Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A02
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: 100057689
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3589301 characters in sequence are not A, C, G, or T
File 187 of 295
Found at i:64304942 original size:67 final size:68
Alignment explanation
Indices: 64304834--64304972 Score: 192
Period size: 67 Copynumber: 2.0 Consensus size: 68
64304824 GAGGAAGCGT
* * * *
64304834 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCC-ACATATATCTGTTCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAACATATATCTATTCTGGTGACCTAGCCACA
64304898 ATA
66 ATA
* *
64304901 TCTGGCAGCCTCGCTGCAATCTGGTGGCTTC-CACATATATATATCTATTCTGGTGACCTAGCCA
1 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGC-CA-ACATATATCTATTCTGGTGACCTAGCCA
64304965 CAATA
64 CAATA
64304970 TCT
1 TCT
64304973 ATATCTGGTG
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
66 1 0.02
67 31 0.49
69 31 0.49
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (68 bp):
TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAACATATATCTATTCTGGTGACCTAGCCACA
ATA
Found at i:64304973 original size:26 final size:27
Alignment explanation
Indices: 64304941--64304999 Score: 84
Period size: 27 Copynumber: 2.2 Consensus size: 27
64304931 CCACATATAT
64304941 ATATCTAT-TCTGGTGACCTAGCCACA
1 ATATCTATATCTGGTGACCTAGCCACA
* * *
64304967 ATATCTATATCTGGTGACTTCGTCACA
1 ATATCTATATCTGGTGACCTAGCCACA
64304994 ATATCT
1 ATATCT
64305000 GGCAGCCTCG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.36
Consensus pattern (27 bp):
ATATCTATATCTGGTGACCTAGCCACA
Found at i:64307167 original size:26 final size:26
Alignment explanation
Indices: 64307135--64307250 Score: 126
Period size: 27 Copynumber: 4.4 Consensus size: 26
64307125 GAAAGAACTG
*
64307135 AAATACCCGCAG-TTGTAAAATTACC
1 AAATACCCTCAGTTTGTAAAATTACC
* * *
64307160 AAAGTACCCCCGGTTTATAAAATTACCC
1 AAA-TACCCTCAGTTTGTAAAATTA-CC
* *
64307188 AAATATCCTCGGTTTGTAAAATTACC
1 AAATACCCTCAGTTTGTAAAATTACC
*
64307214 AAAATACCCTCAGTTTGTAAAATTACT
1 -AAATACCCTCAGTTTGTAAAATTACC
*
64307241 GAATACCCTC
1 AAATACCCTC
64307251 GACATGTAAA
Statistics
Matches: 77, Mismatches: 10, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
25 3 0.04
26 18 0.23
27 51 0.66
28 5 0.06
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.28
Consensus pattern (26 bp):
AAATACCCTCAGTTTGTAAAATTACC
Found at i:64307181 original size:27 final size:26
Alignment explanation
Indices: 64307147--64307274 Score: 130
Period size: 27 Copynumber: 4.8 Consensus size: 26
64307137 ATACCCGCAG
*
64307147 TTGTAAAATTACCAAAGTACCCCCGGT
1 TTGTAAAATTACCAAA-TACCCTCGGT
* *
64307174 TTATAAAATTACCCAAATATCCTCGGT
1 TTGTAAAATTA-CCAAATACCCTCGGT
*
64307201 TTGTAAAATTACCAAAATACCCTCAGT
1 TTGTAAAATTACC-AAATACCCTCGGT
** **
64307228 TTGTAAAATTACTGAATACCCTCGAC
1 TTGTAAAATTACCAAATACCCTCGGT
* *
64307254 ATGTAAAATTATCAAAGTACC
1 TTGTAAAATTACCAAA-TACC
64307275 ATCGAATTAC
Statistics
Matches: 83, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
26 23 0.28
27 55 0.66
28 5 0.06
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (26 bp):
TTGTAAAATTACCAAATACCCTCGGT
Found at i:64307210 original size:54 final size:53
Alignment explanation
Indices: 64307147--64307274 Score: 148
Period size: 54 Copynumber: 2.4 Consensus size: 53
64307137 ATACCCGCAG
* * **
64307147 TTGTAAAATTACCAAAGTACCCCCGGTTTATAAAATTACCCAAATATCCTCGGT
1 TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTA-CCAAATACCCTCGAC
* * * **
64307201 TTGTAAAATTACCAAAATACCCTCAGTTTGTAAAATTACTGAATACCCTCGAC
1 TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAATACCCTCGAC
* *
64307254 ATGTAAAATTATCAAAGTACC
1 TTGTAAAATTACCAAAGTACC
64307275 ATCGAATTAC
Statistics
Matches: 62, Mismatches: 12, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
53 28 0.45
54 34 0.55
ACGTcount: A:0.38, C:0.22, G:0.10, T:0.30
Consensus pattern (53 bp):
TTGTAAAATTACCAAAGTACCCCCAGTTTATAAAATTACCAAATACCCTCGAC
Found at i:64307326 original size:27 final size:27
Alignment explanation
Indices: 64307271--64307519 Score: 284
Period size: 27 Copynumber: 9.2 Consensus size: 27
64307261 ATTATCAAAG
* * * *
64307271 TACCATCGAATTACAAAAATTATTATTT
1 TACCCTCGATTTAC-AAAATTACTGTTT
* *
64307299 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* * *
64307326 TACCCTGGATTTATAAAATTACCGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
64307353 TACCCTCGATTTACAAAATTA-TCGTTT
1 TACCCTCGATTTACAAAATTACT-GTTT
* * *
64307380 TACCCTCGATTTATAGAATTATTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* *
64307407 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
*
64307434 TACCCTCGATTTATAAAATTACTGTTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
64307461 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
* **
64307488 TACCATCGATTTACAAAATTACCATTT
1 TACCCTCGATTTACAAAATTACTGTTT
64307515 TACCC
1 TACCC
64307520 CTAGGGTGTT
Statistics
Matches: 196, Mismatches: 23, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
27 183 0.93
28 13 0.07
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAAAATTACTGTTT
Found at i:64307356 original size:54 final size:54
Alignment explanation
Indices: 64307296--64307519 Score: 315
Period size: 54 Copynumber: 4.1 Consensus size: 54
64307286 AAAATTATTA
*
64307296 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTGGATTTATAAAATTACCG
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCG
* * * **
64307350 TTTTACCCTCGATTTACAAAATTA-TCGTTTTACCCTCGATTTATAGAATTATTG
1 TTTTACCCTCGATTTACAGAATTACT-ATTTTACCCTCGATTTATAAAATTACCG
* * *
64307404 TTTTACCCTCGATTTATAGAATTACTGTTTTACCCTCGATTTATAAAATTACTG
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCG
* * * *
64307458 TTTTACCCTCGATTTACAGAATTACCATTTTACCATCGATTTACAAAATTACCA
1 TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCG
64307512 TTTTACCC
1 TTTTACCC
64307520 CTAGGGTGTT
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
53 1 0.01
54 149 0.99
55 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.08, T:0.42
Consensus pattern (54 bp):
TTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATTTATAAAATTACCG
Found at i:64307371 original size:81 final size:81
Alignment explanation
Indices: 64307271--64307519 Score: 345
Period size: 81 Copynumber: 3.1 Consensus size: 81
64307261 ATTATCAAAG
* * * *
64307271 TACCATCGAATTACAAAAATTATTATTTTACCCTCGATTTACAGAATTACTATTTTACCCTGGAT
1 TACCCTCGATTTAC-AAAATTATTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGAT
64307336 TTATAAAATTACCGTTT
65 TTATAAAATTACCGTTT
* * * *
64307353 TACCCTCGATTTACAAAATTATCGTTTTACCCTCGATTTATAGAATTATTGTTTTACCCTCGATT
1 TACCCTCGATTTACAAAATTATTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
* *
64307418 TATAGAATTACTGTTT
66 TATAAAATTACCGTTT
* * * *
64307434 TACCCTCGATTTATAAAATTACTGTTTTACCCTCGATTTACAGAATTACCATTTTACCATCGATT
1 TACCCTCGATTTACAAAATTATTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
* *
64307499 TACAAAATTACCATTT
66 TATAAAATTACCGTTT
64307515 TACCC
1 TACCC
64307520 CTAGGGTGTT
Statistics
Matches: 145, Mismatches: 22, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
81 133 0.92
82 12 0.08
ACGTcount: A:0.31, C:0.20, G:0.08, T:0.41
Consensus pattern (81 bp):
TACCCTCGATTTACAAAATTATTGTTTTACCCTCGATTTACAGAATTACTATTTTACCCTCGATT
TATAAAATTACCGTTT
Found at i:64307892 original size:27 final size:26
Alignment explanation
Indices: 64307851--64307910 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 26
64307841 CCACATATAT
* *
64307851 ATATCTGCTCTGGTGGCCTAGCCACA
1 ATATCTGATCTGGTGACCTAGCCACA
* * *
64307877 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTG-ATCTGGTGACCTAGCCACA
64307904 ATATCTG
1 ATATCTG
64307911 GCAGCCTCGC
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
26 7 0.25
27 21 0.75
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (26 bp):
ATATCTGATCTGGTGACCTAGCCACA
Found at i:64308076 original size:31 final size:31
Alignment explanation
Indices: 64308032--64308092 Score: 86
Period size: 31 Copynumber: 2.0 Consensus size: 31
64308022 CATTCACATT
* * *
64308032 CTGATTTTGATTCTGTTACCTGATACTGATC
1 CTGATTCTCATTCTGTCACCTGATACTGATC
*
64308063 CTGATTCTCATTCTGTCACCTGATTCTGAT
1 CTGATTCTCATTCTGTCACCTGATACTGAT
64308093 TCTAGTTCTG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (31 bp):
CTGATTCTCATTCTGTCACCTGATACTGATC
Found at i:64316714 original size:64 final size:64
Alignment explanation
Indices: 64316520--64316836 Score: 309
Period size: 64 Copynumber: 4.9 Consensus size: 64
64316510 CATAATTTTG
* * * * * *
64316520 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATA
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
* * * * * * * *
64316583 GCTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCG
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCTCG
64316648 TA
63 TA
*
64316650 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
* *
64316714 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCTC
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTA---CAT-ATATCTC
64316779 GTA
62 GTA
* * ** * *
64316782 GCTCTCTTGTAC-ACATGGTATACATC-TCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGT-CTACATGGTGTACA-CATAGTACCACCCATGCGACCTAGCTACATA
64316837 CCATCTGTAT
Statistics
Matches: 215, Mismatches: 28, Indels: 21
0.81 0.11 0.08
Matches are distributed among these distances:
63 18 0.08
64 87 0.40
65 3 0.01
66 23 0.11
67 32 0.15
68 50 0.23
69 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCTCGTA
Found at i:64316799 original size:132 final size:128
Alignment explanation
Indices: 64316520--64316836 Score: 334
Period size: 132 Copynumber: 2.4 Consensus size: 128
64316510 CATAATTTTG
* * * *
64316520 GCTCTCTTGTACACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCAC-TTTATCTCATAG
1 GCTCTCTTGTACACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCTACATATATCCCATAG
* * * * *
64316584 CTCTCTTGTTTACATGGTGTCCTTCACCTGGAACCACACATGCAACCTAGCTACATTTATCTCGT
65 CTCTCTTGTCTACATGGTG--CTACACATAGAACCACACATGCAACCTAGCTACATATATCTCGT
64316649 A
128 A
* *
64316650 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCGTA
1 GCTCTCTTGTAC-ACATGGTGTACAC-TAGTACCACCCATGTGACCTAGCTACATATATCCCATA
* * * * *
64316714 GCTCTCTTGTCTACATGGTG-TACACATAGTATCACCCATGCGACCTAGCTACCTCATAATGTCT
64 GCTCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTA---CAT-ATATCT
64316778 CGTA
125 CGTA
* * ** *
64316782 GCTCTCTTGTACACATGGTATACATCTCGTATTACACATGTGACCTAGCTACATA
1 GCTCTCTTGTACACATGGTGTACA-CTAGTACCACCCATGTGACCTAGCTACATA
64316837 CCATCTGTAT
Statistics
Matches: 156, Mismatches: 23, Indels: 14
0.81 0.12 0.07
Matches are distributed among these distances:
128 24 0.15
129 1 0.01
130 46 0.29
131 30 0.19
132 53 0.34
133 2 0.01
ACGTcount: A:0.25, C:0.29, G:0.15, T:0.31
Consensus pattern (128 bp):
GCTCTCTTGTACACATGGTGTACACTAGTACCACCCATGTGACCTAGCTACATATATCCCATAGC
TCTCTTGTCTACATGGTGCTACACATAGAACCACACATGCAACCTAGCTACATATATCTCGTA
Found at i:64326875 original size:583 final size:584
Alignment explanation
Indices: 64325754--64327061 Score: 1720
Period size: 583 Copynumber: 2.2 Consensus size: 584
64325744 ACCAATCATA
* * * * *
64325754 TTGTTCCTAATACGAGCCTATAAGGCCCAAAACATGCATTCGGG-G-AAGCTCAAGACTAAACTA
1 TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATT-GGGAGTAA-CTCAGGACTAAACTA
* * * * * * *
64325817 ATAACTT-AGAAACTTTTAGAACACTTAGAAA-ATTTTCTCAAAAATAGGGGACACACACCCGTA
64 ATAACTTAAGAAACTTTCACAA-ACTTTGAAATTTTTTCTC-AAAACAGGGGACACACGCCCGTG
* * * * * *
64325880 TAGCCCA-GTCGTGTTTCTCACACAGCCAAAGACACACCAGTGTCACAGGCCGTGTGGATATTCG
127 T-GGCCAGGCCGTGTGTCTCACACAGCCAAAGACACACCAGTGTCACAAGACGTGTGGACATTCG
* ** * * *
64325944 AAATGGGAGCACATGGTCGCGTCCCAGCCCGTGTCTGATCCCGTATAACTATTTGACTTGGGTCA
191 AAATGGGAGCACATGGTCGCGTCCCAGCCCATGTCCAACCCCATATAACTATCTGACTTGGGTCA
* * * * *
64326009 CATGGCCAACACACACGCCTGTGTGGCTAGCCCGTGTGCCCTAAAAATGGCCACACATGTCCGTA
256 CACGGCCAACACACACACCTGTATGGCTAGCCCGTGTGCCCTAAAAATGGCCACACACGTCCATA
* * * * * * *
64326074 TGCTAGGTCGTGTGCTAGGCTGTGCCAAAACTGTAGGGTATACGGACTTATGCCATACGGCCAAG
321 TGCCAGGTCGTATGCTAGGCTGTGCCAAAACTATAGGGTATACGAACTTATGACACACGACCAAG
* * * *
64326139 TTACACACCCGTGTGTGAGGCTATATGGAGCATACTGAATCGATTTTTAATTCAACACCAGGGAC
386 TCACACACCCATGTGTGAGGCCATATGAAGCATACTGAATCGATTTTTAATTCAACACCAGGGAC
* * *
64326204 ACATTACAACACCCTTCACTCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTAC
451 ACACTACAACACCCCTCACCCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTAC
* * *
64326269 AACACATTTAAAAATAGTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTCAGT
516 AACACATTTAAAAATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAAT
64326334 CAAT
581 CAAT
* * *
64326338 TTGTCCCTAATACGAGCCTACAAGG-CCTAAACATACATTGGGAGTGATTCAGGACTAAACTGAT
1 TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTGGGAGTAACTCAGGACTAAACTAAT
* * *
64326402 AAATTAAGAAACTTTCACAAACTTTTAAATTTTTTCTCAAAACAGGGGACACACGCCCATGTGGC
66 AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACACGCCCGTGTGGC
* * * *
64326467 CAGGCCGTGTGTCTCACACGGCCACCAGACACTCCCGTGTCACAAGACGTGTGGACATTCGAAAT
131 CAGGCCGTGTGTCTCACACAGCCA-AAGACACACCAGTGTCACAAGACGTGTGGACATTCGAAAT
* * * *
64326532 GGGAGCACATGG-C-CGTCTCCAAGCCTATGTCCAACCCCATGTAACTCTCTGACTTTGGTCACA
195 GGGAGCACATGGTCGCGTC-CC-AGCCCATGTCCAACCCCATATAACTATCTGACTTGGGTCACA
* *
64326595 CGGCCAACACACACACCTGTATGGCTTGCCCGTGTGCCCTAAAAATGGCCACACACG-CCAATGT
258 CGGCCAACACACACACCTGTATGGCTAGCCCGTGTGCCCTAAAAATGGCCACACACGTCC-ATAT
* *
64326659 GCCAGGTCGTATGCTAGGCATG-G-CAAACCTATAGGGTATACTAACTTATGACACACGACCAAG
322 GCCAGGTCGTATGCTAGGC-TGTGCCAAAACTATAGGGTATACGAACTTATGACACACGACCAAG
* * * * *
64326722 TCACAGACCCATGTGTGAGGCCGTGTGAAGCATACTGACTTGATTTTTAATTCAACACCAGGGAC
386 TCACACACCCATGTGTGAGGCCATATGAAGCATACTGAATCGATTTTTAATTCAACACCAGGGAC
* * ** *
64326787 ACACTACAACACCCCTCACCCGTATTCAACGCCGAAATAGGGTTACGGAGCATTACCGGACTTAC
451 ACACTACAACACCCCTCACCCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTAC
*
64326852 AACACATTTAAACATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAAT
516 AACACATTTAAAAATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAAT
64326917 CAAT
581 CAAT
* *
64326921 TTGTCCCTAATACGAGCCTACGAGGCCCTAAACATACATTTGGAGTAACTCAGGACTAAACTAAT
1 TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTGGGAGTAACTCAGGACTAAACTAAT
* * *
64326986 AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACATGCCTGTGTAGC
66 AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACACGCCCGTGTGGC
*
64327051 CAGGCCATGTG
131 CAGGCCGTGTG
64327062 GACATTCGAA
Statistics
Matches: 626, Mismatches: 87, Indels: 22
0.85 0.12 0.03
Matches are distributed among these distances:
582 11 0.02
583 316 0.50
584 297 0.47
585 2 0.00
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.24
Consensus pattern (584 bp):
TTGTCCCTAATACGAGCCTACAAGGCCCTAAACATACATTGGGAGTAACTCAGGACTAAACTAAT
AACTTAAGAAACTTTCACAAACTTTGAAATTTTTTCTCAAAACAGGGGACACACGCCCGTGTGGC
CAGGCCGTGTGTCTCACACAGCCAAAGACACACCAGTGTCACAAGACGTGTGGACATTCGAAATG
GGAGCACATGGTCGCGTCCCAGCCCATGTCCAACCCCATATAACTATCTGACTTGGGTCACACGG
CCAACACACACACCTGTATGGCTAGCCCGTGTGCCCTAAAAATGGCCACACACGTCCATATGCCA
GGTCGTATGCTAGGCTGTGCCAAAACTATAGGGTATACGAACTTATGACACACGACCAAGTCACA
CACCCATGTGTGAGGCCATATGAAGCATACTGAATCGATTTTTAATTCAACACCAGGGACACACT
ACAACACCCCTCACCCGTATTCAAAGCCAAAATAGGGTTACAAAGCATTACCAGACTTACAACAC
ATTTAAAAATACTTTTCTCAAACATTTAATCAATACATACAATCATCATTCAATCTAAATCAAT
Found at i:64331432 original size:21 final size:20
Alignment explanation
Indices: 64331401--64331441 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 20
64331391 ATAAAACTTA
64331401 TATAACTATCATCAAACATT
1 TATAACTATCATCAAACATT
*
64331421 TATAATCTATCATCAATCATT
1 TATAA-CTATCATCAAACATT
64331442 AAAATACATG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.41, C:0.20, G:0.00, T:0.39
Consensus pattern (20 bp):
TATAACTATCATCAAACATT
Found at i:64332118 original size:26 final size:26
Alignment explanation
Indices: 64332089--64332144 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
64332079 TGATACAAAT
64332089 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64332115 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
64332141 TGAT
1 TGAT
64332145 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:64337938 original size:18 final size:18
Alignment explanation
Indices: 64337917--64337972 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
64337907 CAAATCATCA
64337917 ATATGACCATTATCAACT
1 ATATGACCATTATCAACT
** * * *
64337935 ATAT-ATTATT-TGATCA
1 ATATGACCATTATCAACT
64337951 ATATGACCATTATCAACT
1 ATATGACCATTATCAACT
64337969 ATAT
1 ATAT
64337973 ATTATTTGAT
Statistics
Matches: 26, Mismatches: 10, Indels: 4
0.65 0.25 0.10
Matches are distributed among these distances:
16 7 0.27
17 8 0.31
18 11 0.42
ACGTcount: A:0.39, C:0.16, G:0.05, T:0.39
Consensus pattern (18 bp):
ATATGACCATTATCAACT
Found at i:64337956 original size:34 final size:34
Alignment explanation
Indices: 64337913--64337983 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
64337903 TTCTCAAATC
64337913 ATCAATATGACCATTATCAACTATATATTATTTG
1 ATCAATATGACCATTATCAACTATATATTATTTG
64337947 ATCAATATGACCATTATCAACTATATATTATTTG
1 ATCAATATGACCATTATCAACTATATATTATTTG
64337981 ATC
1 ATC
64337984 TATGTTTTCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.38, C:0.15, G:0.06, T:0.41
Consensus pattern (34 bp):
ATCAATATGACCATTATCAACTATATATTATTTG
Found at i:64341701 original size:53 final size:53
Alignment explanation
Indices: 64341610--64341715 Score: 176
Period size: 53 Copynumber: 2.0 Consensus size: 53
64341600 ACGCAACTTG
*
64341610 TAACACCCCTAACCCGTATCCGTCGCTAGAATAGGGTTACGAGGCATTACCTA
1 TAACACCCCTAACCCGTATCCGTCGCTAGAATAAGGTTACGAGGCATTACCTA
* * *
64341663 TAACACCCCTAACCCGTATCTGTCGCTGGATTAAGGTTACGAGGCATTACCTA
1 TAACACCCCTAACCCGTATCCGTCGCTAGAATAAGGTTACGAGGCATTACCTA
64341716 ACATAAGCAT
Statistics
Matches: 49, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 49 1.00
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (53 bp):
TAACACCCCTAACCCGTATCCGTCGCTAGAATAAGGTTACGAGGCATTACCTA
Found at i:64344502 original size:68 final size:67
Alignment explanation
Indices: 64344425--64344574 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
64344415 CATCACGTGT
* * * *
64344425 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
64344487 ATGTAG
62 ATGTAG
** * *
64344493 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
64344558 AG
66 AG
64344560 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
64344575 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:64344530 original size:64 final size:64
Alignment explanation
Indices: 64344449--64344632 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
64344439 AGACATTATG
* *
64344449 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
64344513 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
64344578 AA
63 AA
* * * *
64344580 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
64344633 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:64348607 original size:49 final size:47
Alignment explanation
Indices: 64348523--64348930 Score: 656
Period size: 47 Copynumber: 8.6 Consensus size: 47
64348513 TATTTGAATA
* *
64348523 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64348570 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
64348619 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCC-ATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64348665 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
64348714 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
64348763 AATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
64348810 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* * * * * *
64348857 AATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
* *
64348904 GATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
64348931 TCCCGAAGGG
Statistics
Matches: 342, Mismatches: 14, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
46 20 0.06
47 182 0.53
48 26 0.08
49 114 0.33
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:64348710 original size:144 final size:143
Alignment explanation
Indices: 64348523--64348930 Score: 678
Period size: 144 Copynumber: 2.9 Consensus size: 143
64348513 TATTTGAATA
* *
64348523 AATGTGAAAGTGTATATATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
64348588 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
*
64348653 GGCC-ATGTGATG
131 AGCCGATGTGATG
64348665 AATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
1 AATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATA
64348730 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64 TATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTA
64348795 ATAGCCGATGTGATG
129 ATAGCCGATGTGATG
64348810 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATA
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
64348873 TATGTGACAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
66 TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
64348931 TCCCGAAGGG
Statistics
Matches: 252, Mismatches: 11, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
141 54 0.21
142 12 0.05
143 47 0.19
144 119 0.47
145 20 0.08
ACGTcount: A:0.33, C:0.08, G:0.29, T:0.29
Consensus pattern (143 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
TATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAAT
AGCCGATGTGATG
Found at i:64352789 original size:35 final size:36
Alignment explanation
Indices: 64352728--64352798 Score: 101
Period size: 35 Copynumber: 2.0 Consensus size: 36
64352718 ATTAAGTGTT
*
64352728 ATATACTTATCTGATCAAGTGAAAAAGTTATAAGTGA
1 ATATACTTA-CTGATCAAGTGAAAAAGTGATAAGTGA
64352765 ATATACTTA-TGATCAAGT-ACAAAAGTGATAAGTG
1 ATATACTTACTGATCAAGTGA-AAAAGTGATAAGTG
64352799 GTAGCTTTAG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 1 0.03
35 22 0.69
37 9 0.28
ACGTcount: A:0.44, C:0.08, G:0.17, T:0.31
Consensus pattern (36 bp):
ATATACTTACTGATCAAGTGAAAAAGTGATAAGTGA
Found at i:64352845 original size:44 final size:45
Alignment explanation
Indices: 64352774--64352956 Score: 194
Period size: 45 Copynumber: 4.2 Consensus size: 45
64352764 AATATACTTA
64352774 TGATCAAGT-ACAAAAGTGATAAGTGGTAGCTTTAGCTA-ACTTATC
1 TGATCAAGTGA-AAAAGT-ATAAGTGGTAGCTTTAGCTACACTTATC
*
64352819 TGATC-AGTGACAAAA-TGATAAGTGGTAGC-CTAGCTTACCACTTAT-
1 TGATCAAGTGA-AAAAGT-ATAAGTGGTAGCTTTAGC-TA-CACTTATC
64352864 TGATCAAGTGAAAAAGTATAAGT-GT-GCCTTTAGCTACACTTTATC
1 TGATCAAGTGAAAAAGTATAAGTGGTAG-CTTTAGCTACAC-TTATC
64352909 TGATCAAGTGAAAAAGTATAAGTGGT-GC--T-GCTACACTTATC
1 TGATCAAGTGAAAAAGTATAAGTGGTAGCTTTAGCTACACTTATC
64352950 T-ATCAAG
1 TGATCAAG
64352957 GATAAGTGAT
Statistics
Matches: 125, Mismatches: 2, Indels: 27
0.81 0.01 0.18
Matches are distributed among these distances:
40 6 0.05
41 6 0.05
42 7 0.06
43 9 0.07
44 28 0.22
45 54 0.43
46 15 0.12
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (45 bp):
TGATCAAGTGAAAAAGTATAAGTGGTAGCTTTAGCTACACTTATC
Found at i:64352908 original size:90 final size:89
Alignment explanation
Indices: 64352769--64352934 Score: 227
Period size: 90 Copynumber: 1.9 Consensus size: 89
64352759 AAGTGAATAT
64352769 ACTTATGATCAAGTACAAAAGTGATAAGTGGTAGCTTTAGCTAACTTATCTGATC-AGTGACAAA
1 ACTTATGATCAAGTACAAAAGTGATAAGTGGTAGCTTTAGCTAACTTATCTGATCAAGTGA-AAA
64352833 A-TGATAAGTGGTAGCCTAGCTTACC
65 AGT-ATAAGTGGTAGCCTAGCTTACC
64352858 ACTTATTGATCAAGTGA-AAAAGT-ATAAGT-GT-GCCTTTAGCTACACTTTATCTGATCAAGTG
1 ACTTA-TGATCAAGT-ACAAAAGTGATAAGTGGTAG-CTTTAGCTA-AC-TTATCTGATCAAGTG
64352919 AAAAAGTATAAGTGGT
61 AAAAAGTATAAGTGGT
64352935 GCTGCTACAC
Statistics
Matches: 70, Mismatches: 0, Indels: 13
0.84 0.00 0.16
Matches are distributed among these distances:
87 1 0.01
88 11 0.16
89 13 0.19
90 38 0.54
91 7 0.10
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.31
Consensus pattern (89 bp):
ACTTATGATCAAGTACAAAAGTGATAAGTGGTAGCTTTAGCTAACTTATCTGATCAAGTGAAAAA
GTATAAGTGGTAGCCTAGCTTACC
Found at i:64358999 original size:63 final size:65
Alignment explanation
Indices: 64358777--64359062 Score: 289
Period size: 67 Copynumber: 4.4 Consensus size: 65
64358767 CATAATTTTG
* * * * *
64358777 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC-CCACTTTATCTCAT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACACTTTATCTCGT
64358840 A
65 A
* * * * * * *
64358841 GCTCTCTTGTTTACATGGTGTCCTTCACCT-GAACCACACATGCAACCTAGCTACATTTTATCTC
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACACTTTATCTC
64358905 GTA
63 GTA
* *
64358908 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCCCGTA
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACACTTTATCTCGTA
* *
64358972 GCTCTC-TGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTAC-CTCATAATGTCT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACACT--T--TATCT
64359035 CGTA
62 CGTA
*
64359039 GCTCTCTTGTAC-ACATGGTATACA
1 GCTCTCTTGT-CTACATGGTGTACA
64359063 TCTCGTATTA
Statistics
Matches: 185, Mismatches: 24, Indels: 22
0.80 0.10 0.10
Matches are distributed among these distances:
63 45 0.24
64 38 0.21
65 22 0.12
66 17 0.09
67 48 0.26
68 14 0.08
69 1 0.01
ACGTcount: A:0.24, C:0.30, G:0.15, T:0.31
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACACTTTATCTCGTA
Found at i:64365628 original size:62 final size:64
Alignment explanation
Indices: 64365508--64365633 Score: 154
Period size: 62 Copynumber: 2.0 Consensus size: 64
64365498 ATGGCAACCT
* * * *
64365508 AGCTACATTTATCTCGTAACTCTTCTTGTCTACATGTGTACACATAGTTATCACCCATGTGACC
1 AGCTACATATATCCCGTAACTCTTCTTGTCTACATGTGTACACATAGTTACCACCCATGCGACC
64365572 AGCTACATATATCCCGT-ACTC-TCTTGTCTAC-TGTTGATACACATA-TATACCA-CCATGCGA
1 AGCTACATATATCCCGTAACTCTTCTTGTCTACATG-TG-TACACATAGT-TACCACCCATGCGA
64365632 CC
63 CC
64365634 TAGCATACCT
Statistics
Matches: 55, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
61 2 0.04
62 22 0.40
63 16 0.29
64 15 0.27
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (64 bp):
AGCTACATATATCCCGTAACTCTTCTTGTCTACATGTGTACACATAGTTACCACCCATGCGACC
Found at i:64372406 original size:30 final size:30
Alignment explanation
Indices: 64372370--64372430 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
64372360 TCCTTAACTC
64372370 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
64372400 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
64372430 A
1 A
64372431 CGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:64374552 original size:18 final size:18
Alignment explanation
Indices: 64374529--64374564 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64374519 AAACCACAAA
* *
64374529 CATACATTTGTATGTCAT
1 CATACATGTGTATCTCAT
64374547 CATACATGTGTATCTCAT
1 CATACATGTGTATCTCAT
64374565 ACTCATTTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.19, G:0.11, T:0.42
Consensus pattern (18 bp):
CATACATGTGTATCTCAT
Found at i:64378830 original size:39 final size:39
Alignment explanation
Indices: 64378768--64378912 Score: 193
Period size: 39 Copynumber: 3.7 Consensus size: 39
64378758 ACTAGCACAA
* *
64378768 AGCCTTCGAGACTTTAAGCCCGGATATATTTCCAGC-TCAT
1 AGCCTGCG-GACTTTAAGTCCGGATATATTTCCAGCAT-AT
* * *
64378808 AGCCTGCGGACCTGAAGTCCGGATATATTTCCCGCATAT
1 AGCCTGCGGACTTTAAGTCCGGATATATTTCCAGCATAT
* *
64378847 AGCCTGCGGACTTTAAGTCCAGATATATTTCCTGCATAT
1 AGCCTGCGGACTTTAAGTCCGGATATATTTCCAGCATAT
*
64378886 AGCCTGCGGACTTTAAGTCCGAATATA
1 AGCCTGCGGACTTTAAGTCCGGATATA
64378913 ATTTTCAAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 85 0.91
40 8 0.09
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (39 bp):
AGCCTGCGGACTTTAAGTCCGGATATATTTCCAGCATAT
Found at i:64384981 original size:28 final size:28
Alignment explanation
Indices: 64384944--64385050 Score: 160
Period size: 28 Copynumber: 3.8 Consensus size: 28
64384934 GCAATCAAAT
*
64384944 ATGGTACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
64384972 ATGGCACTTAGTGTACGAAATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* *
64385000 ATGGCACTTAGTGTGCGAGATATTGAGA
1 ATGGCACTTAGTGTACGAAATATTGAGA
* * *
64385028 ATGACACTTAGTGTGCAAAATAT
1 ATGGCACTTAGTGTACGAAATAT
64385051 CGAATGATTC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 73 1.00
ACGTcount: A:0.35, C:0.10, G:0.25, T:0.30
Consensus pattern (28 bp):
ATGGCACTTAGTGTACGAAATATTGAGA
Found at i:64390843 original size:29 final size:29
Alignment explanation
Indices: 64390798--64390916 Score: 136
Period size: 29 Copynumber: 4.2 Consensus size: 29
64390788 GTGATCATGA
*
64390798 ATAT-AATATGATTTGGGCCTAATGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
64390826 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
* *
64390855 ATAAGAATATGAACTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTA-ATGGGCC
* * *
64390884 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAATGGGCC
64390912 ATATG
1 ATATG
64390917 CATGTATGTA
Statistics
Matches: 75, Mismatches: 13, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
28 22 0.29
29 53 0.71
ACGTcount: A:0.29, C:0.14, G:0.30, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAATGGGCC
Found at i:64390866 original size:58 final size:57
Alignment explanation
Indices: 64390802--64390914 Score: 156
Period size: 58 Copynumber: 2.0 Consensus size: 57
64390792 TCATGAATAT
** **
64390802 AATATGATTTGGGCCTA-ATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAACTGGGCC-AGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
64390860 AATATGAACTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
64390915 TGCATGTATG
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
57 21 0.43
58 28 0.57
ACGTcount: A:0.28, C:0.15, G:0.31, T:0.26
Consensus pattern (57 bp):
AATATGAACTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:64392777 original size:17 final size:19
Alignment explanation
Indices: 64392735--64392778 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
64392725 ATGAAATTTT
*
64392735 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
64392754 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
64392772 AA-TATTA
1 AATTATTA
64392779 CTGTAAGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:64395273 original size:20 final size:20
Alignment explanation
Indices: 64395250--64395328 Score: 149
Period size: 20 Copynumber: 4.0 Consensus size: 20
64395240 TAAACATGGT
64395250 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
64395270 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
*
64395290 ATGTATGATATGCACATGAT
1 ATGTATGATATGCACATGAC
64395310 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
64395329 TGTAATCATA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
20 58 1.00
ACGTcount: A:0.35, C:0.13, G:0.20, T:0.32
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:64395310 original size:11 final size:11
Alignment explanation
Indices: 64395254--64395329 Score: 65
Period size: 11 Copynumber: 7.5 Consensus size: 11
64395244 CATGGTATGT
64395254 ATGATATGCAC
1 ATGATATGCAC
* *
64395265 ATGACATG--T
1 ATGATATGCAC
64395274 ATGATATGCAC
1 ATGATATGCAC
* *
64395285 ATGACATG--T
1 ATGATATGCAC
64395294 ATGATATGCAC
1 ATGATATGCAC
*
64395305 ATGATATG--T
1 ATGATATGCAC
64395314 ATGATATGCAC
1 ATGATATGCAC
64395325 ATGAT
1 ATGAT
64395330 GTAATCATAA
Statistics
Matches: 49, Mismatches: 10, Indels: 12
0.69 0.14 0.17
Matches are distributed among these distances:
9 22 0.45
11 27 0.55
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:64395500 original size:24 final size:23
Alignment explanation
Indices: 64395380--64395498 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
64395370 AGGAAGTGAA
*
64395380 AAAGGGCTTACGCCCCTGTTATT
1 AAAGGGCTTACGCCCCAGTTATT
64395403 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTACGCCCCAGTTATT
64395426 AAAGGGCTTACGCCCCAGTTATT
1 AAAGGGCTTACGCCCCAGTTATT
*
64395449 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTACGCCCCAGTTATT
**
64395472 AAAAGGGCTTTTGCCCCAGTTATT
1 -AAAGGGCTTACGCCCCAGTTATT
64395496 AAA
1 AAA
64395499 AGAGGCTAGG
Statistics
Matches: 92, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
23 70 0.76
24 22 0.24
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (23 bp):
AAAGGGCTTACGCCCCAGTTATT
Found at i:64395748 original size:31 final size:31
Alignment explanation
Indices: 64395713--64395776 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
64395703 CATTTACAGT
64395713 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
* **
64395744 AAAGGCTTCTGCCCAGTGTTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
64395775 AA
1 AA
64395777 TATGAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:64395775 original size:7 final size:7
Alignment explanation
Indices: 64395763--64395790 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
64395753 TGCCCAGTGT
64395763 TATGAAA
1 TATGAAA
64395770 TATGAAA
1 TATGAAA
64395777 TATGAAA
1 TATGAAA
64395784 TATGAAA
1 TATGAAA
64395791 AGGGCTACGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (7 bp):
TATGAAA
Found at i:64409456 original size:53 final size:53
Alignment explanation
Indices: 64409338--64409504 Score: 226
Period size: 54 Copynumber: 3.1 Consensus size: 53
64409328 TTAGTTTACC
* * *
64409338 AAATTAACAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATA
1 AAATTAACAAAATACCCCTAGTTTGTAAAATTAC-CAAATACCCTTGGTTTGTA
* *
64409392 AAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAATACCCTTGGTTTGTA
1 AAATTAACAAAATACCCCTAGTTTGTAAAATTACCAAATACCCTTGGTTTGTA
* * * * *
64409445 AAATTATCAAAATACCCCTAGTTTGGAAAATTACCAAAATACCCCTGATTTGTG
1 AAATTAACAAAATACCCCTAGTTTGTAAAATTACC-AAATACCCTTGGTTTGTA
64409499 AAATTA
1 AAATTA
64409505 CTGAAATACC
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
53 49 0.49
54 52 0.51
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (53 bp):
AAATTAACAAAATACCCCTAGTTTGTAAAATTACCAAATACCCTTGGTTTGTA
Found at i:64409457 original size:80 final size:80
Alignment explanation
Indices: 64409338--64409516 Score: 227
Period size: 80 Copynumber: 2.2 Consensus size: 80
64409328 TTAGTTTACC
* * * *
64409338 AAATTAACAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATT-ACAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGTTTAGAAAATCACCAAA
64409403 ATACCCCT-AGTTTGTA
65 ATACCCCTGA-TTTGTA
* * *
64409419 AAATTACCAAATACCCTTGGTTTGTAAAATTA-TCAAAATACCCCTAGTTTGGAAAATTACCAAA
1 AAATTACAAAATACCCTTGGTTTGTAAAATTACT-AAAATACCCCTAGTTTAGAAAATCACCAAA
*
64409483 ATACCCCTGATTTGTG
65 ATACCCCTGATTTGTA
*
64409499 AAATTACTGAAATACCCT
1 AAATTAC-AAAATACCCT
64409517 CGACCTATAA
Statistics
Matches: 86, Mismatches: 9, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
79 1 0.01
80 70 0.81
81 15 0.17
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.31
Consensus pattern (80 bp):
AAATTACAAAATACCCTTGGTTTGTAAAATTACTAAAATACCCCTAGTTTAGAAAATCACCAAAA
TACCCCTGATTTGTA
Found at i:64409505 original size:27 final size:27
Alignment explanation
Indices: 64409338--64409586 Score: 202
Period size: 27 Copynumber: 9.3 Consensus size: 27
64409328 TTAGTTTACC
* *
64409338 AAATTAACAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* * * *
64409365 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
64409392 AAATCACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCCTGA-TTTGTA
* *
64409419 AAATTACC-AAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTGATTTGTA
* *
64409445 AAATTATCAAAATACCCCT-AGTTTGGA
1 AAATTACCAAAATACCCCTGA-TTTGTA
*
64409472 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCCTGATTTGTA
** ** *
64409499 AAATTACTGAAATA-CCCTCGACCTATA
1 AAATTACCAAAATACCCCT-GATTTGTA
*** *
64409526 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCT-GATTTGTA
* * *
64409553 AAATGACCAAAGTACCCCTGATTTATA
1 AAATTACCAAAATACCCCTGATTTGTA
*
64409580 GAATTAC
1 AAATTAC
64409587 AATTTTACCC
Statistics
Matches: 178, Mismatches: 37, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
26 26 0.15
27 147 0.83
28 5 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGATTTGTA
Found at i:64409622 original size:27 final size:27
Alignment explanation
Indices: 64409338--64409624 Score: 183
Period size: 27 Copynumber: 10.7 Consensus size: 27
64409328 TTAGTTTACC
* *
64409338 AAATTAACAAAATACCC-CTGGTTTGTA
1 AAATTACCAAAATACCCTC-GATTTGTA
* * * *
64409365 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTCGATTTGTA
* *
64409392 AAATCACCAAAATACCC-CTAGTTTGTA
1 AAATTACCAAAATACCCTCGA-TTTGTA
* *
64409419 AAATTACC-AAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
64409445 AAATTATCAAAATACCC-CTAGTTTGGA
1 AAATTACCAAAATACCCTCGA-TTTGTA
*
64409472 AAATTACCAAAATACCC-CTGATTTGTG
1 AAATTACCAAAATACCCTC-GATTTGTA
** ** *
64409499 AAATTACTGAAATACCCTCGACCTATA
1 AAATTACCAAAATACCCTCGATTTGTA
*** *
64409526 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACCAAAATACCCTCGATTTGTA
* * *
64409553 AAATGACCAAAGTACCC-CTGATTTATA
1 AAATTACCAAAATACCCTC-GATTTGTA
* ** **
64409580 GAATTA-CAATTTTACCCTCGATTTACA
1 AAATTACCAA-AATACCCTCGATTTGTA
*
64409607 AAATTACCGAAATACCCT
1 AAATTACCAAAATACCCT
64409625 TTTAGGTAGA
Statistics
Matches: 201, Mismatches: 48, Indels: 22
0.74 0.18 0.08
Matches are distributed among these distances:
26 25 0.12
27 171 0.85
28 5 0.02
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCTCGATTTGTA
Found at i:64409637 original size:27 final size:28
Alignment explanation
Indices: 64409607--64409722 Score: 143
Period size: 27 Copynumber: 4.3 Consensus size: 28
64409597 TCGATTTACA
*
64409607 AAATTACCGAAATACCCTTTTA-GGTAG
1 AAATTACCGAAATACCCTTGTAGGGTAG
*
64409634 AAA-TACCCAAAATACCCTTGTAGGGTAG
1 AAATTA-CCGAAATACCCTTGTAGGGTAG
* *
64409662 -AATTACTGAAATACCCCTGTAGGGTAG
1 AAATTACCGAAATACCCTTGTAGGGTAG
*
64409689 -AATTACCGAGATACCCTTGTAGGGTA-
1 AAATTACCGAAATACCCTTGTAGGGTAG
64409715 AAATTACC
1 AAATTACC
64409723 ATTTTACCCC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
26 2 0.03
27 68 0.88
28 7 0.09
ACGTcount: A:0.36, C:0.20, G:0.18, T:0.26
Consensus pattern (28 bp):
AAATTACCGAAATACCCTTGTAGGGTAG
Found at i:64410250 original size:6 final size:6
Alignment explanation
Indices: 64410241--64410371 Score: 90
Period size: 6 Copynumber: 21.3 Consensus size: 6
64410231 TTGCATTCAC
* *
64410241 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
64410291 ATTTTG ATTCTG ATTTTG ATTTTG ATTCTG -TCACCTG ATTCTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
64410340 ATTCTG ATTCTC ATTTTG ATTCT- AGTTCTG AT
1 ATTCTG ATTCTG ATTCTG ATTCTG A-TTCTG AT
64410372 AATGTTTCTT
Statistics
Matches: 98, Mismatches: 16, Indels: 22
0.72 0.12 0.16
Matches are distributed among these distances:
5 7 0.07
6 78 0.80
7 8 0.08
8 5 0.05
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (6 bp):
ATTCTG
Found at i:64410272 original size:25 final size:25
Alignment explanation
Indices: 64410244--64410305 Score: 88
Period size: 25 Copynumber: 2.5 Consensus size: 25
64410234 CATTCACATT
*
64410244 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
* *
64410269 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
*
64410294 TTGATTCTGATT
1 CTGATTCTGATT
64410306 TTGATTTTGA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTAATA
Found at i:64410276 original size:31 final size:31
Alignment explanation
Indices: 64410241--64410350 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
64410231 TTGCATTCAC
*
64410241 ATTCTGATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
*
64410272 ATTCTGATTCTG-TTACCTAATT--TTGATTCTG
1 ATTCTGATTCTGATT--CT-ATTACCTGATTCTG
* * * *
64410303 ATTTTGATTTTGATTCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
*
64410334 ATTATGATTCTGATTCT
1 ATTCTGATTCTGATTCT
64410351 CATTTTGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.02
30 4 0.06
31 52 0.81
32 4 0.06
33 3 0.05
ACGTcount: A:0.20, C:0.16, G:0.14, T:0.50
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATTCTG
Found at i:64410304 original size:37 final size:37
Alignment explanation
Indices: 64410263--64410350 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
64410253 ATTCTATTAC
* * *
64410263 CTGATACTGATTCTGATTCTGTTACCTAATTTTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
* * *
64410300 CTGATTTTGATTTTGATTCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
*
64410337 ATGATTCTGATTCT
1 CTGATTCTGATTCT
64410351 CATTTTGATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.19, C:0.16, G:0.15, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTCTGATTCTGTCACCTAATTCTGATT
Found at i:64412326 original size:27 final size:27
Alignment explanation
Indices: 64412294--64412529 Score: 178
Period size: 27 Copynumber: 8.7 Consensus size: 27
64412284 TTAGTTTACC
64412294 AAATTACCAAAATACCCCTAGATTGTA
1 AAATTACCAAAATACCCCTAGATTGTA
* * * * *
64412321 CAATTACTAAAGTA-CCCTTGGTT-TA
1 AAATTACCAAAATACCCCTAGATTGTA
* * * *
64412346 CCAAATCACCAAAGTATCCCTAGTTTGTA
1 --AAATTACCAAAATACCCCTAGATTGTA
* * *
64412375 AAATTACCAAAATACCCTTGGTTTGTA
1 AAATTACCAAAATACCCCTAGATTGTA
*
64412402 AAATTATCAAAATACCCCTA-ATTTGTA
1 AAATTACCAAAATACCCCTAGA-TTGTA
*
64412429 AAATTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAGA-TTGTA
* * *
64412456 AAATTACTAAAATA-CCCTCGACCTGTA
1 AAATTACCAAAATACCCCTAGA-TTGTA
*** *
64412483 AAATTATTGAAATA-CCCTCGACTTGTA
1 AAATTACCAAAATACCCCTAGA-TTGTA
*
64412510 AAATTACCAAAGTACCCCTA
1 AAATTACCAAAATACCCCTA
64412530 ATTTACAGAA
Statistics
Matches: 168, Mismatches: 33, Indels: 15
0.78 0.15 0.07
Matches are distributed among these distances:
25 2 0.01
26 11 0.07
27 142 0.85
28 11 0.07
29 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGATTGTA
Found at i:64412351 original size:54 final size:54
Alignment explanation
Indices: 64412287--64412472 Score: 203
Period size: 54 Copynumber: 3.4 Consensus size: 54
64412277 GAATACTTTA
* * *
64412287 GTTTACCAAATTACCAAAATACCCCTAGATTGTACAATTACTAAAGTACCCTTG
1 GTTTACCAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTG
* * * *
64412341 GTTTACCAAATCACCAAAGTATCCCTAGTTTGTAAAATTACCAAAATACCCTTG
1 GTTTACCAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTG
*** * *
64412395 GTTTGTAAAATTATCAAAATACCCCTA-ATTTGTAAAATTACCAAAATACCCCTG
1 GTTTACCAAATTACCAAAATACCCCTAGA-TTGTAAAATTACCAAAATACCCTTG
* *** *
64412449 ATTTGTGAAATTACTAAAATACCC
1 GTTTACCAAATTACCAAAATACCC
64412473 TCGACCTGTA
Statistics
Matches: 111, Mismatches: 20, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
54 111 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (54 bp):
GTTTACCAAATTACCAAAATACCCCTAGATTGTAAAATTACCAAAATACCCTTG
Found at i:64412438 original size:81 final size:82
Alignment explanation
Indices: 64412348--64412533 Score: 218
Period size: 81 Copynumber: 2.3 Consensus size: 82
64412338 TTGGTTTACC
* * * ***
64412348 AAATCACCAAAGTATCCCTAG-TTTGTAAAATTACCAAAATACCCTTGGTTTGTAAAATTATCAA
1 AAATTACCAAAGTACCCCTAGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAA
*
64412412 AATACCC-CTAATTTGTA
66 AATACCCTC-AACTTGTA
* * * **
64412429 AAATTACCAAAATACCCCT-GATTTGTGAAATTACTAAAATACCCTCGACCTGTAAAATTATTGA
1 AAATTACCAAAGTACCCCTAGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAA
*
64412493 AATACCCTCGACTTGTA
66 AATACCCTCAACTTGTA
64412510 AAATTACCAAAGTACCCCTA-ATTT
1 AAATTACCAAAGTACCCCTAGATTT
64412534 ACAGAATTAC
Statistics
Matches: 88, Mismatches: 14, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
80 1 0.01
81 86 0.98
82 1 0.01
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.31
Consensus pattern (82 bp):
AAATTACCAAAGTACCCCTAGATTTGTAAAATTACCAAAATACCCTCGACCTGTAAAATTATCAA
AATACCCTCAACTTGTA
Found at i:64412581 original size:27 final size:27
Alignment explanation
Indices: 64412509--64412582 Score: 87
Period size: 27 Copynumber: 2.7 Consensus size: 27
64412499 CTCGACTTGT
*
64412509 AAAATTACC-AAAGTACCCCTAATTTAC
1 AAAATTACCGAAA-TACCCTTAATTTAC
* ***
64412536 AGAATTACCGTTTTACCCTTAATTTAC
1 AAAATTACCGAAATACCCTTAATTTAC
64412563 AAAATTACCGAAATACCCTT
1 AAAATTACCGAAATACCCTT
64412583 CTAGGGTAGA
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.39, C:0.24, G:0.05, T:0.31
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTTAATTTAC
Found at i:64412598 original size:27 final size:27
Alignment explanation
Indices: 64412565--64412679 Score: 140
Period size: 27 Copynumber: 4.3 Consensus size: 27
64412555 TAATTTACAA
* *
64412565 AATTACCGAAATACCCTTCTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* *
64412592 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
*
64412619 AATTACTGAAATACCCCTATAGGGTAG
1 AATTACCGAAATACCCCTATAGGGTAG
* * * * *
64412646 AATTACTGAGATACCCTTATGGGGTAA
1 AATTACCGAAATACCCCTATAGGGTAG
64412673 AATTACC
1 AATTACC
64412680 ATTTTACCCC
Statistics
Matches: 77, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.36, C:0.20, G:0.19, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTATAGGGTAG
Found at i:64412970 original size:27 final size:26
Alignment explanation
Indices: 64412926--64412977 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64412916 CTCGCTGCAA
*
64412926 TCTGGTGGCCTCGCCACATATATCTGC
1 TCTGGTGACCTCGCCACA-ATATCTGC
* *
64412953 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
64412978 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.29, G:0.21, T:0.33
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGC
Found at i:64413016 original size:67 final size:67
Alignment explanation
Indices: 64412907--64413065 Score: 248
Period size: 67 Copynumber: 2.4 Consensus size: 67
64412897 GAGGAAGCGT
* * *
64412907 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCACATATATCTGC-TCTGGTGACTTCGTCACA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACAAATATCT-CTTCTGGTCACTTCGTCACA
64412971 ATA
65 ATA
* *
64412974 TCTGGCAGCCTCGCTGCAATTTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCTTCACAA
1 TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCGTCACAA
64413039 TA
66 TA
*
64413041 TCTGGCAGCCTCGCTACAATCTGGT
1 TCTGGCAGCCTCGCTGCAATCTGGT
64413066 TGCTTTGCCT
Statistics
Matches: 84, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
66 1 0.01
67 83 0.99
ACGTcount: A:0.19, C:0.31, G:0.20, T:0.30
Consensus pattern (67 bp):
TCTGGCAGCCTCGCTGCAATCTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCGTCACAA
TA
Found at i:64413112 original size:26 final size:27
Alignment explanation
Indices: 64413083--64413142 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
64413073 CCTTATATAT
*
64413083 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
64413109 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
64413136 ATATCTG
1 ATATCTG
64413143 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:64413179 original size:98 final size:98
Alignment explanation
Indices: 64412995--64413180 Score: 248
Period size: 98 Copynumber: 1.9 Consensus size: 98
64412985 CGCTGCAATT
* *
64412995 TGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCTTCACAATATCTGGCAGCCTCGCTACAA
1 TGGTAGCCTAGCCACAAATATCTCTTCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTACAA
* * * **
64413060 TCTGGTTGCTTTGCCTTATATATATATCTGTTC
66 TCTGGTAGCCTCGCCACATATATATATCTGTTC
* * * *
64413093 TGGTGGCCTAGCCAC-AATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCA
1 TGGTAGCCTAGCCACAAATATCTCT-TCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTACA
*
64413157 ATTTGGTAGCCTCGCCACATATAT
65 ATCTGGTAGCCTCGCCACATATAT
64413181 CTCTTCTGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
97 8 0.11
98 67 0.89
ACGTcount: A:0.21, C:0.27, G:0.18, T:0.33
Consensus pattern (98 bp):
TGGTAGCCTAGCCACAAATATCTCTTCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTACAA
TCTGGTAGCCTCGCCACATATATATATCTGTTC
Found at i:64413204 original size:67 final size:68
Alignment explanation
Indices: 64413091--64413247 Score: 228
Period size: 67 Copynumber: 2.3 Consensus size: 68
64413081 ATATATCTGT
* * *
64413091 TCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTG
1 TCTGGTGGCCTAGCCACATATATCTCTATCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTA
64413155 CAA
66 CAA
* * *
64413158 TTTGGTAGCCTCGCCACATATATCTCT-TCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTA
1 TCTGGTGGCCTAGCCACATATATCTCTATCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTA
64413222 CAA
66 CAA
* *
64413225 TCTGGTGGCTTTGCCACATATAT
1 TCTGGTGGCCTAGCCACATATAT
64413248 ATATCTGTTC
Statistics
Matches: 79, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
67 72 0.91
68 7 0.09
ACGTcount: A:0.20, C:0.29, G:0.20, T:0.31
Consensus pattern (68 bp):
TCTGGTGGCCTAGCCACATATATCTCTATCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCTA
CAA
Found at i:64413204 original size:165 final size:165
Alignment explanation
Indices: 64412926--64413318 Score: 707
Period size: 165 Copynumber: 2.4 Consensus size: 165
64412916 CTCGCTGCAA
* *
64412926 TCTGGTGGCCTCGCCACATATATCTG-CTCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTG
1 TCTGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTG
*
64412990 CAATTTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCTTCACAATATCTGGCAGCCTCGC
65 CAATTTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCGTCACAATATCTGGCAGCCTCGC
* **
64413055 TACAATCTGGTTGCTTTGCCTTATATATATATCTGT
130 TACAATCTGGTGGCTTTGCCACATATATATATCTGT
64413091 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
*
64413156 AATTTGGTAGCCTCGCCACATATATCTCTTCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCT
66 AATTTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCT
64413221 ACAATCTGGTGGCTTTGCCACATATATATATCTGT
131 ACAATCTGGTGGCTTTGCCACATATATATATCTGT
64413256 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCT
1 TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCT
64413319 ACAAATTCTA
Statistics
Matches: 220, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
164 7 0.03
165 213 0.97
ACGTcount: A:0.20, C:0.28, G:0.19, T:0.33
Consensus pattern (165 bp):
TCTGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGC
AATTTGGTAGCCTCGCCACAAATATCTCTTCTGGTCACTTCGTCACAATATCTGGCAGCCTCGCT
ACAATCTGGTGGCTTTGCCACATATATATATCTGT
Found at i:64413277 original size:26 final size:27
Alignment explanation
Indices: 64413248--64413307 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
64413238 CCACATATAT
*
64413248 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
64413274 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
64413301 ATATCTG
1 ATATCTG
64413308 GCAGCCTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:64413435 original size:6 final size:6
Alignment explanation
Indices: 64413426--64413547 Score: 88
Period size: 6 Copynumber: 19.8 Consensus size: 6
64413416 TTGCATTCAC
* *
64413426 ATTCTG ATTCTG ATTCT- ATTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * * *
64413476 ATTCTG ATTCTG ATTTTG ATTTTG ATCCTG -TCACCTG ATTCTG ATTATG
1 ATTCTG ATTCTG ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG
* *
64413525 ATTCTG ATTCTC ATTTTG ATTCT
1 ATTCTG ATTCTG ATTCTG ATTCT
64413548 AGTTCCGATA
Statistics
Matches: 93, Mismatches: 14, Indels: 18
0.74 0.11 0.14
Matches are distributed among these distances:
5 6 0.06
6 74 0.80
7 8 0.09
8 5 0.05
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:64413457 original size:25 final size:25
Alignment explanation
Indices: 64413429--64413490 Score: 97
Period size: 25 Copynumber: 2.5 Consensus size: 25
64413419 CATTCACATT
*
64413429 CTGATTCTGATTCTATTACCTGATA
1 CTGATTCTGATTCTATTACCTAATA
* *
64413454 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTATTACCTAATA
64413479 CTGATTCTGATT
1 CTGATTCTGATT
64413491 TTGATTTTGA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (25 bp):
CTGATTCTGATTCTATTACCTAATA
Found at i:64413461 original size:31 final size:31
Alignment explanation
Indices: 64413426--64413535 Score: 109
Period size: 31 Copynumber: 3.5 Consensus size: 31
64413416 TTGCATTCAC
*
64413426 ATTCTGATTCTGATTCTATTACCTGATACTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
64413457 ATTCTGATTCTG-TTACCTAATT--CTGATTCTG
1 ATTCTGATTCTGATT--CT-ATTACCTGATTCTG
* * * * *
64413488 ATTTTGATTTTGATCCTGTCACCTGATTCTG
1 ATTCTGATTCTGATTCTATTACCTGATTCTG
*
64413519 ATTATGATTCTGATTCT
1 ATTCTGATTCTGATTCT
64413536 CATTTTGATT
Statistics
Matches: 64, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
29 1 0.02
30 4 0.06
31 53 0.83
32 3 0.05
33 3 0.05
ACGTcount: A:0.20, C:0.18, G:0.14, T:0.48
Consensus pattern (31 bp):
ATTCTGATTCTGATTCTATTACCTGATTCTG
Found at i:64413489 original size:37 final size:37
Alignment explanation
Indices: 64413448--64413535 Score: 113
Period size: 37 Copynumber: 2.4 Consensus size: 37
64413438 ATTCTATTAC
* * *
64413448 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTCTGATCCTGTCACCTAATTCTGATT
* * *
64413485 CTGATTTTGATTTTGATCCTGTCACCTGATTCTGATT
1 CTGATTCTGATTCTGATCCTGTCACCTAATTCTGATT
*
64413522 ATGATTCTGATTCT
1 CTGATTCTGATTCT
64413536 CATTTTGATT
Statistics
Matches: 42, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 42 1.00
ACGTcount: A:0.19, C:0.18, G:0.15, T:0.48
Consensus pattern (37 bp):
CTGATTCTGATTCTGATCCTGTCACCTAATTCTGATT
Found at i:64427154 original size:17 final size:16
Alignment explanation
Indices: 64427123--64427156 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
64427113 TTCATCCACC
64427123 GAAAACAAAAACAAAA
1 GAAAACAAAAACAAAA
*
64427139 GAAAAGAAACAACAAAA
1 GAAAACAAA-AACAAAA
64427156 G
1 G
64427157 CTAGGTTCAG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (16 bp):
GAAAACAAAAACAAAA
Found at i:64428565 original size:15 final size:15
Alignment explanation
Indices: 64428545--64428574 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
64428535 CATTTAAATG
*
64428545 TATGTAACGCCCTAA
1 TATGTAACACCCTAA
64428560 TATGTAACACCCTAA
1 TATGTAACACCCTAA
64428575 AAATAGGGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.37, C:0.27, G:0.10, T:0.27
Consensus pattern (15 bp):
TATGTAACACCCTAA
Found at i:64430850 original size:33 final size:33
Alignment explanation
Indices: 64430808--64430887 Score: 124
Period size: 33 Copynumber: 2.4 Consensus size: 33
64430798 TGCATTATGC
* *
64430808 ACTGTACTGATACTAAATAGGGCTTTGGCCTAG
1 ACTGTACTGATACTAAATAGGGCTTCGGCCCAG
* *
64430841 ACTGTACTGATATTGAATAGGGCTTCGGCCCAG
1 ACTGTACTGATACTAAATAGGGCTTCGGCCCAG
64430874 ACTGTACTGATACT
1 ACTGTACTGATACT
64430888 GTGTTGATCA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 42 1.00
ACGTcount: A:0.26, C:0.20, G:0.24, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATACTAAATAGGGCTTCGGCCCAG
Found at i:64437718 original size:36 final size:36
Alignment explanation
Indices: 64437671--64437740 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
64437661 ATTGTTGGGA
*
64437671 ATTGGTGAGTACGTCGTTAGGGGTTAACCCAAGCGT
1 ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGCGT
*
64437707 ATTGGTGAGTACGTAGTTGGGGGTTAACCCAAGC
1 ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGC
64437741 ATTGGAGAAC
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.23, C:0.16, G:0.34, T:0.27
Consensus pattern (36 bp):
ATTGGTGAGTACGTAGTTAGGGGTTAACCCAAGCGT
Found at i:64438817 original size:33 final size:33
Alignment explanation
Indices: 64438737--64438817 Score: 117
Period size: 33 Copynumber: 2.5 Consensus size: 33
64438727 TTCATTATGC
* * * *
64438737 ACTGTACTAATACTAAATAGGGCTTTGGCCTAG
1 ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
*
64438770 ACTGTACTGATACTGAATAGGGCTTCGGCCCAT
1 ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
64438803 ACTGTACTGATACTG
1 ACTGTACTGATACTG
64438818 TGTTGATCAC
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTTCGGCCCAG
Found at i:64442165 original size:20 final size:21
Alignment explanation
Indices: 64442140--64442181 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
64442130 TTCTGAACTG
* *
64442140 TATGATGAT-AGCGTATGAAA
1 TATGATAATGAGCATATGAAA
64442160 TATGATAATGAGCATATGAAA
1 TATGATAATGAGCATATGAAA
64442181 T
1 T
64442182 GTATAATCTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.43, C:0.05, G:0.21, T:0.31
Consensus pattern (21 bp):
TATGATAATGAGCATATGAAA
Found at i:64446574 original size:19 final size:19
Alignment explanation
Indices: 64446550--64446596 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
64446540 ATTGTTTGAG
64446550 ATTCAGAGATAGACTCTGT
1 ATTCAGAGATAGACTCTGT
64446569 ATTCAGAGATAGACTCTGT
1 ATTCAGAGATAGACTCTGT
*
64446588 ATTCCGAGA
1 ATTCAGAGA
64446597 AATCCAGAGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (19 bp):
ATTCAGAGATAGACTCTGT
Found at i:64449056 original size:93 final size:94
Alignment explanation
Indices: 64448948--64449161 Score: 306
Period size: 93 Copynumber: 2.3 Consensus size: 94
64448938 CTCCATAAGT
* ** * *
64448948 GAACTCGAACTCAACTCAACAAGTTCGGGA-GTTCAAATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAATGAGTTCGGGACATCCAAATCCATAAGTGAACTCAGACTCAACTCA
*
64449012 ACGAGTTCAGATTCCTAGTTACATCTCAC
66 ACGAGTTCAGATGCCTAGTTACATCTCAC
* * **
64449041 GAACTCGGACTCAACTCAATGAGCTC-AGACATCCGCATCCATAAGTGAACTCAGACTCAACTCA
1 GAACTCGGACTCAACTCAATGAGTTCGGGACATCCAAATCCATAAGTGAACTCAGACTCAACTCA
* *
64449105 ACGAGTTCGGATGCCTAGTTACATCTCAT
66 ACGAGTTCAGATGCCTAGTTACATCTCAC
64449134 GAACTCGGACTCAACTCAATGAGTTCGG
1 GAACTCGGACTCAACTCAATGAGTTCGG
64449162 ATGCCCAAAT
Statistics
Matches: 105, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
92 2 0.02
93 103 0.98
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (94 bp):
GAACTCGGACTCAACTCAATGAGTTCGGGACATCCAAATCCATAAGTGAACTCAGACTCAACTCA
ACGAGTTCAGATGCCTAGTTACATCTCAC
Found at i:64449058 original size:47 final size:47
Alignment explanation
Indices: 64448993--64449159 Score: 173
Period size: 47 Copynumber: 3.6 Consensus size: 47
64448983 AATCCATAAG
64448993 TGAACTCAGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCA
1 TGAACTCAGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCA
* * * * * *
64449040 CGAACTCGGACTCAACTCAATGAGCTCAGACATCC--G---CATCCATAA
1 TGAACTCAGACTCAACTCAACGAGTTCAGA-TTCCTAGTTACAT-C-TCA
* *
64449085 GTGAACTCAGACTCAACTCAACGAGTTCGGATGCCTAGTTACATCTCA
1 -TGAACTCAGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCA
* *
64449133 TGAACTCGGACTCAACTCAATGAGTTC
1 TGAACTCAGACTCAACTCAACGAGTTC
64449160 GGATGCCCAA
Statistics
Matches: 95, Mismatches: 16, Indels: 18
0.74 0.12 0.14
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 4 0.04
46 26 0.27
47 52 0.55
48 5 0.05
49 1 0.01
50 3 0.03
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (47 bp):
TGAACTCAGACTCAACTCAACGAGTTCAGATTCCTAGTTACATCTCA
Found at i:64454386 original size:27 final size:27
Alignment explanation
Indices: 64454310--64454386 Score: 109
Period size: 27 Copynumber: 2.9 Consensus size: 27
64454300 AAACATACAT
*
64454310 CACATAAGGGCAAAATAGTCATCTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
*
64454337 CATATAAGGGCAAAATAGTCATTTTAC
1 CACATAAGGGCAAAATAGTCATTTTAC
* * *
64454364 CACATAAAGGAAAAATGGTCATT
1 CACATAAGGGCAAAATAGTCATT
64454387 ATATTAATTT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 44 1.00
ACGTcount: A:0.43, C:0.17, G:0.16, T:0.25
Consensus pattern (27 bp):
CACATAAGGGCAAAATAGTCATTTTAC
Found at i:64457850 original size:41 final size:40
Alignment explanation
Indices: 64457746--64457939 Score: 284
Period size: 40 Copynumber: 4.8 Consensus size: 40
64457736 TTATTTGATG
*
64457746 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGCGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
64457786 TGGAATCGTATCCGGGCTTAAAGACCCGTAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
64457826 TGGAAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGG-AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* *
64457867 TGGAATTGTATCCGGGCTTAAAGACCCGTAGGCTTCATGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
64457907 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCT
64457940 GTGCTAGATA
Statistics
Matches: 141, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
39 16 0.11
40 87 0.62
41 38 0.27
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:64457884 original size:81 final size:81
Alignment explanation
Indices: 64457749--64457911 Score: 299
Period size: 81 Copynumber: 2.0 Consensus size: 81
64457739 TTTGATGTGG
64457749 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGCGCTGGAATCGTATCCGGGCTTAAAGACCCG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGCGCTGGAATCGTATCCGGGCTTAAAGACCCG
*
64457814 TAGGCTTCGTGCTGGA
66 TAGGCTTCATGCTGGA
* *
64457830 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGAATTGTATCCGGGCTTAAAGACCCG
1 AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGCGCTGGAATCGTATCCGGGCTTAAAGACCCG
64457895 TAGGCTTCATGCTGGA
66 TAGGCTTCATGCTGGA
64457911 A
1 A
64457912 TGACATCCGG
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.25
Consensus pattern (81 bp):
AATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGCGCTGGAATCGTATCCGGGCTTAAAGACCCG
TAGGCTTCATGCTGGA
Found at i:64461718 original size:28 final size:28
Alignment explanation
Indices: 64461686--64461750 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
64461676 ATTTACTAGA
*
64461686 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
64461714 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
64461742 ATACCCCTA
1 ATACCCCTA
64461751 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:64461897 original size:28 final size:27
Alignment explanation
Indices: 64461856--64461945 Score: 101
Period size: 27 Copynumber: 3.2 Consensus size: 27
64461846 AGGAAGCGTC
64461856 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAA-TATCTGTT
* ***
64461884 CTGGTGGCCCTGCCATGTATATCTGTT
1 CTGGTGGCACTGCCACAAATATCTGTT
64461911 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCAC-AAATATCTGT-T
64461940 CTGGTG
1 CTGGTG
64461946 ACTCTGTCAC
Statistics
Matches: 51, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
27 22 0.43
28 22 0.43
29 7 0.14
ACGTcount: A:0.19, C:0.23, G:0.24, T:0.33
Consensus pattern (27 bp):
CTGGTGGCACTGCCACAAATATCTGTT
Found at i:64461956 original size:29 final size:28
Alignment explanation
Indices: 64461866--64461956 Score: 85
Period size: 27 Copynumber: 3.2 Consensus size: 28
64461856 CTGGTGGCTA
* * *
64461866 TGCCACAAATTATCTGTTCTGGTGGCCC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*** *
64461894 TGCCA-TGTATATCTGTTCTGGTGGCAC
1 TGCCACAAAATATCTGTTCTGGTGACAC
*
64461921 TGCCACAAAATATCTGTATCTGGTGACTC
1 TGCCACAAAATATCTGT-TCTGGTGACAC
*
64461950 TGTCACA
1 TGCCACA
64461957 TTTTCTGTAT
Statistics
Matches: 50, Mismatches: 11, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
27 22 0.44
28 13 0.26
29 15 0.30
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (28 bp):
TGCCACAAAATATCTGTTCTGGTGACAC
Found at i:64462433 original size:19 final size:19
Alignment explanation
Indices: 64462409--64462447 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
64462399 TTTTAATTAT
* *
64462409 TTTTATGGTTTTGTTTTAC
1 TTTTATGATTTTATTTTAC
*
64462428 TTTTATTATTTTATTTTAC
1 TTTTATGATTTTATTTTAC
64462447 T
1 T
64462448 ATGATGAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.15, C:0.05, G:0.08, T:0.72
Consensus pattern (19 bp):
TTTTATGATTTTATTTTAC
Found at i:64470590 original size:60 final size:60
Alignment explanation
Indices: 64470517--64470637 Score: 233
Period size: 60 Copynumber: 2.0 Consensus size: 60
64470507 TGTTTGGAAT
*
64470517 TTTTGTTTTTGTTCAGTAATGCCTTGTAACCCTAGTCCGGCGACGGATACGAGTTAGGGG
1 TTTTGTTTTTGTTCAGTAATGCCTCGTAACCCTAGTCCGGCGACGGATACGAGTTAGGGG
64470577 TTTTGTTTTTGTTCAGTAATGCCTCGTAACCCTAGTCCGGCGACGGATACGAGTTAGGGG
1 TTTTGTTTTTGTTCAGTAATGCCTCGTAACCCTAGTCCGGCGACGGATACGAGTTAGGGG
64470637 T
1 T
64470638 GTTACCTTTG
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 60 1.00
ACGTcount: A:0.18, C:0.19, G:0.28, T:0.35
Consensus pattern (60 bp):
TTTTGTTTTTGTTCAGTAATGCCTCGTAACCCTAGTCCGGCGACGGATACGAGTTAGGGG
Found at i:64472236 original size:20 final size:20
Alignment explanation
Indices: 64472211--64472266 Score: 96
Period size: 20 Copynumber: 2.8 Consensus size: 20
64472201 AAGCTTATGC
64472211 TAAGTAAATGGAATGGAAAG
1 TAAGTAAATGGAATGGAAAG
64472231 TAAGTAAAT-GAAGTGGAAAG
1 TAAGTAAATGGAA-TGGAAAG
64472251 TAAGTAAATGGAATGG
1 TAAGTAAATGGAATGG
64472267 TTCATCATCA
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.09
20 28 0.82
21 3 0.09
ACGTcount: A:0.48, C:0.00, G:0.30, T:0.21
Consensus pattern (20 bp):
TAAGTAAATGGAATGGAAAG
Found at i:64474352 original size:31 final size:31
Alignment explanation
Indices: 64474314--64474378 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
64474304 CACATTTTAT
64474314 ACATACCGAATAGGTACCTATACCATTCACA
1 ACATACCGAATAGGTACCTATACCATTCACA
64474345 ACATACCGAATAGGTACCTATACCATTCACA
1 ACATACCGAATAGGTACCTATACCATTCACA
64474376 ACA
1 ACA
64474379 CGGTTATACT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.40, C:0.29, G:0.09, T:0.22
Consensus pattern (31 bp):
ACATACCGAATAGGTACCTATACCATTCACA
Found at i:64474564 original size:46 final size:44
Alignment explanation
Indices: 64474481--64474739 Score: 227
Period size: 46 Copynumber: 5.7 Consensus size: 44
64474471 GTAAAGTGCT
* * *
64474481 GATGCCATGTCCCAGACAAGGTCTTACACTGAC-ACATTTCATAGCC
1 GATG-CATGTCCCAAAC-ATGTCTTACACTAACTACATTTCA-AGCC
* * **
64474527 GATGCATGTCTCATACATGTCTTACACTAACTTACATTTCAAGGTT
1 GATGCATGTCCCAAACATGTCTTACACTAAC-TACATTTCAA-GCC
* * *
64474573 GATGCATGTCCCAAACATGTCATACACTAGCACT-CGTCTCAATGCC
1 GATGCATGTCCCAAACATGTCTTACACTA--ACTACATTTCAA-GCC
* * *
64474619 GATGCCATATCCCAGACATGGTCTTACACTGAC-ACATTTCATAGCC
1 GATG-CATGTCCCAAACAT-GTCTTACACTAACTACATTTCA-AGCC
* * * *
64474665 GATGCATGTCCCAGACATGTCTTACACTGACTTACATCTTGAGGCC
1 GATGCATGTCCCAAACATGTCTTACACTAAC-TACAT-TTCAAGCC
64474711 GATGCATGTCCCAAACATGTCTTACACTA
1 GATGCATGTCCCAAACATGTCTTACACTA
64474740 GCATTCGACT
Statistics
Matches: 176, Mismatches: 25, Indels: 24
0.78 0.11 0.11
Matches are distributed among these distances:
44 26 0.15
45 24 0.14
46 98 0.56
47 17 0.10
48 11 0.06
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (44 bp):
GATGCATGTCCCAAACATGTCTTACACTAACTACATTTCAAGCC
Found at i:64474729 original size:138 final size:138
Alignment explanation
Indices: 64474481--64474833 Score: 476
Period size: 138 Copynumber: 2.5 Consensus size: 138
64474471 GTAAAGTGCT
* * *
64474481 GATGCCATGTCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCTCATACATG
1 GATGCCATATCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAAACATG
** *
64474546 TCTTACACTAACTTACATTTCAAGGTTGATGCATGTCCCAAACATGTCATACACTAGCACTCGTC
66 TCTTACACTAACTTACATTTCAAGGCCGATGCATGTCCCAAACATGTCATACACTAGCACTCGAC
64474611 TCAATGCC
131 TCAATGCC
* *
64474619 GATGCCATATCCCAGACATGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAGACATG
1 GATGCCATATCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAAACATG
* * * *
64474684 TCTTACACTGACTTACATCTT-GAGGCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCGA
66 TCTTACACTAACTTACAT-TTCAAGGCCGATGCATGTCCCAAACATGTCATACACTAGCACTCGA
*
64474748 CTCAATGTC
130 CTCAATGCC
* * * * * * *
64474757 GATGTCATATCCCAGACACGGTCTTACACTGGTTCTCATAAT-ATGGCCGATGCATATCCCAAAC
1 GATGCCATATCCCAGACAAGGTCTTACACT-G-ACACAT-TTCATAGCCGATGCATGTCCCAAAC
64474821 ATGTCTTACACTA
63 ATGTCTTACACTA
64474834 GCTCACACAA
Statistics
Matches: 190, Mismatches: 21, Indels: 6
0.88 0.10 0.03
Matches are distributed among these distances:
138 151 0.79
139 3 0.02
140 35 0.18
141 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (138 bp):
GATGCCATATCCCAGACAAGGTCTTACACTGACACATTTCATAGCCGATGCATGTCCCAAACATG
TCTTACACTAACTTACATTTCAAGGCCGATGCATGTCCCAAACATGTCATACACTAGCACTCGAC
TCAATGCC
Found at i:64474760 original size:46 final size:46
Alignment explanation
Indices: 64474524--64474835 Score: 214
Period size: 46 Copynumber: 6.7 Consensus size: 46
64474514 ACATTTCATA
* * * * *
64474524 GCCGATGCATGTCTCATACATGTCTTACACTAAC-TTACATTTCAAG
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCATT-CATCTCAAT
** * * *
64474570 GTTGATGCATGTCCCAAACATGTCATACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCATCTCAAT
* * *
64474616 GCCGATGCCATATCCCAGACATGGTCTTACACT-GACA--CATTTC-AT
1 GCCGATG-CATGTCCCAAACAT-GTCTTACACTAG-CATTCATCTCAAT
* ** *
64474661 AGCCGATGCATGTCCCAGACATGTCTTACACT-G-ACTTACATCTTGAG
1 -GCCGATGCATGTCCCAAACATGTCTTACACTAGCA-TT-CATCTCAAT
64474708 GCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCGA-CTCAAT
1 GCCGATGCATGTCCCAAACATGTCTTACACTAGCATTC-ATCTCAAT
* * * * * *
64474754 GTCGATGTCATATCCCAGACACGGTCTTACACT-G-GTTC-TCATAATAT
1 GCCGATG-CATGTCCCAAACA-TGTCTTACACTAGCATTCATC-TCA-AT
*
64474801 GGCCGATGCATATCCCAAACATGTCTTACACTAGC
1 -GCCGATGCATGTCCCAAACATGTCTTACACTAGC
64474836 TCACACAAGT
Statistics
Matches: 211, Mismatches: 34, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
42 1 0.00
44 11 0.05
45 16 0.08
46 109 0.52
47 46 0.22
48 28 0.13
ACGTcount: A:0.27, C:0.29, G:0.16, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAAACATGTCTTACACTAGCATTCATCTCAAT
Found at i:64474760 original size:92 final size:92
Alignment explanation
Indices: 64474481--64474835 Score: 270
Period size: 92 Copynumber: 3.8 Consensus size: 92
64474471 GTAAAGTGCT
* * * *
64474481 GATGCCATGTCCCAGACAAGGTCTTACACTGAC-ACAT-TTCATAGCCGATGCATGTCTCATACA
1 GATGCCATGTCCCAGAC-AGGTCTTACACTGACTACATCTT-ATGGCCGATGCATATCCCAAACA
* * *
64474544 TGTCTTACACTAAC-TTACATTTCAAGGTT
64 TGTCTTACACTAGCATT-CATTTCAATGTC
* * * * * *
64474573 GATG-CATGTCCCAAACATGTCATACACTAGCACT-CGTCTCAAT-GCCGATGCCATATCCCAGA
1 GATGCCATGTCCCAGACAGGTCTTACACT-G-ACTACATCT-TATGGCCGATG-CATATCCCAAA
*
64474635 CATGGTCTTACACT-GACA--CATTTC-ATAGCC
62 CAT-GTCTTACACTAG-CATTCATTTCAAT-GTC
* *
64474665 GATG-CATGTCCCAGACATGTCTTACACTGACTTACATCTTGA-GGCCGATGCATGTCCCAAACA
1 GATGCCATGTCCCAGACAGGTCTTACACTGAC-TACATCTT-ATGGCCGATGCATATCCCAAACA
*
64474728 TGTCTTACACTAGCATTCGA-CTCAATGTC
64 TGTCTTACACTAGCATTC-ATTTCAATGTC
* * * **
64474757 GATGTCATATCCCAGACACGGTCTTACACTGGTTCT-CATAATATGGCCGATGCATATCCCAAAC
1 GATGCCATGTCCCAGACA-GGTCTTACACT-G-ACTACATCTTATGGCCGATGCATATCCCAAAC
64474821 ATGTCTTACACTAGC
63 ATGTCTTACACTAGC
64474836 TCACACAAGT
Statistics
Matches: 213, Mismatches: 26, Indels: 46
0.75 0.09 0.16
Matches are distributed among these distances:
90 24 0.11
91 28 0.13
92 69 0.32
93 30 0.14
94 59 0.28
95 2 0.01
96 1 0.00
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (92 bp):
GATGCCATGTCCCAGACAGGTCTTACACTGACTACATCTTATGGCCGATGCATATCCCAAACATG
TCTTACACTAGCATTCATTTCAATGTC
Found at i:64480637 original size:21 final size:20
Alignment explanation
Indices: 64480606--64480644 Score: 69
Period size: 21 Copynumber: 1.9 Consensus size: 20
64480596 TCTTTGAAAT
64480606 AGGGCACACGCCTGTGTGGA
1 AGGGCACACGCCTGTGTGGA
64480626 AGGGCAACACGCCTGTGTG
1 AGGGC-ACACGCCTGTGTG
64480645 ACCAATTCGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.21, C:0.26, G:0.38, T:0.15
Consensus pattern (20 bp):
AGGGCACACGCCTGTGTGGA
Found at i:64481555 original size:12 final size:12
Alignment explanation
Indices: 64481538--64481566 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
64481528 TGCAAATAAT
64481538 TAAATTCAATTA
1 TAAATTCAATTA
64481550 TAAATTCAATTA
1 TAAATTCAATTA
64481562 TAAAT
1 TAAAT
64481567 CGATCAATCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
TAAATTCAATTA
Found at i:64482062 original size:43 final size:43
Alignment explanation
Indices: 64482010--64482215 Score: 324
Period size: 43 Copynumber: 4.8 Consensus size: 43
64482000 CCTGCATTAC
64482010 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
* * * *
64482053 GCCTGCTAGGCTTGAAGCCAGATATTAACTCACTGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
* *
64482096 GCCTACTAGGCTCGAAACCCGATATTAACTCACC-AGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGA-CATTATA
* *
64482139 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACAGGCATTATA
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
64482182 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACC
1 GCCTGCTAGGCTCGAAGCCCGATATTAACTCACC
64482216 AAGTTCCATA
Statistics
Matches: 146, Mismatches: 15, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
43 146 1.00
ACGTcount: A:0.28, C:0.29, G:0.19, T:0.24
Consensus pattern (43 bp):
GCCTGCTAGGCTCGAAGCCCGATATTAACTCACCGACATTATA
Found at i:64488881 original size:33 final size:33
Alignment explanation
Indices: 64488844--64488917 Score: 78
Period size: 33 Copynumber: 2.2 Consensus size: 33
64488834 TTAGCCCCTC
*
64488844 TTTCAGTAGC-GAAGCAATCTGGGCCTGAGCCCA
1 TTTCAGTAACAGAAGCAATCTGGG-CTGAGCCCA
* * * *
64488877 TTTCAATAACAGTAGCAGTCTGGGCTTAGCCCA
1 TTTCAGTAACAGAAGCAATCTGGGCTGAGCCCA
*
64488910 TTTTAGTA
1 TTTCAGTA
64488918 CAGTATGCAA
Statistics
Matches: 33, Mismatches: 7, Indels: 2
0.79 0.17 0.05
Matches are distributed among these distances:
33 22 0.67
34 11 0.33
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (33 bp):
TTTCAGTAACAGAAGCAATCTGGGCTGAGCCCA
Found at i:64492523 original size:28 final size:28
Alignment explanation
Indices: 64492492--64492626 Score: 121
Period size: 28 Copynumber: 4.8 Consensus size: 28
64492482 TACATATATG
*
64492492 TATATGGCCCA-CTTGGCCCAATCTCATT
1 TATATGGCCCATC-AGGCCCAATCTCATT
*
64492520 TATATGGCCCATCAGGCCCAGT-TCATAT
1 TATATGGCCCATCAGGCCCAATCTCAT-T
* * * *
64492548 TCTTATGGCCTATCAGGCCCAAATCACTTT
1 T-ATATGGCCCATCAGGCCC-AATCTCATT
* ** *
64492578 TGTGGGGCCCATTAGGCCCAATCTCATT
1 TATATGGCCCATCAGGCCCAATCTCATT
*
64492606 TATATGGCCCATCCGGCCCAA
1 TATATGGCCCATCAGGCCCAA
64492627 ATCACATTAC
Statistics
Matches: 83, Mismatches: 19, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
27 4 0.05
28 43 0.52
29 30 0.36
30 4 0.05
31 2 0.02
ACGTcount: A:0.22, C:0.31, G:0.18, T:0.29
Consensus pattern (28 bp):
TATATGGCCCATCAGGCCCAATCTCATT
Found at i:64494900 original size:30 final size:30
Alignment explanation
Indices: 64494864--64494924 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
64494854 GCTCTCCCTA
64494864 GATCCAATCCTAGACATGCACACACCCGTT
1 GATCCAATCCTAGACATGCACACACCCGTT
64494894 GATCCAATCCTAGACATGCACACACCCGTT
1 GATCCAATCCTAGACATGCACACACCCGTT
64494924 G
1 G
64494925 CCACACCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.30, C:0.36, G:0.15, T:0.20
Consensus pattern (30 bp):
GATCCAATCCTAGACATGCACACACCCGTT
Found at i:64495110 original size:29 final size:29
Alignment explanation
Indices: 64495021--64495165 Score: 122
Period size: 28 Copynumber: 5.1 Consensus size: 29
64495011 ACATACATGC
* *
64495021 ATATGGCCCACTTA-GCCC-AATCTCATTT
1 ATATGGCCCA-TCAGGCCCAAATCACATTT
* * * *
64495049 ATATGGCCTATCA-GCCCAATTTATATTCT
1 ATATGGCCCATCAGGCCCAAATCACATT-T
*
64495078 -TATGGCCCATCAGGCCCAAATCACCTTT
1 ATATGGCCCATCAGGCCCAAATCACATTT
* * *
64495106 GTATGGCCCATTAGGCCC-AATCTCATTT
1 ATATGGCCCATCAGGCCCAAATCACATTT
* *
64495134 ATATGGCCCATCCGGCTCAAATCACA-TT
1 ATATGGCCCATCAGGCCCAAATCACATTT
64495162 ATAT
1 ATAT
64495166 TCAAGCTCAC
Statistics
Matches: 93, Mismatches: 19, Indels: 10
0.76 0.16 0.08
Matches are distributed among these distances:
27 6 0.06
28 54 0.58
29 33 0.35
ACGTcount: A:0.26, C:0.30, G:0.13, T:0.31
Consensus pattern (29 bp):
ATATGGCCCATCAGGCCCAAATCACATTT
Found at i:64495418 original size:16 final size:17
Alignment explanation
Indices: 64495380--64495419 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
64495370 AGCCAAACTT
*
64495380 TAGCTTTTCGGCATTTC
1 TAGCTTTTCAGCATTTC
64495397 TA-CTTTTCAGCATTTC
1 TAGCTTTTCAGCATTTC
64495413 -AGCTTTT
1 TAGCTTTT
64495420 GCCGATCTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 18 0.86
17 2 0.10
ACGTcount: A:0.15, C:0.23, G:0.12, T:0.50
Consensus pattern (17 bp):
TAGCTTTTCAGCATTTC
Found at i:64498664 original size:104 final size:103
Alignment explanation
Indices: 64498433--64498698 Score: 444
Period size: 104 Copynumber: 2.6 Consensus size: 103
64498423 TTGTATATAA
** *
64498433 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCG-TGATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
64498497 TTGAAATGTAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
64498536 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
64498601 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGT-AAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
64498640 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCA
64498699 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
103 67 0.44
104 86 0.56
ACGTcount: A:0.18, C:0.21, G:0.30, T:0.30
Consensus pattern (103 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGATATCCACCATATCTT
TGAAATGTAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:64506047 original size:104 final size:104
Alignment explanation
Indices: 64505912--64506178 Score: 455
Period size: 104 Copynumber: 2.6 Consensus size: 104
64505902 TTGTATATAA
** *
64505912 AGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
64505977 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
66 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
*
64506016 AGGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCT
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCT
64506080 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
65 TTGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
** *
64506120 AGGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
64506179 ATAACGGTTA
Statistics
Matches: 153, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
104 152 0.99
105 1 0.01
ACGTcount: A:0.18, C:0.21, G:0.31, T:0.30
Consensus pattern (104 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTT
TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:64508003 original size:25 final size:25
Alignment explanation
Indices: 64507974--64508021 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
64507964 TTATAACATG
* *
64507974 AAAATGACTATTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
64507999 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
64508022 GTTTAATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.33, C:0.23, G:0.15, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:64508109 original size:18 final size:19
Alignment explanation
Indices: 64508072--64508109 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
64508062 GATTTGATAC
64508072 GATATGCACATGTTATGTAT
1 GATATGCACATG-TATGTAT
64508092 GATATGCACATG-ATGTAT
1 GATATGCACATGTATGTAT
64508110 TCATTTATGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 6 0.33
20 12 0.67
ACGTcount: A:0.32, C:0.11, G:0.21, T:0.37
Consensus pattern (19 bp):
GATATGCACATGTATGTAT
Found at i:64508206 original size:26 final size:25
Alignment explanation
Indices: 64508152--64508222 Score: 97
Period size: 26 Copynumber: 2.8 Consensus size: 25
64508142 GAGGAAGTGC
* *
64508152 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTACCCCAGTTTACCA
* *
64508177 AAAAGGGCTTTTTCCCCAGTTTATCA
1 AAAAGGGC-TTTACCCCAGTTTACCA
64508203 AAAAGGGCTTTACCCCAGTT
1 AAAAGGGCTTTACCCCAGTT
64508223 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
25 19 0.46
26 22 0.54
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (25 bp):
AAAAGGGCTTTACCCCAGTTTACCA
Found at i:64508235 original size:24 final size:25
Alignment explanation
Indices: 64508151--64508235 Score: 79
Period size: 25 Copynumber: 3.4 Consensus size: 25
64508141 GGAGGAAGTG
* *
64508151 CAAAAG-GGCTTTGCCCCAGTTTAC
1 CAAAAGAGGCTTTACCCCAGTTTAT
*
64508175 CGAAAAG-GGCTTTTTCCCCAGTTTAT
1 C-AAAAGAGGC-TTTACCCCAGTTTAT
64508201 CAAAA-AGGGCTTTACCCCAG-TTAT
1 CAAAAGA-GGCTTTACCCCAGTTTAT
*
64508225 TAAAAGAGGCT
1 CAAAAGAGGCT
64508236 AGGCCTCCAG
Statistics
Matches: 52, Mismatches: 4, Indels: 10
0.79 0.06 0.15
Matches are distributed among these distances:
24 13 0.25
25 22 0.42
26 17 0.33
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (25 bp):
CAAAAGAGGCTTTACCCCAGTTTAT
Found at i:64510142 original size:59 final size:59
Alignment explanation
Indices: 64510070--64510187 Score: 200
Period size: 59 Copynumber: 2.0 Consensus size: 59
64510060 AAGGTTATGG
**
64510070 ATTGATTGTAACACCCCTTACCTGTATGCGACATCGGGACAGGGTCAGAGGCATTACCA
1 ATTGATTGTAACACCCCTTACCCATATGCGACATCGGGACAGGGTCAGAGGCATTACCA
* *
64510129 ATTGATTGTAACACCCCTTACCCATATGGGACATCGGGACAGGGTCAGAGGCGTTACCA
1 ATTGATTGTAACACCCCTTACCCATATGCGACATCGGGACAGGGTCAGAGGCATTACCA
64510188 GACTCAAACA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.27, C:0.25, G:0.25, T:0.23
Consensus pattern (59 bp):
ATTGATTGTAACACCCCTTACCCATATGCGACATCGGGACAGGGTCAGAGGCATTACCA
Found at i:64513525 original size:5 final size:5
Alignment explanation
Indices: 64513515--64513612 Score: 56
Period size: 6 Copynumber: 18.2 Consensus size: 5
64513505 TATGTCTTTC
* * *
64513515 AAAAT AAAAT AATAAT ACAATT GAAAT GAAAAT AAAAAT CAAAAGA AAAAT
1 AAAAT AAAAT AA-AAT A-AAAT AAAAT -AAAAT -AAAAT -AAAA-T AAAAT
* *
64513566 AAAAAT AAAAT -AAAG AAAAT AAAAAT AAGAAT -AAAT AAAAT CAAAT
1 -AAAAT AAAAT AAAAT AAAAT -AAAAT AA-AAT AAAAT AAAAT AAAAT
64513612 A
1 A
64513613 GGAGGATTCA
Statistics
Matches: 72, Mismatches: 12, Indels: 18
0.71 0.12 0.18
Matches are distributed among these distances:
4 6 0.08
5 29 0.40
6 36 0.50
7 1 0.01
ACGTcount: A:0.73, C:0.03, G:0.05, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:64513547 original size:6 final size:6
Alignment explanation
Indices: 64513538--64513600 Score: 63
Period size: 6 Copynumber: 10.2 Consensus size: 6
64513528 AATACAATTG
* * * *
64513538 AAATGA AAATAA AAATCA AAAGAA AAATAA AAATAA AATAAAGA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA AAATAA AA-ATA-A AAATAA
*
64513588 AAATAA GAATAA A
1 AAATAA AAATAA A
64513601 TAAAATCAAA
Statistics
Matches: 46, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 39 0.85
7 4 0.09
8 3 0.07
ACGTcount: A:0.78, C:0.02, G:0.06, T:0.14
Consensus pattern (6 bp):
AAATAA
Found at i:64513611 original size:26 final size:27
Alignment explanation
Indices: 64513538--64513612 Score: 75
Period size: 26 Copynumber: 2.7 Consensus size: 27
64513528 AATACAATTG
*
64513538 AAATGAAAATAAAAATCAAAAGAAAAATAA
1 AAAT-AAAAT-AAAATC-AAATAAAAATAA
64513568 AAATAAAATAAAGA--AAATAAAAATAA
1 AAATAAAATAAA-ATCAAATAAAAATAA
*
64513594 GAAT-AAATAAAATCAAATA
1 AAATAAAATAAAATCAAATA
64513613 GGAGGATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
24 1 0.03
25 7 0.17
26 19 0.47
28 3 0.08
29 6 0.15
30 4 0.10
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.16
Consensus pattern (27 bp):
AAATAAAATAAAATCAAATAAAAATAA
Found at i:64515644 original size:64 final size:64
Alignment explanation
Indices: 64515564--64515748 Score: 196
Period size: 67 Copynumber: 2.9 Consensus size: 64
64515554 AGACATTATG
* * * *
64515564 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTATGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
64515628 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
64515693 AA
63 AA
* * *
64515695 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGCT
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGCT
64515749 GAACTATATG
Statistics
Matches: 99, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 20 0.20
64 25 0.25
66 21 0.21
67 32 0.32
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:64524746 original size:27 final size:26
Alignment explanation
Indices: 64524716--64524775 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
64524706 TTACTAAAAC
* *
64524716 ACCCCTAAGTATGAAAATTACCGTTTT
1 ACCCCTAAGTAT-AAAATGACCGTTAT
* *
64524743 ACCCCTAGGTGTAAAATGACCGTTAT
1 ACCCCTAAGTATAAAATGACCGTTAT
64524769 ACCCCTA
1 ACCCCTA
64524776 GGGTTAATTT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 19 0.66
27 10 0.34
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (26 bp):
ACCCCTAAGTATAAAATGACCGTTAT
Found at i:64525182 original size:60 final size:60
Alignment explanation
Indices: 64525116--64525251 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
64525106 AACTATGTTA
*
64525116 ATATGGGCAAGGCCCAATATA-TCTCA-ACTTGTAATAGGGCTACGGCCCAAATTGATACTG
1 ATATGGGCAAGGCCCAATATACTCTCATAC-TGTAA-AGGGCTACGGCCCAAATTAATACTG
* * * * * *
64525176 ATATGGGCTAGGCCCAATATACTCTGATACTGTAAGGGGCTATGGCCCAGATTAATATTG
1 ATATGGGCAAGGCCCAATATACTCTCATACTGTAAAGGGCTACGGCCCAAATTAATACTG
64525236 -TATGGGCTAAGGCCCA
1 ATATGGGC-AAGGCCCA
64525252 GTTGGCACTG
Statistics
Matches: 65, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
59 7 0.11
60 47 0.72
61 9 0.14
62 2 0.03
ACGTcount: A:0.29, C:0.21, G:0.24, T:0.26
Consensus pattern (60 bp):
ATATGGGCAAGGCCCAATATACTCTCATACTGTAAAGGGCTACGGCCCAAATTAATACTG
Found at i:64531399 original size:46 final size:46
Alignment explanation
Indices: 64531346--64531521 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
64531336 TGGTTGAGCA
*
64531346 TCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
64531392 TCTGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
64531437 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
64531485 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
64531522 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:64531502 original size:93 final size:93
Alignment explanation
Indices: 64531343--64531514 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
64531333 GGATGGTTGA
* * * *
64531343 GCATCCGAACTCGTTGAGTTGAGTCCGATTTCACTTATGGATGCGAATGTCTGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64531408 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
64531436 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
64531501 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
64531515 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:64546501 original size:10 final size:10
Alignment explanation
Indices: 64546486--64546514 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
64546476 TATGCTATCA
64546486 ACTAATGTCC
1 ACTAATGTCC
64546496 ACTAATGTCC
1 ACTAATGTCC
64546506 ACTAATGTC
1 ACTAATGTC
64546515 ATTTAATCAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.31, C:0.28, G:0.10, T:0.31
Consensus pattern (10 bp):
ACTAATGTCC
Found at i:64550745 original size:6 final size:6
Alignment explanation
Indices: 64550701--64550773 Score: 53
Period size: 6 Copynumber: 12.3 Consensus size: 6
64550691 TGAATAAAAA
* * * *
64550701 TTTATT TTT-CT TTTATT CTTATT CTTATT TTCTATT TTT-TAT TTTATC
1 TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT TTTAT-T TTTATT
* *
64550749 TTTATT TCTA-T TTTAAT TTTATT TT
1 TTTATT TTTATT TTTATT TTTATT TT
64550774 AGTAGGTTGT
Statistics
Matches: 53, Mismatches: 9, Indels: 10
0.74 0.12 0.14
Matches are distributed among these distances:
5 9 0.17
6 37 0.70
7 7 0.13
ACGTcount: A:0.16, C:0.08, G:0.00, T:0.75
Consensus pattern (6 bp):
TTTATT
Found at i:64550750 original size:24 final size:23
Alignment explanation
Indices: 64550711--64550774 Score: 69
Period size: 23 Copynumber: 2.7 Consensus size: 23
64550701 TTTATTTTTC
64550711 TTTTATTCTTAT-TCTTATTTTCTATT
1 TTTTATT-TTATCT-TTA-TTTCTA-T
64550737 TTTTATTTTATCTTTATTTCTAT
1 TTTTATTTTATCTTTATTTCTAT
*
64550760 TTTAATTTTAT-TTTA
1 TTTTATTTTATCTTTA
64550775 GTAGGTTGTA
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
22 4 0.11
23 11 0.31
24 6 0.17
25 7 0.19
26 8 0.22
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
TTTTATTTTATCTTTATTTCTAT
Found at i:64550754 original size:11 final size:10
Alignment explanation
Indices: 64550701--64550774 Score: 60
Period size: 11 Copynumber: 6.9 Consensus size: 10
64550691 TGAATAAAAA
*
64550701 TTTATTTTTCT
1 TTTA-TTTTAT
64550712 TTTATTCTTAT
1 TTTATT-TTAT
*
64550723 TCTTATTTTCT
1 T-TTATTTTAT
*
64550734 ATT-TTTTAT
1 TTTATTTTAT
64550743 TTTATCTTTAT
1 TTTAT-TTTAT
64550754 TTCTATTTTAAT
1 TT-TATTTT-AT
64550766 TTTATTTTA
1 TTTATTTTA
64550775 GTAGGTTGTA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
9 7 0.13
10 6 0.12
11 27 0.52
12 12 0.23
ACGTcount: A:0.18, C:0.08, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTATTTTAT
Found at i:64550762 original size:17 final size:17
Alignment explanation
Indices: 64550740--64550772 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
64550730 TTCTATTTTT
64550740 TATTTT-ATCTTTATTTC
1 TATTTTAAT-TTTATTTC
64550757 TATTTTAATTTTATTT
1 TATTTTAATTTTATTT
64550773 TAGTAGGTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 13 0.87
18 2 0.13
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTAATTTTATTTC
Found at i:64553675 original size:27 final size:27
Alignment explanation
Indices: 64553651--64553857 Score: 272
Period size: 27 Copynumber: 7.7 Consensus size: 27
64553641 TTAGTTTACC
**
64553651 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
64553678 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* *
64553705 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCTTGGTTTGTA
*
64553732 AAATTACCAAAATACCCTTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
64553759 AAATTACCAAAATA-CCTCTGGTTTGTA
1 AAATTACCAAAATACCCT-TGGTTTGTA
* * *
64553786 AAATTATCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCTTGGTTTGTA
* * *
64553813 AAATTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGGTTTGTA
**
64553840 AAATTACTGAAATACCCT
1 AAATTACCAAAATACCCT
64553858 CGACCTGTAA
Statistics
Matches: 158, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
26 3 0.02
27 153 0.97
28 2 0.01
ACGTcount: A:0.40, C:0.20, G:0.09, T:0.32
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGGTTTGTA
Found at i:64553867 original size:81 final size:81
Alignment explanation
Indices: 64553642--64553882 Score: 238
Period size: 81 Copynumber: 3.0 Consensus size: 81
64553632 TAGAATACTT
** ** * ***
64553642 TAGTTTACCAAATTACCAAAATACCCTTG-GTTTACAAAATTACCAAAATACCCCTGGTTTGTAA
1 TAGTTTATAAAATTACCAAAATACCC-TGAGTTTGTAAAATTACCAAAATACCTCTGACCTGTAA
*
64553706 AATTA-CTAAAATACCCT
65 AATTATC-AAAATACCCC
* * ***
64553723 TGGTTTATAAAATTACCAAAATACCCTTAGTTTGTAAAATTACCAAAATACCTCTGGTTTGTAAA
1 TAGTTTATAAAATTACCAAAATACCCTGAGTTTGTAAAATTACCAAAATACCTCTGACCTGTAAA
64553788 ATTATCAAAATACCCC
66 ATTATCAAAATACCCC
* * **
64553804 TAGTTTGTAAAATTACCAAAATACCCCTGA-TTTGTGAAATTACTGAAATACC-CTCGACCTGTA
1 TAGTTTATAAAATTACCAAAATA-CCCTGAGTTTGTAAAATTACCAAAATACCTCT-GACCTGTA
**
64553867 AAATTATTGAAATACC
64 AAATTATCAAAATACC
64553883 TTCGACTTGC
Statistics
Matches: 137, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
80 3 0.02
81 128 0.93
82 6 0.04
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.32
Consensus pattern (81 bp):
TAGTTTATAAAATTACCAAAATACCCTGAGTTTGTAAAATTACCAAAATACCTCTGACCTGTAAA
ATTATCAAAATACCCC
Found at i:64553870 original size:27 final size:27
Alignment explanation
Indices: 64553700--64553900 Score: 106
Period size: 27 Copynumber: 7.4 Consensus size: 27
64553690 TACCCCTGGT
* * **
64553700 TTGTAAAATTACTAAAATACCCTTGGT
1 TTGTAAAATTACTGAAATACCCTCGAC
* ** * *
64553727 TTATAAAATTACCAAAATACCCT-TAGT
1 TTGTAAAATTACTGAAATACCCTCGA-C
** **
64553754 TTGTAAAATTACCAAAATA-CCTCTGGT
1 TTGTAAAATTACTGAAATACCCTC-GAC
* * *
64553781 TTGTAAAATTA-TCAAAATACCC-CTAGT
1 TTGTAAAATTACT-GAAATACCCTCGA-C
** *
64553808 TTGTAAAATTACCAAAATACCC-CTGAT
1 TTGTAAAATTACTGAAATACCCTC-GAC
*
64553835 TTGTGAAATTACTGAAATACCCTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
* * *
64553862 CTGTAAAATTATTGAAATACCTTCGAC
1 TTGTAAAATTACTGAAATACCCTCGAC
*
64553889 TTGCAAAATTAC
1 TTGTAAAATTAC
64553901 CGAAGTACGC
Statistics
Matches: 142, Mismatches: 23, Indels: 18
0.78 0.13 0.10
Matches are distributed among these distances:
26 3 0.02
27 135 0.95
28 4 0.03
ACGTcount: A:0.39, C:0.19, G:0.09, T:0.33
Consensus pattern (27 bp):
TTGTAAAATTACTGAAATACCCTCGAC
Found at i:64553963 original size:27 final size:27
Alignment explanation
Indices: 64553892--64553965 Score: 67
Period size: 27 Copynumber: 2.7 Consensus size: 27
64553882 CTTCGACTTG
* * **
64553892 CAAAATTACCGAAGTACGCTTGATTTA
1 CAAAATTACCGAAATACCCTCAATTTA
* * ***
64553919 TAGAATTACCGTTTTACCCTCAATTTA
1 CAAAATTACCGAAATACCCTCAATTTA
64553946 CAAAATTACCGAAATACCCT
1 CAAAATTACCGAAATACCCT
64553966 TGTAGGGTAG
Statistics
Matches: 34, Mismatches: 13, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.36, C:0.23, G:0.09, T:0.31
Consensus pattern (27 bp):
CAAAATTACCGAAATACCCTCAATTTA
Found at i:64554011 original size:27 final size:27
Alignment explanation
Indices: 64553952--64554085 Score: 164
Period size: 27 Copynumber: 5.0 Consensus size: 27
64553942 TTTACAAAAT
*
64553952 TACCGAAATACCCTTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
64553979 TA-CGAAATACCCCTGTAGGGTAGAAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
*
64554005 TACCGAAATACCCCTGTAGGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
** * * *
64554032 TATTGAAATACTCCTGTAAGGTAGAAT
1 TACCGAAATACCCCTGTAGGGTAGAAA
* * *
64554059 TACCGAGATACCCTTGTGGGGTA-AAA
1 TACCGAAATACCCCTGTAGGGTAGAAA
64554085 T
1 T
64554086 TACCATTTTA
Statistics
Matches: 92, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
26 28 0.30
27 64 0.70
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
TACCGAAATACCCCTGTAGGGTAGAAA
Done.