAAACACCTTCAATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* *
65443002 AAATTATCAAAATACCC-CTGATTTGTA
1 AAATTACCGAAATACCCTC-GATTTGTA
** * *
65443029 AAATTACTAAAATACCCTTGA-TTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
65443055 AAATTACTGAAATACCCTCGATTAGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
65443082 AAATTACCAAAATACCCTTGATTTGTG
1 AAATTACCGAAATACCCTCGATTTGTA
* *
65443109 AAATTACCAAAACACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
*
65443136 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
** * ** *
65443163 AAATTATTGAGATACCCTTAATTTTTA
1 AAATTACCGAAATACCCTCGATTTGTA
65443190 AAATTACCGAAATACCCTCGATTTGTA
1 AAATTACCGAAATACCCTCGATTTGTA
* * * *
65443217 AAATTACCAAAACACCCCCGATTTATA
1 AAATTACCGAAATACCCTCGATTTGTA
* * *
65443244 AAATTATCGAAATACCCTTG-TAGTGTA
1 AAATTACCGAAATACCCTCGAT-TTGTA
**
65443271 AAATTACTAAAATACCCT
1 AAATTACCGAAATACCCT
65443289 TGTAGTGTAA
Statistics
Matches: 257, Mismatches: 51, Indels: 11
0.81 0.16 0.03
Matches are distributed among these distances:
26 40 0.16
27 216 0.84
28 1 0.00
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACCGAAATACCCTCGATTTGTA
Found at i:65443167 original size:81 final size:81
Alignment explanation
Indices: 65442949--65443315 Score: 393
Period size: 81 Copynumber: 4.6 Consensus size: 81
65442939 TAATAAAGAG
* * * * *
65442949 AAATTACCGAAATACCC-C-AGTTTGTAAAATTACCGAAACACCTTCAATTTGTAAAATTATCAA
1 AAATTACCAAAATACCCTCGA-TTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAA
*
65443012 AATACCCCTGATTTGTA
65 AATACCCTTGATTTGTA
* * * * *
65443029 AAATTACTAAAATACCCTTGA-TTGTGAAATTACTGAAATACCCTCGATTAGTAAAATTACCAAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
*
65443093 ATACCCTTGATTTGTG
66 ATACCCTTGATTTGTA
* ** *
65443109 AAATTACCAAAACACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATTGAG
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
* *
65443174 ATACCCTTAATTTTTA
66 ATACCCTTGATTTGTA
* ** * * * *
65443190 AAATTACCGAAATACCCTCGATTTGTAAAATTACCAAAACACCCCCGATTTATAAAATTATCGAA
1 AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
*
65443255 ATACCCTTG-TAGTGTA
66 ATACCCTTGAT-TTGTA
* * * * *
65443271 AAATTACTAAAATACCCTTG-TAGTGTAAAATGACTGACATACCCT
1 AAATTACCAAAATACCCTCGAT-TTGTAAAATTACTGAAATACCCT
65443316 TGTAGGGTAA
Statistics
Matches: 236, Mismatches: 46, Indels: 9
0.81 0.16 0.03
Matches are distributed among these distances:
80 85 0.36
81 150 0.64
82 1 0.00
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.31
Consensus pattern (81 bp):
AAATTACCAAAATACCCTCGATTTGTAAAATTACTGAAATACCCTCGATTTGTAAAATTATCAAA
ATACCCTTGATTTGTA
Found at i:65443318 original size:27 final size:27
Alignment explanation
Indices: 65443252--65443333 Score: 128
Period size: 27 Copynumber: 3.0 Consensus size: 27
65443242 TAAAATTATC
*
65443252 GAAATACCCTTGTAGTGTAAAATTACT
1 GAAATACCCTTGTAGTGTAAAATGACT
*
65443279 AAAATACCCTTGTAGTGTAAAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
* *
65443306 GACATACCCTTGTAGGGTAAAATGACT
1 GAAATACCCTTGTAGTGTAAAATGACT
65443333 G
1 G
65443334 TTTTTCCCTT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.37, C:0.16, G:0.18, T:0.29
Consensus pattern (27 bp):
GAAATACCCTTGTAGTGTAAAATGACT
Found at i:65446164 original size:20 final size:18
Alignment explanation
Indices: 65446130--65446166 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
65446120 GCAACTCATA
65446130 ATTTCAACTATTTTACAC
1 ATTTCAACTATTTTACAC
65446148 ATTTACAACTCATTTTACA
1 ATTT-CAACT-ATTTTACA
65446167 ACTTAGCAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.35, C:0.22, G:0.00, T:0.43
Consensus pattern (18 bp):
ATTTCAACTATTTTACAC
Found at i:65447124 original size:26 final size:27
Alignment explanation
Indices: 65447095--65447146 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
65447085 TGAGGCTAAG
* * *
65447095 ATGGGCTA-GGCCCAATTGATTTTGTT
1 ATGGGCTATGACCCAAATGATATTGTT
65447121 ATGGGCTATGACCCAAATGATATTGT
1 ATGGGCTATGACCCAAATGATATTGT
65447147 AACGGGCTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 8 0.36
27 14 0.64
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (27 bp):
ATGGGCTATGACCCAAATGATATTGTT
Found at i:65447153 original size:27 final size:26
Alignment explanation
Indices: 65447097--65447154 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
65447087 AGGCTAAGAT
* * * * *
65447097 GGGCTAGGCCCAATTGATTTTGTTAT
1 GGGCTAGACCCAAATGATATTGTAAC
65447123 GGGCTATGACCCAAATGATATTGTAAC
1 GGGCTA-GACCCAAATGATATTGTAAC
65447150 GGGCT
1 GGGCT
65447155 TTAGCCCACG
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 6 0.23
27 20 0.77
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (26 bp):
GGGCTAGACCCAAATGATATTGTAAC
Found at i:65450348 original size:389 final size:380
Alignment explanation
Indices: 65449632--65450403 Score: 1382
Period size: 389 Copynumber: 2.0 Consensus size: 380
65449622 GAAGATTGAA
65449632 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
1 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
*
65449697 TAGGGAATTTGAATTCGGCATCGAGTTGGTTCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
66 TAGGGAATTTGAATTCGGCATCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
*
65449762 GAATGCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCATGAGTTAACGGATAAAGGTTCT
131 GAATGCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTCT
65449827 ATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGAT
196 ATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGAT
*
65449892 GAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTTTCATTTTCCAA
261 GAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCATTTT----
*
65449957 GGACCAAGGATTGATGATTTATTCGATCAGTTGAAGGGAGCCACGGTGTTCTCCAATATAGAC
322 ---CCAAGGATTGATGATTTATTCGATCAGTTGAAGAGAGCCA-GGTGTTCTCCAATATAGAC
*
65450020 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTGGAAGAATTGCCCGGATTACCACCAGC
1 TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
*
65450085 TAGGGAATTTGAATTCGGCTTCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
66 TAGGGAATTTGAATTCGGCATCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
* *
65450150 GAATGGGCCCCAACAGAGTTCAAAGAGTTAAAATTACAACTGCAAGAGTTAACGGATAAAGGTTC
131 GAAT-GCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTC
65450215 TATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGA
195 TATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGA
*
65450280 TGAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCCTTTTCCA
260 TGAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCATTTTCCA
65450345 AGGATTGATGATTTATTCGATCAGTTGAAGAGAGCCAGGTGTTCTCCAATATAGAC
325 AGGATTGATGATTTATTCGATCAGTTGAAGAGAGCCAGGTGTTCTCCAATATAGAC
65450401 TTG
1 TTG
65450404 AGGTCTGGTT
Statistics
Matches: 374, Mismatches: 9, Indels: 9
0.95 0.02 0.02
Matches are distributed among these distances:
381 22 0.06
382 39 0.10
388 131 0.35
389 182 0.49
ACGTcount: A:0.29, C:0.17, G:0.24, T:0.30
Consensus pattern (380 bp):
TTGGTGCTAGTAGTTTGTGAGTTTATAGATGTGTTTCTAGAAGAATTGCCCGGATTACCACCAGC
TAGGGAATTTGAATTCGGCATCGAGTTGGTCCCTAGTATGGCACCTATCTCGATCCCTCCTTATA
GAATGCCCCCAACAGAGTTCAAAGAGTTAAAAGTACAACTGCAAGAGTTAACGGATAAAGGTTCT
ATGAGACCTAGTTATTCACCGTGGGCGCACCAGTGTTGTTTGTGAAAAAAGAAAGACAGGTCGAT
GAGGTTATGTATTGATTATAGATAGCTTAATAAGGTAACTGTGAAGAACAAGTATCATTTTCCAA
GGATTGATGATTTATTCGATCAGTTGAAGAGAGCCAGGTGTTCTCCAATATAGAC
Found at i:65453748 original size:30 final size:30
Alignment explanation
Indices: 65453714--65453771 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
65453704 ATTTCCAGAC
* * *
65453714 CTAGGGGTAAAATGGTTATTTTGTCAAAAT
1 CTAGGGCTAAAATGGTCATTTTATCAAAAT
65453744 CTAGGGCTAAAATGGTCATTTTATCAAA
1 CTAGGGCTAAAATGGTCATTTTATCAAA
65453772 GATGTGAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.34, C:0.10, G:0.21, T:0.34
Consensus pattern (30 bp):
CTAGGGCTAAAATGGTCATTTTATCAAAAT
Found at i:65454241 original size:46 final size:45
Alignment explanation
Indices: 65454106--65454318 Score: 153
Period size: 46 Copynumber: 4.6 Consensus size: 45
65454096 GGGTTATTGT
* * **
65454106 GAGCTAGTGTAAGACATGTCTGGAACATGCATCGGCCAC-ATTATAA
1 GAGCTAGTGTAAGACATGTCTGG-ACATGCATCGGCCTCGA-GACGA
* *
65454152 GAGCAAGTGTAAGACCATGTCTGGGACATGGCATCGGCATCGAGACGA
1 GAGCTAGTGTAAGA-CATGTCT-GGACAT-GCATCGGCCTCGAGACGA
* *
65454200 GTGCTAGTGTAAGACATGTTTAGGACATGCATCGGCCTCGAGACGTA
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCCTCGAGACG-A
* * * * * * *
65454247 -AGCCAATATAAGACATGTTTGGGACAAGCATTGG-CTACGAGATGA
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCCT-CGAGACGA
* *
65454292 TAGCCAGTGTAAGACCATGTCTTGGAC
1 GAGCTAGTGTAAGA-CATGTC-TGGAC
65454319 GTGGAATCAA
Statistics
Matches: 136, Mismatches: 22, Indels: 17
0.78 0.13 0.10
Matches are distributed among these distances:
45 3 0.02
46 73 0.54
47 33 0.24
48 26 0.19
49 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGGCCTCGAGACGA
Found at i:65478183 original size:53 final size:54
Alignment explanation
Indices: 65478001--65478207 Score: 220
Period size: 53 Copynumber: 3.8 Consensus size: 54
65477991 ATTAGGGCTT
* * * * *
65478001 AAGGATACCAAGTAAGACCATGCCAAGGCATGGCATTGGTAAGTTCTACAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
* * * * * * *
65478055 AAGGAAATCTTGTAAGACCATGTCAAGACATGGCATTGATAAACTACTATAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGT-AAGTTCTATAAGGC
* * * * *
65478110 AAAGATCCCATGTAAGACCATG-CTAAGGCATGGCAATGGTGAGTTC-ATAAGGT
1 AAGGATACCATGTAAGACCATGTC-AAGACATGGCAATGGTAAGTTCTATAAGGC
*
65478163 AAGGATACCACGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTT
65478208 TAAAAAGGAA
Statistics
Matches: 123, Mismatches: 27, Indels: 7
0.78 0.17 0.04
Matches are distributed among these distances:
53 44 0.36
54 38 0.31
55 41 0.33
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.21
Consensus pattern (54 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCAATGGTAAGTTCTATAAGGC
Found at i:65478857 original size:26 final size:26
Alignment explanation
Indices: 65478827--65478927 Score: 139
Period size: 27 Copynumber: 3.8 Consensus size: 26
65478817 AGCATGGCTG
* *
65478827 CCAGAACAGATAATGTGACAGTGTCA
1 CCAGAACAGATAATGTGGCAGTGCCA
*
65478853 CCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAA-TGTGGCAGTGCCA
65478880 CCAGAACAGATATATGTGGCAGTGCCA
1 CCAGAACAGATA-ATGTGGCAGTGCCA
*
65478907 CCAGATCAGATAATTGTGGCA
1 CCAGAACAGATAA-TGTGGCA
65478928 TAGGCACCAG
Statistics
Matches: 67, Mismatches: 5, Indels: 5
0.87 0.06 0.06
Matches are distributed among these distances:
26 14 0.21
27 52 0.78
28 1 0.01
ACGTcount: A:0.36, C:0.21, G:0.25, T:0.19
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGTGCCA
Found at i:65478911 original size:54 final size:53
Alignment explanation
Indices: 65478827--65478937 Score: 168
Period size: 54 Copynumber: 2.1 Consensus size: 53
65478817 AGCATGGCTG
*
65478827 CCAGAACAGATAATGTGACAGTGTCACCAGAACAGATAATTGTGGCAGAGCCA
1 CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
* * * *
65478880 CCAGAACAGATATATGTGGCAGTGCCACCAGATCAGATAATTGTGGCATAGGCA
1 CCAGAACAGATA-ATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
65478934 CCAG
1 CCAG
65478938 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 1
0.90 0.09 0.02
Matches are distributed among these distances:
53 12 0.23
54 40 0.77
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (53 bp):
CCAGAACAGATAATGTGACAGTGCCACCAGAACAGATAATTGTGGCAGAGCCA
Found at i:65480409 original size:24 final size:24
Alignment explanation
Indices: 65480371--65480447 Score: 118
Period size: 24 Copynumber: 3.2 Consensus size: 24
65480361 CCAACACCAT
*
65480371 TCTCCCTAATCAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
*
65480395 TCTCCCTTATTAGCTCCTAAATCC
1 TCTCCCTTATCAGCTCCTAAATCC
* *
65480419 TCTCCCTTATCAGCTCCCAAATCT
1 TCTCCCTTATCAGCTCCTAAATCC
65480443 TCTCC
1 TCTCC
65480448 TGACAGCCTT
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.21, C:0.42, G:0.04, T:0.34
Consensus pattern (24 bp):
TCTCCCTTATCAGCTCCTAAATCC
Found at i:65488064 original size:16 final size:16
Alignment explanation
Indices: 65488043--65488077 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
65488033 TCTAGGCCAT
*
65488043 GATGGATTTTATAGAA
1 GATGGATTTTATAAAA
65488059 GATGGATTTTATAAAA
1 GATGGATTTTATAAAA
65488075 GAT
1 GAT
65488078 TCATTAAGTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.40, C:0.00, G:0.23, T:0.37
Consensus pattern (16 bp):
GATGGATTTTATAAAA
Found at i:65490083 original size:36 final size:36
Alignment explanation
Indices: 65490043--65490118 Score: 100
Period size: 36 Copynumber: 2.1 Consensus size: 36
65490033 TGTTATTGGG
*
65490043 TGGATT-GCCTCTTACGAGCATCTGGTATGTTTCGGA
1 TGGATTAG-CTCTTACGAGCATCTAGTATGTTTCGGA
* * *
65490079 TGGATTAGCTCTTATGAGCATCTAGTGTGTTTCGGT
1 TGGATTAGCTCTTACGAGCATCTAGTATGTTTCGGA
65490115 TGGA
1 TGGA
65490119 ATATTGATGT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
36 34 0.97
37 1 0.03
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (36 bp):
TGGATTAGCTCTTACGAGCATCTAGTATGTTTCGGA
Found at i:65501682 original size:27 final size:27
Alignment explanation
Indices: 65501652--65501830 Score: 207
Period size: 27 Copynumber: 6.6 Consensus size: 27
65501642 ATATTGAGTC
* * * *
65501652 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65501679 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65501706 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65501734 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65501761 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65501788 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65501815 CGCACACTTAGTGCTA
1 CGCACACTTAGTGCTA
65501831 TACAATTTAA
Statistics
Matches: 131, Mismatches: 18, Indels: 6
0.85 0.12 0.04
Matches are distributed among these distances:
27 107 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65501791 original size:82 final size:81
Alignment explanation
Indices: 65501673--65501828 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65501663 TGCTATATAA
* *
65501673 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65501738 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65501755 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65501819 CACTTAGTGC
65 CACTTAGTGC
65501829 TATACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65513471 original size:55 final size:56
Alignment explanation
Indices: 65513406--65513520 Score: 139
Period size: 55 Copynumber: 2.1 Consensus size: 56
65513396 AGCATGGCTG
*
65513406 CCAGATACAGA-AAATGTGACAGAGT-CACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAG-GTCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
65513462 CCAGA-ACAGATATATGTGGCAGTTCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGGTCCACCAGAACAGATAATTTGTGGCATAGCCA
65513517 CCAG
1 CCAG
65513521 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
54 1 0.02
55 30 0.58
56 21 0.40
ACGTcount: A:0.35, C:0.22, G:0.23, T:0.21
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGGTCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:65513517 original size:28 final size:28
Alignment explanation
Indices: 65513431--65513520 Score: 121
Period size: 27 Copynumber: 3.2 Consensus size: 28
65513421 GTGACAGAGT
*
65513431 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATAATTTGTGGCAGTGC
* *
65513460 CACCAGAACAGAT-ATATGTGGCAGTTC
1 CACCAGAACAGATAATTTGTGGCAGTGC
65513487 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGATAATTTGTGGCAGT-GC
65513515 CACCAG
1 CACCAG
65513521 GACGCTTCCT
Statistics
Matches: 54, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
27 25 0.46
28 22 0.41
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.22, T:0.22
Consensus pattern (28 bp):
CACCAGAACAGATAATTTGTGGCAGTGC
Found at i:65513674 original size:28 final size:28
Alignment explanation
Indices: 65513627--65513691 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
65513617 AAATTAACCC
* *
65513627 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTATAAAGGTAATTTTACATACA
*
65513655 TAGGGGTATAATGGTAATTTTACATACA
1 TAGGGGTATAAAGGTAATTTTACATACA
65513683 TAGGGGTAT
1 TAGGGGTAT
65513692 TGTAGTACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.32, C:0.08, G:0.26, T:0.34
Consensus pattern (28 bp):
TAGGGGTATAAAGGTAATTTTACATACA
Found at i:65521356 original size:55 final size:56
Alignment explanation
Indices: 65521291--65521405 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
65521281 AGCATGGCTG
* *
65521291 CCAGATACAGA-AAATGTGACAGAGTCACCAGATACAGATATTTTGTGGCAGT-GCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGA-ACAGATAATTTGTGGCA-TAGCCA
* * *
65521347 CCAGA-ACAGATATATGTGGCAGGGCCACCAGAACAGATAATTTGTGGCATAGCCA
1 CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
65521402 CCAG
1 CCAG
65521406 GACGCTTCCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 29 0.56
56 22 0.42
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (56 bp):
CCAGATACAGATAAATGTGACAGAGCCACCAGAACAGATAATTTGTGGCATAGCCA
Found at i:65521368 original size:27 final size:27
Alignment explanation
Indices: 65521316--65521405 Score: 119
Period size: 27 Copynumber: 3.2 Consensus size: 27
65521306 GTGACAGAGT
65521316 CACCAGATACAGATATTTTGTGGCAGTGC
1 CACCAGA-ACAGATA-TTTGTGGCAGTGC
* *
65521345 CACCAGAACAGATATATGTGGCAGGGC
1 CACCAGAACAGATATTTGTGGCAGTGC
65521372 CACCAGAACAGATAATTTGTGGCA-TAGC
1 CACCAGAACAGAT-ATTTGTGGCAGT-GC
65521400 CACCAG
1 CACCAG
65521406 GACGCTTCCT
Statistics
Matches: 55, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
27 24 0.44
28 24 0.44
29 7 0.13
ACGTcount: A:0.32, C:0.23, G:0.24, T:0.20
Consensus pattern (27 bp):
CACCAGAACAGATATTTGTGGCAGTGC
Found at i:65521559 original size:28 final size:28
Alignment explanation
Indices: 65521512--65521575 Score: 101
Period size: 28 Copynumber: 2.3 Consensus size: 28
65521502 AAATTAACCC
* *
65521512 TAGGGGTATAAAGGTCATTTTGCATACA
1 TAGGGGTAGAAAGGTAATTTTGCATACA
*
65521540 TAGGGGTAGAATGGTAATTTTGCATACA
1 TAGGGGTAGAAAGGTAATTTTGCATACA
65521568 TAGGGGTA
1 TAGGGGTA
65521576 TTCTAGTACA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.08, G:0.30, T:0.31
Consensus pattern (28 bp):
TAGGGGTAGAAAGGTAATTTTGCATACA
Found at i:65528488 original size:30 final size:30
Alignment explanation
Indices: 65528452--65528511 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
65528442 TTCCCGAGCC
*
65528452 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* *
65528482 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
65528512 CATATTAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.08, G:0.25, T:0.28
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:65538133 original size:12 final size:12
Alignment explanation
Indices: 65538118--65538142 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
65538108 CAGTGTCGTG
65538118 GTGGCTATGGTC
1 GTGGCTATGGTC
65538130 GTGGCTATGGTC
1 GTGGCTATGGTC
65538142 G
1 G
65538143 AATTTATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.44, T:0.32
Consensus pattern (12 bp):
GTGGCTATGGTC
Found at i:65538312 original size:6 final size:6
Alignment explanation
Indices: 65538298--65538332 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
65538288 TTAGAACTTG
*
65538298 AAAAGT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
65538333 GGAAAAGCAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.83, C:0.00, G:0.03, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:65538338 original size:18 final size:19
Alignment explanation
Indices: 65538297--65538339 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
65538287 TTTAGAACTT
65538297 GAAAAGTAAAAATAAAAA-
1 GAAAAGTAAAAATAAAAAG
* *
65538315 TAAAAATAAAAATAAAAAG
1 GAAAAGTAAAAATAAAAAG
65538334 GAAAAG
1 GAAAAG
65538340 CAAACCAAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.77, C:0.00, G:0.12, T:0.12
Consensus pattern (19 bp):
GAAAAGTAAAAATAAAAAG
Found at i:65541283 original size:19 final size:19
Alignment explanation
Indices: 65541259--65541295 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
65541249 TAAACAAGTT
65541259 TGTAAGGAGATGTTCCTAC
1 TGTAAGGAGATGTTCCTAC
65541278 TGTAAGGAGATGTTCCTA
1 TGTAAGGAGATGTTCCTA
65541296 TGGGGGTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.27, C:0.14, G:0.27, T:0.32
Consensus pattern (19 bp):
TGTAAGGAGATGTTCCTAC
Found at i:65543644 original size:37 final size:37
Alignment explanation
Indices: 65543594--65543667 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
65543584 GGTTGATCCC
65543594 TTTAATGTCAGAAATTTGCCAAGCTATGGCCCTTTTA
1 TTTAATGTCAGAAATTTGCCAAGCTATGGCCCTTTTA
65543631 TTTAATGTCAGAAATTTGCCAAGCTATGGCCCTTTTA
1 TTTAATGTCAGAAATTTGCCAAGCTATGGCCCTTTTA
65543668 AGTTCTCTTA
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:0.27, C:0.19, G:0.16, T:0.38
Consensus pattern (37 bp):
TTTAATGTCAGAAATTTGCCAAGCTATGGCCCTTTTA
Found at i:65548636 original size:10 final size:10
Alignment explanation
Indices: 65548621--65548650 Score: 60
Period size: 10 Copynumber: 3.0 Consensus size: 10
65548611 ACTGCTATGT
65548621 TTAATTGTTA
1 TTAATTGTTA
65548631 TTAATTGTTA
1 TTAATTGTTA
65548641 TTAATTGTTA
1 TTAATTGTTA
65548651 GGGTTACAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.30, C:0.00, G:0.10, T:0.60
Consensus pattern (10 bp):
TTAATTGTTA
Found at i:65562345 original size:46 final size:48
Alignment explanation
Indices: 65562241--65562360 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 48
65562231 TGTCTTCGAC
** * *
65562241 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
65562289 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCCATATA-A-CTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
*
65562335 ATGGACTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
65562361 CTGTCCTGTC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 27 0.43
47 1 0.02
48 35 0.56
ACGTcount: A:0.28, C:0.23, G:0.15, T:0.35
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:65569038 original size:39 final size:39
Alignment explanation
Indices: 65568960--65569097 Score: 143
Period size: 39 Copynumber: 3.5 Consensus size: 39
65568950 TCGGACATAT
* * * * **
65568960 TTCCAGCGCGTAGCTTGCGGACCTTAAGTTCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGAATAA
65568999 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGAATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGAATAA
* * * * *
65569038 TTCTAGCATATAGCCTGCGGGTCTTTAAG-CCCGGATATAA
1 TTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGGA-ATAA
*
65569078 TTCCAGCATATAGCCTGCGG
1 TTCCAGCACATAGCCTGCGG
65569098 GTCTTTAAGC
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 56 0.66
40 29 0.34
ACGTcount: A:0.24, C:0.25, G:0.24, T:0.27
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGGAATAA
Found at i:65569078 original size:40 final size:40
Alignment explanation
Indices: 65568994--65569114 Score: 174
Period size: 40 Copynumber: 3.0 Consensus size: 40
65568984 TAAGTTCGGT
* * * *
65568994 TATAATTCCAGCACATAGCCTGC-GGACCTTAAGTCCGGGA
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAG-CCCGGA
*
65569034 -ATAATTCTAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
65569073 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
1 TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
65569113 TA
1 TA
65569115 CACATCAAAT
Statistics
Matches: 73, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
39 25 0.34
40 48 0.66
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.26
Consensus pattern (40 bp):
TATAATTCCAGCATATAGCCTGCGGGTCTTTAAGCCCGGA
Found at i:65576551 original size:145 final size:145
Alignment explanation
Indices: 65576382--65576668 Score: 565
Period size: 145 Copynumber: 2.0 Consensus size: 145
65576372 AGGGAAGAAC
65576382 AAGGTGTTTGATGAGTAGATCCTATTCTACTATTTTTGTACCGAGGTAAGTTCTTATATAAATAA
1 AAGGTGTTTGATGAGTAGATCCTATTCTACTATTTTTGTACCGAGGTAAGTTCTTATATAAATAA
65576447 TACATTGTTTTAATTATGTTTTAAATACTTTACTATTGTGAATTATGACTGTCCATTGAGCATGT
66 TACATTGTTTTAATTATGTTTTAAATACTTTACTATTGTGAATTATGACTGTCCATTGAGCATGT
65576512 TCGAAAAAGTTAAAG
131 TCGAAAAAGTTAAAG
65576527 AAGGTGTTTGATGAGTAGATCCTATTCTACTATTTTTGTACCGAGGTAAGTTCTTATATAAATAA
1 AAGGTGTTTGATGAGTAGATCCTATTCTACTATTTTTGTACCGAGGTAAGTTCTTATATAAATAA
*
65576592 TACATTGTTTTAATTATGTTTTAAATACTTTACTATTGTGAATTATGATTGTCCATTGAGCATGT
66 TACATTGTTTTAATTATGTTTTAAATACTTTACTATTGTGAATTATGACTGTCCATTGAGCATGT
65576657 TCGAAAAAGTTA
131 TCGAAAAAGTTA
65576669 CGACAAGAGT
Statistics
Matches: 141, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
145 141 1.00
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.42
Consensus pattern (145 bp):
AAGGTGTTTGATGAGTAGATCCTATTCTACTATTTTTGTACCGAGGTAAGTTCTTATATAAATAA
TACATTGTTTTAATTATGTTTTAAATACTTTACTATTGTGAATTATGACTGTCCATTGAGCATGT
TCGAAAAAGTTAAAG
Found at i:65576806 original size:42 final size:41
Alignment explanation
Indices: 65576747--65576901 Score: 184
Period size: 42 Copynumber: 3.7 Consensus size: 41
65576737 CTAACACTAT
*
65576747 GTGTAAGACCATATCTGGGATATGGCATCTATATGAGACTTC
1 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGA-TTC
* * *
65576789 GTGTAAGACCATATCTGGGATATGGCATCGATATAAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCAATATGAGA-TTC
* * * * *
65576831 GTGTAAGACTATAGCTGGGCTATTGGCATCAATACGAGATCCC
1 GTGTAAGACCATATCTGGGATA-TGGCATCAATATGAGAT-TC
*
65576874 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
65576902 TGGAATGGTA
Statistics
Matches: 95, Mismatches: 16, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 64 0.67
43 31 0.33
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.30
Consensus pattern (41 bp):
GTGTAAGACCATATCTGGGATATGGCATCAATATGAGATTC
Found at i:65576888 original size:85 final size:84
Alignment explanation
Indices: 65576746--65576901 Score: 224
Period size: 85 Copynumber: 1.8 Consensus size: 84
65576736 ACTAACACTA
* * * * *
65576746 TGTGTAAGACCATATCTGGGATATGGCATCTATATGAGACTTCGTGTAAGACCATATCTGGGATA
1 TGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTCCATGTAAGACCATATCTGGGATA
65576811 TGGCATCGATATAAGATTT
66 TGGCATCGATATAAGATTT
* *
65576830 TGTGTAAGACTATAGCTGGGCTATTGGCATCAATACGAGA-TCCCATGTAAGACCATATCTGGGA
1 TGTGTAAGACCATAGCTGGGATA-TGGCATCAATACGAGACT-CCATGTAAGACCATATCTGGGA
65576894 TATGGCAT
64 TATGGCAT
65576902 TGGAATGGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
84 21 0.33
85 42 0.67
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (84 bp):
TGTGTAAGACCATAGCTGGGATATGGCATCAATACGAGACTCCATGTAAGACCATATCTGGGATA
TGGCATCGATATAAGATTT
Found at i:65582825 original size:24 final size:24
Alignment explanation
Indices: 65582792--65582845 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
65582782 GTACTTACCA
*
65582792 AAAGAAAAGGTACCAATTGCAGGG
1 AAAGAGAAGGTACCAATTGCAGGG
* *
65582816 AAAGAGAAGGTACCACTTGCATGG
1 AAAGAGAAGGTACCAATTGCAGGG
65582840 AAAGAG
1 AAAGAG
65582846 TATTCGGCCT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.44, C:0.13, G:0.30, T:0.13
Consensus pattern (24 bp):
AAAGAGAAGGTACCAATTGCAGGG
Found at i:65583541 original size:191 final size:191
Alignment explanation
Indices: 65583217--65583598 Score: 737
Period size: 191 Copynumber: 2.0 Consensus size: 191
65583207 AGTGAGACAA
*
65583217 GGGAATGCTCGGTCAAGGAGAGGAATGACTGAGAGGCATATGAGAAAAGAAAGGGATTCAGTGAG
1 GGGAATGCTCGGTCAAGGAGAGGAACGACTGAGAGGCATATGAGAAAAGAAAGGGATTCAGTGAG
65583282 GGTTTAAAGAAGAAAAAGAGAAGAAAATATGCCAAAGGTCAATTCAGTCGAAACTTCAATATGCA
66 GGTTTAAAGAAGAAAAAGAGAAGAAAATATGCCAAAGGTCAATTCAGTCGAAACTTCAATATGCA
65583347 AAGAAAGACTTAGAAAAACTAAAGAAATGAGAAGAAAACCCCAAAACCAATTTCGGCACTT
131 AAGAAAGACTTAGAAAAACTAAAGAAATGAGAAGAAAACCCCAAAACCAATTTCGGCACTT
*
65583408 GGGAATGCTCGGTCAAGGAGAGGAACGACTGAGAGGCGTATGAGAAAAGAAAGGGATTCAGTGAG
1 GGGAATGCTCGGTCAAGGAGAGGAACGACTGAGAGGCATATGAGAAAAGAAAGGGATTCAGTGAG
65583473 GGTTTAAAGAAGAAAAAGAGAAGAAAATATGCCAAAGGTCAATTCAGTCGAAACTTCAATATGCA
66 GGTTTAAAGAAGAAAAAGAGAAGAAAATATGCCAAAGGTCAATTCAGTCGAAACTTCAATATGCA
*
65583538 AAGAAAGACTTAGAAAAACTAAAGAAATGAGAGGAAAACCCCAAAACCAATTTCGGCACTT
131 AAGAAAGACTTAGAAAAACTAAAGAAATGAGAAGAAAACCCCAAAACCAATTTCGGCACTT
65583599 CTCTTCCTAT
Statistics
Matches: 188, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
191 188 1.00
ACGTcount: A:0.45, C:0.13, G:0.25, T:0.16
Consensus pattern (191 bp):
GGGAATGCTCGGTCAAGGAGAGGAACGACTGAGAGGCATATGAGAAAAGAAAGGGATTCAGTGAG
GGTTTAAAGAAGAAAAAGAGAAGAAAATATGCCAAAGGTCAATTCAGTCGAAACTTCAATATGCA
AAGAAAGACTTAGAAAAACTAAAGAAATGAGAAGAAAACCCCAAAACCAATTTCGGCACTT
Found at i:65589886 original size:41 final size:41
Alignment explanation
Indices: 65589832--65589913 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
65589822 CAAAGTCGAC
* *
65589832 CCACCTAGCCCTACACACCAAAATGTACGATATTCGGTACT
1 CCACCTAGCCCTACACACCAAAACGTACCATATTCGGTACT
65589873 CCACCTAGCCCTACACACCAAAACGTACCATATTCGGTACT
1 CCACCTAGCCCTACACACCAAAACGTACCATATTCGGTACT
65589914 AAGTTGTATT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.32, C:0.37, G:0.11, T:0.21
Consensus pattern (41 bp):
CCACCTAGCCCTACACACCAAAACGTACCATATTCGGTACT
Found at i:65596137 original size:26 final size:26
Alignment explanation
Indices: 65596108--65596160 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
65596098 TACATGTTAG
65596108 ACATAATTTGATCAACTACTTAAAAT
1 ACATAATTTGATCAACTACTTAAAAT
65596134 ACATAATTTGATCAACTACTTAAAAT
1 ACATAATTTGATCAACTACTTAAAAT
65596160 A
1 A
65596161 TATGTAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.15, G:0.04, T:0.34
Consensus pattern (26 bp):
ACATAATTTGATCAACTACTTAAAAT
Found at i:65601773 original size:20 final size:20
Alignment explanation
Indices: 65601750--65601787 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
65601740 ATGTATACGG
*
65601750 TTTATATTGATTCTATATTT
1 TTTATATCGATTCTATATTT
65601770 TTTATATCGATTCTATAT
1 TTTATATCGATTCTATAT
65601788 CAAGTGAAAG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.08, G:0.05, T:0.61
Consensus pattern (20 bp):
TTTATATCGATTCTATATTT
Found at i:65603285 original size:19 final size:19
Alignment explanation
Indices: 65603261--65603298 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
65603251 CCTAAACATA
65603261 AACATATTTATCCACAAAT
1 AACATATTTATCCACAAAT
*
65603280 AACATATTTATCTACAAAT
1 AACATATTTATCCACAAAT
65603299 CAATCTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.47, C:0.18, G:0.00, T:0.34
Consensus pattern (19 bp):
AACATATTTATCCACAAAT
Found at i:65617899 original size:27 final size:27
Alignment explanation
Indices: 65617869--65618046 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
65617859 ATATTGAGTC
* * * *
65617869 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
65617896 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65617923 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
65617951 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
65617978 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
65618005 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
65618032 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
65618047 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:65618008 original size:82 final size:81
Alignment explanation
Indices: 65617890--65618045 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
65617880 TGCTATATAA
* *
65617890 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
65617955 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
65617972 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
65618036 CACTTAGTGC
65 CACTTAGTGC
65618046 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:65626455 original size:64 final size:64
Alignment explanation
Indices: 65626375--65626546 Score: 168
Period size: 67 Copynumber: 2.7 Consensus size: 64
65626365 AGACATTATG
* * *
65626375 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * * *
65626439 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCGTGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
65626504 AA
63 AA
* * * *
65626506 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGT
65626547 GTACAAGTGA
Statistics
Matches: 84, Mismatches: 20, Indels: 9
0.74 0.18 0.08
Matches are distributed among these distances:
63 8 0.10
64 21 0.25
65 8 0.10
66 16 0.19
67 29 0.35
68 2 0.02
ACGTcount: A:0.28, C:0.17, G:0.30, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:65634692 original size:40 final size:39
Alignment explanation
Indices: 65634648--65634752 Score: 122
Period size: 39 Copynumber: 2.6 Consensus size: 39
65634638 AGTGACCATA
*
65634648 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
65634688 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
* * *
65634726 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGACTAAG-CCCGAAGGCATTTG
65634753 AATGAGTAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
38 2 0.03
39 32 0.55
40 24 0.41
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:65634709 original size:39 final size:40
Alignment explanation
Indices: 65634611--65634752 Score: 150
Period size: 40 Copynumber: 3.6 Consensus size: 40
65634601 AATGATGTCT
* * *
65634611 GGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACC
* *
65634651 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACC
*
65634691 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
*
65634730 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
65634753 AATGAGTAGC
Statistics
Matches: 88, Mismatches: 7, Indels: 14
0.81 0.06 0.13
Matches are distributed among these distances:
39 34 0.39
40 43 0.49
41 10 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACC
Found at i:65635046 original size:47 final size:47
Alignment explanation
Indices: 65634977--65635097 Score: 170
Period size: 47 Copynumber: 2.6 Consensus size: 47
65634967 AAGGGTTGGT
* * *
65634977 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
* * *
65635024 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
* *
65635071 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
65635098 TCCCGAAGGG
Statistics
Matches: 64, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 64 1.00
ACGTcount: A:0.33, C:0.08, G:0.31, T:0.27
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATG
Found at i:65644550 original size:39 final size:39
Alignment explanation
Indices: 65644492--65644566 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
65644482 ATCACAAATT
* *
65644492 CTTTCCCGGATTTCAGTTGTACTAACACTGGTGCCTTGG
1 CTTTCCCGAATTTCAGTTGTACTAACACTAGTGCCTTGG
* * *
65644531 CTTTCCCTAATTTCGGTTGTTCTAACACTAGTGCCT
1 CTTTCCCGAATTTCAGTTGTACTAACACTAGTGCCT
65644567 CGGTCAATAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.16, C:0.27, G:0.19, T:0.39
Consensus pattern (39 bp):
CTTTCCCGAATTTCAGTTGTACTAACACTAGTGCCTTGG
Found at i:65658671 original size:17 final size:17
Alignment explanation
Indices: 65658649--65658683 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
65658639 ACATATGCTC
65658649 TCTTTTTCTCTCTTTTT
1 TCTTTTTCTCTCTTTTT
* *
65658666 TCTTTTTTTTTCTTTTT
1 TCTTTTTCTCTCTTTTT
65658683 T
1 T
65658684 TTCACGAGCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (17 bp):
TCTTTTTCTCTCTTTTT
Found at i:65658684 original size:10 final size:10
Alignment explanation
Indices: 65658651--65658685 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
65658641 ATATGCTCTC
*
65658651 TTTTTCTCTCT
1 TTTTTCT-TTT
65658662 TTTTTCTTTT
1 TTTTTCTTTT
65658672 TTTTTCTTTT
1 TTTTTCTTTT
65658682 TTTT
1 TTTT
65658686 CACGAGCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 16 0.70
11 7 0.30
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:65669134 original size:30 final size:30
Alignment explanation
Indices: 65669098--65669164 Score: 116
Period size: 30 Copynumber: 2.2 Consensus size: 30
65669088 TCTGTTGAGG
65669098 TCACACGCCCTTGCGTCCAGACCGTGTGCC
1 TCACACGCCCTTGCGTCCAGACCGTGTGCC
* *
65669128 TCACACGCCCTTGCGTCCAGGCTGTGTGCC
1 TCACACGCCCTTGCGTCCAGACCGTGTGCC
65669158 TCACACG
1 TCACACG
65669165 ACCATCAGAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.13, C:0.42, G:0.24, T:0.21
Consensus pattern (30 bp):
TCACACGCCCTTGCGTCCAGACCGTGTGCC
Found at i:65670156 original size:42 final size:42
Alignment explanation
Indices: 65670104--65670300 Score: 121
Period size: 43 Copynumber: 4.6 Consensus size: 42
65670094 TCGATACCTC
* * * *
65670104 TGTCCTAGACAGGGTCTTACACGAAATTAGATATGATGCCGA
1 TGTCCCAGACACGGTCTTACACGAAATTAGATATGAGGCCTA
** * ** *
65670146 TGTCCCAGACATAGTCTTATACGTAAATTTCA-ATCGCGGCCTA
1 TGTCCCAGACACGGTCTTACACG-AAATTAGATAT-GAGGCCTA
* * * * * * * *
65670189 CGTCCCAGGCACAGTCTTACATGAAATCAGATACGATGCCAA
1 TGTCCCAGACACGGTCTTACACGAAATTAGATATGAGGCCTA
* * *
65670231 TGTCCCAAACATGGTCTTATACGTAAATTTCA-ATA-GAGGCCTA
1 TGTCCCAGACACGGTCTTACACG-AAA-TT-AGATATGAGGCCTA
* *
65670274 TGTCTCAGACACGGTCTTACACAAAAT
1 TGTCCCAGACACGGTCTTACACGAAAT
65670301 CAAATACGAT
Statistics
Matches: 113, Mismatches: 36, Indels: 13
0.70 0.22 0.08
Matches are distributed among these distances:
41 1 0.01
42 50 0.44
43 57 0.50
44 4 0.04
45 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.26
Consensus pattern (42 bp):
TGTCCCAGACACGGTCTTACACGAAATTAGATATGAGGCCTA
Found at i:65670195 original size:43 final size:43
Alignment explanation
Indices: 65670145--65670284 Score: 133
Period size: 43 Copynumber: 3.3 Consensus size: 43
65670135 TATGATGCCG
*
65670145 ATGTCCCAGACATAGTCTTATACGTAAATTTCAATCGCGGCCT
1 ATGTCCCAGACATAGTCTTATACGTAAATTTCAATCGAGGCCT
* * * * * * *
65670188 ACGTCCCAGGCACAGTCTTACATG-AAA--TCAGATACGATGCCA
1 ATGTCCCAGACATAGTCTTATACGTAAATTTCA-AT-CGAGGCCT
* * *
65670230 ATGTCCCAAACATGGTCTTATACGTAAATTTCAATAGAGGCCT
1 ATGTCCCAGACATAGTCTTATACGTAAATTTCAATCGAGGCCT
*
65670273 ATGTCTCAGACA
1 ATGTCCCAGACA
65670285 CGGTCTTACA
Statistics
Matches: 72, Mismatches: 20, Indels: 10
0.71 0.20 0.10
Matches are distributed among these distances:
40 3 0.04
41 2 0.03
42 25 0.35
43 37 0.51
44 2 0.03
45 3 0.04
ACGTcount: A:0.31, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
ATGTCCCAGACATAGTCTTATACGTAAATTTCAATCGAGGCCT
Found at i:65670221 original size:85 final size:85
Alignment explanation
Indices: 65670117--65670315 Score: 272
Period size: 85 Copynumber: 2.3 Consensus size: 85
65670107 CCTAGACAGG
* * * * *
65670117 GTCTTACACGAAATTAGATATGATGCCGATGTCCCAGACATAGTCTTATACGTAAATTTCAATCG
1 GTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACATAGTCTTATACGTAAATTTCAATAG
* *
65670182 CGGCCTACGTCCCAGGCACA
66 AGGCCTACGTCCCAGACACA
* *
65670202 GTCTTACATGAAATCAGATACGATGCCAATGTCCCAAACATGGTCTTATACGTAAATTTCAATAG
1 GTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACATAGTCTTATACGTAAATTTCAATAG
* * *
65670267 AGGCCTATGTCTCAGACACG
66 AGGCCTACGTCCCAGACACA
* *
65670287 GTCTTACACAAAATCAAATACGATGCCAA
1 GTCTTACACGAAATCAGATACGATGCCAA
65670316 CTTTTCTTAG
Statistics
Matches: 99, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
85 99 1.00
ACGTcount: A:0.33, C:0.24, G:0.17, T:0.26
Consensus pattern (85 bp):
GTCTTACACGAAATCAGATACGATGCCAATGTCCCAAACATAGTCTTATACGTAAATTTCAATAG
AGGCCTACGTCCCAGACACA
Found at i:65682887 original size:43 final size:43
Alignment explanation
Indices: 65682839--65682926 Score: 151
Period size: 43 Copynumber: 2.0 Consensus size: 43
65682829 CGTTTGGGGA
*
65682839 GTTTGATTTAATTCTAGGTATGGA-TAGGTTGGTAAAGCATCGT
1 GTTTGATTTAATTCTAGGTATGGACT-GATTGGTAAAGCATCGT
65682882 GTTTGATTTAATTCTAGGTATGGACTGATTGGTAAAGCATCGT
1 GTTTGATTTAATTCTAGGTATGGACTGATTGGTAAAGCATCGT
65682925 GT
1 GT
65682927 AAGACTGGAT
Statistics
Matches: 43, Mismatches: 1, Indels: 2
0.93 0.02 0.04
Matches are distributed among these distances:
43 42 0.98
44 1 0.02
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (43 bp):
GTTTGATTTAATTCTAGGTATGGACTGATTGGTAAAGCATCGT
Found at i:65696157 original size:16 final size:16
Alignment explanation
Indices: 65696127--65696163 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
65696117 ACTGTTGATT
65696127 TATGAATGTTTATATA
1 TATGAATGTTTATATA
65696143 TATG-ATGTTTA-ATA
1 TATGAATGTTTATATA
*
65696157 TGTGAAT
1 TATGAAT
65696164 TGGAAATCGG
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
14 6 0.32
15 9 0.47
16 4 0.21
ACGTcount: A:0.35, C:0.00, G:0.16, T:0.49
Consensus pattern (16 bp):
TATGAATGTTTATATA
Found at i:65697864 original size:24 final size:22
Alignment explanation
Indices: 65697837--65697941 Score: 111
Period size: 24 Copynumber: 4.4 Consensus size: 22
65697827 AAGAGCCATA
*
65697837 ATCGTGAAGTTCACAAAGAACTTT
1 ATCG-GAAGTTCACAAAGAAC-AT
65697861 ATCGAGAAGTTCACAAAGAAACAT
1 ATCG-GAAGTTCACAAAG-AACAT
65697885 ATCAGGAAGTTCACAAAGAACCAT
1 ATC-GGAAGTTCACAAAGAA-CAT
*
65697909 ATCGGGAAGTTCACAAAAAACCAT
1 ATC-GGAAGTTCACAAAGAA-CAT
65697933 ATCGAGAAG
1 ATCG-GAAG
65697942 CTCCAGATAG
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
23 3 0.04
24 66 0.90
25 4 0.05
ACGTcount: A:0.45, C:0.18, G:0.18, T:0.19
Consensus pattern (22 bp):
ATCGGAAGTTCACAAAGAACAT
Found at i:65697918 original size:48 final size:48
Alignment explanation
Indices: 65697832--65697969 Score: 147
Period size: 48 Copynumber: 2.9 Consensus size: 48
65697822 CTCATAAGAG
* ** *
65697832 CCATAATCGTGAAGTTCACAAAGAACTTTATCGAGAAGTTCACAAAGAAA
1 CCAT-ATCGAGAAGTTCACAAAGAACCATATCGGGAAGTTCACAAA-AAA
65697882 -CATATC-AGGAAGTTCACAAAGAACCATATCGGGAAGTTCACAAAAAA
1 CCATATCGA-GAAGTTCACAAAGAACCATATCGGGAAGTTCACAAAAAA
* * * *
65697929 CCATATCGAGAAGCTC-CAGATAGCCAATATCGGGAAGTTCA
1 CCATATCGAGAAGTTCACAAAGAACC-ATATCGGGAAGTTCA
65697970 AGCAAGCACT
Statistics
Matches: 76, Mismatches: 8, Indels: 10
0.81 0.09 0.11
Matches are distributed among these distances:
47 9 0.12
48 63 0.83
49 4 0.05
ACGTcount: A:0.42, C:0.20, G:0.18, T:0.20
Consensus pattern (48 bp):
CCATATCGAGAAGTTCACAAAGAACCATATCGGGAAGTTCACAAAAAA
Found at i:65699319 original size:19 final size:18
Alignment explanation
Indices: 65699288--65699323 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
65699278 ATTTGAAAAC
65699288 TATTGAATAATTATGAAA
1 TATTGAATAATTATGAAA
*
65699306 TATTGGAATGATTATGAA
1 TATT-GAATAATTATGAA
65699324 TTGTTATAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.17, T:0.39
Consensus pattern (18 bp):
TATTGAATAATTATGAAA
Found at i:65699542 original size:20 final size:20
Alignment explanation
Indices: 65699467--65699546 Score: 72
Period size: 20 Copynumber: 4.0 Consensus size: 20
65699457 CTTGTACGGG
**
65699467 ATTTGCACTTCAATGCCCCT
1 ATTTGCACTTCGGTGCCCCT
*
65699487 ATTTGTACTTCGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
* **
65699507 TTTTGCA-TGTTTGTGCCCCT
1 ATTTGCACT-TCGGTGCCCCT
* *
65699527 GTCTGCACTTCGGTGCCCCT
1 ATTTGCACTTCGGTGCCCCT
65699547 TTTATGCATC
Statistics
Matches: 47, Mismatches: 11, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
19 1 0.02
20 45 0.96
21 1 0.02
ACGTcount: A:0.10, C:0.33, G:0.19, T:0.39
Consensus pattern (20 bp):
ATTTGCACTTCGGTGCCCCT
Found at i:65703797 original size:18 final size:18
Alignment explanation
Indices: 65703770--65703808 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
65703760 AATTGTCTTT
*
65703770 TTACCTACTTACTAAGCA
1 TTACCAACTTACTAAGCA
65703788 TTACCAACTTACTAAGCA
1 TTACCAACTTACTAAGCA
65703806 TTA
1 TTA
65703809 TTGCTTACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.36, C:0.26, G:0.05, T:0.33
Consensus pattern (18 bp):
TTACCAACTTACTAAGCA
Found at i:65704514 original size:20 final size:21
Alignment explanation
Indices: 65704489--65704527 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
65704479 TCCTTAAAAC
65704489 AGGGC-ACACGCCCGTGTGGA
1 AGGGCAACACGCCCGTGTGGA
*
65704509 AGGGCAACACGCTCGTGTG
1 AGGGCAACACGCCCGTGTG
65704528 ACCAACTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.21, C:0.28, G:0.38, T:0.13
Consensus pattern (21 bp):
AGGGCAACACGCCCGTGTGGA
Found at i:65705905 original size:46 final size:47
Alignment explanation
Indices: 65705715--65705932 Score: 173
Period size: 46 Copynumber: 4.6 Consensus size: 47
65705705 CATCGAGGCT
* * * *
65705715 GATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCGGATATTTGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACT-TG-T-TTAGTACC
* * * *
65705765 AATGCCATGTCCAAGACATGGTCTTACACT-GACACAT-CTT-GTAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG-CACTTGTTTAGTA-CC
* * * ** *
65705811 GATG-CATGTCCCAGACAT-GTCTTACACTAGTTTACGTCTCGAG-GCC
1 GATGCCATGTCCCAGACATGGTCTTACACTAG--CACTTGTTTAGTACC
65705857 GATG-CATGTCCCAGACAT-GTCTTACACTAGCACTTGTTTCAGTACC
1 GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTGTTT-AGTACC
*
65705903 GATGCCATGTCCTAGACATGGTCTTACACT
1 GATGCCATGTCCCAGACATGGTCTTACACT
65705933 GGCTCACACC
Statistics
Matches: 135, Mismatches: 23, Indels: 22
0.75 0.13 0.12
Matches are distributed among these distances:
44 14 0.10
45 18 0.13
46 48 0.36
47 13 0.10
48 11 0.08
49 1 0.01
50 30 0.22
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAGCACTTGTTTAGTACC
Found at i:65708875 original size:13 final size:15
Alignment explanation
Indices: 65708845--65708880 Score: 58
Period size: 13 Copynumber: 2.5 Consensus size: 15
65708835 TAAGATTATG
65708845 CATTTTTAACATTTT
1 CATTTTTAACATTTT
65708860 CATTTTTAA-A-TTT
1 CATTTTTAACATTTT
65708873 CATTTTTA
1 CATTTTTA
65708881 TTTTTCAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 11 0.52
14 1 0.05
15 9 0.43
ACGTcount: A:0.28, C:0.11, G:0.00, T:0.61
Consensus pattern (15 bp):
CATTTTTAACATTTT
Found at i:65708878 original size:19 final size:19
Alignment explanation
Indices: 65708854--65708890 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
65708844 GCATTTTTAA
65708854 CATTTTCATTTTTAAATTT
1 CATTTTCATTTTTAAATTT
* *
65708873 CATTTTTATTTTTCAATT
1 CATTTTCATTTTTAAATT
65708891 CTAACTGAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.65
Consensus pattern (19 bp):
CATTTTCATTTTTAAATTT
Found at i:65708886 original size:13 final size:13
Alignment explanation
Indices: 65708845--65708887 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
65708835 TAAGATTATG
65708845 CATTTTTAACATTTT
1 CATTTTT-A-ATTTT
*
65708860 CATTTTTAAATTT
1 CATTTTTAATTTT
*
65708873 CATTTTTATTTTT
1 CATTTTTAATTTT
65708886 CA
1 CA
65708888 ATTCTAACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 17 0.68
14 1 0.04
15 7 0.28
ACGTcount: A:0.26, C:0.12, G:0.00, T:0.63
Consensus pattern (13 bp):
CATTTTTAATTTT
Found at i:65710105 original size:7 final size:7
Alignment explanation
Indices: 65710093--65710119 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
65710083 GTGTCAACAG
65710093 TTAAAAT
1 TTAAAAT
65710100 TTAAAAT
1 TTAAAAT
65710107 TTAAAAT
1 TTAAAAT
65710114 TTAAAA
1 TTAAAA
65710120 GATAAAAGAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TTAAAAT
Found at i:65710125 original size:14 final size:14
Alignment explanation
Indices: 65710094--65710155 Score: 61
Period size: 14 Copynumber: 4.4 Consensus size: 14
65710084 TGTCAACAGT
**
65710094 TAAAATTTAAAATT
1 TAAAATTTAAAAAA
*
65710108 TAAAATTTAAAAGA
1 TAAAATTTAAAAAA
**
65710122 TAAAAGATAAAAAA
1 TAAAATTTAAAAAA
*
65710136 CAAAATTTATAAAAA
1 TAAAATTTA-AAAAA
65710151 TAAAA
1 TAAAA
65710156 ATATAATAAC
Statistics
Matches: 38, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
14 29 0.76
15 9 0.24
ACGTcount: A:0.68, C:0.02, G:0.03, T:0.27
Consensus pattern (14 bp):
TAAAATTTAAAAAA
Found at i:65710154 original size:29 final size:28
Alignment explanation
Indices: 65710109--65710172 Score: 76
Period size: 29 Copynumber: 2.2 Consensus size: 28
65710099 TTTAAAATTT
*
65710109 AAAATTTAAAAGATAAAAGATA-AAAAAC
1 AAAATTTAAAAAATAAAA-ATATAAAAAC
*
65710137 AAAATTTATAAAAATAAAAATATAATAAC
1 AAAATTTA-AAAAATAAAAATATAAAAAC
*
65710166 TAAATTT
1 AAAATTT
65710173 CAATTTTACA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 11 0.35
29 20 0.65
ACGTcount: A:0.67, C:0.03, G:0.03, T:0.27
Consensus pattern (28 bp):
AAAATTTAAAAAATAAAAATATAAAAAC
Found at i:65713657 original size:16 final size:16
Alignment explanation
Indices: 65713636--65713667 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
65713626 ACTAAATGCC
65713636 ACTAAACTATTAGTTA
1 ACTAAACTATTAGTTA
65713652 ACTAAACTATTAGTTA
1 ACTAAACTATTAGTTA
65713668 GTTCATATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.12, G:0.06, T:0.38
Consensus pattern (16 bp):
ACTAAACTATTAGTTA
Found at i:65716200 original size:7 final size:8
Alignment explanation
Indices: 65716185--65716238 Score: 94
Period size: 8 Copynumber: 7.0 Consensus size: 8
65716175 CCAAAACTTC
65716185 AATTTTTT
1 AATTTTTT
65716193 AA-TTTTT
1 AATTTTTT
65716200 AA-TTTTT
1 AATTTTTT
65716207 AATTTTTT
1 AATTTTTT
65716215 AATTTTTT
1 AATTTTTT
65716223 AATTTTTT
1 AATTTTTT
65716231 AATTTTTT
1 AATTTTTT
65716239 TAAAGATTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
7 14 0.31
8 31 0.69
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (8 bp):
AATTTTTT
Found at i:65716263 original size:8 final size:8
Alignment explanation
Indices: 65716185--65716263 Score: 70
Period size: 8 Copynumber: 9.5 Consensus size: 8
65716175 CCAAAACTTC
*
65716185 AATTTTTT
1 AATTTTTA
65716193 AATTTTT-
1 AATTTTTA
65716200 AATTTTTA
1 AATTTTTA
*
65716208 ATTTTTTA
1 AATTTTTA
*
65716216 ATTTTTTA
1 AATTTTTA
*
65716224 ATTTTTTA
1 AATTTTTA
*
65716232 ATTTTTTTAA
1 A-ATTTTT-A
65716242 AGATTTTTA
1 A-ATTTTTA
65716251 TAATTTTTA
1 -AATTTTTA
65716260 AATT
1 AATT
65716264 AACATATAAA
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
7 7 0.11
8 35 0.55
9 14 0.22
10 8 0.12
ACGTcount: A:0.30, C:0.00, G:0.01, T:0.68
Consensus pattern (8 bp):
AATTTTTA
Found at i:65719219 original size:40 final size:40
Alignment explanation
Indices: 65719164--65719387 Score: 306
Period size: 40 Copynumber: 5.5 Consensus size: 40
65719154 TATTCGGATG
65719164 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
65719204 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
65719247 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
** * *
65719287 ATATCCGGGCTAAGTCCCGAAGGCATTCATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
65719327 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
65719367 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
65719388 ATACTTGGGT
Statistics
Matches: 165, Mismatches: 16, Indels: 7
0.88 0.09 0.04
Matches are distributed among these distances:
39 13 0.08
40 114 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:65719307 original size:83 final size:80
Alignment explanation
Indices: 65719168--65719387 Score: 302
Period size: 83 Copynumber: 2.7 Consensus size: 80
65719158 CGGATGATAT
* **
65719168 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
65719233 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
65719251 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
*
65719316 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
65719331 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
65719388 ATACTTGGGT
Statistics
Matches: 127, Mismatches: 8, Indels: 8
0.89 0.06 0.06
Matches are distributed among these distances:
79 16 0.13
80 45 0.35
81 2 0.02
83 64 0.50
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTCA
TGCTAGTGACTATAC
Found at i:65732666 original size:41 final size:40
Alignment explanation
Indices: 65732621--65732728 Score: 153
Period size: 41 Copynumber: 2.6 Consensus size: 40
65732611 TGTGGCGTTT
* * *
65732621 TTAAAAAGCACCGCTAATGCTCGATCTTTAGCGGTGCTTTC
1 TTAAAAA-CGCCGCTAATGCTCGATCTTTAGCGGCGCTTAC
65732662 TTAAAAACGCCGCTAATGCTCAGATCTTTAGCGGCGCTTAC
1 TTAAAAACGCCGCTAATGCTC-GATCTTTAGCGGCGCTTAC
* *
65732703 TTAAAAACGCCGCTAATACTCAATCT
1 TTAAAAACGCCGCTAATGCTCGATCT
65732729 ATTCGATTTT
Statistics
Matches: 61, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
40 17 0.28
41 44 0.72
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.29
Consensus pattern (40 bp):
TTAAAAACGCCGCTAATGCTCGATCTTTAGCGGCGCTTAC
Found at i:65734443 original size:20 final size:19
Alignment explanation
Indices: 65734395--65734452 Score: 64
Period size: 20 Copynumber: 3.0 Consensus size: 19
65734385 TTTATAATTT
*
65734395 TTTAAAATATTATTAAA-AA
1 TTTAAAA-AATATTAAATAA
*
65734414 TTTTAAAAATATTAAATAA
1 TTTAAAAAATATTAAATAA
*
65734433 TGTTAAAAAATAATAAATAA
1 T-TTAAAAAATATTAAATAA
65734453 ATAATAGCCA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
18 8 0.24
19 9 0.27
20 16 0.48
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TTTAAAAAATATTAAATAA
Found at i:65735829 original size:11 final size:12
Alignment explanation
Indices: 65735813--65735842 Score: 53
Period size: 11 Copynumber: 2.6 Consensus size: 12
65735803 TTGATTTCAA
65735813 TTTTCTTTTAT-
1 TTTTCTTTTATG
65735824 TTTTCTTTTATG
1 TTTTCTTTTATG
65735836 TTTTCTT
1 TTTTCTT
65735843 AATTGAAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 11 0.61
12 7 0.39
ACGTcount: A:0.07, C:0.10, G:0.03, T:0.80
Consensus pattern (12 bp):
TTTTCTTTTATG
Found at i:65739984 original size:43 final size:43
Alignment explanation
Indices: 65739862--65740010 Score: 146
Period size: 43 Copynumber: 3.5 Consensus size: 43
65739852 ATGTGTTCTT
* *
65739862 GTGTAAGACCACGTCTGGGAC-GTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGTCTGGGACAG-TGGCATC-AATATTTGATTT-C
* * * *
65739906 GTGTAAGACCATGTCTAGGACA-TCGACATC-GTATTTGATTTC
1 GTGTAAGACCACGTCTGGGACAGT-GGCATCAATATTTGATTTC
*
65739948 GTGTAAGACC-CTGTCTGGGACAGTGGCATCAATATTTGATTAC
1 GTGTAAGACCAC-GTCTGGGACAGTGGCATCAATATTTGATTTC
*
65739991 ATGTAAGACCACGTCTGGGA
1 GTGTAAGACCACGTCTGGGA
65740011 TATTGACATT
Statistics
Matches: 87, Mismatches: 11, Indels: 15
0.77 0.10 0.13
Matches are distributed among these distances:
42 26 0.30
43 36 0.41
44 25 0.29
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGTCTGGGACAGTGGCATCAATATTTGATTTC
Found at i:65741481 original size:14 final size:15
Alignment explanation
Indices: 65741462--65741491 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
65741452 GTTTATTATA
65741462 TGTG-AAGTATCATG
1 TGTGAAAGTATCATG
65741476 TGTGAAAGTATCATG
1 TGTGAAAGTATCATG
65741491 T
1 T
65741492 CTAAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.37
Consensus pattern (15 bp):
TGTGAAAGTATCATG
Found at i:65743463 original size:43 final size:43
Alignment explanation
Indices: 65743411--65743524 Score: 165
Period size: 43 Copynumber: 2.7 Consensus size: 43
65743401 GCTGGTGAAT
* *
65743411 AATATTATCGGGCTTTAGGCCTAGCAGGCTATAATGCCGGTGA
1 AATAATATCGGGCTTTAGGCCTAGCAGGCTATAATGCCAGTGA
* *
65743454 GATAATATCGGGCTTTGGGCCTAGCAGGCTATAATGCCAGTGA
1 AATAATATCGGGCTTTAGGCCTAGCAGGCTATAATGCCAGTGA
* * *
65743497 AATGATATCGGGCTTCAAGCCTAGCAGG
1 AATAATATCGGGCTTTAGGCCTAGCAGG
65743525 GTATGTGATA
Statistics
Matches: 62, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 62 1.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (43 bp):
AATAATATCGGGCTTTAGGCCTAGCAGGCTATAATGCCAGTGA
Found at i:65747201 original size:37 final size:37
Alignment explanation
Indices: 65747151--65747224 Score: 139
Period size: 37 Copynumber: 2.0 Consensus size: 37
65747141 GGTTGAATCA
65747151 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
1 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
*
65747188 GTGCCTGTTGTCTGTGAATTCCTTGATGTGTTTCCTG
1 GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
65747225 AAGAACTTCT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.08, C:0.20, G:0.27, T:0.45
Consensus pattern (37 bp):
GTGCCTGTTGTCTGTGAATTCCCTGATGTGTTTCCTG
Found at i:65751368 original size:43 final size:43
Alignment explanation
Indices: 65751321--65751447 Score: 143
Period size: 43 Copynumber: 3.0 Consensus size: 43
65751311 CACCAACTTA
*
65751321 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCGTATT
1 TGATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
* * *
65751364 TGATTTA-ATGTAAGACTC-TGTCCGGGACAGTGACATCGATATT
1 TGATTTACATGTAAGAC-CATGTCTGGGACATTGGCATCG-TATT
* ** *
65751407 TGA-TTACATGTAAGACCATGTTTGGGATGTTGGCATTGTAT
1 TGATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTAT
65751448 GTGCTTTTCG
Statistics
Matches: 69, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
42 32 0.46
43 37 0.54
ACGTcount: A:0.25, C:0.14, G:0.25, T:0.35
Consensus pattern (43 bp):
TGATTTACATGTAAGACCATGTCTGGGACATTGGCATCGTATT
Found at i:65751391 original size:42 final size:44
Alignment explanation
Indices: 65751321--65751427 Score: 141
Period size: 42 Copynumber: 2.5 Consensus size: 44
65751311 CACCAACTTA
* * * *
65751321 TGATTTACGTGTAAGACCATGTCTGGGACATTGGCATCG-TATT
1 TGATTTACATGTAAGACCATGTCCGGGACAGTGACATCGATATT
65751364 TGATTTA-ATGTAAGACTC-TGTCCGGGACAGTGACATCGATATT
1 TGATTTACATGTAAGAC-CATGTCCGGGACAGTGACATCGATATT
65751407 TGA-TTACATGTAAGACCATGT
1 TGATTTACATGTAAGACCATGT
65751428 TTGGGATGTT
Statistics
Matches: 56, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
42 29 0.52
43 27 0.48
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (44 bp):
TGATTTACATGTAAGACCATGTCCGGGACAGTGACATCGATATT
Found at i:65754091 original size:28 final size:28
Alignment explanation
Indices: 65754060--65754138 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
65754050 GACATCAAAT
65754060 ATGACACTTAGTGTGCGAAATATTGAGA
1 ATGACACTTAGTGTGCGAAATATTGAGA
*
65754088 ATGACACTTAGTGTGCGAGATATTGAGA
1 ATGACACTTAGTGTGCGAAATATTGAGA
*
65754116 ATGACACTTAGTGTACGAAATAT
1 ATGACACTTAGTGTGCGAAATAT
65754139 CGAATGATTC
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 48 1.00
ACGTcount: A:0.35, C:0.11, G:0.24, T:0.29
Consensus pattern (28 bp):
ATGACACTTAGTGTGCGAAATATTGAGA
Found at i:65758678 original size:27 final size:27
Alignment explanation
Indices: 65758431--65758678 Score: 259
Period size: 27 Copynumber: 9.3 Consensus size: 27
65758421 ATATATACAT
* * *
65758431 CACAT-AGGGAAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65758457 CATATAAGGGCAAAACAGTCATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * * *
65758484 C-TATAAGGGCAAAATACTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
65758510 CTCATAAGGGCAAAATAGTCATTTCAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65758537 CACGTAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* **
65758564 CACGTAAAAGCAAAACAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
65758591 CACATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65758618 CA-ATTAAGGGAAAAACAATCATTTTAC
1 CACA-TAAGGGCAAAACAGTCATTTTAC
* *
65758645 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
*
65758672 CGCATAA
1 CACATAA
65758679 AGGGTCTAGG
Statistics
Matches: 193, Mismatches: 25, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
26 27 0.14
27 165 0.85
28 1 0.01
ACGTcount: A:0.42, C:0.21, G:0.13, T:0.24
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:65759893 original size:13 final size:13
Alignment explanation
Indices: 65759875--65759899 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
65759865 GAGTAAGCAC
65759875 AGAAAACAAAAGT
1 AGAAAACAAAAGT
65759888 AGAAAACAAAAG
1 AGAAAACAAAAG
65759900 ACAGTAGGGC
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:0.72, C:0.08, G:0.16, T:0.04
Consensus pattern (13 bp):
AGAAAACAAAAGT
Found at i:65766178 original size:47 final size:45
Alignment explanation
Indices: 65766060--65766512 Score: 376
Period size: 47 Copynumber: 10.5 Consensus size: 45
65766050 TACGTGTAAT
* * *
65766060 GTGGAGCTAAGTGGATATACCACGATTACACATATTGATACATGTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGAT--AT-TAAC
*
65766108 GTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGA-T-ATTAAC
*
65766155 GTGGTGCTAAGTGGATATACCACGGTTA-A-ACA-TG----TAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATATTAAC
*
65766193 GTGGTGCTAAGTGGATATGCCACGGTTACATATATT-A-ATT--C
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATATTAAC
* * * *
65766234 ATGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG----TAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATATTAAC
* *
65766272 GTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGA--TATTAAC
* * *
65766319 GTGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG----TAAT
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATATTAAC
* *
65766357 GTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGA--TATTAAC
* * *
65766404 GTGTTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGA--TATTAAC
* *
65766451 GTGGTGCTAAGTGGATATACCATGGTTA-A-ACA-TG----TAAC
1 GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATATTAAC
*
65766489 GTGGTGCTAAGTGGATATGCCACG
1 GTGGTGCTAAGTGGATATACCACG
65766513 ATTATACATG
Statistics
Matches: 344, Mismatches: 33, Indels: 66
0.78 0.07 0.15
Matches are distributed among these distances:
36 1 0.00
38 112 0.33
39 5 0.01
40 7 0.02
41 31 0.09
43 1 0.00
44 6 0.02
45 6 0.02
46 3 0.01
47 134 0.39
48 37 0.11
49 1 0.00
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (45 bp):
GTGGTGCTAAGTGGATATACCACGGTTACATATATTGATATTAAC
Found at i:65766202 original size:38 final size:38
Alignment explanation
Indices: 65766151--65766510 Score: 281
Period size: 38 Copynumber: 8.7 Consensus size: 38
65766141 ATTGATTCAT
* *
65766151 TAACGTGGTGCTAAGTGGATATACCACGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATGCCAAGGTTAAACATG
* *
65766189 TAACGTGGTGCTAAGTGGATATGCCACGGTTACATATAT-
1 TAACGTGGTGCTAAGTGGATATGCCAAGGTTA-A-ACATG
* * *
65766228 TAATTCATGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAA--CGTGGTGCTAAGTGGATATGCCAAGGTTAAACATG
* *
65766268 TAATGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATGCCAAGGTTA-A-ACA-TG
* *
65766309 ATTTATTAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATGCCAAGGTTAAACATG
* *
65766353 TAATGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTG
1 TAACGTGGTGCTAAGTGGATATGCCAAGGTTA-A-ACA-TG
* *
65766394 ATTTATTAACGTGTTGCTAAGTGGATATGCCAAGGTTACATATATTG
1 ------TAACGTGGTGCTAAGTGGATATGCCAAGGTTA-A-ACA-TG
* *
65766441 ATTTATTAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 ------TAACGTGGTGCTAAGTGGATATGCCAAGGTTAAACATG
65766485 TAACGTGGTGCTAAGTGGATATGCCA
1 TAACGTGGTGCTAAGTGGATATGCCA
65766511 CGATTATACA
Statistics
Matches: 273, Mismatches: 26, Indels: 46
0.79 0.08 0.13
Matches are distributed among these distances:
38 110 0.40
39 9 0.03
40 11 0.04
41 30 0.11
44 4 0.01
45 4 0.01
46 2 0.01
47 103 0.38
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATGCCAAGGTTAAACATG
Found at i:65766204 original size:85 final size:85
Alignment explanation
Indices: 65766099--65766431 Score: 534
Period size: 85 Copynumber: 4.0 Consensus size: 85
65766089 ACATATTGAT
* *
65766099 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATTGATTCATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGGTGCTA
*
65766164 AGTGGATATACCACGGTTAA
66 AGTGGATATACCATGGTTAA
* *
65766184 ACATGTAACGTGGTGCTAAGTGGATATGCCACGGTTACATATATT-A---ATT--CATGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGGTGCTA
65766243 AGTGGATATACCATGGTTAA
66 AGTGGATATACCATGGTTAA
*
65766263 ACATGTAATGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGGTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGGTGCTA
65766328 AGTGGATATACCATGGTTAA
66 AGTGGATATACCATGGTTAA
* *
65766348 ACATGTAATGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGTTGCTA
1 ACATGTAACGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGGTGCTA
* *
65766413 AGTGGATATGCCAAGGTTA
66 AGTGGATATACCATGGTTA
65766432 CATATATTGA
Statistics
Matches: 234, Mismatches: 8, Indels: 12
0.92 0.03 0.05
Matches are distributed among these distances:
79 71 0.30
80 1 0.00
81 3 0.01
83 3 0.01
84 1 0.00
85 155 0.66
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.33
Consensus pattern (85 bp):
ACATGTAACGTGGTGCTAAGTGGATATGCCAAGGTTACATATATTGATTTATTAACGTGGTGCTA
AGTGGATATACCATGGTTAA
Found at i:65766522 original size:38 final size:38
Alignment explanation
Indices: 65766447--65766523 Score: 118
Period size: 38 Copynumber: 2.0 Consensus size: 38
65766437 ATTGATTTAT
* *
65766447 TAACGTGGTGCTAAGTGGATATACCATGGTTAAACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
* *
65766485 TAACGTGGTGCTAAGTGGATATGCCACGATTATACATG
1 TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
65766523 T
1 T
65766524 TAATTTGAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.26, T:0.30
Consensus pattern (38 bp):
TAACGTGGTGCTAAGTGGATATACCACGATTAAACATG
Found at i:65767651 original size:29 final size:29
Alignment explanation
Indices: 65767617--65767673 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
65767607 GAGCTAATGA
*
65767617 TTATTTTCCATGCATGGTTGGTAATATGC
1 TTATTTTCAATGCATGGTTGGTAATATGC
65767646 TTATTTTCAATGCATGGTTGGTAATATG
1 TTATTTTCAATGCATGGTTGGTAATATG
65767674 TTTGTGTTGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.11, G:0.21, T:0.46
Consensus pattern (29 bp):
TTATTTTCAATGCATGGTTGGTAATATGC
Found at i:65771834 original size:29 final size:29
Alignment explanation
Indices: 65771802--65771933 Score: 129
Period size: 29 Copynumber: 4.6 Consensus size: 29
65771792 AGGCATATTG
*
65771802 TTAACAGAGATTGCCACAAAGGCTTTCTT
1 TTAACAGAGATTGCCACAAAGGCTTCCTT
** * *
65771831 TTAATGGAGATTTCCACAAAAGCTTCCTT
1 TTAACAGAGATTGCCACAAAGGCTTCCTT
* * * *
65771860 TTGATATAGATAGCCACAAAGGCTTCCTT
1 TTAACAGAGATTGCCACAAAGGCTTCCTT
* ** * *
65771889 TTAACAGACATCACCACAAAGACTTTCTT
1 TTAACAGAGATTGCCACAAAGGCTTCCTT
*
65771918 TTAACAAAGATTGCCA
1 TTAACAGAGATTGCCA
65771934 TAAAAACTTC
Statistics
Matches: 80, Mismatches: 23, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
29 80 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (29 bp):
TTAACAGAGATTGCCACAAAGGCTTCCTT
Found at i:65774433 original size:18 final size:18
Alignment explanation
Indices: 65774407--65774449 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
65774397 CCATTATAGT
*
65774407 AACAATAATCAGTGCAGA
1 AACAGTAATCAGTGCAGA
*
65774425 AACAGTAATCAGTGCAGT
1 AACAGTAATCAGTGCAGA
65774443 AACAGTA
1 AACAGTA
65774450 TACAAGTCCT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.19
Consensus pattern (18 bp):
AACAGTAATCAGTGCAGA
Found at i:65774778 original size:27 final size:27
Alignment explanation
Indices: 65774741--65774980 Score: 286
Period size: 27 Copynumber: 9.0 Consensus size: 27
65774731 ATATATACAT
*
65774741 CACAT-AGGGCAAAACAATCATCTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
65774767 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
65774794 CACATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * *
65774821 CACATAAGGGCAAAATAGTAATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* * * * *
65774848 GACATAAGGGTAAAATAGTCATTTTGC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
65774875 CAAATAAGGGAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
65774902 CACATAAGGGTAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
*
65774929 CAC-TTAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAATCATTTTAC
* *
65774955 CACATAAGGGCAAAATAGTCATTTTA
1 CACATAAGGGCAAAACAATCATTTTA
65774981 TCAATTAGGG
Statistics
Matches: 189, Mismatches: 23, Indels: 3
0.88 0.11 0.01
Matches are distributed among these distances:
26 28 0.15
27 161 0.85
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAATCATTTTAC
Found at i:65777079 original size:18 final size:18
Alignment explanation
Indices: 65777036--65777082 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
65777026 TGGCCTTTTA
* *
65777036 CAATAACAATAATTAGTG
1 CAATAACAGTAATCAGTG
*
65777054 CAAAAACAGTAATCAGTG
1 CAATAACAGTAATCAGTG
*
65777072 CAGTAACAGTA
1 CAATAACAGTA
65777083 TACAAGTCCT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (18 bp):
CAATAACAGTAATCAGTG
Found at i:65777573 original size:27 final size:27
Alignment explanation
Indices: 65777397--65777610 Score: 223
Period size: 27 Copynumber: 8.0 Consensus size: 27
65777387 ATATATACAT
* * *
65777397 CACAT-AGGGCAAAATAGTTATCTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
65777423 CATATAATGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65777450 CATATAAGGGCAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* ** *
65777477 CAAATAAGGAAAAAACAATCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
**
65777504 CACATAAGGGCAAAACAACCATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
65777531 CACTTAGGGGCAAAACAGTTATTTTAC
1 CACATAAGGGCAAAACAGTCATTTTAC
* * *
65777558 CACATAAGGGCGAAACAGTTATTTTAG
1 CACATAAGGGCAAAACAGTCATTTTAC
* *
65777585 CACATAAGGACAAAACAATCATTTTA
1 CACATAAGGGCAAAACAGTCATTTTA
65777611 TCAATTAGGG
Statistics
Matches: 160, Mismatches: 27, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
26 4 0.03
27 156 0.98
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.26
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTAC
Found at i:65790776 original size:29 final size:29
Alignment explanation
Indices: 65790744--65790834 Score: 76
Period size: 29 Copynumber: 3.1 Consensus size: 29
65790734 TTTTTAATGA
65790744 AGATCGTCACAAAGGCTTACTTTTAACAG
1 AGATCGTCACAAAGGCTTACTTTTAACAG
* * * * *
65790773 AGATAGTCAGTAAA-GTTTCCTTTTAACAA
1 AGATCGTCA-CAAAGGCTTACTTTTAACAG
** * * *
65790802 AGATCACCACAAAGACTTTCTTTTAGCAG
1 AGATCGTCACAAAGGCTTACTTTTAACAG
65790831 AGAT
1 AGAT
65790835 AGCCAGAAAG
Statistics
Matches: 46, Mismatches: 14, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
28 3 0.07
29 40 0.87
30 3 0.07
ACGTcount: A:0.36, C:0.19, G:0.15, T:0.30
Consensus pattern (29 bp):
AGATCGTCACAAAGGCTTACTTTTAACAG
Found at i:65790844 original size:29 final size:29
Alignment explanation
Indices: 65790754--65790859 Score: 85
Period size: 29 Copynumber: 3.7 Consensus size: 29
65790744 AGATCGTCAC
* * *
65790754 AAAGGCTTACTTTTAACAGAGATAGTCAG
1 AAAGACTTTCTTTTAACAGAGATAGCCAG
* *
65790783 TAAAG--TTTCCTTTTAACAAAGATCA-CCAC
1 -AAAGACTTT-CTTTTAACAGAGAT-AGCCAG
*
65790812 AAAGACTTTCTTTTAGCAGAGATAGCCAG
1 AAAGACTTTCTTTTAACAGAGATAGCCAG
* *
65790841 AAAGACATCCTTTT-ACAGA
1 AAAGACTTTCTTTTAACAGA
65790860 AATTGGTGTT
Statistics
Matches: 61, Mismatches: 10, Indels: 12
0.73 0.12 0.14
Matches are distributed among these distances:
28 11 0.18
29 42 0.69
30 8 0.13
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (29 bp):
AAAGACTTTCTTTTAACAGAGATAGCCAG
Done.