Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 166 of 284
Found at i:55817930 original size:37 final size:37
Alignment explanation
Indices: 55817871--55817979 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
55817861 AGCTCAGATG
* * *
55817871 AAATCTCCATACGAAGTTATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
55817908 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
55817945 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
55817980 ATATATTTCC
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:55818178 original size:48 final size:48
Alignment explanation
Indices: 55818120--55818413 Score: 444
Period size: 48 Copynumber: 6.0 Consensus size: 48
55818110 ATATACACAC
* * * *
55818120 ATCTCCTACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55818168 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* * *
55818216 ATCTCATATATATATTTCACATTAGCCATTCGGTTTTACCACATATACAT
1 ATCTC--ATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
*
55818266 ATCTCATACATATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATAC--ATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
55818316 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
* *
55818364 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACACATATAT
1 ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
55818412 AT
1 AT
55818414 ATTTATCTTG
Statistics
Matches: 228, Mismatches: 14, Indels: 8
0.91 0.06 0.03
Matches are distributed among these distances:
48 136 0.60
50 92 0.40
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (48 bp):
ATCTCATACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55818329 original size:98 final size:96
Alignment explanation
Indices: 55818120--55818413 Score: 462
Period size: 98 Copynumber: 3.0 Consensus size: 96
55818110 ATATACACAC
* * * *
55818120 ATCTCCTACATACTTCACACTAGCCCTTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
55818185 CACTAGCCATTCGGCTTTACCACATATACAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
* * *
55818216 ATCTCATATATATATTTCACATTAGCCATTCGGTTTTACCACATATACATATCTCATACATATAT
1 ATCTC--ATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATAC--ATAT
*
55818281 TTCACATTAGCCATTCGGCTTTACCACATATACAT
62 TTCACACTAGCCATTCGGCTTTACCACATATACAT
55818316 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
* *
55818381 CACTAGCCATTCGGCTTTACCACACATATAT
66 CACTAGCCATTCGGCTTTACCACATATACAT
55818412 AT
1 AT
55818414 ATTTATCTTG
Statistics
Matches: 180, Mismatches: 14, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
96 43 0.24
98 94 0.52
100 43 0.24
ACGTcount: A:0.30, C:0.28, G:0.07, T:0.35
Consensus pattern (96 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACGTATCTCATACATATTTCA
CACTAGCCATTCGGCTTTACCACATATACAT
Found at i:55822242 original size:31 final size:31
Alignment explanation
Indices: 55822200--55822278 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
55822190 TTTAACGGTT
*
55822200 ACTGGGTCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
55822231 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
55822262 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
55822279 ACTGTAAACA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:55822349 original size:42 final size:42
Alignment explanation
Indices: 55822302--55822393 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
55822292 TGGCTCTTAG
* ** *
55822302 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
55822344 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
55822386 GCCCATTT
1 GCCCATTT
55822394 GGGGAAACTA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
Found at i:55822565 original size:24 final size:25
Alignment explanation
Indices: 55822533--55822609 Score: 75
Period size: 25 Copynumber: 3.1 Consensus size: 25
55822523 GCCTAGCCTC
* *
55822533 TTTTAATAA-CTAGGGTAAATCCCT
1 TTTTAATAACCTAGGGCAAAGCCCT
* *
55822557 TTTTGATAACCTGGGGCAAAGCCCT
1 TTTTAATAACCTAGGGCAAAGCCCT
* * * *
55822582 TTTTAGTAAACTGGGGCATAGCCCT
1 TTTTAATAACCTAGGGCAAAGCCCT
55822607 TTT
1 TTT
55822610 AGCACTTCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
24 8 0.18
25 36 0.82
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.35
Consensus pattern (25 bp):
TTTTAATAACCTAGGGCAAAGCCCT
Found at i:55822595 original size:25 final size:25
Alignment explanation
Indices: 55822553--55822609 Score: 80
Period size: 25 Copynumber: 2.3 Consensus size: 25
55822543 TAGGGTAAAT
*
55822553 CCCTTTTTGATAACCTGGGGCAAAG
1 CCCTTTTTGATAAACTGGGGCAAAG
*
55822578 CCCTTTTT-AGTAAACTGGGGCATAG
1 CCCTTTTTGA-TAAACTGGGGCAAAG
55822603 CCCTTTT
1 CCCTTTT
55822610 AGCACTTCTT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 1 0.03
25 28 0.97
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (25 bp):
CCCTTTTTGATAAACTGGGGCAAAG
Found at i:55823481 original size:27 final size:27
Alignment explanation
Indices: 55823420--55823483 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
55823410 GGCGTATTCA
55823420 TCATTTTACCATACAAGGGTATTACGG
1 TCATTTTACCATACAAGGGTATTACGG
* * *
55823447 TCACTTTACCCTACAGGGGCT-TTACGG
1 TCATTTTACCATACAAGGG-TATTACGG
*
55823474 TCTTTTTACC
1 TCATTTTACC
55823484 TATTAGGGGT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 30 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.17, T:0.36
Consensus pattern (27 bp):
TCATTTTACCATACAAGGGTATTACGG
Found at i:55823567 original size:27 final size:27
Alignment explanation
Indices: 55823514--55823750 Score: 152
Period size: 27 Copynumber: 8.7 Consensus size: 27
55823504 TTTCATCCTA
* * * * *
55823514 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
55823541 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* ** *
55823568 CAATGGTATTTCTATAATTTTTAGAAAGC
1 CAAGGGTATTTCGGTAA-TTTTATAAA-C
* * *
55823597 CAAGGGTATTTCTGTAATTTTGTAAAT
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * * **
55823624 CAGGGGTATTTTGGTAATTTTACAATT
1 CAAGGGTATTTCGGTAATTTTATAAAC
** *
55823651 TGAGGGTATTTCGGTAATTTCATAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* *
55823678 C-AGTGGTATTTCGGTAATTTTACAAAT
1 CAAG-GGTATTTCGGTAATTTTATAAAC
* * * * *
55823705 TAGGGGTATTTTGGAAATTTTAAAAAC
1 CAAGGGTATTTCGGTAATTTTATAAAC
* * *
55823732 TAGGGGTATTTTGGTAATT
1 CAAGGGTATTTCGGTAATT
55823751 CTATCCTACA
Statistics
Matches: 164, Mismatches: 42, Indels: 8
0.77 0.20 0.04
Matches are distributed among these distances:
26 2 0.01
27 131 0.80
28 15 0.09
29 16 0.10
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTCGGTAATTTTATAAAC
Found at i:55823686 original size:54 final size:53
Alignment explanation
Indices: 55823599--55823750 Score: 187
Period size: 54 Copynumber: 2.8 Consensus size: 53
55823589 TAGAAAGCCA
* * * *
55823599 AGGGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAATTT
1 AGGGTATTTCGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAATT
* * *
55823652 GAGGGTATTTCGGTAATTTCATAAACCAGTGGTATTTCGGTAATTTTACAAATT
1 -AGGGTATTTCGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAATT
* * * *
55823706 AGGGGTATTTTGGAAATTTTAAAAACTAGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATTTTATAAACCAGGGGTATTTTGGTAATT
55823751 CTATCCTACA
Statistics
Matches: 83, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
53 1 0.01
54 82 0.99
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTTATAAACCAGGGGTATTTTGGTAATTTTACAAATT
Found at i:55823739 original size:81 final size:81
Alignment explanation
Indices: 55823601--55823750 Score: 203
Period size: 81 Copynumber: 1.9 Consensus size: 81
55823591 GAAAGCCAAG
* ** * * * *
55823601 GGTATTTCTGTAATTTTGTAAATCAGGGGTATTTTGGTAATTTTACAATTTGAGGGTATTTCGGT
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGAAATTTTAAAACTAGAGGGTATTTCGGT
55823666 AATTTCATAAACCAGT
66 AATTTCATAAACCAGT
* *
55823682 GGTATTTCGGTAATTTTACAAATTAGGGGTATTTTGGAAATTTTAAAAACTAG-GGGTATTTTGG
1 GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGAAATTTT-AAAACTAGAGGGTATTTCGG
55823746 TAATT
65 TAATT
55823751 CTATCCTACA
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
81 54 0.92
82 5 0.08
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.43
Consensus pattern (81 bp):
GGTATTTCGGTAATTTTACAAATCAGGGGTATTTTGGAAATTTTAAAACTAGAGGGTATTTCGGT
AATTTCATAAACCAGT
Found at i:55823816 original size:27 final size:27
Alignment explanation
Indices: 55823782--55823979 Score: 281
Period size: 27 Copynumber: 7.3 Consensus size: 27
55823772 GTAATTTCAC
*
55823782 AATCGAGGGTAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACGGTAATTTTATA
** *
55823809 AA-CTGAGGGTAAAATAGTAATTTTGTA
1 AATC-GAGGGTAAAACGGTAATTTTATA
*
55823836 AATCGAGGGTAAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
*
55823863 AATCGAGGGTAAAATGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
55823890 AATCGAGGGTAAAACGGTAATTTTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* *
55823917 AATCGAGGGTGAAACGGTAATTCTATA
1 AATCGAGGGTAAAACGGTAATTTTATA
* * *
55823944 AATCGAGGGTAAAATGGTAATTCTACA
1 AATCGAGGGTAAAACGGTAATTTTATA
55823971 AATCGAGGG
1 AATCGAGGG
55823980 CATTTCAGTA
Statistics
Matches: 155, Mismatches: 14, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
26 1 0.01
27 153 0.99
28 1 0.01
ACGTcount: A:0.39, C:0.08, G:0.24, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACGGTAATTTTATA
Found at i:55828067 original size:27 final size:27
Alignment explanation
Indices: 55828037--55828214 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
55828027 ATATTGAGTC
* * *
55828037 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* * *
55828064 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
55828091 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTC-AACT
** *
55828119 CGCACACTTAGTGCCGCATGGTCAACT
1 CGCACACTTAGTGCTACATAGTCAACT
* **
55828146 CGCACACTTAGTGC-ATCATACTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAACT
* *
55828173 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAACT
*
55828200 CGCACACTCAGTGCT
1 CGCACACTTAGTGCT
55828215 GTACAATTTA
Statistics
Matches: 128, Mismatches: 20, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
27 104 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAACT
Found at i:55828176 original size:82 final size:81
Alignment explanation
Indices: 55828058--55828213 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
55828048 TGCTATATAA
* *
55828058 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
*
55828123 CACTTAGTGCCGCATGG
65 CACTCAGTGCCGCATGG
* **
55828140 TCAACTCGCACACTTAGTGC-ATCATACTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
55828204 CACTCAGTGC
65 CACTCAGTGC
55828214 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 52 0.78
ACGTcount: A:0.29, C:0.30, G:0.15, T:0.25
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTCAGTGCCGCATGG
Found at i:55828711 original size:12 final size:12
Alignment explanation
Indices: 55828694--55828720 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
55828684 ATGGCATACT
55828694 TATGTATATATA
1 TATGTATATATA
55828706 TATGTATATATA
1 TATGTATATATA
55828718 TAT
1 TAT
55828721 ACTTCGGAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.07, T:0.52
Consensus pattern (12 bp):
TATGTATATATA
Found at i:55831254 original size:122 final size:120
Alignment explanation
Indices: 55831039--55831264 Score: 335
Period size: 122 Copynumber: 1.9 Consensus size: 120
55831029 TACAATAACA
* * * *
55831039 ATGAGAATAAGAATAGAAATGTAATGGGCATGAGGTTTTCCTAATCTTAATTTAACATGGAATAT
1 ATGAGAATAACAATAGAAATGTAATGGGCATGAGGTGTTCCTAATCTTAATTTAACACGAAATAT
*
55831104 ATGATAACTAACCTAGGAATGCAAATTAAATGATAGAAATTGGCATGGTAATAGC
66 ATGATAACTAACCTAAGAATGCAAATTAAATGATAGAAATTGGCATGGTAATAGC
* * * * *
55831159 ATGAGAATAACCATAGTAATGTCATGGGTATGAGGTGTTCCTAATAACTTGATTTAACACGAAAT
1 ATGAGAATAACAATAGAAATGTAATGGGCATGAGGTGTTCCTAAT--CTTAATTTAACACGAAAT
*
55831224 GTATGATAACTAACCTAAGAATGCAAATTAAATGATAGAAA
64 ATATGATAACTAACCTAAGAATGCAAATTAAATGATAGAAA
55831265 AATGAACAAT
Statistics
Matches: 93, Mismatches: 11, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
120 39 0.42
122 54 0.58
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.29
Consensus pattern (120 bp):
ATGAGAATAACAATAGAAATGTAATGGGCATGAGGTGTTCCTAATCTTAATTTAACACGAAATAT
ATGATAACTAACCTAAGAATGCAAATTAAATGATAGAAATTGGCATGGTAATAGC
Found at i:55837011 original size:27 final size:27
Alignment explanation
Indices: 55836981--55837186 Score: 117
Period size: 27 Copynumber: 7.6 Consensus size: 27
55836971 CAAATTGTAA
*
55836981 AATTACCAAAGTACCCTCGATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
* *** *
55837008 AATTATCGTTTTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
*** *
55837035 AATTACCGTTTTACCCTCAATTTATAG
1 AATTACCAAATTACCCTCGATTTATAG
**** ** *
55837062 AATTACTGTTTTACCCTTAATTTACAG
1 AATTACCAAATTACCCTCGATTTATAG
* ** *
55837089 AATTACTATTTTACCCTCGATTTATAA
1 AATTACCAAATTACCCTCGATTTATAG
* * * * * *
55837116 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAATTACCCTCGATTTATAG
* * *
55837143 AATTACCAAAATACCCTCGA-TCAGTAA
1 AATTACCAAATTACCCTCGATTTA-TAG
*
55837170 AATTACCAAAATACCCT
1 AATTACCAAATTACCCT
55837187 AGTCTGTAAA
Statistics
Matches: 150, Mismatches: 28, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
26 2 0.01
27 148 0.99
ACGTcount: A:0.35, C:0.22, G:0.07, T:0.35
Consensus pattern (27 bp):
AATTACCAAATTACCCTCGATTTATAG
Found at i:55837040 original size:54 final size:53
Alignment explanation
Indices: 55836981--55837163 Score: 179
Period size: 54 Copynumber: 3.4 Consensus size: 53
55836971 CAAATTGTAA
* *
55836981 AATTACCAAAGTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAG
1 AATTACCAAATTACCCTCGATTTATAGAATTA-CGTTTTACCCTTGATTTACAG
*** * *
55837035 AATTACCGTTTTACCCTCAATTTATAGAATTACTGTTTTACCCTTAATTTACAG
1 AATTACCAAATTACCCTCGATTTATAGAATTAC-GTTTTACCCTTGATTTACAG
* ** * ** * *
55837089 AATTACTATTTTACCCTCGATTTATAAAATTAC-TAAAATACCCTTGGTTTACAA
1 AATTACCAAATTACCCTCGATTTATAGAATTACGT--TTTACCCTTGATTTACAG
*
55837143 AATTACCAAAATACCCTCGAT
1 AATTACCAAATTACCCTCGAT
55837164 CAGTAAAATT
Statistics
Matches: 106, Mismatches: 20, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
52 1 0.01
53 1 0.01
54 104 0.98
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.37
Consensus pattern (53 bp):
AATTACCAAATTACCCTCGATTTATAGAATTACGTTTTACCCTTGATTTACAG
Found at i:55837251 original size:27 final size:27
Alignment explanation
Indices: 55837108--55837374 Score: 245
Period size: 27 Copynumber: 10.0 Consensus size: 27
55837098 TTTACCCTCG
* * *
55837108 ATTTATAAAATTACTAAAATACCCTTG
1 ATTTGTAAAATTACCAAAATACCCTTA
* ** **
55837135 GTTTACAAAATTACCAAAATACCCTCG
1 ATTTGTAAAATTACCAAAATACCCTTA
**
55837162 ATCAGTAAAATTACCAAAATACCC-TA
1 ATTTGTAAAATTACCAAAATACCCTTA
* * * * *
55837188 GTCTGTAAAATTGCTAAAATACCCCT-
1 ATTTGTAAAATTACCAAAATACCCTTA
* *
55837214 GTTTGTAAAATTACCGAAATACCCTTA
1 ATTTGTAAAATTACCAAAATACCCTTA
*
55837241 ATTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCTTA
* *
55837268 GTTTGTAAAATTACCAAAATACCAC-TG
1 ATTTGTAAAATTACCAAAATACC-CTTA
* * *
55837295 GTTTGTGAAATTACCGAAATACCCTTA
1 ATTTGTAAAATTACCAAAATACCCTTA
*
55837322 ATTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACCAAAATACCCTTA
** *
55837349 ATTTACAAAGTTA-CAGAAATACCCTT
1 ATTTGTAAAATTACCA-AAATACCCTT
55837375 GACTTTCTAA
Statistics
Matches: 199, Mismatches: 36, Indels: 10
0.81 0.15 0.04
Matches are distributed among these distances:
26 44 0.22
27 154 0.77
28 1 0.01
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (27 bp):
ATTTGTAAAATTACCAAAATACCCTTA
Found at i:55837319 original size:81 final size:80
Alignment explanation
Indices: 55837113--55837348 Score: 332
Period size: 81 Copynumber: 2.9 Consensus size: 80
55837103 CCTCGATTTA
** * ** **
55837113 TAAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCA
1 TAAAATTACTAAAATACCC-TGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
55837178 AAATA-CCCTAGTCTG
65 AAATACCCCTAGTCTG
*
55837193 TAAAATTGCTAAAATACCCCT-GTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
1 TAAAATTACTAAAATA-CCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
*
55837257 AAATACCCCTAGTTTG
65 AAATACCCCTAGTCTG
* *
55837273 TAAAATTACCAAAATACCACTGGTTTGTGAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
1 TAAAATTACTAAAATACC-CTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCA
55837338 AAATACCCCTA
65 AAATACCCCTA
55837349 ATTTACAAAG
Statistics
Matches: 140, Mismatches: 12, Indels: 7
0.88 0.08 0.04
Matches are distributed among these distances:
79 43 0.31
80 41 0.29
81 56 0.40
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.30
Consensus pattern (80 bp):
TAAAATTACTAAAATACCCTGGTTTGTAAAATTACCGAAATACCCTTAATTTGTAAAATTACCAA
AATACCCCTAGTCTG
Found at i:55837549 original size:27 final size:27
Alignment explanation
Indices: 55837489--55837549 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
55837479 ACTCCTATTA
*
55837489 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
55837516 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCGTAAAGCCCCTGTAG
55837543 GGTAAAG
1 GGTAAAG
55837550 TGGCCATAAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.36, C:0.20, G:0.30, T:0.15
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTGTAG
Found at i:55837566 original size:27 final size:27
Alignment explanation
Indices: 55837489--55837575 Score: 95
Period size: 27 Copynumber: 3.2 Consensus size: 27
55837479 ACTCCTATTA
* *
55837489 GGTAAAAAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCATAAAGCCCCTGTAG
*
55837516 GGTAAAGAGACCGTAAAGCCCCTGTAG
1 GGTAAAGAGACCATAAAGCCCCTGTAG
* * * *
55837543 GGTAAAGTGGCCATAATA-CTCCTGTAT
1 GGTAAAGAGACCATAA-AGCCCCTGTAG
55837570 GGTAAA
1 GGTAAA
55837576 ATGACGAATA
Statistics
Matches: 53, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 52 0.98
28 1 0.02
ACGTcount: A:0.34, C:0.20, G:0.26, T:0.20
Consensus pattern (27 bp):
GGTAAAGAGACCATAAAGCCCCTGTAG
Found at i:55837708 original size:17 final size:17
Alignment explanation
Indices: 55837686--55837720 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
55837676 TAGGTGATTG
55837686 ATTTTGGAAATGTTTCA
1 ATTTTGGAAATGTTTCA
55837703 ATTTTGGAAATGTTTCA
1 ATTTTGGAAATGTTTCA
55837720 A
1 A
55837721 CTTCAACCCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.06, G:0.17, T:0.46
Consensus pattern (17 bp):
ATTTTGGAAATGTTTCA
Found at i:55838672 original size:42 final size:42
Alignment explanation
Indices: 55838613--55838704 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
55838603 TAGTCTTCCC
* ** *
55838613 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
55838655 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
55838697 AAATGGGC
1 AAATGGGC
55838705 CTAAGGGCCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:55838766 original size:31 final size:31
Alignment explanation
Indices: 55838728--55838802 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
55838718 TGTTTACAGT
*
55838728 AAAGGCTTCGGTCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
55838759 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
55838790 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
55838803 AGTAACCGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.31, C:0.17, G:0.24, T:0.28
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:55849772 original size:40 final size:40
Alignment explanation
Indices: 55849700--55849929 Score: 304
Period size: 40 Copynumber: 5.8 Consensus size: 40
55849690 TGGATGATAA
* *
55849700 CGAAGGCATTTGTGCTAGTGACTA-ATTCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATA-TCCGGGCTAAGTCC
* *
55849740 CGAAGGCATTTGTGGGAGTTACTATATTCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
* **
55849780 CGAAGGAATTTGTGCGAGTTACTATATCCAAGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
55849820 CAAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
*
55849860 CGAAGGCATTTGTGCGAGTTACTATAACCGGGCT-AGTCC
1 CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
** * *
55849899 CGAAGATATTTGAGTGAG-TAGCTATATCCGG
1 CGAAGGCATTTGTGCGAGTTA-CTATATCCGG
55849930 TTAAATCTCG
Statistics
Matches: 168, Mismatches: 20, Indels: 5
0.87 0.10 0.03
Matches are distributed among these distances:
38 2 0.01
39 28 0.17
40 137 0.82
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.28
Consensus pattern (40 bp):
CGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCC
Found at i:55852464 original size:27 final size:27
Alignment explanation
Indices: 55852434--55852564 Score: 192
Period size: 27 Copynumber: 4.9 Consensus size: 27
55852424 ATTACCAAAG
* *
55852434 TACCCTGGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
55852461 TACCCTCGATTTACAGAATTA-TCGTTT
1 TACCCTCGATTTACAGAATTACT-GTTT
*
55852488 TACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
* *
55852515 TACCCTTGATTTACATAATTACTGTTT
1 TACCCTCGATTTACAGAATTACTGTTT
*
55852542 TACCCTCGATTTACAAAATTACT
1 TACCCTCGATTTACAGAATTACT
55852565 AAAATACCCT
Statistics
Matches: 94, Mismatches: 8, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
26 1 0.01
27 92 0.98
28 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACTGTTT
Found at i:55852572 original size:27 final size:27
Alignment explanation
Indices: 55852542--55852869 Score: 292
Period size: 27 Copynumber: 12.2 Consensus size: 27
55852532 ATTACTGTTT
** *
55852542 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
**
55852569 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
55852596 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
55852622 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
* *
55852649 TACCCTCAATTTGTGAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* * * *
55852676 TACCCTAG-TCTGTAAAATTGCTAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
* *
55852702 TACCC-CTGGTTTGTAAAATTACCGAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
*
55852729 TACCCTCAATTTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
*
55852756 TACCC-CTAGTTTGTAAAATTACCAAAA
1 TACCCTCGA-TTTGTAAAATTACCAAAA
* * *
55852783 TACCACT-GGTTTGTGAAATTACCGAAA
1 TACC-CTCGATTTGTAAAATTACCAAAA
* *
55852810 TACCCTCAAATTGTAAAATTACCAAAA
1 TACCCTCGATTTGTAAAATTACCAAAA
** * *
55852837 TACCC-CTGATTTACAAAGTTACAAAAA
1 TACCCTC-GATTTGTAAAATTACCAAAA
55852864 TACCCT
1 TACCCT
55852870 TGACTTTTTA
Statistics
Matches: 241, Mismatches: 48, Indels: 23
0.77 0.15 0.07
Matches are distributed among these distances:
26 46 0.19
27 192 0.80
28 3 0.01
ACGTcount: A:0.40, C:0.22, G:0.09, T:0.29
Consensus pattern (27 bp):
TACCCTCGATTTGTAAAATTACCAAAA
Found at i:55852573 original size:54 final size:54
Alignment explanation
Indices: 55852461--55852578 Score: 148
Period size: 54 Copynumber: 2.2 Consensus size: 54
55852451 ATTACTGTTT
* * ****
55852461 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTATAGAATTACTGTTT
1 TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTAAAA
* *
55852515 TACCCTTGATTTACATAATTA-CTGTTTTACCCTCGATTTACAAAATTACTAAAA
1 TACCCTCGATTTACAGAATTATC-GTTTTACCCTCGATTTACAAAATTACTAAAA
55852569 TACCCTCGAT
1 TACCCTCGAT
55852579 CAGTAAAATT
Statistics
Matches: 54, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 53 0.98
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (54 bp):
TACCCTCGATTTACAGAATTATCGTTTTACCCTCGATTTACAAAATTACTAAAA
Found at i:55852600 original size:81 final size:82
Alignment explanation
Indices: 55852419--55852601 Score: 194
Period size: 81 Copynumber: 2.3 Consensus size: 82
55852409 CCCTCAAATT
* * *
55852419 GTAAAATTACCAAAGTACCCTGGATTTATAGAATTACTGTTTTACCCTCGATTTACAGAATTATC
1 GTAAAATTACCAAAATACCCTGGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATC
** *
55852484 GTTTTACCCTCGATTTA
66 GTAATACCCTCGATTCA
* ***** * *
55852501 -TAGAATTACTGTTTTACCCTTGATTTACATAATTACTGTTTTACCCTCGATTTACAAAATTA-C
1 GTAAAATTACCAAAATACCCTGGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATC
55852564 -TAAAATACCCTCGA-TCA
66 GT--AATACCCTCGATTCA
55852581 GTAAAATTACCAAAATACCCT
1 GTAAAATTACCAAAATACCCT
55852602 AGTCTGTAAA
Statistics
Matches: 79, Mismatches: 19, Indels: 7
0.75 0.18 0.07
Matches are distributed among these distances:
79 1 0.01
80 3 0.04
81 75 0.95
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (82 bp):
GTAAAATTACCAAAATACCCTGGATTTACAGAATTACTGTTTTACCCTCGATTTACAAAATTATC
GTAATACCCTCGATTCA
Found at i:55852654 original size:80 final size:80
Alignment explanation
Indices: 55852556--55852841 Score: 455
Period size: 80 Copynumber: 3.6 Consensus size: 80
55852546 CTCGATTTAC
** * **
55852556 AAAATTACTAAAATACCCTCGATCAGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAA
55852621 ATACCCCTGGTTTGT
66 ATACCCCTGGTTTGT
*
55852636 AAAATTACCGAAATACCCTCAATTTGTGAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAA
55852701 ATACCCCTGGTTTGT
66 ATACCCCTGGTTTGT
* * *
55852716 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAA
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATA-CCCTAGTCTGTAAAATTGCTAA
*
55852781 AATACCACTGGTTTGT
65 AATACCCCTGGTTTGT
* *
55852797 GAAATTACCGAAATACCCTCAAATTGTAAAATTACCAAAATACCC
1 AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCC
55852842 CTGATTTACA
Statistics
Matches: 192, Mismatches: 13, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
80 118 0.61
81 74 0.39
ACGTcount: A:0.41, C:0.22, G:0.09, T:0.28
Consensus pattern (80 bp):
AAAATTACCGAAATACCCTCAATTTGTAAAATTACCAAAATACCCTAGTCTGTAAAATTGCTAAA
ATACCCCTGGTTTGT
Found at i:55852911 original size:27 final size:27
Alignment explanation
Indices: 55852876--55852932 Score: 80
Period size: 27 Copynumber: 2.1 Consensus size: 27
55852866 CCCTTGACTT
55852876 TTTAAAAAATTA-TGGAAATACCATTGG
1 TTTAAAAAATTACT-GAAATACCATTGG
* *
55852903 TTTACAAAATTACTGAAATACCCTTGG
1 TTTAAAAAATTACTGAAATACCATTGG
55852930 TTT
1 TTT
55852933 GTAGATTTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
27 26 0.96
28 1 0.04
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.37
Consensus pattern (27 bp):
TTTAAAAAATTACTGAAATACCATTGG
Found at i:55853016 original size:27 final size:27
Alignment explanation
Indices: 55852986--55853072 Score: 115
Period size: 27 Copynumber: 3.2 Consensus size: 27
55852976 ACCCCTTTTA
*
55852986 GGTAAAAAGACCGTAAAGCCCC-ACTAG
1 GGTAAAGAGACCGTAAAGCCCCTA-TAG
55853013 GGTAAAGAGACCGTAAAGCCCCTATAG
1 GGTAAAGAGACCGTAAAGCCCCTATAG
* *
55853040 GGTAAAGTGACCGTAATA-CCCCTATAT
1 GGTAAAGAGACCGTAA-AGCCCCTATAG
55853067 GGTAAA
1 GGTAAA
55853073 ATGACGAATA
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
27 53 0.96
28 2 0.04
ACGTcount: A:0.38, C:0.22, G:0.23, T:0.17
Consensus pattern (27 bp):
GGTAAAGAGACCGTAAAGCCCCTATAG
Found at i:55853835 original size:16 final size:16
Alignment explanation
Indices: 55853814--55853844 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
55853804 CAAATATAGG
*
55853814 CATGACATTTTGCATA
1 CATGACATGTTGCATA
55853830 CATGACATGTTGCAT
1 CATGACATGTTGCAT
55853845 TGGGTTGGGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.29, C:0.19, G:0.16, T:0.35
Consensus pattern (16 bp):
CATGACATGTTGCATA
Found at i:55853924 original size:25 final size:25
Alignment explanation
Indices: 55853890--55853960 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
55853880 AAGGGCTTAC
*
55853890 GCCCTAGTTTATTGAAAAAGGCTTT
1 GCCCAAGTTTATTGAAAAAGGCTTT
** *
55853915 GCCCAAGTTTACCGAAAAGGGCTTT
1 GCCCAAGTTTATTGAAAAAGGCTTT
* *
55853940 GCCCCAG-TTATT-AAAGAGGCT
1 GCCCAAGTTTATTGAAAAAGGCT
55853961 AGGCCTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
23 7 0.19
24 3 0.08
25 27 0.73
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (25 bp):
GCCCAAGTTTATTGAAAAAGGCTTT
Found at i:55854152 original size:42 final size:42
Alignment explanation
Indices: 55854093--55854184 Score: 148
Period size: 42 Copynumber: 2.2 Consensus size: 42
55854083 TAGTCTCCCC
* ** *
55854093 AAATGGGCTTGCATACATTCATTGGTATTTCATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
55854135 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
1 AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
55854177 AAATGGGC
1 AAATGGGC
55854185 CTAAGGGTCA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.29, C:0.14, G:0.22, T:0.35
Consensus pattern (42 bp):
AAATGGGCTTGCATACATCCATTGACATTACATGTGATATTG
Found at i:55854259 original size:31 final size:31
Alignment explanation
Indices: 55854208--55854284 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
55854198 TGTTTACAGT
*
55854208 AAAGGCTTCGGTCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
* *
55854239 AAATGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAATGATATGATTTATGA
*
55854270 AAAGGCTTCAGCCCA
1 AAAGGCTTCGGCCCA
55854285 TTAACTGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAATGATATGATTTATGA
Found at i:55854695 original size:19 final size:19
Alignment explanation
Indices: 55854671--55854707 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
55854661 ACTTAGGACG
55854671 TGTTTTCAAAATAACGCCT
1 TGTTTTCAAAATAACGCCT
55854690 TGTTTTCAAAATAACGCC
1 TGTTTTCAAAATAACGCC
55854708 ACGCCACGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.35
Consensus pattern (19 bp):
TGTTTTCAAAATAACGCCT
Found at i:55860144 original size:28 final size:29
Alignment explanation
Indices: 55860013--55860155 Score: 130
Period size: 29 Copynumber: 5.0 Consensus size: 29
55860003 TACATACCTG
* *
55860013 CATATGGCCCA-CTAGGCCCAA-TCTCGTT
1 CATATGGCCCATC-AGGCCCAACTCACATT
* * * * *
55860041 TATATGGCCCATCTGGTCCAATTCACGTT
1 CATATGGCCCATCAGGCCCAACTCACATT
55860070 CATATGGCCCATCAGGCCCAACTCACATT
1 CATATGGCCCATCAGGCCCAACTCACATT
* ** *
55860099 CATATGGCCCATTAGGCCTGA-TCTCATT
1 CATATGGCCCATCAGGCCCAACTCACATT
* * *
55860127 TATATGGCCCATCCGGCCCAAATCACATT
1 CATATGGCCCATCAGGCCCAACTCACATT
55860156 ATACTCATGC
Statistics
Matches: 93, Mismatches: 19, Indels: 5
0.79 0.16 0.04
Matches are distributed among these distances:
28 38 0.41
29 55 0.59
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.27
Consensus pattern (29 bp):
CATATGGCCCATCAGGCCCAACTCACATT
Found at i:55860377 original size:16 final size:16
Alignment explanation
Indices: 55860356--55860398 Score: 68
Period size: 16 Copynumber: 2.7 Consensus size: 16
55860346 CGTAGCCAAA
55860356 ATTTTGACTTTTCGGC
1 ATTTTGACTTTTCGGC
*
55860372 ATTTTGACTTTTTGGC
1 ATTTTGACTTTTCGGC
*
55860388 ATTTTGGCTTT
1 ATTTTGACTTT
55860399 CGCTAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.12, C:0.14, G:0.19, T:0.56
Consensus pattern (16 bp):
ATTTTGACTTTTCGGC
Found at i:55862819 original size:27 final size:27
Alignment explanation
Indices: 55862780--55862957 Score: 160
Period size: 27 Copynumber: 6.6 Consensus size: 27
55862770 ATGTTGAGCC
* *
55862780 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * * *
55862807 CACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55862834 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
55862862 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
55862889 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
55862916 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
55862943 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
55862958 GTACAATTTA
Statistics
Matches: 124, Mismatches: 24, Indels: 6
0.81 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:55862940 original size:54 final size:55
Alignment explanation
Indices: 55862780--55862957 Score: 182
Period size: 54 Copynumber: 3.3 Consensus size: 55
55862770 ATGTTGAGCC
* * * * * * * *
55862780 CGCACACTCAGTGCTATATAATC-AACTCACACACTTAGTGCTACGTAATAAAAT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
** * *
55862834 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
* **
55862889 CGCACACTTAGTGC-ATCATATTC-ATTTCGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
*
55862943 CGCACCCTTAGTGCT
1 CGCACACTTAGTGCT
55862958 GTACAATTTA
Statistics
Matches: 102, Mismatches: 19, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
54 59 0.58
55 43 0.42
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (55 bp):
CGCACACTTAGTGCTACATAGTCAAACTCGCACACTTAGTGCAACATAGTCAAAT
Found at i:55873607 original size:50 final size:49
Alignment explanation
Indices: 55873497--55873682 Score: 185
Period size: 50 Copynumber: 3.7 Consensus size: 49
55873487 GTCGCATGTA
* *** *
55873497 TAGTACTAACTGCAGGCTACTATGCGTATCC-GATAACTTCGATCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACATGTA-CCAGATAA-TT-GGTCACGTGTG
* **
55873548 TAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTTAGGTCACGTGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAATT-GGTCACGTGTG
* * * *
55873598 TAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCATGTG
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACGTGTG
* ***
55873647 TAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 TAGTACTAAGTGCAGGCTACTACATGTACCAGATAA
55873683 CCTTGTCTAC
Statistics
Matches: 114, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 41 0.36
50 46 0.40
51 27 0.24
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.29
Consensus pattern (49 bp):
TAGTACTAAGTGCAGGCTACTACATGTACCAGATAATTGGTCACGTGTG
Found at i:55876745 original size:45 final size:45
Alignment explanation
Indices: 55876681--55876769 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
55876671 TTCGGCCATG
55876681 ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAA
1 ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAA
*
55876726 ATGCTTCCTCATATTCTTCCATGAATTATGCATGATGTTGGTCA
1 ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
55876770 CCTCTTCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAA
Found at i:55876900 original size:16 final size:16
Alignment explanation
Indices: 55876879--55876910 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
55876869 CATTCTGCAT
55876879 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
55876895 TTAAACAACAGCAGCA
1 TTAAACAACAGCAGCA
55876911 AAACACATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.50, C:0.25, G:0.12, T:0.12
Consensus pattern (16 bp):
TTAAACAACAGCAGCA
Found at i:55880406 original size:45 final size:45
Alignment explanation
Indices: 55880342--55880430 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
55880332 TTCGGCCATG
55880342 ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAA
1 ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAA
*
55880387 ATGCTTCCTCATATTCTTCCATGAATTATGCATGATGTTGGTCA
1 ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCA
55880431 CCTCTTCTTT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.25, C:0.20, G:0.16, T:0.39
Consensus pattern (45 bp):
ATGCTTCCTCAAATTCTTCCATGAATTATGCATGATGTTGGTCAA
Found at i:55893390 original size:53 final size:54
Alignment explanation
Indices: 55893322--55893529 Score: 231
Period size: 55 Copynumber: 3.9 Consensus size: 54
55893312 TTTCCTTTTT
* * * * * *
55893322 GAACTTACCATTGCCATGTCTTGACATAGTCTTACGTGGTATCCTTGCCTTAT-
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* **
55893375 GAACTCACCAATGCCATGCCTTGGCATGGTCTTACATGGGA-CCTTTGCCTTATA
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCC-TTGCCTTATA
* * * *
55893429 GTAACTCATCAATGCCATGTCTTGATATGGTCTTACATGATTTCCTTGCCTTATA
1 G-AACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
* * * *
55893484 GAACTTATCAATGCCATGCCTTGGCATGGTTTTACATGATATCCTT
1 GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTT
55893530 ATCTTACCAA
Statistics
Matches: 131, Mismatches: 20, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
52 2 0.02
53 43 0.33
54 40 0.31
55 44 0.34
56 2 0.02
ACGTcount: A:0.23, C:0.24, G:0.17, T:0.36
Consensus pattern (54 bp):
GAACTCACCAATGCCATGCCTTGACATGGTCTTACATGATATCCTTGCCTTATA
Found at i:55893566 original size:47 final size:47
Alignment explanation
Indices: 55893508--55893629 Score: 217
Period size: 47 Copynumber: 2.6 Consensus size: 47
55893498 CATGCCTTGG
* * *
55893508 CATGGTTTTACATGATATCCTTATCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
55893555 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
1 CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
55893602 CATGGTCTTACATGGTATCCTTGTCTTA
1 CATGGTCTTACATGGTATCCTTGTCTTA
55893630 GTGCCAATGC
Statistics
Matches: 72, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.25, C:0.24, G:0.14, T:0.37
Consensus pattern (47 bp):
CATGGTCTTACATGGTATCCTTGTCTTACCAAATGCCATGTTCCAAA
Found at i:55893703 original size:47 final size:46
Alignment explanation
Indices: 55893652--55893754 Score: 129
Period size: 45 Copynumber: 2.2 Consensus size: 46
55893642 CATCTTGATG
* *
55893652 TGGTCTTACATAGAG-TCCTTAATCAATGTCGATGCCATGTCTTGACA
1 TGGTCTTACATAGAGATCCTT--GCAATATCGATGCCATGTCTTGACA
* **
55893699 TGGTCTTACA-CGAGATCCTTGCCTTATCGATGCCATGTCTTGACA
1 TGGTCTTACATAGAGATCCTTGCAATATCGATGCCATGTCTTGACA
55893744 TGGTCTTACAT
1 TGGTCTTACAT
55893755 GGTATCCTTA
Statistics
Matches: 49, Mismatches: 5, Indels: 5
0.83 0.08 0.08
Matches are distributed among these distances:
45 31 0.63
46 3 0.06
47 15 0.31
ACGTcount: A:0.22, C:0.23, G:0.19, T:0.35
Consensus pattern (46 bp):
TGGTCTTACATAGAGATCCTTGCAATATCGATGCCATGTCTTGACA
Found at i:55894426 original size:30 final size:30
Alignment explanation
Indices: 55894392--55894448 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
55894382 CTAACTCAAA
55894392 CTTTGGAAAAATTAC-AATTTGCCCCTAAAC
1 CTTT-GAAAAATTACGAATTTGCCCCTAAAC
* * *
55894422 CTTTGTAGAATTACGATTTTGCCCCTA
1 CTTTGAAAAATTACGAATTTGCCCCTA
55894449 GTCTCGAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
29 8 0.35
30 15 0.65
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (30 bp):
CTTTGAAAAATTACGAATTTGCCCCTAAAC
Found at i:55896426 original size:26 final size:25
Alignment explanation
Indices: 55896396--55896485 Score: 89
Period size: 23 Copynumber: 3.7 Consensus size: 25
55896386 GACTCACTAC
55896396 AGCTCGTATGAGCTTACCGATATTTT
1 AGCTCGTATGAGCTTACCGAT-TTTT
*
55896422 AGCTCGTATGAGCTTA-CTATTTTT
1 AGCTCGTATGAGCTTACCGATTTTT
* *
55896446 AGCTCAT-TGGAGCTTACCG--TTTA
1 AGCTCGTAT-GAGCTTACCGATTTTT
* *
55896469 AGCTCATATGAGTTTAC
1 AGCTCGTATGAGCTTAC
55896486 TGTTCAACTC
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
23 18 0.32
24 18 0.32
25 4 0.07
26 16 0.29
ACGTcount: A:0.23, C:0.19, G:0.19, T:0.39
Consensus pattern (25 bp):
AGCTCGTATGAGCTTACCGATTTTT
Found at i:55896450 original size:24 final size:26
Alignment explanation
Indices: 55896396--55896464 Score: 90
Period size: 24 Copynumber: 2.7 Consensus size: 26
55896386 GACTCACTAC
55896396 AGCTCGTATGAGCTTACCGATATTTT
1 AGCTCGTATGAGCTTACCGATATTTT
*
55896422 AGCTCGTATGAGCTTA-CTAT-TTTT
1 AGCTCGTATGAGCTTACCGATATTTT
*
55896446 AGCTCAT-TGGAGCTTACCG
1 AGCTCGTAT-GAGCTTACCG
55896465 TTTAAGCTCA
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
23 1 0.03
24 17 0.45
25 4 0.11
26 16 0.42
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (26 bp):
AGCTCGTATGAGCTTACCGATATTTT
Found at i:55896548 original size:23 final size:23
Alignment explanation
Indices: 55896431--55896556 Score: 103
Period size: 23 Copynumber: 5.3 Consensus size: 23
55896421 TAGCTCGTAT
* * * *
55896431 GAGCTTACTATTTTTAGCTCATTG
1 GAGCTTACT-GTTTCAGCTCAATA
* *
55896455 GAGCTTACCGTTTAAGCTC-ATA
1 GAGCTTACTGTTTCAGCTCAATA
* *
55896477 TGAGTTTACTG-TTCAACTCAATA
1 -GAGCTTACTGTTTCAGCTCAATA
55896500 GAGCTTACTGTTTCAGCTCAATA
1 GAGCTTACTGTTTCAGCTCAATA
* *
55896523 GAGCTTAGTGTTCATCAGCTCAAGA
1 GAGCTTACTGTT--TCAGCTCAATA
55896548 GGAGCTTAC
1 -GAGCTTAC
55896557 CGATCATGGC
Statistics
Matches: 82, Mismatches: 14, Indels: 10
0.77 0.13 0.09
Matches are distributed among these distances:
22 16 0.20
23 41 0.50
24 8 0.10
25 10 0.12
26 7 0.09
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (23 bp):
GAGCTTACTGTTTCAGCTCAATA
Found at i:55896563 original size:26 final size:25
Alignment explanation
Indices: 55896512--55896576 Score: 60
Period size: 25 Copynumber: 2.6 Consensus size: 25
55896502 GCTTACTGTT
* ** *
55896512 TCAGCTCAATAGAGCTTAGTGTTCA
1 TCAGCTCAAGAGAGCTTACCGATCA
55896537 TCAGCTCAAGAGGAGCTTACCGATCA
1 TCAGCTCAAGA-GAGCTTACCGATCA
* *
55896563 T-GGCTCAAAAGAGC
1 TCAGCTCAAGAGAGC
55896577 ATAAATGTTA
Statistics
Matches: 33, Mismatches: 6, Indels: 3
0.79 0.14 0.07
Matches are distributed among these distances:
24 4 0.12
25 17 0.52
26 12 0.36
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (25 bp):
TCAGCTCAAGAGAGCTTACCGATCA
Found at i:55906423 original size:46 final size:46
Alignment explanation
Indices: 55906373--55906548 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
55906363 TGGTTGAGCA
55906373 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55906419 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
55906464 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
55906512 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
55906549 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:55906529 original size:93 final size:93
Alignment explanation
Indices: 55906370--55906541 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
55906360 GGATGGTTGA
* *
55906370 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55906435 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
55906463 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
55906528 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
55906542 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:55910207 original size:3 final size:3
Alignment explanation
Indices: 55910199--55910227 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
55910189 TAAAGGTTAA
55910199 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
55910228 AACATAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:55917573 original size:30 final size:30
Alignment explanation
Indices: 55917537--55917594 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
55917527 CAATTTGGGG
*
55917537 TCATACGGCCAAGTCACACGCCCGTGTCCT
1 TCATACGGCCAAGACACACGCCCGTGTCCT
** *
55917567 TCATACGGCTGAGACACACGGCCGTGTC
1 TCATACGGCCAAGACACACGCCCGTGTC
55917595 TCTGCCCGTG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.21, C:0.36, G:0.24, T:0.19
Consensus pattern (30 bp):
TCATACGGCCAAGACACACGCCCGTGTCCT
Found at i:55919452 original size:42 final size:42
Alignment explanation
Indices: 55919344--55919551 Score: 206
Period size: 42 Copynumber: 4.9 Consensus size: 42
55919334 TGAGATGCCA
* * ** *
55919344 ATGCCATATCCTAGACATGGTCTTACATGGGATCACAAATATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTC--ATATCG
* ** *
55919388 ATGCCGATAGCCCAG-CTATGGTCTTACACGATGTCTCGTATCG
1 ATGCC-ATATCCCAGAC-ATGGTCTTACACGAAATCTCATATCG
* *
55919431 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAAATCG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
* *
55919473 ATGCCATATCCCAGATATGGTCTTATACGAAATC-CATAAT-G
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCAT-ATCG
* * *
55919514 ATGCCATATCCCAGATATGGTCTTATACGTAATCTCAT
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCAT
55919552 TAACCCTAAT
Statistics
Matches: 140, Mismatches: 19, Indels: 12
0.82 0.11 0.07
Matches are distributed among these distances:
41 36 0.26
42 65 0.46
43 11 0.08
44 6 0.04
45 22 0.16
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (42 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCATATCG
Found at i:55919534 original size:83 final size:86
Alignment explanation
Indices: 55919344--55919550 Score: 233
Period size: 83 Copynumber: 2.4 Consensus size: 86
55919334 TGAGATGCCA
* * ** * *
55919344 ATGCCATATCCTAGACATGGTCTTACATGGGATCACAAATATCGATGCCGATAGCCCAGCTATGG
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTC-AATATCGATGCCGATAGCCCAGATATGG
** *
55919409 TCTTACACGATGTCTCGTATCG
65 TCTTACACGAAATCTCATATCG
* *
55919431 ATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAA-ATCGATGCC-ATATCCCAGATATGGT
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCAATATCGATGCCGATAGCCCAGATATGGT
*
55919494 CTTATACGAAATC-CATAAT-G
66 CTTACACGAAATCTCAT-ATCG
* * *
55919514 ATGCCATATCCCAGATATGGTCTTATACGTAATCTCA
1 ATGCCATATCCCAGACATGGTCTTACACGAAATCTCA
55919551 TTAACCCTAA
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
83 36 0.35
84 26 0.25
85 9 0.09
86 2 0.02
87 30 0.29
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.28
Consensus pattern (86 bp):
ATGCCATATCCCAGACATGGTCTTACACGAAATCTCAATATCGATGCCGATAGCCCAGATATGGT
CTTACACGAAATCTCATATCG
Found at i:55919564 original size:41 final size:40
Alignment explanation
Indices: 55919434--55919547 Score: 120
Period size: 41 Copynumber: 2.8 Consensus size: 40
55919424 CGTATCGATG
* * * * **
55919434 CCATGTCCCAGACATGGTCTTACACGAAATCTCAAATCGATG
1 CCATATCCCAGATATGGTCTTATACGAAATC-CATAT-GAAC
**
55919476 CCATATCCCAGATATGGTCTTATACGAAATCCATAATGATG
1 CCATATCCCAGATATGGTCTTATACGAAATCCAT-ATGAAC
*
55919517 CCATATCCCAGATATGGTCTTATACGTAATC
1 CCATATCCCAGATATGGTCTTATACGAAATC
55919548 TCATTAACCC
Statistics
Matches: 66, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 36 0.55
42 30 0.45
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (40 bp):
CCATATCCCAGATATGGTCTTATACGAAATCCATATGAAC
Found at i:55921340 original size:50 final size:50
Alignment explanation
Indices: 55921248--55921345 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 50
55921238 AGCTCTGAAT
* * * * *
55921248 CAATATGCTCTTATGAGCTGTAAACAATAAGCTCCTCCGAGCT-AAATAA
1 CAATAAGCTCTTATGAACTGAAAACAATAAGCTCATACGAGCTGAAATAA
* *
55921297 CAATAAGCTCTTCTGAACTGAATAACAATAAGCTCATATGAGCTGAAAT
1 CAATAAGCTCTTATGAACTGAA-AACAATAAGCTCATACGAGCTGAAAT
55921346 CTATAACCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 18 0.45
50 18 0.45
51 4 0.10
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (50 bp):
CAATAAGCTCTTATGAACTGAAAACAATAAGCTCATACGAGCTGAAATAA
Found at i:55921342 original size:25 final size:25
Alignment explanation
Indices: 55921229--55921343 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
55921219 GTACATGCAT
*
55921229 GCTCATATGAGCTCTGAAT--CAATAT
1 GCTCATATGAG--CTGAATAACAATAA
* *
55921254 GCTCTTATGAGCTGTA-AACAATAA
1 GCTCATATGAGCTGAATAACAATAA
* ** *
55921278 GCTCCTCCGAGCTAAATAACAATAA
1 GCTCATATGAGCTGAATAACAATAA
* * *
55921303 GCTCTTCTGAACTGAATAACAATAA
1 GCTCATATGAGCTGAATAACAATAA
55921328 GCTCATATGAGCTGAA
1 GCTCATATGAGCTGAA
55921344 ATCTATAACC
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
23 4 0.06
24 16 0.22
25 52 0.72
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACAATAA
Found at i:55923318 original size:75 final size:75
Alignment explanation
Indices: 55923185--55923328 Score: 261
Period size: 75 Copynumber: 1.9 Consensus size: 75
55923175 TCCTATATCC
55923185 CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
1 CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
55923250 GCCCATGTCG
66 GCCCATGTCG
* * *
55923260 CTAACCCGTGTAACTCTCTGTTTTGCAATGCATGAACAAATTGATGTCACACGGCCAAGTCACAC
1 CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
55923325 GCCC
66 GCCC
55923329 GTGTGCCAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (75 bp):
CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
GCCCATGTCG
Found at i:55934848 original size:20 final size:19
Alignment explanation
Indices: 55934825--55934888 Score: 76
Period size: 20 Copynumber: 3.4 Consensus size: 19
55934815 TTATTTTTTA
55934825 TAATTTTTAAATATTTAATT
1 TAATTTTTAAATATTT-ATT
* *
55934845 TAATTTTTTATTATTTATT
1 TAATTTTTAAATATTTATT
*
55934864 TAATTTTTAAA-AATTATT
1 TAATTTTTAAATATTTATT
*
55934882 TACTTTT
1 TAATTTT
55934889 CTCACTAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
18 12 0.32
19 12 0.32
20 14 0.37
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (19 bp):
TAATTTTTAAATATTTATT
Found at i:55934883 original size:37 final size:37
Alignment explanation
Indices: 55934810--55934888 Score: 99
Period size: 37 Copynumber: 2.1 Consensus size: 37
55934800 AAAGTGTCGT
*
55934810 ATTTTTTATTTTTTATAATTTTTAAATATTTAATTTA
1 ATTTTTTATTTTTTATAATTTTTAAATAATTAATTTA
*
55934847 ATTTTTTATTATTTATTTAATTTTTAAA-AATT-ATTTA
1 ATTTTTTATT-TTT-TATAATTTTTAAATAATTAATTTA
*
55934884 CTTTT
1 ATTTT
55934889 CTCACTAAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
37 19 0.51
38 6 0.16
39 12 0.32
ACGTcount: A:0.32, C:0.01, G:0.00, T:0.67
Consensus pattern (37 bp):
ATTTTTTATTTTTTATAATTTTTAAATAATTAATTTA
Found at i:55935056 original size:15 final size:15
Alignment explanation
Indices: 55935018--55935057 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
55935008 TGGACAAGGC
55935018 AAATATAATTTGAAAT
1 AAATAT-ATTTGAAAT
*
55935034 ATAATATATTTGTAAT
1 A-AATATATTTGAAAT
55935050 AAATATAT
1 AAATATAT
55935058 GGTTATATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 7 0.32
16 10 0.45
17 5 0.23
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (15 bp):
AAATATATTTGAAAT
Found at i:55936526 original size:48 final size:48
Alignment explanation
Indices: 55936474--55936570 Score: 158
Period size: 48 Copynumber: 2.0 Consensus size: 48
55936464 CTATTTCGTA
* * *
55936474 TGCTGAACTGTTTTATCTTTAAATTCACACTTTTTGCCTCAAATTTCC
1 TGCTGAACCGTTTTATCTTTAAATTCACACTTTTTCCCCCAAATTTCC
*
55936522 TGCTGAACCGTTTTATCTTTAAATTCACGCTTTTTCCCCCAAATTTCC
1 TGCTGAACCGTTTTATCTTTAAATTCACACTTTTTCCCCCAAATTTCC
55936570 T
1 T
55936571 TTTACTTTCA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 45 1.00
ACGTcount: A:0.22, C:0.26, G:0.08, T:0.44
Consensus pattern (48 bp):
TGCTGAACCGTTTTATCTTTAAATTCACACTTTTTCCCCCAAATTTCC
Found at i:55958014 original size:40 final size:38
Alignment explanation
Indices: 55957866--55958031 Score: 152
Period size: 38 Copynumber: 4.3 Consensus size: 38
55957856 ATTTGATGTG
* * ** * *
55957866 TATCCGGGCTTAAAGACTCGCAGGCTTTATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* *
55957906 TATCCGGGTTAAATCTCGCAGGCTTCGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* *
55957944 TATCCGGGTTAAATCCCGCAGGCCTAGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
55957982 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* *
55958022 TGTTCGGGTT
1 TATCCGGGTT
55958032 TTATATCTCG
Statistics
Matches: 104, Mismatches: 20, Indels: 5
0.81 0.16 0.04
Matches are distributed among these distances:
38 58 0.56
39 14 0.13
40 32 0.31
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:55959066 original size:81 final size:81
Alignment explanation
Indices: 55958978--55959174 Score: 376
Period size: 81 Copynumber: 2.4 Consensus size: 81
55958968 AACCATCTGA
*
55958978 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGGACTACACAT
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
*
55959043 GCGACCAATAATTCGG
66 GCGACCAATAATCCGG
55959059 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
55959124 GCGACCAATAATCCGG
66 GCGACCAATAATCCGG
55959140 TACACGTAGTAGCCTGCACTTAGTACTACACACGT
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGT
55959175 GACCTCACAA
Statistics
Matches: 114, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 114 1.00
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.23
Consensus pattern (81 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
GCGACCAATAATCCGG
Found at i:55965584 original size:27 final size:27
Alignment explanation
Indices: 55965545--55965597 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
55965535 GATCCCAGTT
55965545 TGTAAAATCACCG-AAATAACCTTGTAG
1 TGTAAAATCACCGTAAA-AACCTTGTAG
* *
55965572 TGTAAAATGACCGTAAAACCCTTGTA
1 TGTAAAATCACCGTAAAAACCTTGTA
55965598 TGGTAGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.40, C:0.19, G:0.15, T:0.26
Consensus pattern (27 bp):
TGTAAAATCACCGTAAAAACCTTGTAG
Found at i:55966050 original size:28 final size:27
Alignment explanation
Indices: 55966009--55966064 Score: 76
Period size: 28 Copynumber: 2.0 Consensus size: 27
55965999 CTGATACTGG
* **
55966009 TTCTGTATTGGGCTTTGGCCCACCTGA
1 TTCTGTATTAGGCTAAGGCCCACCTGA
55966036 TTCTGTTATTAGGCTAAGGCCCACCTGA
1 TTCTG-TATTAGGCTAAGGCCCACCTGA
55966064 T
1 T
55966065 GCTGCTTCTG
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.16, C:0.25, G:0.23, T:0.36
Consensus pattern (27 bp):
TTCTGTATTAGGCTAAGGCCCACCTGA
Found at i:55972247 original size:29 final size:28
Alignment explanation
Indices: 55972211--55972288 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
55972201 TCATGAGATT
55972211 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
55972241 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
55972268 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
55972289 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:55977327 original size:39 final size:40
Alignment explanation
Indices: 55976440--55977317 Score: 896
Period size: 40 Copynumber: 22.2 Consensus size: 40
55976430 CGGATGATAA
* * *
55976440 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55976480 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976519 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* **
55976559 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976598 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* **
55976638 CCGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976677 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55976717 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976756 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55976796 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976835 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55976875 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976914 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55976954 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55976993 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55977033 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55977072 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55977112 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55977151 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATA-T
* * **
55977191 CTGGGCTAAG-CCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
* * *
55977230 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
55977270 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTA-CTATAT
55977310 CC-GGCTAA
1 CCGGGCTAA
55977318 ATTCTGAAGG
Statistics
Matches: 738, Mismatches: 74, Indels: 53
0.85 0.09 0.06
Matches are distributed among these distances:
39 353 0.48
40 385 0.52
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTTACTATAT
Found at i:55977327 original size:79 final size:79
Alignment explanation
Indices: 55976440--55977294 Score: 1545
Period size: 79 Copynumber: 10.8 Consensus size: 79
55976430 CGGATGATAA
55976440 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55976505 GTGAGTTACTATAT
66 GTGAGTTACTATAT
* * * *
55976519 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCTGGGCTAAGCCCGAAGGCATTTG
55976583 TGTGAGTTACTATAT
65 TGTGAGTTACTATAT
* * * *
55976598 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCTGGGCTAAGCCCGAAGGCATTTG
55976662 TGTGAGTTACTATAT
65 TGTGAGTTACTATAT
55976677 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55976742 GTGAGTTACTATAT
66 GTGAGTTACTATAT
55976756 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55976821 GTGAGTTACTATAT
66 GTGAGTTACTATAT
55976835 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55976900 GTGAGTTACTATAT
66 GTGAGTTACTATAT
55976914 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55976979 GTGAGTTACTATAT
66 GTGAGTTACTATAT
55976993 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55977058 GTGAGTTACTATAT
66 GTGAGTTACTATAT
55977072 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55977137 GTGAGTTACTATAT
66 GTGAGTTACTATAT
55977151 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
55977216 GTGAGTTACTATAT
66 GTGAGTTACTATAT
* * * *
55977230 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAAT-TCTGGGCTAAG-CCCGAAGGCATTT
55977294 G
64 G
55977295 AGCAAGTAGC
Statistics
Matches: 760, Mismatches: 12, Indels: 7
0.98 0.02 0.01
Matches are distributed among these distances:
78 4 0.01
79 740 0.97
80 16 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTCTGGGCTAAGCCCGAAGGCATTTGT
GTGAGTTACTATAT
Found at i:55986491 original size:27 final size:27
Alignment explanation
Indices: 55986463--55986693 Score: 261
Period size: 27 Copynumber: 8.6 Consensus size: 27
55986453 CCTTAATCGA
**
55986463 TAAAATGGTTGTTTTGCCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
55986489 ATAAAATGACTGTTCTGCCTTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
*
55986517 TAAAATGACTGTTTTCCCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
55986543 ATAAAATGGCTGTTCTACCTTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
55986571 TAAAATGACTGCTTTGACCTTACGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* *
55986598 TAAAATGACTATTCTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
55986625 TGAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
55986652 TAAAATGACTGTTTTGCCCTTAT-ATGG
1 TAAAATGACTGTTTTGCCCTTATGA-GG
*
55986679 TAAAATGACTATTTT
1 TAAAATGACTGTTTT
55986694 TCCTTTTTAT
Statistics
Matches: 170, Mismatches: 30, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
26 3 0.02
27 163 0.96
28 4 0.02
ACGTcount: A:0.26, C:0.15, G:0.21, T:0.38
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:55986708 original size:27 final size:27
Alignment explanation
Indices: 55986463--55986720 Score: 145
Period size: 27 Copynumber: 9.6 Consensus size: 27
55986453 CCTTAATCGA
** **
55986463 TAAAATGGTTGTTTTGCCCTTAT-GGG
1 TAAAATGACTGTTTTGCCCTTATATAG
*
55986489 ATAAAATGACTGTTCTG-CCTT-TATGAGG
1 -TAAAATGACTGTTTTGCCCTTATAT-A-G
* **
55986517 TAAAATGACTGTTTTCCCCTTAT-GGG
1 TAAAATGACTGTTTTGCCCTTATATAG
* * *
55986543 ATAAAATGGCTGTTCT-ACCTT-TATGAGG
1 -TAAAATGACTGTTTTGCCCTTATAT-A-G
* * ** *
55986571 TAAAATGACTGCTTTGACCTTACGTGG
1 TAAAATGACTGTTTTGCCCTTATATAG
* * *
55986598 TAAAATGACTATTCTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATAG
* *
55986625 TGAAATGACTGTTTTGCCCTTATGA-GG
1 TAAAATGACTGTTTTGCCCTTAT-ATAG
*
55986652 TAAAATGACTGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATATAG
* * * *
55986679 TAAAATGACTATTTTTCCTTTTTATAG
1 TAAAATGACTGTTTTGCCCTTATATAG
*
55986706 TAAGATGACTGTTTT
1 TAAAATGACTGTTTT
55986721 ACCCCTATGT
Statistics
Matches: 181, Mismatches: 37, Indels: 26
0.74 0.15 0.11
Matches are distributed among these distances:
25 2 0.01
26 10 0.06
27 156 0.86
28 11 0.06
29 2 0.01
ACGTcount: A:0.26, C:0.15, G:0.20, T:0.39
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATATAG
Found at i:55986714 original size:81 final size:79
Alignment explanation
Indices: 55986472--55986729 Score: 252
Period size: 81 Copynumber: 3.2 Consensus size: 79
55986462 ATAAAATGGT
* * * * *
55986472 TGTTTTGCCCTTATG-GGATAAAATGACTGTTCTGCCTTTATGA-GGTAAAATGACTGTTTTCCC
1 TGTTTTACCCTTATGAGG-TAAAATGACTGTTTTGCCCTTAT-ATGGTAAAATGACTATTTTTCC
* *
55986535 CTTATGGGATAAAATGGC
64 CTTATGAG-T-AAATGAC
* * * * ** * *
55986553 TGTTCTACCTTTATGAGGTAAAATGACTGCTTTGACCTTACGTGGTAAAATGACTATTCTGCCCT
1 TGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTTCCCT
55986618 TATGAGGTGAAATGAC
66 TATGA-GT-AAATGAC
*
55986634 TGTTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTTCCTT
1 TGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTTCC--
*
55986699 TTTAT-AGTAAGATGAC
64 CTTATGAGTAA-ATGAC
*
55986715 TGTTTTACCCCTATG
1 TGTTTTACCCTTATG
55986730 TGATGTATGA
Statistics
Matches: 144, Mismatches: 27, Indels: 12
0.79 0.15 0.07
Matches are distributed among these distances:
80 2 0.01
81 134 0.93
82 4 0.03
83 4 0.03
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (79 bp):
TGTTTTACCCTTATGAGGTAAAATGACTGTTTTGCCCTTATATGGTAAAATGACTATTTTTCCCT
TATGAGTAAATGAC
Found at i:55987011 original size:6 final size:6
Alignment explanation
Indices: 55986994--55987046 Score: 74
Period size: 6 Copynumber: 8.8 Consensus size: 6
55986984 AGGAGATACA
55986994 TACTGTT TACTGT TACTG- TACTGT TACTGT TACTG- TACTGTT TACTGT
1 TACTG-T TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT
55987042 TACTG
1 TACTG
55987047 CAATGGGCCA
Statistics
Matches: 43, Mismatches: 0, Indels: 7
0.86 0.00 0.14
Matches are distributed among these distances:
5 10 0.23
6 23 0.53
7 10 0.23
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (6 bp):
TACTGT
Found at i:55987017 original size:11 final size:12
Alignment explanation
Indices: 55986994--55987046 Score: 74
Period size: 11 Copynumber: 4.4 Consensus size: 12
55986984 AGGAGATACA
55986994 TACTGTTTACTGT
1 TACTG-TTACTGT
55987007 TACTG-TACTGT
1 TACTGTTACTGT
55987018 TACTGTTACTG-
1 TACTGTTACTGT
55987029 TACTGTTTACTGT
1 TACTG-TTACTGT
55987042 TACTG
1 TACTG
55987047 CAATGGGCCA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
11 16 0.43
12 11 0.30
13 10 0.27
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (12 bp):
TACTGTTACTGT
Found at i:55987022 original size:17 final size:18
Alignment explanation
Indices: 55986994--55987046 Score: 99
Period size: 17 Copynumber: 3.0 Consensus size: 18
55986984 AGGAGATACA
55986994 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
55987012 TACTG-TTACTGTTACTG
1 TACTGTTTACTGTTACTG
55987029 TACTGTTTACTGTTACTG
1 TACTGTTTACTGTTACTG
55987047 CAATGGGCCA
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
17 17 0.50
18 17 0.50
ACGTcount: A:0.17, C:0.17, G:0.17, T:0.49
Consensus pattern (18 bp):
TACTGTTTACTGTTACTG
Found at i:55990389 original size:27 final size:27
Alignment explanation
Indices: 55990360--55990596 Score: 309
Period size: 27 Copynumber: 8.8 Consensus size: 27
55990350 ACTTAATCGA
**
55990360 TAAAATGGTTGTTTTGCCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
55990386 ATAAAATGACTGTTCTGCCCTTATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
*
55990414 TAAAATGACTGTTTTCCCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
55990440 ATAAAATGACTGTTCTG-CCTATATGAGG
1 -TAAAATGACTGTTTTGCCCT-TATGAGG
* * *
55990468 TAAAATGACTGTTTTACCCTTACGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
* * *
55990495 CAAAATGACTGTTCTACCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
55990522 TGAAATGACTGTTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
55990549 TAAAATGACTATTTTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
55990576 TAAAATGACTGTTTTGCCCTT
1 TAAAATGACTGTTTTGCCCTT
55990597 TTATGGTAGA
Statistics
Matches: 183, Mismatches: 22, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
26 5 0.03
27 171 0.93
28 7 0.04
ACGTcount: A:0.26, C:0.17, G:0.21, T:0.36
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:55990615 original size:81 final size:80
Alignment explanation
Indices: 55990369--55990626 Score: 283
Period size: 81 Copynumber: 3.2 Consensus size: 80
55990359 ATAAAATGGT
*
55990369 TGTTTTGCCCTTATG-GGATAAAATGACTGTTCTGCCCTTATGAGGTAAAATGACTGTTTTCCC-
1 TGTTTTGCCCTTATGAGG-TAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTCCCT
* *
55990432 CTTATGGGATAAAATGAC
65 TTTAT-GG-TAGAATGAC
* * * * * *
55990450 TGTTCTG-CCTATATGAGGTAAAATGACTGTTTTACCCTTACGTGGCAAAATGACTGTTCTACCC
1 TGTTTTGCCCT-TATGAGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTT-TTCCC
*
55990514 TTATGA-GGT-GAAATGAC
64 TT-TTATGGTAG-AATGAC
*
55990531 TGTTTTGCCCTTATGAGGTAAAATGACTATTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCT
1 TGTTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTT-CCCT
*
55990596 TTTATGGTAGAATGTC
65 TTTATGGTAGAATGAC
* *
55990612 TGTTTTACCCCTATG
1 TGTTTTGCCCTTATG
55990627 TGATGTATGT
Statistics
Matches: 146, Mismatches: 21, Indels: 20
0.78 0.11 0.11
Matches are distributed among these distances:
80 6 0.04
81 126 0.86
82 12 0.08
84 2 0.01
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.37
Consensus pattern (80 bp):
TGTTTTGCCCTTATGAGGTAAAATGACTGTTTTGCCCTTATGAGGTAAAATGACTGTTTTCCCTT
TTATGGTAGAATGAC
Found at i:55990990 original size:17 final size:18
Alignment explanation
Indices: 55990939--55991007 Score: 77
Period size: 18 Copynumber: 3.9 Consensus size: 18
55990929 GGACTTACAT
*
55990939 ACTGTTTACTGTTACTGC
1 ACTGTTTACTGTTACTAC
** * * *
55990957 GTTATTTTCTATTACTAC
1 ACTGTTTACTGTTACTAC
55990975 ACTG-TTACTGTTACTAC
1 ACTGTTTACTGTTACTAC
55990992 ACTGTTTACTGTTACT
1 ACTGTTTACTGTTACT
55991008 GGAATGGGCC
Statistics
Matches: 39, Mismatches: 11, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
17 15 0.38
18 24 0.62
ACGTcount: A:0.20, C:0.20, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTGTTTACTGTTACTAC
Found at i:56010806 original size:27 final size:27
Alignment explanation
Indices: 56010778--56010905 Score: 152
Period size: 27 Copynumber: 4.8 Consensus size: 27
56010768 CCTTAATCGA
**
56010778 TAAAATGGTTGTTTTGCCCTTATG-GG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
56010804 ATAAAATGACTGTTCTGCCC-TATGAGG
1 -TAAAATGACTGTTTTGCCCTTATGAGG
* * * *
56010831 TAAAATAACTGTTTTCCCCTTAGGTGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
56010858 TAAAATGACTGTTCTGCCCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGAGG
*
56010885 TAAAATGACTATTTTGCCCTT
1 TAAAATGACTGTTTTGCCCTT
56010906 TTATGGTAAG
Statistics
Matches: 84, Mismatches: 15, Indels: 4
0.82 0.15 0.04
Matches are distributed among these distances:
26 20 0.24
27 64 0.76
ACGTcount: A:0.26, C:0.17, G:0.20, T:0.37
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGAGG
Found at i:56010862 original size:53 final size:54
Alignment explanation
Indices: 56010787--56010905 Score: 179
Period size: 53 Copynumber: 2.2 Consensus size: 54
56010777 ATAAAATGGT
56010787 TGTTTTGCCCTTATGGGATAAAATGACTGTTCTGCCC-TATGAGGTAAAATAAC
1 TGTTTTGCCCTTATGGGATAAAATGACTGTTCTGCCCTTATGAGGTAAAATAAC
* * *
56010840 TGTTTTCCCCTTA-GGTGGTAAAATGACTGTTCTGCCCTTATGAGGTAAAATGAC
1 TGTTTTGCCCTTATGG-GATAAAATGACTGTTCTGCCCTTATGAGGTAAAATAAC
*
56010894 TATTTTGCCCTT
1 TGTTTTGCCCTT
56010906 TTATGGTAAG
Statistics
Matches: 59, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
52 2 0.03
53 32 0.54
54 25 0.42
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.37
Consensus pattern (54 bp):
TGTTTTGCCCTTATGGGATAAAATGACTGTTCTGCCCTTATGAGGTAAAATAAC
Found at i:56011275 original size:18 final size:18
Alignment explanation
Indices: 56011252--56011319 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 18
56011242 TTGCATACTA
*
56011252 TTTACTGTTACTGCACTG
1 TTTACTATTACTGCACTG
* *
56011270 TTTACTACTACTGTACTG
1 TTTACTATTACTGCACTG
* *
56011288 -TTATTATTACTGCATTG
1 TTTACTATTACTGCACTG
*
56011305 TTTACTGTTACTGCA
1 TTTACTATTACTGCA
56011320 ATGGGCCAAG
Statistics
Matches: 40, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
17 13 0.32
18 27 0.68
ACGTcount: A:0.21, C:0.19, G:0.13, T:0.47
Consensus pattern (18 bp):
TTTACTATTACTGCACTG
Found at i:56012516 original size:12 final size:12
Alignment explanation
Indices: 56012499--56012529 Score: 62
Period size: 12 Copynumber: 2.6 Consensus size: 12
56012489 AGCCACATGC
56012499 CCGTGTGCTAGG
1 CCGTGTGCTAGG
56012511 CCGTGTGCTAGG
1 CCGTGTGCTAGG
56012523 CCGTGTG
1 CCGTGTG
56012530 AAGCTATTGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.06, C:0.26, G:0.42, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:56035477 original size:40 final size:40
Alignment explanation
Indices: 56035376--56035710 Score: 529
Period size: 40 Copynumber: 8.5 Consensus size: 40
56035366 TGGATGATAA
* * * *
56035376 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTA-TAT
*
56035416 CCGGGC-AAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
56035455 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
56035495 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
56035535 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
56035575 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
*
56035615 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
* *
56035655 CCGGGCTAAGTCCCGAAGGCATTTGAGC-AG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTA-CTATAT
*
56035694 CCGGG-TAA-ACCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56035711 TACTTGGTTG
Statistics
Matches: 283, Mismatches: 9, Indels: 9
0.94 0.03 0.03
Matches are distributed among these distances:
37 8 0.03
38 6 0.02
39 46 0.16
40 223 0.79
ACGTcount: A:0.23, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
Found at i:56037729 original size:20 final size:20
Alignment explanation
Indices: 56037684--56037731 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
56037674 AGTAAGCTTG
*
56037684 GTTGAGCTCAAACGGGCTGA
1 GTTGAGCTCAAACGAGCTGA
** *
56037704 AATGAGCTCAAATGAGCTGA
1 GTTGAGCTCAAACGAGCTGA
56037724 GTTGAGCT
1 GTTGAGCT
56037732 GGACGAAGCT
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.31, T:0.23
Consensus pattern (20 bp):
GTTGAGCTCAAACGAGCTGA
Found at i:56037748 original size:19 final size:19
Alignment explanation
Indices: 56037724--56037772 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
56037714 AATGAGCTGA
56037724 GTTGAGCTGGACGAAGCTC
1 GTTGAGCTGGACGAAGCTC
*
56037743 GTTGAGCTGGACGGAGCTC
1 GTTGAGCTGGACGAAGCTC
*
56037762 GATGAGCTGGA
1 GTTGAGCTGGA
56037773 AATGAGCTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.20, C:0.18, G:0.41, T:0.20
Consensus pattern (19 bp):
GTTGAGCTGGACGAAGCTC
Found at i:56039856 original size:6 final size:6
Alignment explanation
Indices: 56039821--56039907 Score: 59
Period size: 6 Copynumber: 13.8 Consensus size: 6
56039811 GATCTCAATA
* * * * *
56039821 TCTTTT TCCTTA TCTTTT TCCTTC TCTTTT TCTTTT TCACTTT T-TTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT TCTTTT
**
56039869 TCAATT TCATTTT TCTTTT TCTTATT CTCTTTT TGCTTT
1 TCTTTT TC-TTTT TCTTTT TCTT-TT -TCTTTT T-CTTT
56039908 CTTTAACACT
Statistics
Matches: 61, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
5 4 0.07
6 37 0.61
7 16 0.26
8 4 0.07
ACGTcount: A:0.07, C:0.21, G:0.01, T:0.71
Consensus pattern (6 bp):
TCTTTT
Found at i:56040931 original size:11 final size:12
Alignment explanation
Indices: 56040909--56040933 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56040899 AAAATACAAC
56040909 TTGAATTTTTTT
1 TTGAATTTTTTT
56040921 TTGAATTTTTTT
1 TTGAATTTTTTT
56040933 T
1 T
56040934 ACAATGAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.00, G:0.08, T:0.76
Consensus pattern (12 bp):
TTGAATTTTTTT
Found at i:56042504 original size:20 final size:20
Alignment explanation
Indices: 56042441--56042506 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
56042431 AATAAAGAAC
*
56042441 GAGCTGAAAGTAAGCTTG-GTT
1 GAGCTCAAAG-AAGC-TGAGTT
* **
56042462 GAGCTCAAACAAGCTGAAAT
1 GAGCTCAAAGAAGCTGAGTT
56042482 GAGCTCAAAGAAGCTGAGTT
1 GAGCTCAAAGAAGCTGAGTT
56042502 GAGCT
1 GAGCT
56042507 GGACGGAGCT
Statistics
Matches: 37, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
19 2 0.05
20 27 0.73
21 8 0.22
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (20 bp):
GAGCTCAAAGAAGCTGAGTT
Found at i:56046842 original size:39 final size:40
Alignment explanation
Indices: 56046797--56046964 Score: 106
Period size: 40 Copynumber: 4.2 Consensus size: 40
56046787 CGGGGTTTAG
* * *
56046797 CCGGATATAACCACTCGCA-CAAGGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
*** * *
56046836 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
** * * * **
56046876 CCGGATATAGTCGCTAGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAACCACTAGCATAAAGGCCTTCGGGA-CTTAAC
* ** * * * *
56046916 CCGGATGTAGTCGCTTAGCACAAAAGCCTTCGGGACTTAGC
1 CCGGATATAACCAC-TAGCATAAAGGCCTTCGGGACTTAAC
56046957 CCGGATAT
1 CCGGATAT
56046965 CATTCGAGTA
Statistics
Matches: 109, Mismatches: 16, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
39 18 0.17
40 61 0.56
41 27 0.25
42 3 0.03
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.24
Consensus pattern (40 bp):
CCGGATATAACCACTAGCATAAAGGCCTTCGGGACTTAAC
Found at i:56046947 original size:41 final size:40
Alignment explanation
Indices: 56046820--56046964 Score: 193
Period size: 40 Copynumber: 3.6 Consensus size: 40
56046810 CTCGCACAAG
* * * * *
56046820 GCCTTCGGGTCTTAACCCGGATATGGTCACTAGCATAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
56046860 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
1 GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
* * *
56046900 GCCTTC-GGATCTTAGTCCGGATGTAGTCGCTTAGCACAAAA
1 GCCTTCGGGA-CTTAGCCCGGATATAGTCGC-TAGCACAAAT
56046941 GCCTTCGGGACTTAGCCCGGATAT
1 GCCTTCGGGACTTAGCCCGGATAT
56046965 CATTCGAGTA
Statistics
Matches: 92, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
39 3 0.03
40 59 0.64
41 27 0.29
42 3 0.03
ACGTcount: A:0.23, C:0.26, G:0.25, T:0.26
Consensus pattern (40 bp):
GCCTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAAT
Found at i:56059866 original size:18 final size:18
Alignment explanation
Indices: 56059843--56059883 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
56059833 CATGACAGTG
* * *
56059843 TAAATTGTTAGGTATTTA
1 TAAATTATTAAGTATGTA
56059861 TAAATTATTAAGTATGTA
1 TAAATTATTAAGTATGTA
56059879 TAAAT
1 TAAAT
56059884 GAATTGAGTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.12, T:0.46
Consensus pattern (18 bp):
TAAATTATTAAGTATGTA
Found at i:56063015 original size:40 final size:40
Alignment explanation
Indices: 56062959--56063085 Score: 211
Period size: 40 Copynumber: 3.2 Consensus size: 40
56062949 CGGATGATAA
* * *
56062959 CCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
56062999 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56063039 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
56063079 CCGGGCT
1 CCGGGCT
56063086 TAAAGACCCG
Statistics
Matches: 83, Mismatches: 3, Indels: 2
0.94 0.03 0.02
Matches are distributed among these distances:
40 82 0.99
41 1 0.01
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56063118 original size:80 final size:78
Alignment explanation
Indices: 56062959--56063123 Score: 183
Period size: 80 Copynumber: 2.1 Consensus size: 78
56062949 CGGATGATAA
* * * *
56062959 CCGGGCTAAGTTCCGAAGGCATTTGTGCTAGTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGACCCGAAGGCATATG
56063024 TGCGAGTTACTATAT
66 TGCGA--TACTATAT
* *
56063039 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATATCCGGGCTTAAAGACCCGCAGGCTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAAT-TCCGGGC-T-AAGACCCGAAGGC-A
*
56063103 TATGCTG-GA-ATTATAT
62 TATG-TGCGATACTATAT
56063119 CCGGG
1 CCGGG
56063124 ATAAATCCTG
Statistics
Matches: 73, Mismatches: 7, Indels: 10
0.81 0.08 0.11
Matches are distributed among these distances:
79 2 0.03
80 51 0.70
81 1 0.01
82 11 0.15
83 6 0.08
84 2 0.03
ACGTcount: A:0.23, C:0.22, G:0.28, T:0.27
Consensus pattern (78 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGACTAATTCCGGGCTAAGACCCGAAGGCATATG
TGCGATACTATAT
Found at i:56063230 original size:43 final size:43
Alignment explanation
Indices: 56063154--56063294 Score: 219
Period size: 43 Copynumber: 3.3 Consensus size: 43
56063144 GCTGGTATTA
* * * *
56063154 TATTTGGGCCTTTGTGCCTAGCATGCTTTGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
56063197 TATTCAGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
56063240 TATTCGGGCCTTCATGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
56063283 TATTCGGGCCTT
1 TATTCGGGCCTT
56063295 TGAACCTAGC
Statistics
Matches: 89, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 89 1.00
ACGTcount: A:0.11, C:0.23, G:0.31, T:0.34
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:56067451 original size:18 final size:18
Alignment explanation
Indices: 56067400--56067456 Score: 87
Period size: 18 Copynumber: 3.2 Consensus size: 18
56067390 ATAGTGGGGG
* *
56067400 CCACACGGGCGTGTGGGC
1 CCACATGGGCGTGTGAGC
*
56067418 CTACATGGGCGTGTGAGC
1 CCACATGGGCGTGTGAGC
56067436 CCACATGGGCGTGTGAGC
1 CCACATGGGCGTGTGAGC
56067454 CCA
1 CCA
56067457 TTCTTTTAAA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.16, C:0.30, G:0.39, T:0.16
Consensus pattern (18 bp):
CCACATGGGCGTGTGAGC
Found at i:56077727 original size:49 final size:49
Alignment explanation
Indices: 56077622--56077750 Score: 124
Period size: 49 Copynumber: 2.7 Consensus size: 49
56077612 CTTCGGGACT
* * * *
56077622 TATCACAT-T-TATGCACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * * *
56077669 TGTCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* *
56077718 TATCTC--ATATATGCA-TGTTCACATCCATCACAT
1 TATCACATATATATACACT-TTCACATCCATCACAT
56077751 AGAATCCTAA
Statistics
Matches: 67, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
46 1 0.01
47 30 0.45
48 1 0.01
49 35 0.52
ACGTcount: A:0.26, C:0.31, G:0.10, T:0.33
Consensus pattern (49 bp):
TATCACATATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:56082023 original size:22 final size:22
Alignment explanation
Indices: 56081996--56082070 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
56081986 CATGCATATG
56081996 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * * *
56082018 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCCGAAT-GGC-CA-A
56082043 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
56082065 TGTGAT
1 TGTGAT
56082071 GAATGTGAAC
Statistics
Matches: 40, Mismatches: 8, Indels: 10
0.69 0.14 0.17
Matches are distributed among these distances:
22 17 0.43
23 6 0.15
24 6 0.15
25 11 0.28
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:56082117 original size:22 final size:22
Alignment explanation
Indices: 56081996--56082117 Score: 63
Period size: 22 Copynumber: 5.3 Consensus size: 22
56081986 CATGCATATG
*
56081996 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
* * * *
56082018 TGTGATGAATG-TGAATATGCATATA
1 TGTGAT-AAGGCAGAAT-GGC-CA-A
*
56082043 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
*
56082065 TGTGATGAATGTG-A-ACAT-GCATATA
1 TGTGAT-AA-G-GCAGA-ATGGC-CA-A
56082090 TGTGATAAGGCAGAATGGCCAA
1 TGTGATAAGGCAGAATGGCCAA
56082112 TGTGAT
1 TGTGAT
56082118 GAACGTGGAA
Statistics
Matches: 75, Mismatches: 11, Indels: 28
0.66 0.10 0.25
Matches are distributed among these distances:
22 25 0.33
23 16 0.21
24 15 0.20
25 19 0.25
ACGTcount: A:0.34, C:0.11, G:0.29, T:0.26
Consensus pattern (22 bp):
TGTGATAAGGCAGAATGGCCAA
Found at i:56082155 original size:47 final size:47
Alignment explanation
Indices: 56081124--56082120 Score: 1807
Period size: 47 Copynumber: 21.2 Consensus size: 47
56081114 TTAGGATTTT
** * * **
56081124 ATGTGATGAATGTGAATGTGCATATATGAGATAAGGCCGAATGGAAA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081171 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
* * * *
56081218 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081265 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081312 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081359 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081406 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081453 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081500 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081547 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081594 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081641 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081688 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081735 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081782 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081829 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081876 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
56081923 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
* * * *
56081970 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
* * * *
56082017 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
*
56082064 ATGTGATGAATGTGAACATGCATATATGTGATAAGG-CAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCA-AATGGCCA
56082111 ATGTGATGAA
1 ATGTGATGAA
56082121 CGTGGAAGTG
Statistics
Matches: 927, Mismatches: 22, Indels: 2
0.97 0.02 0.00
Matches are distributed among these distances:
46 1 0.00
47 926 1.00
ACGTcount: A:0.37, C:0.11, G:0.26, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGAGATAAGGTCAAATGGCCA
Found at i:56082310 original size:92 final size:92
Alignment explanation
Indices: 56082140--56082316 Score: 255
Period size: 92 Copynumber: 1.9 Consensus size: 92
56082130 GTATATATGT
* * *
56082140 GGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGGATATGAGGAAAAGCCGAATGGCTAA
1 GGTAAAGCCGAATGGCTAATGCAAAACGTGCATGAGATGGATATGAGGAAAAGCCAAATGGCTAA
*
56082205 TGCGAAACGTGTATGAGATGGACATGA
66 TGCGAAACATGTATGAGATGGACATGA
* * *
56082232 GGTAAAGCCGAATGGCTAATGCGAAACGTGCATGAGATGGATATGTGGTAAAGCCAAATGGCTAA
1 GGTAAAGCCGAATGGCTAATGCAAAACGTGCATGAGATGGATATGAGGAAAAGCCAAATGGCTAA
** * *
56082297 TGTTAGATATGTATGAGATG
66 TGCGAAACATGTATGAGATG
56082317 TGTATATATA
Statistics
Matches: 74, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
92 74 1.00
ACGTcount: A:0.36, C:0.11, G:0.31, T:0.23
Consensus pattern (92 bp):
GGTAAAGCCGAATGGCTAATGCAAAACGTGCATGAGATGGATATGAGGAAAAGCCAAATGGCTAA
TGCGAAACATGTATGAGATGGACATGA
Found at i:56082316 original size:46 final size:46
Alignment explanation
Indices: 56082134--56082298 Score: 258
Period size: 46 Copynumber: 3.6 Consensus size: 46
56082124 GGAAGTGTAT
* * *
56082134 ATATGTGGTAAAGCCGAATGGCTAATGCAAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
*
56082180 ATATGAGGAAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
56082226 ACATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGCATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* *
56082272 ATATGTGGTAAAGCCAAATGGCTAATG
1 ATATGAGGTAAAGCCGAATGGCTAATG
56082299 TTAGATATGT
Statistics
Matches: 109, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 109 1.00
ACGTcount: A:0.36, C:0.12, G:0.31, T:0.22
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:56085357 original size:186 final size:186
Alignment explanation
Indices: 56085043--56085388 Score: 674
Period size: 186 Copynumber: 1.9 Consensus size: 186
56085033 GAGATTTGTT
56085043 TCAATAATTAATCTTTAAGTAATAAACCATATCCAATGGATCTATACTAAAATACATATTTGGTG
1 TCAATAATTAATCTTTAAGTAATAAACCATATCCAATGGATCTATACTAAAATACATATTTGGTG
56085108 CATTAGATTCATCTATCAGGTTTAGATCTAAGCGAAATCTCTTATAAGAGGATTGTGGCAATCTA
66 CATTAGATTCATCTATCAGGTTTAGATCTAAGCGAAATCTCTTATAAGAGGATTGTGGCAATCTA
56085173 ATCTACAATATAAGGTGTTGAATCTAAATCTTTAATTTGAGTATAATATGTCACTG
131 ATCTACAATATAAGGTGTTGAATCTAAATCTTTAATTTGAGTATAATATGTCACTG
56085229 TCAATAATTAATCTTTAAGTAATAAACCATATCCAATGGATCTATACTAAAATACATATTTGGTG
1 TCAATAATTAATCTTTAAGTAATAAACCATATCCAATGGATCTATACTAAAATACATATTTGGTG
**
56085294 CATTAGATTCATCTATTGGGTTTAGATCTAAGCGAAATCTCTTATAAGAGGATTGTGGCAATCTA
66 CATTAGATTCATCTATCAGGTTTAGATCTAAGCGAAATCTCTTATAAGAGGATTGTGGCAATCTA
56085359 ATCTACAATATAAGGTGTTGAATCTAAATC
131 ATCTACAATATAAGGTGTTGAATCTAAATC
56085389 GTCACAAAGT
Statistics
Matches: 158, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
186 158 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.36
Consensus pattern (186 bp):
TCAATAATTAATCTTTAAGTAATAAACCATATCCAATGGATCTATACTAAAATACATATTTGGTG
CATTAGATTCATCTATCAGGTTTAGATCTAAGCGAAATCTCTTATAAGAGGATTGTGGCAATCTA
ATCTACAATATAAGGTGTTGAATCTAAATCTTTAATTTGAGTATAATATGTCACTG
Found at i:56089116 original size:40 final size:40
Alignment explanation
Indices: 56089018--56089360 Score: 476
Period size: 40 Copynumber: 8.6 Consensus size: 40
56089008 TCCTCGTTCA
* * * * * *
56089018 AATGCCTTCAGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
56089057 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56089097 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56089137 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56089177 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
56089217 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
56089257 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
56089297 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
56089337 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
56089361 CAGCATTCAA
Statistics
Matches: 279, Mismatches: 21, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
39 36 0.13
40 235 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:56090970 original size:18 final size:18
Alignment explanation
Indices: 56090947--56090982 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
56090937 CAACCTAGCG
*
56090947 ACCAATGTCGAGTTAGTA
1 ACCAATATCGAGTTAGTA
56090965 ACCAATATCGAGTTAGTA
1 ACCAATATCGAGTTAGTA
56090983 TGCCTTCGAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (18 bp):
ACCAATATCGAGTTAGTA
Found at i:56107385 original size:27 final size:26
Alignment explanation
Indices: 56107355--56107420 Score: 62
Period size: 27 Copynumber: 2.5 Consensus size: 26
56107345 GCATTATCGG
*
56107355 GAAGCTCATAAAGAGCCAATTTAAT-AA
1 GAAGCTCATAAAGAACC--TTTAATCAA
* * *
56107382 GAAGTTCACAAAGAACCTTTAATCGA
1 GAAGCTCATAAAGAACCTTTAATCAA
*
56107408 GATGCTCATAAAG
1 GAAGCTCATAAAG
56107421 CTAAGGTGTG
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
25 6 0.19
26 11 0.35
27 14 0.45
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.23
Consensus pattern (26 bp):
GAAGCTCATAAAGAACCTTTAATCAA
Found at i:56107810 original size:42 final size:41
Alignment explanation
Indices: 56107763--56107845 Score: 148
Period size: 42 Copynumber: 2.0 Consensus size: 41
56107753 TACCTCGATA
56107763 CTTGTTCGTACACGAATTCTACTAATTTGACACTTTCTCTT
1 CTTGTTCGTACACGAATTCTACTAATTTGACACTTTCTCTT
*
56107804 NCTTGTTCGTACACGAATTCTACTAATTTGACTCTTTCTCTT
1 -CTTGTTCGTACACGAATTCTACTAATTTGACACTTTCTCTT
56107846 TCCCTCGATC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.24, G:0.10, T:0.45
Consensus pattern (41 bp):
CTTGTTCGTACACGAATTCTACTAATTTGACACTTTCTCTT
Found at i:56124912 original size:200 final size:200
Alignment explanation
Indices: 56124569--56124969 Score: 793
Period size: 200 Copynumber: 2.0 Consensus size: 200
56124559 GATTGTGCCA
56124569 CTAAACGGGTTGTACTGAGAACTGAGGCAGATGAGGAGGTAGTGGTAATTAGGGAGCGACTAAAT
1 CTAAACGGGTTGTACTGAGAACTGAGGCAGATGAGGAGGTAGTGGTAATTAGGGAGCGACTAAAT
56124634 TATTTGAGTAATGTAATCTCTGCGCTAAGGGCCAAGAAATTGGTTTGCAAAAGTTGTGAGGCATT
66 TATTTGAGTAATGTAATCTCTGCGCTAAGGGCCAAGAAATTGGTTTGCAAAAGTTGTGAGGCATT
56124699 CTTGGCCTATGTCAGTGTTTCAGATGTTGGGGACTCTTCGGTGAAGGATATCAGAATAGTTAAGG
131 CTTGGCCTATGTCAGTGTTTCAGATGTTGGGGACTCTTCGGTGAAGGATATCAGAATAGTTAAGG
56124764 ATTTT
196 ATTTT
56124769 CTAAACGGGTTGTACTGAGAACTGAGGCAGATGAGGAGGTAGTGGTAATTAGGGAGCGACTAAAT
1 CTAAACGGGTTGTACTGAGAACTGAGGCAGATGAGGAGGTAGTGGTAATTAGGGAGCGACTAAAT
56124834 TATTTGAGTAATGTAATCTCTGCGCTAAGGGCCAAGAAATTGGTTTGCAAAAGTTGTGAGGCATT
66 TATTTGAGTAATGTAATCTCTGCGCTAAGGGCCAAGAAATTGGTTTGCAAAAGTTGTGAGGCATT
*
56124899 CTTGGCCTATGTCAGTGTTTCAGATGTTGGGGACTCTTCGGTGAAGGATATCAGAGTAGTTAAGG
131 CTTGGCCTATGTCAGTGTTTCAGATGTTGGGGACTCTTCGGTGAAGGATATCAGAATAGTTAAGG
56124964 ATTTT
196 ATTTT
56124969 C
1 C
56124970 CTGACGTCTT
Statistics
Matches: 200, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
200 200 1.00
ACGTcount: A:0.28, C:0.12, G:0.30, T:0.30
Consensus pattern (200 bp):
CTAAACGGGTTGTACTGAGAACTGAGGCAGATGAGGAGGTAGTGGTAATTAGGGAGCGACTAAAT
TATTTGAGTAATGTAATCTCTGCGCTAAGGGCCAAGAAATTGGTTTGCAAAAGTTGTGAGGCATT
CTTGGCCTATGTCAGTGTTTCAGATGTTGGGGACTCTTCGGTGAAGGATATCAGAATAGTTAAGG
ATTTT
Found at i:56131777 original size:3 final size:3
Alignment explanation
Indices: 56131769--56131797 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
56131759 TAAAGGTTAA
56131769 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
56131798 AACATAAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56137251 original size:120 final size:120
Alignment explanation
Indices: 56137125--56137414 Score: 485
Period size: 120 Copynumber: 2.4 Consensus size: 120
56137115 AATTATTTTA
* *
56137125 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTT-TCTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTT-AAATTTATATTT
* *
56137189 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* *
56137245 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATT-ATTATTTTAATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAAT-ATTAATTATTTAAATTTATATTT
56137309 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
56137365 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTAT
56137415 GTTTAAATAT
Statistics
Matches: 159, Mismatches: 8, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
119 7 0.04
120 149 0.94
121 3 0.02
ACGTcount: A:0.42, C:0.03, G:0.04, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATATTAATTATTTAAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:56137307 original size:15 final size:14
Alignment explanation
Indices: 56137255--56137310 Score: 55
Period size: 15 Copynumber: 4.1 Consensus size: 14
56137245 AATTTTATTA
56137255 AATTATA-TATTTT
1 AATTATATTATTTT
*
56137268 AATTATAATATATTT
1 AATTATATTAT-TTT
*
56137283 AATAATTATTATTTT
1 AATTA-TATTATTTT
56137298 AATT-TA-TATTTT
1 AATTATATTATTTT
56137310 A
1 A
56137311 CAGTATCATA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
12 7 0.19
13 9 0.24
14 3 0.08
15 13 0.35
16 5 0.14
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTATATTATTTT
Found at i:56137371 original size:61 final size:61
Alignment explanation
Indices: 56137186--56137372 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
56137176 TCAAATTTTC
*
56137186 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGACTATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
* * * * * * *
56137247 TTTTATTA-AATTATATATT-TTAATT-A-T-AATAT-ATTTAATAATTATT-ATT-TTAATTTA
1 TTTTA-TAGTATCATATATTATGATTTGAGTAAAT-TCATATAAGAA-TATTAATTATTAA--GA
56137304 TA
61 -A
*
56137306 TTTTACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
1 TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
56137367 TTTTAT
1 TTTTAT
56137373 TAAATTATAT
Statistics
Matches: 95, Mismatches: 17, Indels: 28
0.68 0.12 0.20
Matches are distributed among these distances:
56 4 0.04
57 12 0.13
58 8 0.08
59 16 0.17
60 8 0.08
61 21 0.22
62 9 0.09
63 13 0.14
64 4 0.04
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.50
Consensus pattern (61 bp):
TTTTATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAA
Found at i:56137394 original size:18 final size:17
Alignment explanation
Indices: 56137366--56137400 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56137356 ATTATTAAGA
*
56137366 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56137383 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56137401 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:56137514 original size:147 final size:149
Alignment explanation
Indices: 56137354--56137628 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
56137344 ATAAGAATAT
*
56137354 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
56137419 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
56137482 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
56137501 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
56137566 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
56137629 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:56137541 original size:18 final size:17
Alignment explanation
Indices: 56137513--56137547 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56137503 ATTATTAAGA
*
56137513 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
56137530 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
56137548 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Done.