Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 169 of 316
Found at i:54017323 original size:82 final size:81
Alignment explanation
Indices: 54017197--54017352 Score: 197
Period size: 82 Copynumber: 1.9 Consensus size: 81
54017187 TGCTATATAA
* * * * *
54017197 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATC-GAATCGCA
54017262 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * ** *
54017279 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGTACAATTAGTGCAACATAATCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCA
54017343 CACTTAGTGC
65 CACTTAGTGC
54017353 TGTACAATTT
Statistics
Matches: 63, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
81 19 0.30
82 44 0.70
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54025210 original size:27 final size:27
Alignment explanation
Indices: 54025180--54025357 Score: 171
Period size: 27 Copynumber: 6.6 Consensus size: 27
54025170 ATATTGAGCC
* *
54025180 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
54025207 CGCACACTTAGTGCCACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
54025234 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
54025262 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
54025289 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
54025316 CGCACAATTAGTGCAACATAATCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
54025343 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
54025358 GTACAATTTA
Statistics
Matches: 125, Mismatches: 22, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
27 100 0.80
28 25 0.20
ACGTcount: A:0.30, C:0.28, G:0.16, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:54025319 original size:82 final size:81
Alignment explanation
Indices: 54025201--54025356 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
54025191 TGCTATATAA
* * * * *
54025201 TCAACTCGCACACTTAGTGCCACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATC-GAATCGCA
54025266 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
54025283 TCAATTCGCACACTTAGTG-CATCATATTCATTTCGCACAATTAGTGCAACATAATCGAATCGCA
1 TCAACTCGCACACTTAGTGCCA-CATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCA
54025347 CACTTAGTGC
65 CACTTAGTGC
54025357 TGTACAATTT
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 19 0.30
82 45 0.70
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCCACATAATCAAATCGCACAATTAGTGCAACATAATCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:54029053 original size:29 final size:27
Alignment explanation
Indices: 54029035--54029104 Score: 113
Period size: 27 Copynumber: 2.6 Consensus size: 27
54029025 ATATTAAGTC
54029035 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTCAGTGCTATATAATCAACT
*
54029062 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTCAGTGCTATATAATC-AACT
*
54029090 CGCACACTTAGTGCT
1 CGCACACTCAGTGCT
54029105 GTACAATTTA
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.27
Consensus pattern (27 bp):
CGCACACTCAGTGCTATATAATCAACT
Found at i:54029098 original size:28 final size:28
Alignment explanation
Indices: 54029035--54029132 Score: 135
Period size: 28 Copynumber: 3.5 Consensus size: 28
54029025 ATATTAAGTC
*
54029035 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
54029062 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * * *
54029090 CGCACACTTAGTGCTGTACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
54029119 CGCACACTTAGTGC
1 CGCACACTTAGTGC
54029133 CAATCTCATG
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 22 0.34
28 23 0.36
29 19 0.30
ACGTcount: A:0.32, C:0.29, G:0.13, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:54031043 original size:39 final size:39
Alignment explanation
Indices: 54030989--54031132 Score: 216
Period size: 39 Copynumber: 3.7 Consensus size: 39
54030979 GGTTATCTGA
54030989 ACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
1 ACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
* *
54031028 ACTTAGGGTCCGCAGGCTATGTGCTTGAATTATATCTGG
1 ACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
* *
54031067 ACTTAGGGTCCGCAGGCTATGTGCTAGAATTATAACCGG
1 ACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
* * * *
54031106 ACTTAAGGTCTGTAGGCTACGTGCTGG
1 ACTTAGGGTCCGCAGGCTATGTGCTGG
54031133 TAATATGTCC
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 95 1.00
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.29
Consensus pattern (39 bp):
ACTTAGGGTCCGCAGGCTATGTGCTGGAATTATATCCGG
Found at i:54031160 original size:78 final size:78
Alignment explanation
Indices: 54030996--54031162 Score: 194
Period size: 78 Copynumber: 2.1 Consensus size: 78
54030986 TGAACTTAGG
* * * * *
54030996 GTCCGCAGGCTATGTGCTGGAATTATATCCGGACTTAGGGTCCGCAGGCTATGTGCTTGAATTAT
1 GTCCGCAGGCTATGTGCTAGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTAT
* **
54031061 ATCTGGACTTAGG
66 ATCCGGACTTAAA
* *
54031074 GTCCGCAGGCTATGTGCTAGAATTATAACCGGACTTAAGGTCTGTAGGCTACGTGCTGGTAA-TA
1 GTCCGCAGGCTATGTGCTAGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGG-AATTA
* *
54031138 TGTCCGGGC-TAAA
65 TATCCGGACTTAAA
54031151 GTCCAGCAGGCT
1 GTCC-GCAGGCT
54031163 TCGAGCTGGT
Statistics
Matches: 75, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
77 6 0.08
78 67 0.89
79 2 0.03
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.28
Consensus pattern (78 bp):
GTCCGCAGGCTATGTGCTAGAATTATAACCGGACTTAAGGTCCGCAGGCTACGTGCTGGAATTAT
ATCCGGACTTAAA
Found at i:54032184 original size:43 final size:43
Alignment explanation
Indices: 54032131--54032604 Score: 437
Period size: 43 Copynumber: 11.1 Consensus size: 43
54032121 TGTTACACTA
* * *
54032131 AGGCTTCTGCACGACCAAGGGCTTAGGTTGCAGATGGTGCCCG
1 AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * * * *
54032174 AGGCTCCTGCACAACTAAGGGCCTAGGCTGTCGATGGTGTCCG
1 AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* ** * * *
54032217 AGGCTCCCGCAC-ATCCAAGCACCAATG-TGCCGATGGTGGCCG
1 AGGCTCCTGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * *
54032259 AGGCT-CTAGCCCGACCAA-GGCCTAGGTTGCCGATGGTGCACA
1 AGGCTCCT-GCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * *
54032301 AGGCT-CTCGTACGACCAAGGGCCTAGGTTGCTGATGGTGCCAG
1 AGGCTCCT-GCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * * * * *
54032344 AGGCTCCCGCACGACGAAAGGACTAGGTTGCTGATGGTGCCTG
1 AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * *
54032387 AGGCTTCC-GCGCGACCAAGGGCGTAGG-TGCCGATGGTGCCCA
1 AGGC-TCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
** * * *
54032429 AGGCTCCCACATGACCAAGGGCTTAGGTTGCCGATGGTG-CCA
1 AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
*
54032471 AGGCTACC-GCACAACCAAGGGCCTAGGTTGCCGATGGTGCCCG
1 AGGCT-CCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
* * * *
54032514 AGGCTCCTACACGACTAAGTGCCTAGGTTGTCGATGGTGCCCG
1 AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
** * * *
54032557 AGGCTCCCACGCGACCAAGGGCCTAAGTTGCCGCTGGTG-CCG
1 AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
54032599 AGGCTC
1 AGGCTC
54032605 TCGCACATCC
Statistics
Matches: 352, Mismatches: 67, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
41 8 0.02
42 130 0.37
43 210 0.60
44 4 0.01
ACGTcount: A:0.19, C:0.30, G:0.33, T:0.18
Consensus pattern (43 bp):
AGGCTCCTGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCCG
Found at i:54032423 original size:170 final size:169
Alignment explanation
Indices: 54032130--54032905 Score: 641
Period size: 170 Copynumber: 4.6 Consensus size: 169
54032120 GTGTTACACT
* * * * * * *
54032130 AAGGCTTCTGCACGACCAAGGGCTTAGGTTGCAGATGGTGCCCGAGGCTCCTGCACAACTAAGGG
1 AAGGC-TCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCAGAGGCTCCTGCACGACGAAAGG
* ** * *
54032195 CCTAGGCTG-TCGATGGTGTCC-GAGGCTCCCGCAC-ATCCAAGCACCAATGTGCCGATGGTGGC
65 CCTAGGTTGCT-GATGGTG-CCTGAGGCTCCCGCACGA-CCAAGGGCCAAGGTGCCGATGGTGCC
* *
54032257 CGAGGCTCTAGCCCGACCAA-GGCCTAGGTTGCCGATGGTGCAC
127 CGAGGCTCCAGCACGACCAAGGGCCTAGGTTGCCGATGGTGC-C
* * *
54032300 AAGGCTCTCGTACGACCAAGGGCCTAGGTTGCTGATGGTGCCAGAGGCTCCCGCACGACGAAAGG
1 AAGGCTC-CGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCAGAGGCTCCTGCACGACGAAAGG
* * * ** *
54032365 ACTAGGTTGCTGATGGTGCCTGAGGCTTCCGCGCGACCAAGGGCGTAGGTGCCGATGGTGCCCAA
65 CCTAGGTTGCTGATGGTGCCTGAGGCTCCCGCACGACCAAGGGCCAAGGTGCCGATGGTGCCCGA
* *
54032430 GGCTCCCA-CATGACCAAGGGCTTAGGTTGCCGATGGTGCC
130 GGCT-CCAGCACGACCAAGGGCCTAGGTTGCCGATGGTGCC
* * * *
54032470 AAGGCTACCGCACAACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCTACACGAC-TAAGT
1 AAGGCT-CCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCAGAGGCTCCTGCACGACGAAAG-
* * * * *
54032534 GCCTAGGTTG-TCGATGGTGCCCGAGGCTCCCACGCGACCAAGGGCCTAAGTTGCCGCTGGTG-C
64 GCCTAGGTTGCT-GATGGTGCCTGAGGCTCCCGCACGACCAAGGGCC-AAGGTGCCGATGGTGCC
* *
54032597 CGAGGCTCTC-GCAC-ATCCAA---CC-ATGATGCC-----TG--
127 CGAGGCTC-CAGCACGA-CCAAGGGCCTAGGTTGCCGATGGTGCC
* * * * * * * *
54032629 -AGGCTCCTGCACAACCAAAGGCCTAGTTTGCTGGTGGTGCCCA-AGGCTCCTACACAACGAAGG
1 AAGGCTCC-GCACGACCAAGGGCCTAGGTTGCCGATGGTG-CCAGAGGCTCCTGCACGACGAAAG
* * *** *
54032692 GCTTAGGTTGCTGATGGTGTCTGAGGCTCCCGCAC-ATCCAAGCAACAAAGTGCCGATGGTGCCC
64 GCCTAGGTTGCTGATGGTGCCTGAGGCTCCCGCACGA-CCAAGGGCCAAGGTGCCGATGGTGCCC
* ** * *
54032756 GAGGCTCCCGCATAACCAAGGGCTTAGGTTGTCGATGGTGCC
128 GAGGCTCCAGCACGACCAAGGGCCTAGGTTGCCGATGGTGCC
* * * * * *
54032798 GAGGCTCTCGCATGACCAAGGGCCTAGGTTGCCGATGGTGCCTA-AGGCTCCCGTACGACCAAGG
1 AAGGCTC-CGCACGACCAAGGGCCTAGGTTGCCGATGGTGCC-AGAGGCTCCTGCACGACGAAAG
*
54032862 GCCTAGGTTACTGATGGTG-CTCGAGGCTCCCGCACGACCAAGGG
64 GCCTAGGTTGCTGATGGTGCCT-GAGGCTCCCGCACGACCAAGGG
54032906 ACTAGGTTGC
Statistics
Matches: 486, Mismatches: 83, Indels: 74
0.76 0.13 0.12
Matches are distributed among these distances:
157 16 0.03
158 96 0.20
159 6 0.01
161 3 0.01
162 5 0.01
166 6 0.01
167 3 0.01
169 14 0.03
170 298 0.61
171 39 0.08
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (169 bp):
AAGGCTCCGCACGACCAAGGGCCTAGGTTGCCGATGGTGCCAGAGGCTCCTGCACGACGAAAGGC
CTAGGTTGCTGATGGTGCCTGAGGCTCCCGCACGACCAAGGGCCAAGGTGCCGATGGTGCCCGAG
GCTCCAGCACGACCAAGGGCCTAGGTTGCCGATGGTGCC
Found at i:54032602 original size:85 final size:85
Alignment explanation
Indices: 54032139--54032924 Score: 538
Period size: 85 Copynumber: 9.4 Consensus size: 85
54032129 TAAGGCTTCT
* * * * * * *
54032139 GCACGACCAAGGGCTTAGGTTGCAGATGGTGCCCGAGGCTCCTGCACAACTAAGGGCCTAGGCTG
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAA-GGCCTAGGTTG
* *
54032204 TCGATGGTGTCCGAGGCTCCC
65 CCGATGGTGCCCGAGGCTCCC
** * *
54032225 GCAC-ATCCAAGCACC-AA-TGTGCCGATGGTGGCCGAGGCT-CTAGCCCGACCAAGGCCTAGGT
1 GCACGA-CCAAGGGCCTAAGT-TGCCGATGGTGCCCGAGGCTCCTA-CACGACCAAGGCCTAGGT
* * *
54032286 TGCCGATGGTGCACAAGGCTCTC
63 TGCCGATGGTGCCCGAGGCTCCC
* * * * ** * *
54032309 GTACGACCAAGGGCCTAGGTTGCTGATGGTGCCAGAGGCTCCCGCACGACGAAAGGACTAGGTTG
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGAC-CAAGGCCTAGGTTG
* * *
54032374 CTGATGGTGCCTGAGGCTTCC
65 CCGATGGTGCCCGAGGCTCCC
* * * * * * *
54032395 GCGCGACCAAGGGCGT-AGGTGCCGATGGTGCCCAAGGCTCCCACATGACCAAGGGCTTAGGTTG
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAA-GGCCTAGGTTG
* *
54032459 CCGATGGTG-CCAAGGCTACC
65 CCGATGGTGCCCGAGGCTCCC
* * *
54032479 GCACAACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCTACACGACTAAGTGCCTAGGTTG
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAAG-GCCTAGGTTG
*
54032544 TCGATGGTGCCCGAGGCTCCC
65 CCGATGGTGCCCGAGGCTCCC
* * * * * *
54032565 ACGCGACCAAGGGCCTAAGTTGCCGCTGGTG-CCGAGGCT-CT-CGC-A-C-A-TCC-A----AC
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAAGGCCTAGGTTGC
* * *
54032618 C-ATGATGCCTGAGGCTCCT
66 CGATGGTGCCCGAGGCTCCC
* * ** * * * * * *
54032637 GCACAACCAAAGGCCTAGTTTGCTGGTGGTGCCCAAGGCTCCTACACAACGAAGGGCTTAGGTTG
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAA-GGCCTAGGTTG
* * *
54032702 CTGATGGTGTCTGAGGCTCCC
65 CCGATGGTGCCCGAGGCTCCC
*** * ** ** *
54032723 GCAC-ATCCAAGCAACAAAG-TGCCGATGGTGCCCGAGGCTCCCGCATAACCAAGGGCTTAGGTT
1 GCACGA-CCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAA-GGCCTAGGTT
* *
54032786 GTCGATGGTG-CCGAGGCTCTC
64 GCCGATGGTGCCCGAGGCTCCC
* * ** *** *
54032807 GCATGACCAAGGGCCTAGGTTGCCGATGGTGCCTAAGGCTCCCGTACGACCAAGGGCCTAGGTTA
1 GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAA-GGCCTAGGTTG
* *
54032872 CTGATGGTGCTCGAGGCTCCC
65 CCGATGGTGCCCGAGGCTCCC
* *
54032893 GCACGACCAAGGGACTAGGTTGCC-AGTGGTGC
1 GCACGACCAAGGGCCTAAGTTGCCGA-TGGTGC
54032925 TGAGGCTTTC
Statistics
Matches: 537, Mismatches: 132, Indels: 62
0.73 0.18 0.08
Matches are distributed among these distances:
72 38 0.07
73 8 0.01
74 2 0.00
75 2 0.00
76 1 0.00
77 1 0.00
78 3 0.01
80 2 0.00
81 1 0.00
82 1 0.00
83 2 0.00
84 85 0.16
85 242 0.45
86 149 0.28
ACGTcount: A:0.20, C:0.30, G:0.32, T:0.18
Consensus pattern (85 bp):
GCACGACCAAGGGCCTAAGTTGCCGATGGTGCCCGAGGCTCCTACACGACCAAGGCCTAGGTTGC
CGATGGTGCCCGAGGCTCCC
Found at i:54032759 original size:158 final size:158
Alignment explanation
Indices: 54032471--54032767 Score: 359
Period size: 158 Copynumber: 1.9 Consensus size: 158
54032461 GATGGTGCCA
* * * * *
54032471 AGGCTACCGCACAACCAAGGGCCTAGGTTGCCGATGGTGCCCGAGGCTCCTACACGACTAAGTGC
1 AGGCTACCGCACAACCAAAGGCCTAGGTTGCCGATGGTGCCCAAGGCTCCTACACAACGAAGGGC
* *** * *
54032536 CTAGGTTGTCGATGGTGCCCGAGGCTCCCACGCGACCAAGGGCCTAAGTTGCCGCTGGTGCCGAG
66 CTAGGTTGTCGATGGTGCCCGAGGCTCCCACACGACCAAGCAACAAAGTTGCCGATGGTGCCGAG
*
54032601 GCTCTCGCACATCCAACCATGATGCCTG
131 GCTCCCGCACATCCAACCATGATGCCTG
* * *
54032629 AGGCT-CCTGCACAACCAAAGGCCTAGTTTGCTGGTGGTGCCCAAGGCTCCTACACAACGAAGGG
1 AGGCTACC-GCACAACCAAAGGCCTAGGTTGCCGATGGTGCCCAAGGCTCCTACACAACGAAGGG
* * * *
54032693 CTTAGGTTG-CTGATGGTGTCTGAGGCTCCCGCAC-ATCCAAGCAACAAAG-TGCCGATGGTGCC
65 CCTAGGTTGTC-GATGGTGCCCGAGGCTCCCACACGA-CCAAGCAACAAAGTTGCCGATGGTG-C
54032755 CGAGGCTCCCGCA
127 CGAGGCTCCCGCA
54032768 TAACCAAGGG
Statistics
Matches: 116, Mismatches: 19, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
157 14 0.12
158 102 0.88
ACGTcount: A:0.21, C:0.32, G:0.29, T:0.18
Consensus pattern (158 bp):
AGGCTACCGCACAACCAAAGGCCTAGGTTGCCGATGGTGCCCAAGGCTCCTACACAACGAAGGGC
CTAGGTTGTCGATGGTGCCCGAGGCTCCCACACGACCAAGCAACAAAGTTGCCGATGGTGCCGAG
GCTCCCGCACATCCAACCATGATGCCTG
Found at i:54032777 original size:328 final size:328
Alignment explanation
Indices: 54032314--54032947 Score: 814
Period size: 328 Copynumber: 1.9 Consensus size: 328
54032304 CTCTCGTACG
* * *
54032314 ACCAAGGGCCTAGGTTGCTGATGGTGCCAGAGGCTCCCGCACGACGAAAGGACTAGGTTGCTGAT
1 ACCAAAGGCCTAGGTTGCTGATGGTGCCAGAGGCTCCCACACAACGAAAGGACTAGGTTGCTGAT
* * ** * * *
54032379 GGTGCCTGAGGCTTCCGCGCGACCAAGGGCGTAGGTGCCGATGGTGCCCAAGGCTCCCACATGAC
66 GGTGCCTGAGGCTCCCGCACGACCAAGAACGAAAGTGCCGATGGTGCCCAAGGCTCCCACATAAC
54032444 CAAGGGCTTAGGTTGCCGATGGTGCCAAGGCTAC-CGCACAACCAAGGGCCTAGGTTGCCGATGG
131 CAAGGGCTTAGGTTGCCGATGGTGCCAAGGCT-CTCGCACAACCAAGGGCCTAGGTTGCCGATGG
* * * * * *
54032508 TGCCCGAGGCTCCTACACGACTAAGTGCCTAGGTT-GTCGATGGTGCCCGAGGCTCCCACGCGAC
195 TGCCCAAGGCTCCCACACGACCAAGGGCCTAGGTTACT-GATGGTGCCCGAGGCTCCCACACGAC
* *
54032572 CAAGGGCCTAAGTTGCC-GCTGGTGCCGAGGCTCTCGCACATCCAACCATGATGCCTGAGGCTCC
259 CAAGGGACTAAGTTGCCAG-TGGTGCCGAGGCTCTCACACATCCAACCATGATGCCTGAGGCTCC
54032636 TGCACA
323 TGCACA
* * * *
54032642 ACCAAAGGCCTAGTTTGCTGGTGGTGCCCA-AGGCTCCTACACAACG-AAGGGCTTAGGTTGCTG
1 ACCAAAGGCCTAGGTTGCTGATGGTG-CCAGAGGCTCCCACACAACGAAAGGAC-TAGGTTGCTG
* * *
54032705 ATGGTGTCTGAGGCTCCCGCAC-ATCCAAGCAAC-AAAGTGCCGATGGTGCCCGAGGCTCCCGCA
64 ATGGTGCCTGAGGCTCCCGCACGA-CCAAG-AACGAAAGTGCCGATGGTGCCCAAGGCTCCCACA
* * **
54032768 TAACCAAGGGCTTAGGTTGTCGATGGTGCCGAGGCTCTCGCATGACCAAGGGCCTAGGTTGCCGA
127 TAACCAAGGGCTTAGGTTGCCGATGGTGCCAAGGCTCTCGCACAACCAAGGGCCTAGGTTGCCGA
* ** * *
54032833 TGGTGCCTAAGGCTCCCGTACGACCAAGGGCCTAGGTTACTGATGGTGCTCGAGGCTCCCGCACG
192 TGGTGCCCAAGGCTCCCACACGACCAAGGGCCTAGGTTACTGATGGTGCCCGAGGCTCCCACACG
* * * *
54032898 ACCAAGGGACTAGGTTGCCAGTGGTGCTGAGGCTTTCACACATGCAACCA
257 ACCAAGGGACTAAGTTGCCAGTGGTGCCGAGGCTCTCACACATCCAACCA
54032948 CCAAGGTGCC
Statistics
Matches: 261, Mismatches: 38, Indels: 14
0.83 0.12 0.04
Matches are distributed among these distances:
327 7 0.03
328 248 0.95
329 6 0.02
ACGTcount: A:0.21, C:0.29, G:0.31, T:0.19
Consensus pattern (328 bp):
ACCAAAGGCCTAGGTTGCTGATGGTGCCAGAGGCTCCCACACAACGAAAGGACTAGGTTGCTGAT
GGTGCCTGAGGCTCCCGCACGACCAAGAACGAAAGTGCCGATGGTGCCCAAGGCTCCCACATAAC
CAAGGGCTTAGGTTGCCGATGGTGCCAAGGCTCTCGCACAACCAAGGGCCTAGGTTGCCGATGGT
GCCCAAGGCTCCCACACGACCAAGGGCCTAGGTTACTGATGGTGCCCGAGGCTCCCACACGACCA
AGGGACTAAGTTGCCAGTGGTGCCGAGGCTCTCACACATCCAACCATGATGCCTGAGGCTCCTGC
ACA
Found at i:54032923 original size:43 final size:42
Alignment explanation
Indices: 54032623--54032931 Score: 246
Period size: 43 Copynumber: 7.2 Consensus size: 42
54032613 CCAACCATGA
* * * * * *
54032623 TGCCTGAGGCTCCTGCACAACCAAAGGCCTAGTTTGCTGGTGG
1 TGCC-GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGG
* ** * * * *
54032666 TGCCCAAGGCTCCTACACAACGAAGGGCTTAGGTTGCTGATGG
1 TG-CCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGG
* *** * *
54032709 TGTCTGAGGCTCCCGCAC-ATCCAAGCAACAAAG-TGCCGATGG
1 TG-CCGAGGCTCCCGCACGA-CCAAGGGCCTAGGTTGCCGATGG
** * *
54032751 TGCCCGAGGCTCCCGCATAACCAAGGGCTTAGGTTGTCGATGG
1 TG-CCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGG
* *
54032794 TGCCGAGGCTCTCGCATGACCAAGGGCCTAGGTTGCCGATGG
1 TGCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGG
* * * *
54032836 TGCCTAAGGCTCCCGTACGACCAAGGGCCTAGGTTACTGATGG
1 TGCC-GAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGG
*
54032879 TGCTCGAGGCTCCCGCACGACCAAGGGACTAGGTTGCC-AGTGG
1 TGC-CGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGA-TGG
*
54032922 TGCTGAGGCT
1 TGCCGAGGCT
54032932 TTCACACATG
Statistics
Matches: 213, Mismatches: 46, Indels: 15
0.78 0.17 0.05
Matches are distributed among these distances:
42 78 0.37
43 132 0.62
44 3 0.01
ACGTcount: A:0.20, C:0.28, G:0.32, T:0.20
Consensus pattern (42 bp):
TGCCGAGGCTCCCGCACGACCAAGGGCCTAGGTTGCCGATGG
Found at i:54033108 original size:42 final size:43
Alignment explanation
Indices: 54033011--54033177 Score: 194
Period size: 43 Copynumber: 3.9 Consensus size: 43
54033001 GATGATGTCT
* * * *
54033011 GAGGCACCATGGTGCCGATGTTACTCGAGTCTCCCACACATCC
1 GAGGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCACACATCC
* * * *
54033054 GAGGCACCAAGGTGTCGATGCTGCTCAAGGC-CCCTGCACATTC
1 GAGGCACCAAGGTGCCGATGCTGCTCGAGGCTCCC-ACACATCC
* *
54033097 GA-GCACCAAGGTGCCGGTGCTGCTTGAGGCTCCCACACATCC
1 GAGGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCACACATCC
* * *
54033139 GAGGTACCAAGGTACCGATGCTGCTCGAGGCTCTCACAC
1 GAGGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCACAC
54033178 CACCAACGTC
Statistics
Matches: 102, Mismatches: 19, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
42 35 0.34
43 67 0.66
ACGTcount: A:0.21, C:0.34, G:0.27, T:0.19
Consensus pattern (43 bp):
GAGGCACCAAGGTGCCGATGCTGCTCGAGGCTCCCACACATCC
Found at i:54033131 original size:85 final size:85
Alignment explanation
Indices: 54033014--54033169 Score: 222
Period size: 85 Copynumber: 1.8 Consensus size: 85
54033004 GATGTCTGAG
* * * **
54033014 GCACCATGGTGCCGATGTTACTCGAGTCTCCCACACATCCGAGGCACCAAGGTGTCGATGCTGCT
1 GCACCAAGGTGCCGATGCTACTCGAGGCTCCCACACATCCGAGGCACCAAGGTACCGATGCTGCT
54033079 CAAGGCCCCTGCACATTCGA
66 CAAGGCCCCTGCACATTCGA
* * * *
54033099 GCACCAAGGTGCCGGTGCTGCTTGAGGCTCCCACACATCCGAGGTACCAAGGTACCGATGCTGCT
1 GCACCAAGGTGCCGATGCTACTCGAGGCTCCCACACATCCGAGGCACCAAGGTACCGATGCTGCT
*
54033164 CGAGGC
66 CAAGGC
54033170 TCTCACACCA
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
85 61 1.00
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.19
Consensus pattern (85 bp):
GCACCAAGGTGCCGATGCTACTCGAGGCTCCCACACATCCGAGGCACCAAGGTACCGATGCTGCT
CAAGGCCCCTGCACATTCGA
Found at i:54040132 original size:58 final size:59
Alignment explanation
Indices: 54040032--54040153 Score: 158
Period size: 58 Copynumber: 2.1 Consensus size: 59
54040022 GGGAGGGACA
* * * *
54040032 GGGACGATTCATTCATTTTTGGGTACCGAACATGCAACGGTATCTG-ATTTCTACC-TTT
1 GGGATGATTCATTCATTATTAGGTACCGAACATGCAACGGTATCCGAATTT-TACCTTTT
* * *
54040090 GGGATGATTCATTCATTATTAGGTACTGAACATGTAATGGTATCCGAATTTTACCTTTT
1 GGGATGATTCATTCATTATTAGGTACCGAACATGCAACGGTATCCGAATTTTACCTTTT
54040149 GGGAT
1 GGGAT
54040154 TGGGGAGGGA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
58 43 0.78
59 12 0.22
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (59 bp):
GGGATGATTCATTCATTATTAGGTACCGAACATGCAACGGTATCCGAATTTTACCTTTT
Found at i:54040926 original size:189 final size:185
Alignment explanation
Indices: 54040586--54040965 Score: 444
Period size: 189 Copynumber: 2.0 Consensus size: 185
54040576 ACTTAGTATT
* *
54040586 TTTAAC-TAAAATTTTTTTCTATTGGCCCAAAAGAAATACAATAAGCCGAATAAAATATGGCATG
1 TTTAACTTAAAATTTTTTTCTATTGGCCCAAAACAAATACAAGAAGCCGAATAAAATATGGCATG
* * * * * * * * * *
54040650 ATGGCACGGTACGGTAGAAAATTGAACAAGTGCCCAGACCACCAGCAGTTGGGAGCTTGTACTCG
66 ATGGCACAGCACGGAAGAAAATTAAACAAGTGACCAGACCACCAACAGTTGGGAGCTCGAACCCA
* * *
54040715 TACCACCACGGCCCCCGTTGTGCCATGTTTCCCGAGGGGGC-AGCACGGCCAAGTG
131 CACCACCACGGCCCCCGTTGTGCCATGTTTCCCAAGGGGGCGA-CACAGCCAAGTG
* * * *
54040770 TTTAACTTAGAAATTTTTTT-TGTTGGCCCAAAACAAATACAAGAAGCTGAATGAAGTATGGCAT
1 TTTAACTTA-AAATTTTTTTCTATTGGCCCAAAACAAATACAAGAAGCCGAATAAAATATGGC--
* *
54040834 GATGGAATGGCACAGCACGGAAGAAAATTAAACAA-TTACCGGACCACCAACAGTTGGGAGCTCG
63 -AT-G-ATGGCACAGCACGGAAGAAAATTAAACAAGTGACCAGACCACCAACAGTTGGGAGCTCG
* * * *
54040898 AACCCACACCATCACGGCCCCTGTTGTGCCATGTTTCTCAAGGGGGCGACATAGCCAAGTG
125 AACCCACACCACCACGGCCCCCGTTGTGCCATGTTTCCCAAGGGGGCGACACAGCCAAGTG
54040959 TTTAACT
1 TTTAACT
54040966 AACTCCTTAC
Statistics
Matches: 163, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
184 6 0.04
185 38 0.23
186 10 0.06
188 2 0.01
189 81 0.50
190 26 0.16
ACGTcount: A:0.31, C:0.23, G:0.23, T:0.23
Consensus pattern (185 bp):
TTTAACTTAAAATTTTTTTCTATTGGCCCAAAACAAATACAAGAAGCCGAATAAAATATGGCATG
ATGGCACAGCACGGAAGAAAATTAAACAAGTGACCAGACCACCAACAGTTGGGAGCTCGAACCCA
CACCACCACGGCCCCCGTTGTGCCATGTTTCCCAAGGGGGCGACACAGCCAAGTG
Found at i:54042049 original size:29 final size:29
Alignment explanation
Indices: 54041986--54042105 Score: 156
Period size: 29 Copynumber: 4.2 Consensus size: 29
54041976 ACATACATGC
*
54041986 ATATGGCCCA-CTAGGCCCAATCTCA--TTT
1 ATATGGCCCATC-CGGCCCAAT-TCACGTTT
*
54042014 ATATGGCCTATCCGGCCCAATTCACGTTT
1 ATATGGCCCATCCGGCCCAATTCACGTTT
54042043 ATATGGCCCATCCGGCCCAATTCACGTTT
1 ATATGGCCCATCCGGCCCAATTCACGTTT
* * *
54042072 ATATGGCCCATCAGGCCCAATTCACATTC
1 ATATGGCCCATCCGGCCCAATTCACGTTT
54042101 ATATG
1 ATATG
54042106 AACCGTTAGG
Statistics
Matches: 83, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
27 3 0.04
28 17 0.20
29 63 0.76
ACGTcount: A:0.24, C:0.32, G:0.16, T:0.28
Consensus pattern (29 bp):
ATATGGCCCATCCGGCCCAATTCACGTTT
Found at i:54042091 original size:58 final size:57
Alignment explanation
Indices: 54041980--54042148 Score: 171
Period size: 57 Copynumber: 2.9 Consensus size: 57
54041970 ACCCTTACAT
* * *
54041980 ACATGCATATGGCCCACTAGGCCCAATCTCATTTATATGGCCTATCCGGCCCAATTC
1 ACATTCATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCAGGCCCAATTC
* * *
54042037 ACGTTTATATGGCCCA-TCCGGCCCAAT-TCACGTTTATATGGCCCATCAGGCCCAATTC
1 ACATTCATATGGCCCACT-AGGCCCAATCTCA--TTTATATGGCCCATCAGGCCCAATTC
** ** * * * *
54042095 ACATTCATATGAACCGTTAGGCCTAACCTCATTTATATGGTCCATCTGGCCCAA
1 ACATTCATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCAGGCCCAA
54042149 ACCACATTAT
Statistics
Matches: 91, Mismatches: 16, Indels: 10
0.78 0.14 0.09
Matches are distributed among these distances:
56 4 0.04
57 42 0.46
58 41 0.45
59 4 0.04
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.28
Consensus pattern (57 bp):
ACATTCATATGGCCCACTAGGCCCAATCTCATTTATATGGCCCATCAGGCCCAATTC
Found at i:54042398 original size:16 final size:16
Alignment explanation
Indices: 54042377--54042414 Score: 67
Period size: 16 Copynumber: 2.4 Consensus size: 16
54042367 CAAACTTTTG
54042377 GCTTTTCAGCATTTCA
1 GCTTTTCAGCATTTCA
*
54042393 GCTTTTCAGCATTTTA
1 GCTTTTCAGCATTTCA
54042409 GCTTTT
1 GCTTTT
54042415 GCCGATATAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.50
Consensus pattern (16 bp):
GCTTTTCAGCATTTCA
Found at i:54044631 original size:40 final size:40
Alignment explanation
Indices: 54044529--54044750 Score: 234
Period size: 40 Copynumber: 5.6 Consensus size: 40
54044519 TTATTCGAAT
* * *
54044529 TATATCCGGGCTAAGTCCCGAAGGCTTTTGTGCTAAGTGAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGC-GAGTGAC
* * * *
54044570 TATATTCGGACTAAGATCCGAAGGCATTTGTGCGAGTTAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * * *
54044610 TATATCCGGGCCAAAACCCGAAGGCATTTGTGCTAGCGAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * *
54044650 TATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGAC
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
* * * **
54044690 CATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGGGGT
1 TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
54044729 TATATCC-GGCTAA-ATCCCGAAG
1 TATATCCGGGCTAAGA-CCCGAAG
54044751 ATACTTGGGT
Statistics
Matches: 151, Mismatches: 29, Indels: 5
0.82 0.16 0.03
Matches are distributed among these distances:
37 1 0.01
38 13 0.09
39 14 0.09
40 95 0.63
41 28 0.19
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGAC
Found at i:54052229 original size:48 final size:47
Alignment explanation
Indices: 54051891--54052255 Score: 225
Period size: 48 Copynumber: 7.7 Consensus size: 47
54051881 GTATAATACA
* * * *
54051891 GATGCCATGTCCCAGACTTGGTCATACACTAGCTCATCCATCAA-GT--T
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-T-CAT-AATGTGCC
* * * * * *
54051938 GATGCCATGTCCTAGACATGGTCTTACATTGTCTATCAAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAAT-G-TGCC
** * * *
54051987 GACACCATGTCCTAGACATGGTCTTACACTAGCTCTCACATATTCGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCT--CATAAT-GTGCC
* * *
54052037 GCTGCCATGTCCCAGACATGATCTTACACTGGCACTTC-TATATGTGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATA-ATGTGCC
* * * * *
54052085 AATGCCATGTCGCAGACATGGTCTTACACTGACACATC-T-CT-TAGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGT-GCC
* * ** *
54052131 GATG-CATGTCCCAAACAT-GTCTTTCACAAGCTCTCGTCTCAA--TGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTC--AT-AATGTGCC
*
54052177 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGT-GCC
*
54052225 GATG-CATGTCCTAGACAT-GTCTTACACTGGC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGC
54052256 ACACAAATAA
Statistics
Matches: 248, Mismatches: 50, Indels: 41
0.73 0.15 0.12
Matches are distributed among these distances:
43 2 0.01
44 12 0.05
45 17 0.07
46 31 0.12
47 56 0.23
48 60 0.24
49 32 0.13
50 31 0.12
51 7 0.03
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGCC
Found at i:54054735 original size:56 final size:56
Alignment explanation
Indices: 54054668--54054795 Score: 184
Period size: 56 Copynumber: 2.3 Consensus size: 56
54054658 AGACAGGGTT
* * *
54054668 TTACTCACACACATATATCGAAGGCACATAGCGATACCAACGTATTAAACGTAGTC
1 TTACTCGCACACATATATCGAACGCACATAGCGATACCAACGTATTAAACATAGTC
* * * *
54054724 TTACTCGCACACATATATCGAACTCACATATCGATGCCAACGTATTAAACATGGTC
1 TTACTCGCACACATATATCGAACGCACATAGCGATACCAACGTATTAAACATAGTC
*
54054780 TTACTCGTACACATAT
1 TTACTCGCACACATAT
54054796 TGATGCCATG
Statistics
Matches: 64, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
56 64 1.00
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.27
Consensus pattern (56 bp):
TTACTCGCACACATATATCGAACGCACATAGCGATACCAACGTATTAAACATAGTC
Found at i:54058711 original size:18 final size:19
Alignment explanation
Indices: 54058683--54058719 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
54058673 TTGCCCTTAA
54058683 TGAACAAAGATAGATATAT
1 TGAACAAAGATAGATATAT
54058702 TGAA-AAAGATAGATATAT
1 TGAACAAAGATAGATATAT
54058720 AATCATAAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.54, C:0.03, G:0.16, T:0.27
Consensus pattern (19 bp):
TGAACAAAGATAGATATAT
Found at i:54062646 original size:47 final size:47
Alignment explanation
Indices: 54062592--54062685 Score: 161
Period size: 47 Copynumber: 2.0 Consensus size: 47
54062582 GGACGAGGCA
*
54062592 CAGTTCCATCATGTCCTTGTGTATGATTTCCTAAAAAGAATCTTGAG
1 CAGTTCCATCATGTCCTTGTGTACGATTTCCTAAAAAGAATCTTGAG
* *
54062639 CAGTTCCATCGTGTCCTTGTGTACGATTTCCTGAAAAGAATCTTGAG
1 CAGTTCCATCATGTCCTTGTGTACGATTTCCTAAAAAGAATCTTGAG
54062686 TAGCATGATC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 44 1.00
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.35
Consensus pattern (47 bp):
CAGTTCCATCATGTCCTTGTGTACGATTTCCTAAAAAGAATCTTGAG
Found at i:54072746 original size:13 final size:13
Alignment explanation
Indices: 54072728--54072753 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
54072718 AAGTAATCGA
54072728 ACACGGGCGTGTC
1 ACACGGGCGTGTC
54072741 ACACGGGCGTGTC
1 ACACGGGCGTGTC
54072754 CATGCTGAGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.38, T:0.15
Consensus pattern (13 bp):
ACACGGGCGTGTC
Found at i:54084818 original size:32 final size:32
Alignment explanation
Indices: 54084755--54084844 Score: 130
Period size: 32 Copynumber: 2.8 Consensus size: 32
54084745 GTATTAAACG
* *
54084755 TGGTCTTAC-TCGCACA-CATATATCGATGCCA
1 TGGTCTTACAT-GCACATCACATATCGACGCCA
54084786 TGGTCTTACATGCACATCACATATCGACGCCA
1 TGGTCTTACATGCACATCACATATCGACGCCA
*
54084818 TGGTCTTACATGCATATCACATATCGA
1 TGGTCTTACATGCACATCACATATCGA
54084845 AATCCTATGT
Statistics
Matches: 54, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
31 14 0.26
32 40 0.74
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.29
Consensus pattern (32 bp):
TGGTCTTACATGCACATCACATATCGACGCCA
Found at i:54100391 original size:22 final size:25
Alignment explanation
Indices: 54100347--54100393 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
54100337 TAATAAAATA
54100347 TAAAATTATATTTAATAATTAATTT
1 TAAAATTATATTTAATAATTAATTT
*
54100372 TAAAA-TAT-TTTATTAA-TAATTT
1 TAAAATTATATTTAATAATTAATTT
54100394 GGGTTTTAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 7 0.33
24 3 0.14
25 5 0.24
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (25 bp):
TAAAATTATATTTAATAATTAATTT
Found at i:54100842 original size:11 final size:11
Alignment explanation
Indices: 54100826--54100851 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
54100816 CAATCATCCC
54100826 TCATCCCTCAT
1 TCATCCCTCAT
54100837 TCATCCCTCAT
1 TCATCCCTCAT
54100848 TCAT
1 TCAT
54100852 TCAGCATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.19, C:0.42, G:0.00, T:0.38
Consensus pattern (11 bp):
TCATCCCTCAT
Found at i:54102573 original size:21 final size:21
Alignment explanation
Indices: 54102549--54102626 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
54102539 CCATCCCAAT
54102549 CCAACCAACACACCACCTGTA
1 CCAACCAACACACCACCTGTA
*
54102570 CCAACCAATACACCACCTGTA
1 CCAACCAACACACCACCTGTA
* **
54102591 CCAACCAATACACCACCCATA
1 CCAACCAACACACCACCTGTA
54102612 CCAACCAACACACCA
1 CCAACCAACACACCA
54102627 TGTGGGGATT
Statistics
Matches: 53, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.41, C:0.47, G:0.03, T:0.09
Consensus pattern (21 bp):
CCAACCAACACACCACCTGTA
Found at i:54102795 original size:27 final size:27
Alignment explanation
Indices: 54102696--54102795 Score: 73
Period size: 27 Copynumber: 3.7 Consensus size: 27
54102686 AGTAACGCAT
* *
54102696 CAAAGCTACTAATAAAAGT-AAACGTGG
1 CAAAGCCACTAAT-ACAGTAAAACGTGG
* *
54102723 TC-TAGCCACTAATATCAG-AATACGTGG
1 -CAAAGCCACTAATA-CAGTAAAACGTGG
* *
54102750 CAAAGCCACCAGA-ATAGTAAAACGTGG
1 CAAAGCCACTA-ATACAGTAAAACGTGG
*
54102777 CAAAGCCACTTATACAGTA
1 CAAAGCCACTAATACAGTA
54102796 CTTCCTCCGA
Statistics
Matches: 55, Mismatches: 11, Indels: 13
0.70 0.14 0.16
Matches are distributed among these distances:
26 5 0.09
27 48 0.87
28 2 0.04
ACGTcount: A:0.42, C:0.21, G:0.18, T:0.19
Consensus pattern (27 bp):
CAAAGCCACTAATACAGTAAAACGTGG
Found at i:54115909 original size:51 final size:51
Alignment explanation
Indices: 54115833--54115933 Score: 202
Period size: 51 Copynumber: 2.0 Consensus size: 51
54115823 CGCAATCAAC
54115833 ATCAGAAAACTCCTTAACAGTTCTGACATCTCCCACAGAAGTACCTTTAAA
1 ATCAGAAAACTCCTTAACAGTTCTGACATCTCCCACAGAAGTACCTTTAAA
54115884 ATCAGAAAACTCCTTAACAGTTCTGACATCTCCCACAGAAGTACCTTTAA
1 ATCAGAAAACTCCTTAACAGTTCTGACATCTCCCACAGAAGTACCTTTAA
54115934 CATAAGCTAG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.28, G:0.10, T:0.26
Consensus pattern (51 bp):
ATCAGAAAACTCCTTAACAGTTCTGACATCTCCCACAGAAGTACCTTTAAA
Found at i:54118530 original size:33 final size:33
Alignment explanation
Indices: 54118471--54118534 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 33
54118461 AGTAACGGAC
* *
54118471 TGGGCCTGAGCCCTATTCGGTAACAGTGTAGTT
1 TGGGCCTGAGCCCTATACGATAACAGTGTAGTT
*
54118504 TGGGCCTTAGCCCTATAC-ATAGACAGTGTAG
1 TGGGCCTGAGCCCTATACGATA-ACAGTGTAG
54118535 GCCTAACCCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (33 bp):
TGGGCCTGAGCCCTATACGATAACAGTGTAGTT
Found at i:54118789 original size:27 final size:27
Alignment explanation
Indices: 54118691--54118789 Score: 89
Period size: 27 Copynumber: 3.7 Consensus size: 27
54118681 CAGTAACACA
*
54118691 GCAAAGCTACTAATAACAGT-AAACGTG
1 GCAAAGCCACT-ATAACAGTAAAACGTG
* *
54118718 GC--AGCCACTAATATCAG-AATACGTG
1 GCAAAGCCACT-ATAACAGTAAAACGTG
* * *
54118743 GCAAAGCCACCAGAATAGTAAAACGTG
1 GCAAAGCCACTATAACAGTAAAACGTG
*
54118770 GCAAAGCCACTATTACAGTA
1 GCAAAGCCACTATAACAGTA
54118790 CTTCCTCCGA
Statistics
Matches: 56, Mismatches: 12, Indels: 8
0.74 0.16 0.11
Matches are distributed among these distances:
25 21 0.38
26 4 0.07
27 31 0.55
ACGTcount: A:0.41, C:0.22, G:0.19, T:0.17
Consensus pattern (27 bp):
GCAAAGCCACTATAACAGTAAAACGTG
Found at i:54119261 original size:20 final size:19
Alignment explanation
Indices: 54119224--54119262 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
54119214 GTGTGGGCCC
54119224 CATGAGCCCATTGGGCCAA
1 CATGAGCCCATTGGGCCAA
54119243 CATG-GCCCATCTCGGGCCAA
1 CATGAGCCCAT-T-GGGCCAA
54119263 TGAGGCCCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 6 0.33
19 5 0.28
20 7 0.39
ACGTcount: A:0.23, C:0.36, G:0.26, T:0.15
Consensus pattern (19 bp):
CATGAGCCCATTGGGCCAA
Found at i:54121802 original size:57 final size:58
Alignment explanation
Indices: 54121712--54121850 Score: 156
Period size: 57 Copynumber: 2.4 Consensus size: 58
54121702 TAACATATAA
* * ** *
54121712 CAGGATTACCAGTCCAGGTTAAATCTTCTTTGT-ACTATATGCTCAAAAAAGCTCA-AT
1 CAGGATTACCAGTCCAGGCTAAATCCTAATTGTAAC-ATATGCTCAAAAAAGATCATAT
* ** * * *
54121769 TAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTTGAGAGAGATTATAT
1 CAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAAAAAGATCATAT
54121827 CAGGATTACCAGTCCAGGCTAAAT
1 CAGGATTACCAGTCCAGGCTAAAT
54121851 GTAACACCCC
Statistics
Matches: 68, Mismatches: 12, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
57 41 0.60
58 27 0.40
ACGTcount: A:0.34, C:0.19, G:0.17, T:0.29
Consensus pattern (58 bp):
CAGGATTACCAGTCCAGGCTAAATCCTAATTGTAACATATGCTCAAAAAAGATCATAT
Found at i:54123083 original size:29 final size:29
Alignment explanation
Indices: 54123023--54123120 Score: 110
Period size: 29 Copynumber: 3.4 Consensus size: 29
54123013 TGTATCTGGT
* * *
54123023 CCATTAAGCCC-AATCATATTTATATGGC
1 CCATTAGGCCCAAATAACATTTATATGGC
54123051 CCATTAGGCCCAAATAAC-TTGTATATGGC
1 CCATTAGGCCCAAATAACATT-TATATGGC
** *
54123080 CCATTAGGCCCAAATCGCATTTATATAGC
1 CCATTAGGCCCAAATAACATTTATATGGC
*
54123109 CCGTTAGGCCCA
1 CCATTAGGCCCA
54123121 GTCACATTCA
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
28 12 0.20
29 46 0.77
30 2 0.03
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
CCATTAGGCCCAAATAACATTTATATGGC
Found at i:54124668 original size:16 final size:17
Alignment explanation
Indices: 54124636--54124671 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
54124626 ACAAAGAAAG
*
54124636 TTTGGGATTTTGGGATT
1 TTTGGGATTTTGAGATT
54124653 TTTGGG-TTTTGAGATT
1 TTTGGGATTTTGAGATT
54124669 TTT
1 TTT
54124672 AGAGCGTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 12 0.67
17 6 0.33
ACGTcount: A:0.11, C:0.00, G:0.31, T:0.58
Consensus pattern (17 bp):
TTTGGGATTTTGAGATT
Found at i:54143751 original size:19 final size:19
Alignment explanation
Indices: 54143727--54143765 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
54143717 TTTTATATTT
54143727 TCTTTAATTTTAATTTTAA
1 TCTTTAATTTTAATTTTAA
* *
54143746 TCTTTATTTTTTATTTTAA
1 TCTTTAATTTTAATTTTAA
54143765 T
1 T
54143766 GTTAGTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.26, C:0.05, G:0.00, T:0.69
Consensus pattern (19 bp):
TCTTTAATTTTAATTTTAA
Found at i:54143774 original size:19 final size:20
Alignment explanation
Indices: 54143734--54143786 Score: 56
Period size: 19 Copynumber: 2.6 Consensus size: 20
54143724 TTTTCTTTAA
* *
54143734 TTTTAATTTTAATCTTTA-T
1 TTTTTATTTTAATCGTTATT
54143753 TTTTTATTTTAAT-GTTAGTT
1 TTTTTATTTTAATCGTTA-TT
54143773 TTATTTATTTTAAT
1 TT-TTTATTTTAAT
54143787 TAAGGGGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
18 3 0.10
19 12 0.41
20 3 0.10
21 11 0.38
ACGTcount: A:0.25, C:0.02, G:0.04, T:0.70
Consensus pattern (20 bp):
TTTTTATTTTAATCGTTATT
Found at i:54151717 original size:43 final size:43
Alignment explanation
Indices: 54151658--54151850 Score: 251
Period size: 43 Copynumber: 4.5 Consensus size: 43
54151648 AGTTCGTTTG
* * * *
54151658 AATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCT
1 AATTAATTGGCGCTAAGTGTACAATACAATTATAGCCTCAGCT
* *
54151701 AATTAATTGGCGCTAAGTGTACAATACATTTATAGCCTCAACT
1 AATTAATTGGCGCTAAGTGTACAATACAATTATAGCCTCAGCT
* *
54151744 AATTAATTGGCGCTAAGTGTACAATACATTTATAGCCTCGGCT
1 AATTAATTGGCGCTAAGTGTACAATACAATTATAGCCTCAGCT
* * * * *
54151787 AATTAATTGGCGCTAAGTGTGCGATACAATTCTAACTTCAGCT
1 AATTAATTGGCGCTAAGTGTACAATACAATTATAGCCTCAGCT
* *
54151830 CATTAATTGGCACTAAGTGTA
1 AATTAATTGGCGCTAAGTGTA
54151851 TGAGTTCGTT
Statistics
Matches: 132, Mismatches: 18, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 132 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (43 bp):
AATTAATTGGCGCTAAGTGTACAATACAATTATAGCCTCAGCT
Found at i:54151763 original size:86 final size:86
Alignment explanation
Indices: 54151658--54151850 Score: 278
Period size: 86 Copynumber: 2.2 Consensus size: 86
54151648 AGTTCGTTTG
* *
54151658 AATTAATTGGCACTAAGTGTGCGATACAATTATAGCCTCGGCTAATTAATTGGCGCTAAGTGTAC
1 AATTAATTGGCACTAAGTGTACAATACAATTATAGCCTCGGCTAATTAATTGGCGCTAAGTGTAC
* *
54151723 AATACATTTATAGCCTCAACT
66 AATACAATTATAACCTCAACT
* * *
54151744 AATTAATTGGCGCTAAGTGTACAATACATTTATAGCCTCGGCTAATTAATTGGCGCTAAGTGTGC
1 AATTAATTGGCACTAAGTGTACAATACAATTATAGCCTCGGCTAATTAATTGGCGCTAAGTGTAC
* * * *
54151809 GATACAATTCTAACTTCAGCT
66 AATACAATTATAACCTCAACT
*
54151830 CATTAATTGGCACTAAGTGTA
1 AATTAATTGGCACTAAGTGTA
54151851 TGAGTTCGTT
Statistics
Matches: 94, Mismatches: 13, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
86 94 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (86 bp):
AATTAATTGGCACTAAGTGTACAATACAATTATAGCCTCGGCTAATTAATTGGCGCTAAGTGTAC
AATACAATTATAACCTCAACT
Found at i:54152836 original size:14 final size:14
Alignment explanation
Indices: 54152817--54152848 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
54152807 TTAATATGGC
54152817 GTATATTTGGTTAT
1 GTATATTTGGTTAT
54152831 GTATATTTGGTTAT
1 GTATATTTGGTTAT
54152845 GTAT
1 GTAT
54152849 TGAGCTCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.22, T:0.56
Consensus pattern (14 bp):
GTATATTTGGTTAT
Found at i:54166368 original size:47 final size:46
Alignment explanation
Indices: 54166299--54166471 Score: 183
Period size: 47 Copynumber: 3.7 Consensus size: 46
54166289 CGAATATTTG
* * *
54166299 GGCATCTGAACTTGTTGAGTTGAGTCCTAGTTCGTGAGATGTAACT
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACT
* * * *
54166345 AGGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC-
1 -GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACT
*
54166395 -G--TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACT
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACT
*
54166438 GGGCATATGAGCTCGTTGAGTTGAGTCCGAGTTC
1 -GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTC
54166472 ACTTATGGAT
Statistics
Matches: 103, Mismatches: 14, Indels: 18
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 27 0.26
47 56 0.54
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.31
Consensus pattern (46 bp):
GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACT
Found at i:54166419 original size:46 final size:45
Alignment explanation
Indices: 54166356--54166525 Score: 166
Period size: 46 Copynumber: 3.7 Consensus size: 45
54166346 GGCATCCGAG
54166356 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGTCTGAA
* * * * *
54166402 CTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTGGGCATATGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---G--TCTGAA
* * *
54166449 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAATGCCCGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGTCTGAA
* *
54166495 CTCATTGAGTTGAGTCCGAGTTCGCTTATGG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54166526 GCGGGTTACA
Statistics
Matches: 100, Mismatches: 15, Indels: 18
0.75 0.11 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 54 0.54
47 27 0.27
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (45 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGTCTGAA
Found at i:54166462 original size:93 final size:93
Alignment explanation
Indices: 54166303--54166518 Score: 342
Period size: 93 Copynumber: 2.3 Consensus size: 93
54166293 TATTTGGGCA
* * *
54166303 TCTGAACTTGTTGAGTTGAGTCCTAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATACGAGCTCGTTGAGTTG
54166368 AGTCCGAGTTCACTTATGGATGCGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* *
54166396 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTGGGCATATGAGCTCGTTGAGTTG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATACGAGCTCGTTGAGTTG
* *
54166461 AGTCCGAGTTCACTTATGGATGTGAATG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* * *
54166489 CCCGAACTCATTGAGTTGAGTCCGAGTTCG
1 TCTGAACTCGTTGAGTTGAGTCCGAGTTCG
54166519 CTTATGGGCG
Statistics
Matches: 113, Mismatches: 10, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 113 1.00
ACGTcount: A:0.21, C:0.18, G:0.30, T:0.31
Consensus pattern (93 bp):
TCTGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATACGAGCTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAACG
Found at i:54168445 original size:26 final size:26
Alignment explanation
Indices: 54168416--54168523 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
54168406 TGGTACAAAT
*
54168416 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
54168442 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
54168468 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
54168494 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
54168520 TGAT
1 TGAT
54168524 GGGCATTTCA
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 76 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:54169843 original size:27 final size:26
Alignment explanation
Indices: 54169804--54169959 Score: 159
Period size: 27 Copynumber: 5.8 Consensus size: 26
54169794 AAGCGTCCTA
*
54169804 GTGGCTATGCCACAATTATCTGATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
* * *
54169831 ATGGCTCTGCCACATATATTTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
* *
54169858 GTGGCTATGCCACGATTATCTAATCTG
1 GTGGCTCTGCCAC-ATTATCTGATCTG
*
54169885 GTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTCTGCCACAT-TATCTGATCTG
*
54169912 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACATTATCTG-ATCTG
* * * *
54169939 GTGACTTTGTCACAATATCTG
1 GTGGCTCTGCCACATTATCTG
54169960 GCAGCCTCGC
Statistics
Matches: 108, Mismatches: 17, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
26 10 0.09
27 96 0.89
28 2 0.02
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (26 bp):
GTGGCTCTGCCACATTATCTGATCTG
Found at i:54169890 original size:54 final size:53
Alignment explanation
Indices: 54169804--54169959 Score: 197
Period size: 54 Copynumber: 2.9 Consensus size: 53
54169794 AAGCGTCCTA
* * *
54169804 GTGGCTATGCCACAATTATCTGATCTGATGGCTCTGCCACATATATTTGTTCTG
1 GTGGCTATGCCAC-ATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTG
54169858 GTGGCTATGCCACGATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTG
1 GTGGCTATGCCAC-ATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTG
* * * * * *
54169912 GTGGCTCTGCCACAATATCTGTATCTGGTGACTTTGTCACA-ATATCTG
1 GTGGCTATGCCACATTATCT-AATCTGGTGGCTCTGCCACATATATCTG
54169960 GCAGCCTCGC
Statistics
Matches: 91, Mismatches: 10, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
53 13 0.14
54 78 0.86
ACGTcount: A:0.20, C:0.23, G:0.21, T:0.36
Consensus pattern (53 bp):
GTGGCTATGCCACATTATCTAATCTGGTGGCTCTGCCACATATATCTGTTCTG
Found at i:54175183 original size:46 final size:46
Alignment explanation
Indices: 54175116--54175291 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
54175106 TAACTAGGCA
* *
54175116 TCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * * **
54175162 TCCGAACTCATTGAGTTGAGTCCGAGTTC-GTGA--GAT-TTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---G
* * *
54175207 CATCCGAACTCGTTGAGTTGAGTCCAAGTTCATTTATGGATGCGAACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* * *
54175255 CCCGAACTCGTTGAGTTGAGTCGGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54175292 GCGGGTTACA
Statistics
Matches: 102, Mismatches: 19, Indels: 18
0.73 0.14 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 3 0.03
46 58 0.57
47 27 0.26
48 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.22, C:0.20, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:54175228 original size:93 final size:93
Alignment explanation
Indices: 54175067--54175284 Score: 346
Period size: 93 Copynumber: 2.3 Consensus size: 93
54175057 AATATTTGGG
* *
54175067 CATCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGT
**
54175132 TGAGTCTGAGTTCACTTATGGATGCGAA
66 TGAGTCCAAGTTCACTTATGGATGCGAA
* * *
54175160 CGTCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATTTAACTAGGCATCCGAACTCGTTGAGT
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGT
*
54175225 TGAGTCCAAGTTCATTTATGGATGCGAA
66 TGAGTCCAAGTTCACTTATGGATGCGAA
* *
54175253 CACCCGAACTCGTTGAGTTGAGTCGGAGTTCG
1 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCG
54175285 CTTATGGGCG
Statistics
Matches: 113, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 113 1.00
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (93 bp):
CATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAACTCGTTGAGT
TGAGTCCAAGTTCACTTATGGATGCGAA
Found at i:54175237 original size:47 final size:47
Alignment explanation
Indices: 54175065--54175237 Score: 185
Period size: 47 Copynumber: 3.7 Consensus size: 47
54175055 CGAATATTTG
* *
54175065 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTTGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATCTAACTA
* * * * *
54175112 GGCATCCGAGCTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAAC--
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GAT-CTAACTA
* *
54175161 -G--TCCGAACTCATTGAGTTGAGTCCGAGTTCGTGAGATTTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATCTAACTA
*
54175205 GGCATCCGAACTCGTTGAGTTGAGTCCAAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
54175238 ATTTATGGAT
Statistics
Matches: 101, Mismatches: 16, Indels: 18
0.75 0.12 0.13
Matches are distributed among these distances:
42 3 0.03
43 3 0.03
45 3 0.03
46 26 0.26
47 57 0.56
48 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.28, T:0.29
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATCTAACTA
Found at i:54177660 original size:46 final size:48
Alignment explanation
Indices: 54177554--54177776 Score: 151
Period size: 47 Copynumber: 4.8 Consensus size: 48
54177544 ACTTGTGTAT
** ** * *
54177554 GCCAGTGTAAGACCACATCTGGGACATGGCATTAGCATT-GAGACA-AGT
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAG-GACATA-A
** *
54177602 GCTTGTGTAAGA-CATGTCTGGGGCAT-GCATCGGCCTTAGGACATAA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAGGACATAA
* * * *
54177648 GCCAGTGTAAGA-CATGTCTGGGGCAT-GCGTCGG-C-TATGAGATGATA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAGGACAT-A-A
* * * * * *
54177694 GTCAGTGTAAGACCATGTCCGGGACATGGCTTC-GACTT-GAGATATGA
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAG-GACATAA
*
54177741 GCCAGTGTAAGACCGTGTCTGGGACATGGCATCGGC
1 GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGC
54177777 ACCTTACCCA
Statistics
Matches: 139, Mismatches: 26, Indels: 20
0.75 0.14 0.11
Matches are distributed among these distances:
44 6 0.04
45 2 0.01
46 54 0.39
47 56 0.40
48 16 0.12
49 5 0.04
ACGTcount: A:0.25, C:0.20, G:0.31, T:0.23
Consensus pattern (48 bp):
GCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTTAGGACATAA
Found at i:54177735 original size:47 final size:48
Alignment explanation
Indices: 54177647--54177770 Score: 157
Period size: 47 Copynumber: 2.6 Consensus size: 48
54177637 TTAGGACATA
* *
54177647 AGCCAGTGTAAGA-CATGTCTGGGGCAT-GCGTCGGCTATGAGATGAT-
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACTATGAGAT-ATG
* * *
54177693 AGTCAGTGTAAGACCATGTCCGGGACATGGCTTCGACT-TGAGATATG
1 AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACTATGAGATATG
*
54177740 AGCCAGTGTAAGACCGTGTCTGGGACATGGC
1 AGCCAGTGTAAGACCATGTCTGGGACATGGC
54177771 ATCGGCACCT
Statistics
Matches: 67, Mismatches: 8, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
46 14 0.21
47 46 0.69
48 7 0.10
ACGTcount: A:0.24, C:0.19, G:0.33, T:0.23
Consensus pattern (48 bp):
AGCCAGTGTAAGACCATGTCTGGGACATGGCGTCGACTATGAGATATG
Found at i:54182220 original size:46 final size:46
Alignment explanation
Indices: 54182170--54182345 Score: 223
Period size: 46 Copynumber: 3.8 Consensus size: 46
54182160 TGTTTGGGCA
54182170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
*** * *
54182216 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCAT-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAATG
*
54182264 T-CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
54182309 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54182346 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 12, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 1 0.01
46 68 0.61
47 30 0.27
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:54182325 original size:93 final size:93
Alignment explanation
Indices: 54182166--54182337 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
54182156 AGGATGTTTG
*
54182166 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
54182231 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* * *
54182259 GGCATTCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
54182324 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
54182338 ACTTATGGGC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:54187247 original size:36 final size:35
Alignment explanation
Indices: 54187157--54187272 Score: 101
Period size: 36 Copynumber: 3.2 Consensus size: 35
54187147 TACACCAACA
* * * *
54187157 ACAAAGCCTAATAATATACACCGCACGAAGCTGCTTGGT
1 ACAAAGCCTGATAATATACA-CG-A-AAAGCTGC-TAGC
*
54187196 ACAAAGCCTGATAATATACA-TACAAAGCTTGCTAGAC
1 ACAAAGCCTGATAATATACACGA-AAAGC-TGCTAG-C
*
54187233 ACAAAG-CTGGTAATATACACGAAAAGCTGCTAGC
1 ACAAAGCCTGATAATATACACGAAAAGCTGCTAGC
54187267 ACAAAG
1 ACAAAG
54187273 TGTGATAGAC
Statistics
Matches: 67, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
34 7 0.10
35 6 0.09
36 25 0.37
37 10 0.15
39 19 0.28
ACGTcount: A:0.41, C:0.22, G:0.17, T:0.19
Consensus pattern (35 bp):
ACAAAGCCTGATAATATACACGAAAAGCTGCTAGC
Found at i:54198823 original size:27 final size:27
Alignment explanation
Indices: 54198786--54198857 Score: 110
Period size: 27 Copynumber: 2.7 Consensus size: 27
54198776 TTTACCCCAC
54198786 AGGGTATTTCGGTCA-TTCTACCCTATG
1 AGGGTATTTCGGTCATTTC-ACCCTATG
*
54198813 AGGGTATTTCGATCATTTCACCCTATG
1 AGGGTATTTCGGTCATTTCACCCTATG
*
54198840 AGGGTATTTTGGTCATTT
1 AGGGTATTTCGGTCATTT
54198858 TATCACATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
27 38 0.93
28 3 0.07
ACGTcount: A:0.19, C:0.18, G:0.22, T:0.40
Consensus pattern (27 bp):
AGGGTATTTCGGTCATTTCACCCTATG
Found at i:54210184 original size:40 final size:39
Alignment explanation
Indices: 54209995--54210220 Score: 260
Period size: 40 Copynumber: 5.7 Consensus size: 39
54209985 TTGAATGATG
* * *
54209995 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-A
* *
54210035 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACT-AA
* *
54210075 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA
54210114 TTCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
* *
54210154 GTCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTACA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-A
* *
54210195 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54210221 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 12
0.87 0.07 0.06
Matches are distributed among these distances:
39 3 0.02
40 154 0.92
41 10 0.06
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAA
Found at i:54210212 original size:120 final size:120
Alignment explanation
Indices: 54209995--54210220 Score: 293
Period size: 120 Copynumber: 1.9 Consensus size: 120
54209985 TTGAATGATG
54209995 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
54210060 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
66 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
* * * **
54210115 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AGTCCGGGTTAAG-TCCCGAAGGCA
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA-TCCGGACTAAGAT-CCGAAGGCA
* *
54210177 TTTGTGCGA-ATTACTACAA-CCGGGCTATG-TCCCGAAGGCATTTG
63 TTTGTGCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
54210221 AACGAGGAGC
Statistics
Matches: 93, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
119 4 0.04
120 80 0.86
121 9 0.10
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54213916 original size:25 final size:27
Alignment explanation
Indices: 54213882--54213933 Score: 72
Period size: 25 Copynumber: 2.0 Consensus size: 27
54213872 AATCGGTAAA
*
54213882 ATTTTTCTATCA-AT-ATTTTCATACG
1 ATTTTCCTATCATATAATTTTCATACG
54213907 ATTTTCCTATCATATCAATTTTCATAC
1 ATTTTCCTATCATAT-AATTTTCATAC
54213934 AAAAATATTG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
25 11 0.48
26 2 0.09
28 10 0.43
ACGTcount: A:0.29, C:0.19, G:0.02, T:0.50
Consensus pattern (27 bp):
ATTTTCCTATCATATAATTTTCATACG
Found at i:54216042 original size:27 final size:27
Alignment explanation
Indices: 54216012--54216124 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
54216002 GGTATTTTTC
*
54216012 TAATTTTACAAATTGAGGGTATTTCAG
1 TAATTTTACAAATCGAGGGTATTTCAG
**
54216039 TAA-TTT-CATAATCGAGGGTATTTTGG
1 TAATTTTACA-AATCGAGGGTATTTCAG
* *
54216065 TAATTTTAAAAATCGGGGGTATTTC-G
1 TAATTTTACAAATCGAGGGTATTTCAG
* *
54216091 ATAATTTTACAAATTGAGGGTATTTCAA
1 -TAATTTTACAAATCGAGGGTATTTCAG
54216119 TAATTT
1 TAATTT
54216125 CTCTTTAGTA
Statistics
Matches: 71, Mismatches: 10, Indels: 10
0.78 0.11 0.11
Matches are distributed among these distances:
25 2 0.03
26 21 0.30
27 47 0.66
28 1 0.01
ACGTcount: A:0.33, C:0.07, G:0.19, T:0.42
Consensus pattern (27 bp):
TAATTTTACAAATCGAGGGTATTTCAG
Found at i:54216085 original size:53 final size:54
Alignment explanation
Indices: 54216001--54216115 Score: 137
Period size: 53 Copynumber: 2.1 Consensus size: 54
54215991 TGCTCGTAAT
* * *
54216001 GGGTATTTTTCTAATTTTACAAATTGAGGGTATTTC-AGTAA-TTT-CATAATCGA
1 GGGTATTTTGCTAATTTTAAAAATCGAGGGTATTTCGA-TAATTTTACA-AATCGA
* * *
54216054 GGGTATTTTGGTAATTTTAAAAATCGGGGGTATTTCGATAATTTTACAAATTGA
1 GGGTATTTTGCTAATTTTAAAAATCGAGGGTATTTCGATAATTTTACAAATCGA
54216108 GGGTATTT
1 GGGTATTT
54216116 CAATAATTTC
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
53 34 0.64
54 17 0.32
55 2 0.04
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.43
Consensus pattern (54 bp):
GGGTATTTTGCTAATTTTAAAAATCGAGGGTATTTCGATAATTTTACAAATCGA
Found at i:54216474 original size:28 final size:28
Alignment explanation
Indices: 54216441--54216504 Score: 92
Period size: 28 Copynumber: 2.3 Consensus size: 28
54216431 TGGCCCCTTT
* *
54216441 AGGCCCAATCTCGTTCACATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
54216469 AGGCCCAATCACATTCATATGGCCCATC
1 AGGCCCAATCACATTCACATGGCCCATC
*
54216497 AGGTCCAA
1 AGGCCCAA
54216505 CTATTTCCCA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.27, C:0.36, G:0.17, T:0.20
Consensus pattern (28 bp):
AGGCCCAATCACATTCACATGGCCCATC
Found at i:54217688 original size:5 final size:5
Alignment explanation
Indices: 54217678--54217702 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
54217668 GTAAGAAGGG
54217678 GAAAA GAAAA GAAAA GAAAA GAAAA
1 GAAAA GAAAA GAAAA GAAAA GAAAA
54217703 CATGATGAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
GAAAA
Found at i:54224604 original size:27 final size:26
Alignment explanation
Indices: 54224478--54224597 Score: 150
Period size: 27 Copynumber: 4.5 Consensus size: 26
54224468 ACCCTTTATC
54224478 GGGTAAAATGACCGAAATACACCCATA
1 GGGTAAAATGACCGAAATAC-CCCATA
*
54224505 GGGTAAAATGACCAAAATACACCCATA
1 GGGTAAAATGACCGAAATAC-CCCATA
* * * *
54224532 CGATAAAAAGACCGAAATGCCCCTATA
1 GGGTAAAATGACCGAAATACCCC-ATA
*
54224559 GGGTAAATTGACCGAAATACCCTCATA
1 GGGTAAAATGACCGAAATACCC-CATA
54224586 GGGTAAAATGAC
1 GGGTAAAATGAC
54224598 TAAAATATCC
Statistics
Matches: 79, Mismatches: 12, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
26 3 0.04
27 75 0.95
28 1 0.01
ACGTcount: A:0.43, C:0.22, G:0.18, T:0.17
Consensus pattern (26 bp):
GGGTAAAATGACCGAAATACCCCATA
Found at i:54228520 original size:27 final size:27
Alignment explanation
Indices: 54228420--54228576 Score: 136
Period size: 27 Copynumber: 5.8 Consensus size: 27
54228410 GCATACTTAG
* * *
54228420 ACCCTTAATCGGGTAAAATAACCGAAAT
1 ACCCTT-ATAGGGTAAAATGACCAAAAT
* * * *
54228448 ACACC-CATACGATAAAATAACCAAAAT
1 AC-CCTTATAGGGTAAAATGACCAAAAT
*
54228475 ACCCCTATAGGGTAAAATGACCAAAAT
1 ACCCTTATAGGGTAAAATGACCAAAAT
* *
54228502 ACCCTTATAGGGTAAAATGATCGAAAT
1 ACCCTTATAGGGTAAAATGACCAAAAT
* * * * *
54228529 ATCCTTATAAGGTATAATGACTATAAT
1 ACCCTTATAGGGTAAAATGACCAAAAT
* *
54228556 TCCCTTATAGGGCAAAATGAC
1 ACCCTTATAGGGTAAAATGAC
54228577 TGTTTTGCCC
Statistics
Matches: 103, Mismatches: 24, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
26 2 0.02
27 97 0.94
28 2 0.02
29 2 0.02
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.24
Consensus pattern (27 bp):
ACCCTTATAGGGTAAAATGACCAAAAT
Found at i:54229085 original size:34 final size:35
Alignment explanation
Indices: 54229022--54229100 Score: 115
Period size: 34 Copynumber: 2.3 Consensus size: 35
54229012 TATTGAGGTG
54229022 GGCTTAGGCCTAGACTGTTTACTGATACTAAAATA
1 GGCTTAGGCCTAGACTGTTTACTGATACTAAAATA
* * * *
54229057 GGCTAAGGCCTAGACTG-TTACTGTTACTAATATG
1 GGCTTAGGCCTAGACTGTTTACTGATACTAAAATA
54229091 GGCTTAGGCC
1 GGCTTAGGCC
54229101 CAGAATGTAT
Statistics
Matches: 39, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
34 23 0.59
35 16 0.41
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (35 bp):
GGCTTAGGCCTAGACTGTTTACTGATACTAAAATA
Found at i:54233019 original size:34 final size:33
Alignment explanation
Indices: 54232974--54233064 Score: 112
Period size: 34 Copynumber: 2.8 Consensus size: 33
54232964 GTTTCAGTTA
*
54232974 GGGCCTTAGCCCATTACAGAATCAGAAACAGTG
1 GGGCCTAAGCCCATTACAGAATCAGAAACAGTG
* * * *
54233007 TGGGCCTGAGCCCATTTCAGAAT-AGTATCAGTG
1 -GGGCCTAAGCCCATTACAGAATCAGAAACAGTG
*
54233040 GGGCCTAAGCCTATTACAGAATCAG
1 GGGCCTAAGCCCATTACAGAATCAG
54233065 TACAGTATGC
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
32 19 0.39
33 10 0.20
34 20 0.41
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.22
Consensus pattern (33 bp):
GGGCCTAAGCCCATTACAGAATCAGAAACAGTG
Found at i:54233060 original size:32 final size:33
Alignment explanation
Indices: 54232974--54233070 Score: 117
Period size: 32 Copynumber: 2.9 Consensus size: 33
54232964 GTTTCAGTTA
* *
54232974 GGGCCTTAGCCCATTACAGAATCAGAAACAGTGT
1 GGGCCTAAGCCCATTACAGAATCAG-TACAGTGT
* *
54233008 GGGCCTGAGCCCATTTCAGAAT-AGTATCAGTG-
1 GGGCCTAAGCCCATTACAGAATCAGTA-CAGTGT
*
54233040 GGGCCTAAGCCTATTACAGAATCAGTACAGT
1 GGGCCTAAGCCCATTACAGAATCAGTACAGT
54233071 ATGCAATCAG
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
32 24 0.44
33 11 0.20
34 20 0.36
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (33 bp):
GGGCCTAAGCCCATTACAGAATCAGTACAGTGT
Found at i:54241545 original size:6 final size:6
Alignment explanation
Indices: 54241511--54241629 Score: 77
Period size: 6 Copynumber: 19.3 Consensus size: 6
54241501 AAGAAACATT
* * *
54241511 ATCAGA A-CTAGA ATCAAA ATCAAA ATCAGA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
* *
54241560 ATCAGA ATCAGT ATCAGGTA A-CAGA ATCAAA ATCAGA ATCA-A TATCAGGTA
1 ATCAGA ATCAGA ATCA-G-A ATCAGA ATCAGA ATCAGA ATCAGA -ATCA-G-A
*
54241611 A-CAGA ATCAAA ATCAGA AT
1 ATCAGA ATCAGA ATCAGA AT
54241630 TAGTATCAGG
Statistics
Matches: 90, Mismatches: 10, Indels: 26
0.71 0.08 0.21
Matches are distributed among these distances:
5 7 0.08
6 70 0.78
7 9 0.10
8 3 0.03
9 1 0.01
ACGTcount: A:0.50, C:0.16, G:0.15, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:54241555 original size:31 final size:31
Alignment explanation
Indices: 54241520--54241661 Score: 196
Period size: 31 Copynumber: 4.5 Consensus size: 31
54241510 TATCAGAACT
* *
54241520 AGAATCAAAATCAAAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
* *
54241551 AGAATCAGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
54241582 AGAATCAAAATCAGAATCA-ATATCAGGTAAC
1 AGAATCAAAATCAGAATCAGA-ATCAGGTAAC
* *
54241613 AGAATCAAAATCAGAATTAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGGTAAC
*
54241644 AGAATAAAAAATCAGAAT
1 AGAAT-CAAAATCAGAAT
54241662 GTGAATGCAA
Statistics
Matches: 99, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
31 88 0.89
32 11 0.11
ACGTcount: A:0.51, C:0.14, G:0.15, T:0.19
Consensus pattern (31 bp):
AGAATCAAAATCAGAATCAGAATCAGGTAAC
Found at i:54241593 original size:62 final size:62
Alignment explanation
Indices: 54241495--54241653 Score: 207
Period size: 62 Copynumber: 2.6 Consensus size: 62
54241485 TAACCCATTA
* * * *
54241495 CAGAATAAGAAACATTATCA-G-AACTAGAATCAAAATCAAAATCAGA-ATCAGGTGACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAAC-AGAATCAAAATCAAAATCA-ATATCAGGTAACAGAAT
*
54241556 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAGAATCAATATCAGGTAACAGAAT
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAATATCAGGTAACAGAAT
* * *
54241618 CAAAATCAGAATTAGTATCAGGTAACAGAATAAAAA
1 CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAA
54241654 ATCAGAATGT
Statistics
Matches: 87, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
61 18 0.21
62 66 0.76
63 3 0.03
ACGTcount: A:0.52, C:0.14, G:0.15, T:0.19
Consensus pattern (62 bp):
CAGAATCAGAATCAGTATCAGGTAACAGAATCAAAATCAAAATCAATATCAGGTAACAGAAT
Found at i:54241840 original size:27 final size:27
Alignment explanation
Indices: 54241798--54241926 Score: 188
Period size: 27 Copynumber: 4.8 Consensus size: 27
54241788 ACTCAATTAT
* *
54241798 CAGATATTGTGACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
54241825 CAGATATTGTGGCAGAGCCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGATA
54241852 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
* *
54241878 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAGATA
* *
54241906 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
54241927 TTAACAGAAT
Statistics
Matches: 95, Mismatches: 5, Indels: 4
0.91 0.05 0.04
Matches are distributed among these distances:
26 7 0.07
27 81 0.85
28 7 0.07
ACGTcount: A:0.36, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:54241952 original size:54 final size:54
Alignment explanation
Indices: 54241798--54241944 Score: 138
Period size: 54 Copynumber: 2.8 Consensus size: 54
54241788 ACTCAATTAT
* * * * * * *
54241798 CAGATATTGTGACAGAGTCACCAGATACAGATAT-TGTGGCAGAGCCACCAGATA
1 CAGATAATGTGGCAAAGCCACCAGA-ACAGATATACGTGGCAAAGCCACCAGAAA
* * ** *
54241852 CAGATATTGTGGCAGAGCCACCAGAACAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCAAAGCCACCAGAAA
**
54241906 CAGATAATGTGGCAAAGCCA-CTTAACAGA-ATACGTGGCA
1 CAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCA
54241945 CAAAGCCATC
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
52 8 0.10
53 15 0.18
54 59 0.72
ACGTcount: A:0.36, C:0.21, G:0.24, T:0.19
Consensus pattern (54 bp):
CAGATAATGTGGCAAAGCCACCAGAACAGATATACGTGGCAAAGCCACCAGAAA
Found at i:54242119 original size:22 final size:22
Alignment explanation
Indices: 54242085--54242149 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
54242075 GCAAATACGT
* *
54242085 TTGGTACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
54242107 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
*
54242129 TTGACACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
54242150 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.23, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:54242632 original size:27 final size:27
Alignment explanation
Indices: 54242575--54242893 Score: 424
Period size: 27 Copynumber: 11.9 Consensus size: 27
54242565 GGGGCAAAAT
* * * *
54242575 GGTAATTTTACCCCACA-AGGTATCTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54242601 GGTAATTCCACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54242628 AGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54242655 GATAATTCTACCCTACAGGGGTATTAC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54242682 GATAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54242709 GGTAATTTTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54242736 GGTGATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54242763 GTTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* *
54242790 GGTAATTCTACCCTAAAGGGGTATTGC
1 GGTAATTCTACCCTACAGGGGTATTTC
**
54242817 AATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAGGGGTATTTC
* * *
54242844 GGTAATTTTACCCTACAAGGGTATTCC
1 GGTAATTCTACCCTACAGGGGTATTTC
*
54242871 GGTAATTCTACGCTACAGGGGTA
1 GGTAATTCTACCCTACAGGGGTA
54242894 ATTTACCCTG
Statistics
Matches: 256, Mismatches: 36, Indels: 1
0.87 0.12 0.00
Matches are distributed among these distances:
26 14 0.05
27 242 0.95
ACGTcount: A:0.25, C:0.21, G:0.21, T:0.33
Consensus pattern (27 bp):
GGTAATTCTACCCTACAGGGGTATTTC
Found at i:54242698 original size:81 final size:81
Alignment explanation
Indices: 54242593--54242976 Score: 480
Period size: 81 Copynumber: 4.9 Consensus size: 81
54242583 TACCCCACAA
* * ** *
54242593 GGTATCTCGGTAATTCCACCCTACAGGGGTATTTTAGTAATTTTACCCTACAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
54242658 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * * *
54242674 GGTATTACGATAATTTTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAGGGGTATTTCGGT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
*
54242739 GATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * *
54242755 GGTATTTCGTTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
54242820 AATTCTACCCTACAGG
66 AATTCTACCCTACAGG
* * * *
54242836 GGTATTTCGGTAATTTTACCCTACAAGGGTATTCCGGTAATTCTACGCTACA-GGG------G-T
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
** *
54242893 AATT-TACCCTGTAAG
66 AATTCTACCCTACAGG
* * *
54242908 GGTATTTCGGTAATTCTACCCTATAGGGGTATTGCGGTAATTATACCCTACAGGGGTATTTCGAT
1 GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
54242973 AATT
66 AATT
54242977 TTATAAACAA
Statistics
Matches: 261, Mismatches: 34, Indels: 17
0.84 0.11 0.05
Matches are distributed among these distances:
72 54 0.21
73 8 0.03
79 1 0.00
80 8 0.03
81 190 0.73
ACGTcount: A:0.25, C:0.20, G:0.21, T:0.34
Consensus pattern (81 bp):
GGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTACAGGGGTATTTCGAT
AATTCTACCCTACAGG
Found at i:54242909 original size:45 final size:46
Alignment explanation
Indices: 54242844--54242938 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 46
54242834 GGGGTATTTC
*
54242844 GGTAATTTTACCCTACAAGGGTATTCCGGTAATTCTACGCTACAGG
1 GGTAATTTTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGG
** * *
54242890 GGTAA-TTTACCCTGTAAGGGTATTTCGGTAATTCTACCCTATAGG
1 GGTAATTTTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGG
54242935 GGTA
1 GGTA
54242939 TTGCGGTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
45 39 0.89
46 5 0.11
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.33
Consensus pattern (46 bp):
GGTAATTTTACCCTACAAGGGTATTCCGGTAATTCTACCCTACAGG
Found at i:54242937 original size:27 final size:26
Alignment explanation
Indices: 54242890--54242977 Score: 113
Period size: 27 Copynumber: 3.3 Consensus size: 26
54242880 ACGCTACAGG
* *
54242890 GGTAATTTACCCTGTAAGGGTATTTC
1 GGTAATTTACCCTATAGGGGTATTTC
*
54242916 GGTAATTCTACCCTATAGGGGTATTGC
1 GGTAATT-TACCCTATAGGGGTATTTC
*
54242943 GGTAATTATACCCTACAGGGGTATTTC
1 GGTAATT-TACCCTATAGGGGTATTTC
*
54242970 GATAATTT
1 GGTAATTT
54242978 TATAAACAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
26 8 0.15
27 46 0.85
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (26 bp):
GGTAATTTACCCTATAGGGGTATTTC
Found at i:54243016 original size:126 final size:126
Alignment explanation
Indices: 54242646--54243019 Score: 347
Period size: 126 Copynumber: 2.9 Consensus size: 126
54242636 TACCCTACAG
* * * * * *
54242646 GGGTATTTCGATAATTCTACCCTACAGGGGTATTACGATAATTTTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAATAATTATACCCTACAGGGGTATTTCGA
** * * * * ***
54242711 TAATTTTACCCTACAGGGGTATTTCGGTGATTCTACCCTACAGGGGTATTTCGTTAATTCTACCC
66 TAATTTTACCAAACAAGGGTATTCCAGTAATTCTACGAAACA-GGG------G-TAATT-TACCC
** *
54242776 TACAG
122 TGTAA
* *
54242781 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAATAATTCTACCCTACAGGGGTATTTCGG
1 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAATAATTATACCCTACAGGGGTATTTCGA
** * **
54242846 TAATTTTACCCTACAAGGGTATTCCGGTAATTCTACGCTACAGGGGTAATTTACCCTGTAA
66 TAATTTTACCAAACAAGGGTATTCCAGTAATTCTACGAAACAGGGGTAATTTACCCTGTAA
* **
54242907 GGGTATTTCGGTAATTCTACCCTATAGGGGTATTGCGGTAATTATACCCTACAGGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAATAATTATACCCTACAGGGGTATTTCGA
* ** *
54242972 TAATTTTA-TAAACAAAGGGTATTTTAGTAATTTTAC-AAACCAGGGGTA
66 TAATTTTACCAAAC-AAGGGTATTCCAGTAATTCTACGAAA-CAGGGGTA
54243020 TTTTGGTAAT
Statistics
Matches: 211, Mismatches: 26, Indels: 13
0.84 0.10 0.05
Matches are distributed among these distances:
125 3 0.01
126 101 0.48
127 5 0.02
128 1 0.00
134 3 0.01
135 98 0.46
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.34
Consensus pattern (126 bp):
GGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAATAATTATACCCTACAGGGGTATTTCGA
TAATTTTACCAAACAAGGGTATTCCAGTAATTCTACGAAACAGGGGTAATTTACCCTGTAA
Found at i:54243046 original size:153 final size:153
Alignment explanation
Indices: 54242754--54243030 Score: 324
Period size: 153 Copynumber: 1.8 Consensus size: 153
54242744 TACCCTACAG
* * *
54242754 GGGTATTTCGTTAATTCTACCCTACAGGGGTATTTCGGTAATTCTACCCTAAAGGGGTATTGCAA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGGTAATTATACCCTAAAGGGGTATTGCAA
** * * ** *
54242819 TAATTCTACCCTACAGGGGTATTTCGGTAATTTTACCCTACAAGGGTATTCCGGTAATTCTACGC
66 TAATTCTACCAAACAAGGGTATTTCAGTAATTTTACCAAACAAGGGTATTCCGGTAATTCTACGA
* *
54242884 TACAGGGGTAATTTACCCTGTAA
131 AACAAGGGTAATTTACCCTGTAA
* * * *
54242907 GGGTATTTCGGTAATTCTACCCTATAGGGGTATTGCGGTAATTATACCCTACAGGGGTATTTCGA
1 GGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGGTAATTATACCCTAAAGGGGTATTGCAA
* * * * **
54242972 TAATTTTA-TAAACAAAGGGTATTTTAGTAATTTTA-CAAACCAGGGGTATTTTGGTAATT
66 TAATTCTACCAAAC-AAGGGTATTTCAGTAATTTTACCAAA-CAAGGGTATTCCGGTAATT
54243031 TTATAAACCA
Statistics
Matches: 103, Mismatches: 19, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
152 4 0.04
153 99 0.96
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (153 bp):
GGGTATTTCGGTAATTCTACCCTACAGGGGTATTGCGGTAATTATACCCTAAAGGGGTATTGCAA
TAATTCTACCAAACAAGGGTATTTCAGTAATTTTACCAAACAAGGGTATTCCGGTAATTCTACGA
AACAAGGGTAATTTACCCTGTAA
Found at i:54243146 original size:27 final size:27
Alignment explanation
Indices: 54242958--54243139 Score: 240
Period size: 27 Copynumber: 6.7 Consensus size: 27
54242948 TTATACCCTA
* *
54242958 CAGGGGTATTTCGATAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * * *
54242985 AAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
54243012 CAGGGGTATTTTGGTAATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* *
54243039 CAAGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
*
54243066 CAGGGGTATTTTGGTGATTTTATAAAC
1 CAGGGGTATTTTGGTAATTTTATAAAC
* * *
54243093 CAAGGGTATTTTAGG-GATTTTACAAAC
1 CAGGGGTATTTT-GGTAATTTTATAAAC
54243120 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
54243140 GGTAAACTAA
Statistics
Matches: 134, Mismatches: 19, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
26 2 0.01
27 130 0.97
28 2 0.01
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (27 bp):
CAGGGGTATTTTGGTAATTTTATAAAC
Found at i:54243146 original size:54 final size:54
Alignment explanation
Indices: 54242958--54243139 Score: 294
Period size: 54 Copynumber: 3.4 Consensus size: 54
54242948 TTATACCCTA
* * * *
54242958 CAGGGGTATTTCGATAATTTTATAAACAAAGGGTATTTTAGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGGAATTTTACAAAC
54243012 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTT-GGTAATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGG-AATTTTACAAAC
* *
54243066 CAGGGGTATTTTGGTGATTTTATAAACCAAGGGTATTTTAGGGATTTTACAAAC
1 CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGGAATTTTACAAAC
54243120 CAGGGGTATTTTGGTAATTT
1 CAGGGGTATTTTGGTAATTT
54243140 GGTAAACTAA
Statistics
Matches: 119, Mismatches: 7, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
53 1 0.01
54 116 0.97
55 2 0.02
ACGTcount: A:0.31, C:0.09, G:0.21, T:0.38
Consensus pattern (54 bp):
CAGGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGGAATTTTACAAAC
Found at i:54245180 original size:51 final size:51
Alignment explanation
Indices: 54245089--54245213 Score: 128
Period size: 51 Copynumber: 2.5 Consensus size: 51
54245079 TCGATCACAT
* * * * *
54245089 GTGTGGTACTAAGTGTAGGCCACTATGTGTAAAATATAGCTTGG-GTCATAA
1 GTGTGGTACTATGTGAAGGCCACTATGTGTAAAAGATAGCTTGGACT-ACAA
* * *
54245140 GTGTGGTACTATGTGAAGGCCACTTTGTG-AAGAAGGTAGCTTTGACTACAA
1 GTGTGGTACTATGTGAAGGCCACTATGTGTAA-AAGATAGCTTGGACTACAA
* *
54245191 GGGTGGTACTATGTGCAGGCCAC
1 GTGTGGTACTATGTGAAGGCCAC
54245214 CGGGCATCCG
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
50 2 0.03
51 59 0.95
52 1 0.02
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.29
Consensus pattern (51 bp):
GTGTGGTACTATGTGAAGGCCACTATGTGTAAAAGATAGCTTGGACTACAA
Found at i:54247591 original size:50 final size:49
Alignment explanation
Indices: 54247534--54247636 Score: 127
Period size: 50 Copynumber: 2.1 Consensus size: 49
54247524 TGCAATCGAG
*** * *
54247534 CTGCCAGA-AGCAAAATATTATGGTTGTGTCACCAGATAATTGTAGATATA
1 CTGCCAGATA-CAAAATATTATGGTCAAGCCACCAGA-AATTGCAGATATA
*
54247584 CTGCCAGATACAAAATATTTTGGTCAAGCCACCAGAAATTGCAGATATA
1 CTGCCAGATACAAAATATTATGGTCAAGCCACCAGAAATTGCAGATATA
54247633 CTGC
1 CTGC
54247637 TAAATACTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
49 16 0.35
50 29 0.63
51 1 0.02
ACGTcount: A:0.36, C:0.18, G:0.18, T:0.27
Consensus pattern (49 bp):
CTGCCAGATACAAAATATTATGGTCAAGCCACCAGAAATTGCAGATATA
Found at i:54248470 original size:296 final size:294
Alignment explanation
Indices: 54247937--54248822 Score: 1378
Period size: 296 Copynumber: 3.0 Consensus size: 294
54247927 AAGACTCATC
* * * *
54247937 GATCATATAATCCTTGTAGATCATTAAATCTCTCTGCTCCTTCACCGAGATTCATCATCGATTTC
1 GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
* * *
54248002 ATTGTGTTATTGAGTAGTGTAAGTACATGAGAAATATTAAGAATATTTTTTTCTCTTTATATTTT
66 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
* * *
54248067 TCCCTCATAGCTGAATGGTATTAAGATACTTTCATTCTTCATGTGTTGACATATTGTACCTATGT
131 TCCCTCATAGC-CAATGGTATTAAGATACTTTCATTCTTCATGTGTTGAAATCTTGTACCTATGT
54248132 TCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATCC
195 TCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATCC
* *
54248197 AGGTTTTGGTCTAAGGGTAAGTAGTTGGTGAGATT
260 AAGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
* * * *
54248232 GATCATATAATCCTTGTAGATCGTTAAGCCTCTCTGCTCATTTATTGAGATTCATCATCGATTTT
1 GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
*
54248297 GTTGTGTTATCGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTTCTCTTTATATTT
66 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATA-TTTTTTTCTCTTTATATTT
* *
54248362 TTCCCTCATAGCCAAATGGTATTAAGGTACTTTCATTCTTCATGTGTTGATATCTTGTACCTATG
130 TTCCCTCATAGCC-AATGGTATTAAGATACTTTCATTCTTCATGTGTTGAAATCTTGTACCTATG
* *
54248427 TTCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAAGAAGGGCACCAAATC
194 TTCTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATC
* *
54248492 CAAGTTTTGATCTAAGGGAAAGTAGTTGGTGAGATC
259 CAAGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
* ** * * * *
54248528 AATCATATAATCCTTCCAGATTGTTAAACCTTTGTACTCCTTCACTGAGATTCATCATCGATTTT
1 GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
54248593 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
66 GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
*
54248658 TTCCTCATAGTCCAATGGTATTAAGATACTTTCATTCTTCATGTGTTGAAATCTTGTACCTATGT
131 TCCCTCATAG-CCAATGGTATTAAGATACTTTCATTCTTCATGTGTTGAAATCTTGTACCTATGT
* * * * * *
54248723 TCTTTGAAGGACCAAACGACGCCAATCTAG-AAAATCATTAATGTGACAACGAGGGCATCAAATC
195 TCTTTAAAGGACCAAATGATGCCAATCTAGAAAAAT-ATTAGTGTAACAACAAGGGCATCAAATC
*
54248787 CAAGTTTTGATCTAAGGGTAAGTAGTTTGTGAGATT
259 CAAGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
54248823 TTTTTCAATA
Statistics
Matches: 539, Mismatches: 48, Indels: 8
0.91 0.08 0.01
Matches are distributed among these distances:
294 5 0.01
295 260 0.48
296 274 0.51
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (294 bp):
GATCATATAATCCTTGTAGATCGTTAAACCTCTCTGCTCCTTCACTGAGATTCATCATCGATTTT
GTTGTGTTATTGAGTAGTGTAAGTACATGAGAAGTATTGAGAATATTTTTTTCTCTTTATATTTT
TCCCTCATAGCCAATGGTATTAAGATACTTTCATTCTTCATGTGTTGAAATCTTGTACCTATGTT
CTTTAAAGGACCAAATGATGCCAATCTAGAAAAATATTAGTGTAACAACAAGGGCATCAAATCCA
AGTTTTGATCTAAGGGTAAGTAGTTGGTGAGATT
Found at i:54250678 original size:47 final size:47
Alignment explanation
Indices: 54250624--54250718 Score: 145
Period size: 47 Copynumber: 2.0 Consensus size: 47
54250614 GTCACAATAA
** *
54250624 TGTAGATAAACTGTAACTTTATAATATTGTGGACAAGCCACCACTTT
1 TGTAGATAAACTACAACATTATAATATTGTGGACAAGCCACCACTTT
* *
54250671 TGTAGATAAACTACCACATTATAATATTGTGGACAAGCTACCACTTT
1 TGTAGATAAACTACAACATTATAATATTGTGGACAAGCCACCACTTT
54250718 T
1 T
54250719 TCAGAAAAAA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 43 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (47 bp):
TGTAGATAAACTACAACATTATAATATTGTGGACAAGCCACCACTTT
Found at i:54254142 original size:42 final size:41
Alignment explanation
Indices: 54254096--54254194 Score: 110
Period size: 42 Copynumber: 2.4 Consensus size: 41
54254086 GTGTTTTGGA
* *
54254096 CACACGGCCGTGTTTGGCAGGCACACAGACGTG-TGAAACCCT
1 CACACGGCCGTGTCTAGCAGGCACACAG--GTGCTGAAACCCT
* ** *
54254138 CACACGGCCATGTCTAGTGGGCACACAGGTGCCTGAGACCCT
1 CACACGGCCGTGTCTAGCAGGCACACAGGTG-CTGAAACCCT
54254180 CACACGGCCGTGTCT
1 CACACGGCCGTGTCT
54254195 GCCCTGTACT
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
40 3 0.06
42 45 0.94
ACGTcount: A:0.21, C:0.33, G:0.28, T:0.17
Consensus pattern (41 bp):
CACACGGCCGTGTCTAGCAGGCACACAGGTGCTGAAACCCT
Found at i:54257077 original size:22 final size:22
Alignment explanation
Indices: 54257052--54257101 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
54257042 GTGGTGCAAG
54257052 GGTGGTGAT-ACGGTGGTGATAT
1 GGTGGT-ATGACGGTGGTGATAT
**
54257074 GGTGGTATGGTGGTGGTGATAT
1 GGTGGTATGACGGTGGTGATAT
*
54257096 AGTGGT
1 GGTGGT
54257102 TGTATGGTGG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
21 2 0.08
22 22 0.92
ACGTcount: A:0.16, C:0.02, G:0.48, T:0.34
Consensus pattern (22 bp):
GGTGGTATGACGGTGGTGATAT
Found at i:54257109 original size:22 final size:22
Alignment explanation
Indices: 54257063--54257113 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
54257053 GTGGTGATAC
* *
54257063 GGTGGTGATATGGTGGTATGGT
1 GGTGGTGATATAGTGGTATGAT
54257085 GGTGGTGATATAGTGGT-TGTAT
1 GGTGGTGATATAGTGGTATG-AT
54257107 GGTGGTG
1 GGTGGTG
54257114 TTTTGATGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 2 0.08
22 24 0.92
ACGTcount: A:0.14, C:0.00, G:0.49, T:0.37
Consensus pattern (22 bp):
GGTGGTGATATAGTGGTATGAT
Found at i:54263920 original size:24 final size:23
Alignment explanation
Indices: 54263892--54263941 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 23
54263882 TATTCACTGG
*
54263892 AAAGAGAGATGAGAGCATTATCCA
1 AAAGAGAGATGAGAGAATTAT-CA
**
54263916 AAAGATCGATGAGAGAATTATCA
1 AAAGAGAGATGAGAGAATTATCA
54263939 AAA
1 AAA
54263942 TTCTATACTA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 5 0.22
24 18 0.78
ACGTcount: A:0.50, C:0.10, G:0.22, T:0.18
Consensus pattern (23 bp):
AAAGAGAGATGAGAGAATTATCA
Found at i:54282255 original size:40 final size:40
Alignment explanation
Indices: 54282209--54282288 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
54282199 ATAAGATTCC
*
54282209 ATATGCTTTGACTATTAGATTTATCATGTATGTCATGCTA
1 ATATGCTTTGACTATTAGATCTATCATGTATGTCATGCTA
*
54282249 ATATGCTTTGATTATTAGATCTATCATGTATGTCATGCTA
1 ATATGCTTTGACTATTAGATCTATCATGTATGTCATGCTA
54282289 TGTATTCGTC
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.12, G:0.15, T:0.45
Consensus pattern (40 bp):
ATATGCTTTGACTATTAGATCTATCATGTATGTCATGCTA
Found at i:54283176 original size:31 final size:27
Alignment explanation
Indices: 54283131--54283191 Score: 68
Period size: 31 Copynumber: 2.1 Consensus size: 27
54283121 CATGGCTAGG
54283131 TAATTTTGAAATTTGTGATAATTTTAAAGGT
1 TAATTTTGAAATTTG-G-TAA--TTAAAGGT
**
54283162 TAATTTTGGTATTTGGTAATTAAAGGT
1 TAATTTTGAAATTTGGTAATTAAAGGT
54283189 TAA
1 TAA
54283192 ATAAATAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 11 0.39
29 3 0.11
30 1 0.04
31 13 0.46
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.48
Consensus pattern (27 bp):
TAATTTTGAAATTTGGTAATTAAAGGT
Found at i:54313487 original size:30 final size:30
Alignment explanation
Indices: 54313453--54313513 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
54313443 TCCTTAATTC
54313453 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
54313483 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
54313513 A
1 A
54313514 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:54318952 original size:39 final size:39
Alignment explanation
Indices: 54318909--54319118 Score: 325
Period size: 39 Copynumber: 5.3 Consensus size: 39
54318899 GGACTAAGAT
54318909 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
54318948 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
54318987 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
* * *
54319026 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAG-C
* *
54319066 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTC
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-TCCGGGCTAAG-C
54319106 CCGAAGGCATTTG
1 CCGAAGGCATTTG
54319119 AACGAGGAGC
Statistics
Matches: 160, Mismatches: 8, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 114 0.71
40 46 0.29
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGC
Found at i:54319132 original size:40 final size:39
Alignment explanation
Indices: 54318860--54319118 Score: 250
Period size: 39 Copynumber: 6.6 Consensus size: 39
54318850 AATGATGTCT
* * *
54318860 GGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGC-GAGT-ACTATAACC
* *
54318899 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAG-TACTATA-ACC
*
54318939 GGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-ACC
*
54318978 GGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-ACC
54319017 GGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTA-AATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATAA-CC
* *
54319056 GGGTTAAGTCCCGAAGGCATTTGTGCGAATTACTATAACC
1 GGGCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATAACC
*
54319096 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
54319119 AACGAGGAGC
Statistics
Matches: 200, Mismatches: 10, Indels: 19
0.87 0.04 0.08
Matches are distributed among these distances:
39 128 0.64
40 62 0.31
41 10 0.05
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATAACC
Found at i:54335205 original size:43 final size:43
Alignment explanation
Indices: 54335122--54335379 Score: 238
Period size: 43 Copynumber: 6.1 Consensus size: 43
54335112 ATTTTGTATA
* * ** *
54335122 ATGCCAACGTCCCTGATGTGGTTTTACATGTAATCTCATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* * *
54335165 ATGCC-ACTGTCCCAGATAG-GGTCTTACTCTTAAACACATATCG
1 ATGCCAAC-GTCCCAGAT-GTGGTCTTACACATAATCACATATCG
* * * * *
54335208 ATGCCAACATCCCAGATGTAGTCTTACACCTAATCATATATAG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* *
54335251 ATGCCAACGTCCCTGACGTGGTCTTACACATAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* * * ** *
54335294 ATGCCAACATCCCAGACGTTGTCTTACATGTAAT---ATATAG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
* * **
54335334 ATGCCAATGTCCCAAATGTGGTCTTACATGTAATCACATATCG
1 ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
54335377 ATG
1 ATG
54335380 TCTCATATAC
Statistics
Matches: 175, Mismatches: 33, Indels: 14
0.79 0.15 0.06
Matches are distributed among these distances:
40 34 0.19
42 3 0.02
43 135 0.77
44 3 0.02
ACGTcount: A:0.29, C:0.25, G:0.16, T:0.29
Consensus pattern (43 bp):
ATGCCAACGTCCCAGATGTGGTCTTACACATAATCACATATCG
Found at i:54335274 original size:86 final size:83
Alignment explanation
Indices: 54335184--54335379 Score: 241
Period size: 83 Copynumber: 2.3 Consensus size: 83
54335174 TCCCAGATAG
* * * *
54335184 GGTCTTACTCTTAAACACATATCGATGCCAACATCCCAGATGTAGTCTTACACCTAATCATATAT
1 GGTCTTACTCATAATCACATATCGATGCCAACATCCCAGACGTAGTCTTACA--T-ATAATATAT
**
54335249 AGATGCCAACGTCCCTGACGT
63 AGATGCCAACGTCCCAAACGT
* * *
54335270 GGTCTTACACATAATCACATATCGATGCCAACATCCCAGACGTTGTCTTACATGTAATATATAGA
1 GGTCTTACTCATAATCACATATCGATGCCAACATCCCAGACGTAGTCTTACATATAATATATAGA
* *
54335335 TGCCAATGTCCCAAATGT
66 TGCCAACGTCCCAAACGT
*
54335353 GGTCTTACAT-GTAATCACATATCGATG
1 GGTCTTAC-TCATAATCACATATCGATG
54335380 TCTCATATAC
Statistics
Matches: 96, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
83 48 0.50
84 1 0.01
86 47 0.49
ACGTcount: A:0.31, C:0.25, G:0.15, T:0.29
Consensus pattern (83 bp):
GGTCTTACTCATAATCACATATCGATGCCAACATCCCAGACGTAGTCTTACATATAATATATAGA
TGCCAACGTCCCAAACGT
Found at i:54341602 original size:39 final size:40
Alignment explanation
Indices: 54341557--54341728 Score: 222
Period size: 40 Copynumber: 4.3 Consensus size: 40
54341547 GCTCCTCGTT
* * *
54341557 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
*
54341597 C-AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * *
54341636 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
* * * *
54341676 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACATAACCCGG-ATTTAGTAACTCGCA
54341716 CAAATGCCTTCGG
1 CAAATGCCTTCGG
54341729 ATCTTAGTCC
Statistics
Matches: 119, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
39 35 0.29
40 80 0.67
41 4 0.03
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACATAACCCGGATTTAGTAACTCGCA
Found at i:54341657 original size:40 final size:39
Alignment explanation
Indices: 54341559--54341781 Score: 216
Period size: 40 Copynumber: 5.6 Consensus size: 39
54341549 TCCTCGTTCA
* * * *
54341559 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* *
54341598 AATGCCTTCGGGACATAACCCGGATTTAATAACTCGCAC
1 AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
*
54341637 GAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
* * *
54341677 AAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCAC
1 -AATGCCTTCGGGACTTAACCCGG-ATTTAGTAACTCGCAC
** * * * *
54341717 AAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC
1 -AATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCAC
* *
54341758 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
54341782 CAGCATTCAA
Statistics
Matches: 157, Mismatches: 21, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
39 40 0.25
40 105 0.67
41 12 0.08
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.26
Consensus pattern (39 bp):
AATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCAC
Found at i:54341741 original size:80 final size:79
Alignment explanation
Indices: 54341557--54341781 Score: 240
Period size: 80 Copynumber: 2.8 Consensus size: 79
54341547 GCTCCTCGTT
* * * * *
54341557 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACACAATGCCTTCGGGACATAACCCGG-
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGT-ACTCGCACAAAGCCTTCGGGACTTAACCCGGA
54341621 ATTTAATAACTCGCA
65 ATTTAATAACTCGCA
* * *
54341636 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTCGGGGCTTAACCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTA-CTCGCACAAA-GCCTTCGGGACTTAACCCGG
* *
54341701 AATTT-GTATCTCGCA
64 AATTTAATAACTCGCA
* * * * *
54341716 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCACAAAGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTTAGT-AC-TCGCACAAAGCCTTCGGGACTTAACCCG
54341780 GA
63 GA
54341782 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 18, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
78 1 0.01
79 39 0.32
80 69 0.57
81 13 0.11
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTACTCGCACAAAGCCTTCGGGACTTAACCCGGAA
TTTAATAACTCGCA
Found at i:54341790 original size:41 final size:41
Alignment explanation
Indices: 54341713--54341790 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
54341703 TTTGTATCTC
* * *
54341713 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
54341754 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
54341791 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:54348227 original size:54 final size:54
Alignment explanation
Indices: 54348156--54348305 Score: 230
Period size: 54 Copynumber: 2.8 Consensus size: 54
54348146 TCCTCAAGCA
* *
54348156 ATGCCATAGTCCCAGACTAGGTCTTACACTATGTGGTCTTCGT-ATCCCCATATG
1 ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTC-TCATCCCCATATG
**
54348210 ATGCCATAGTATTAGACTAGGTCTTACACTATATGGTCTTCTCATCCCCATATG
1 ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTCTCATCCCCATATG
* *
54348264 ATGCCATAGTCCCAGACTAGGTCTTACACTATACGGTCTTCT
1 ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTCT
54348306 TGCCATGGCC
Statistics
Matches: 87, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
53 1 0.01
54 86 0.99
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.33
Consensus pattern (54 bp):
ATGCCATAGTACCAGACTAGGTCTTACACTATATGGTCTTCTCATCCCCATATG
Found at i:54351807 original size:42 final size:42
Alignment explanation
Indices: 54351745--54351850 Score: 133
Period size: 42 Copynumber: 2.5 Consensus size: 42
54351735 GAGTGCCAAA
* * *
54351745 GCCATATCCCAGACATGGTCTTACATGGGTCCACATATCTAT
1 GCCATATCCCAGACATGGTCTTACACGGGACCACATATCGAT
** * *
54351787 GTTATATCCCAGACATGGTCTTATACGGGACCTCATATCGAT
1 GCCATATCCCAGACATGGTCTTACACGGGACCACATATCGAT
*
54351829 GCCAT-GCCCAGACATGGTCTTA
1 GCCATATCCCAGACATGGTCTTA
54351851 TACGAAATGA
Statistics
Matches: 54, Mismatches: 10, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
41 16 0.30
42 38 0.70
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.28
Consensus pattern (42 bp):
GCCATATCCCAGACATGGTCTTACACGGGACCACATATCGAT
Found at i:54353755 original size:48 final size:48
Alignment explanation
Indices: 54353622--54353893 Score: 208
Period size: 48 Copynumber: 5.6 Consensus size: 48
54353612 CCTCATATCT
* * * * * * *
54353622 ATGCCATGTCCCAGACATGGTATTATAC-GAAATGACTTAACGATGCTG
1 ATGCCATGTCCCAGACATGGTCTTACACAG-CATCACATATCGATGCCG
* * ** * * * * *
54353670 AAGCCATATCCTTGATATGGTCTTATACAGGATCACATATTGGTGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGCATCACATATCGATGCCG
* ** *
54353718 ATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCAAAACTG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGCATCACATATCGATGCCG
* * * **
54353766 ATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCATCTCAGATGTTG
1 ATGCCATGTCCCAGACATGGTCTTACAC-AGCATCACATATC-GATGCCG
* * * *
54353815 ATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATCTCGAATGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACAGCATCACATATCG-ATGCCG
*
54353864 ATACCATGTCCCAGACATGGTCTTACACAG
1 ATGCCATGTCCCAGACATGGTCTTACACAG
54353894 GATCTCATTA
Statistics
Matches: 180, Mismatches: 38, Indels: 11
0.79 0.17 0.05
Matches are distributed among these distances:
48 104 0.58
49 76 0.42
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.27
Consensus pattern (48 bp):
ATGCCATGTCCCAGACATGGTCTTACACAGCATCACATATCGATGCCG
Found at i:54353836 original size:49 final size:49
Alignment explanation
Indices: 54353717--54353901 Score: 232
Period size: 49 Copynumber: 3.8 Consensus size: 49
54353707 TATTGGTGCC
* * * **
54353717 GATGCCATGTCCCAGACATGGTCTTACACTAGCA-CACATATCA-AAACT
1 GATGCCATGTCCCAGACATGGTCTTACACT-GGATCTCATCTCAGATGCT
* *
54353765 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATCTCAGATGTT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATCTCAGATGCT
* *
54353814 GATGCCATGTCCCAGACATGGTCTTACACGGGATCTCATCTC-GAATGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATCTCAG-ATGCT
* *
54353863 GATACCATGTCCCAGACATGGTCTTACACAGGATCTCAT
1 GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCAT
54353902 TAAACATGAT
Statistics
Matches: 121, Mismatches: 13, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
47 1 0.01
48 38 0.31
49 82 0.68
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (49 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATCTCAGATGCT
Found at i:54358435 original size:269 final size:268
Alignment explanation
Indices: 54357953--54358489 Score: 1029
Period size: 269 Copynumber: 2.0 Consensus size: 268
54357943 CAATACGCTC
54357953 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
1 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
54358018 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTCAAATTCAATATCTTTTCTTTTC
66 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTCAAATTCAATATCTTTTCTTTTC
54358083 AAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTTTCACTTT
131 AAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTTTCACTTT
54358148 CTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATACA
196 CTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATACA
54358213 AAGGTGTA
261 AAGGTGTA
* * *
54358221 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTTCCTTTTCTACCGAATCGAAGCACTT
1 AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
*
54358286 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCGATCTCAAAATTCAATATCTTTTCTTTT
66 TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTC-AAATTCAATATCTTTTCTTTT
54358351 CAAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTTTCACTT
130 CAAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTTTCACTT
54358416 TCTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATAC
195 TCTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATAC
54358481 AAAGGTGTA
260 AAAGGTGTA
54358490 CGACATTTGT
Statistics
Matches: 264, Mismatches: 4, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
268 104 0.39
269 160 0.61
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.37
Consensus pattern (268 bp):
AGTAATCTCGTACGGTCCAATGAACCTCAGACTCAATTTGCATTTTCTACCGAATCGAAACACTT
TCTTCCACGGAGATACCTTTAAAAATACTTTGTTGCCAATCTCAAATTCAATATCTTTTCTTTTC
AAATCTGCATATGATTTCTGACGATCAGAAGTTGTTTTCAGACTATCTCGGATCACTTTCACTTT
CTATTCAGTTTCTTTAATCAAATCAATCCCATGAATCTTATTTTCGTTAAGCTCCGTCCAATACA
AAGGTGTA
Found at i:54366722 original size:39 final size:39
Alignment explanation
Indices: 54366679--54366790 Score: 188
Period size: 39 Copynumber: 2.9 Consensus size: 39
54366669 ACATATTTCT
* * *
54366679 AGCACGTAGCCTGTGGACCTTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
54366718 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
*
54366757 AGCACATAGCCTGCGGACCCTAAGTCTGGATATA
1 AGCACATAGCCTGCGGACCCTAAGTCCGGATATA
54366791 CATCACTAAA
Statistics
Matches: 69, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 69 1.00
ACGTcount: A:0.28, C:0.28, G:0.22, T:0.22
Consensus pattern (39 bp):
AGCACATAGCCTGCGGACCCTAAGTCCGGATATAATTCC
Found at i:54373757 original size:45 final size:45
Alignment explanation
Indices: 54373706--54373791 Score: 127
Period size: 45 Copynumber: 1.9 Consensus size: 45
54373696 CCAAAACATG
* *
54373706 TGTCACATGTGTCACGAACTCAGACCACAACTCAATGAGTTCGGA
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
* * *
54373751 TGTCACATATATCATGAACTCGGACCACGACTCAATGAGTT
1 TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTT
54373792 TAGATCACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.24
Consensus pattern (45 bp):
TGTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGA
Found at i:54378836 original size:40 final size:40
Alignment explanation
Indices: 54378774--54378941 Score: 216
Period size: 40 Copynumber: 4.2 Consensus size: 40
54378764 CGGATGATAA
* * * *
54378774 CCGGACTAAGATC-CGAAAGCATTTGTGCTAGTGACTATAT
1 CCGGGCTAAG-TCTCGAAGGCATTTGTGCGAGTTACTATAT
54378814 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
*
54378854 TCGGGCTAAGT-TCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCT-CGAAGGCATTTGTGCGAGTTACTATAT
* * *
54378894 TCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTGCTATAT
1 CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
*
54378934 AC-GGCTAA
1 CCGGGCTAA
54378942 ATCCCAAAGG
Statistics
Matches: 117, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
39 9 0.08
40 108 0.92
ACGTcount: A:0.24, C:0.20, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCTCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:54378912 original size:80 final size:79
Alignment explanation
Indices: 54378779--54378950 Score: 247
Period size: 80 Copynumber: 2.2 Consensus size: 79
54378769 GATAACCGGA
* *
54378779 CTAAGATCCGAAAGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCTCGAAGGCATTTGTGCGA
1 CTAAGATCCGAAAGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
54378844 GTTACTATATTCGGG
66 GTTACTATATAC-GG
* * * *
54378859 CTAAGTTCCGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTCCCGAAGGCATTTGTGCGA
1 CTAAGATCCGAAAGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
*
54378924 GTTGCTATATACGG
66 GTTACTATATACGG
*
54378938 CTAA-ATCCCAAAG
1 CTAAGATCCGAAAG
54378951 GTACTTGGGT
Statistics
Matches: 81, Mismatches: 11, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
78 6 0.07
79 6 0.07
80 69 0.85
ACGTcount: A:0.26, C:0.20, G:0.26, T:0.29
Consensus pattern (79 bp):
CTAAGATCCGAAAGCATTTGTGCGAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGA
GTTACTATATACGG
Found at i:54386855 original size:40 final size:40
Alignment explanation
Indices: 54386805--54386970 Score: 246
Period size: 40 Copynumber: 4.2 Consensus size: 40
54386795 GGACTAAGAT
* *
54386805 CCGAAAGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
54386845 TCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
* *
54386885 CCGAAGGCATTTGTGCGAGTTACTATATTCGGGCTAAGTC
1 CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
*
54386925 CCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATC
1 CCGAAGGCATTTGTGCGAG-TGACTATATCCGGGCTAAGTC
54386964 CCGAAGG
1 CCGAAGG
54386971 TACTTGGGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
39 15 0.13
40 100 0.86
41 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCGAGTGACTATATCCGGGCTAAGTC
Found at i:54397916 original size:19 final size:19
Alignment explanation
Indices: 54397892--54397935 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
54397882 AAAAGCTATG
*
54397892 TGTTATATAGATGAATTAC
1 TGTTATACAGATGAATTAC
* *
54397911 TGTTATACGGATGAGTTAC
1 TGTTATACAGATGAATTAC
54397930 TGTTAT
1 TGTTAT
54397936 CGAATGAATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.07, G:0.20, T:0.43
Consensus pattern (19 bp):
TGTTATACAGATGAATTAC
Found at i:54397954 original size:19 final size:19
Alignment explanation
Indices: 54397902--54397951 Score: 66
Period size: 19 Copynumber: 2.7 Consensus size: 19
54397892 TGTTATATAG
*
54397902 ATGAATTACTGTTATACGG
1 ATGAATTACTGTTATACGA
*
54397921 ATGAGTTACTGTTAT-CGA
1 ATGAATTACTGTTATACGA
*
54397939 ATGAATTATTGTT
1 ATGAATTACTGTT
54397952 TATATGATTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
18 13 0.48
19 14 0.52
ACGTcount: A:0.30, C:0.08, G:0.20, T:0.42
Consensus pattern (19 bp):
ATGAATTACTGTTATACGA
Found at i:54411150 original size:11 final size:11
Alignment explanation
Indices: 54411136--54411160 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
54411126 CCTAAAGATG
54411136 AAATAAAATAA
1 AAATAAAATAA
54411147 AAATAAAATAA
1 AAATAAAATAA
54411158 AAA
1 AAA
54411161 ATAGATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (11 bp):
AAATAAAATAA
Found at i:54417522 original size:19 final size:18
Alignment explanation
Indices: 54417481--54417524 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
54417471 GGCCGTGTTG
54417481 ATTTC-CCATGTTGGCCC
1 ATTTCTCCATGTTGGCCC
*
54417498 ATTTTCTCCATTTTCGGCCC
1 A-TTTCTCCATGTT-GGCCC
54417518 ATTTCTC
1 ATTTCTC
54417525 ACTCTTTTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 1 0.04
18 4 0.17
19 12 0.52
20 6 0.26
ACGTcount: A:0.11, C:0.34, G:0.11, T:0.43
Consensus pattern (18 bp):
ATTTCTCCATGTTGGCCC
Found at i:54423904 original size:21 final size:22
Alignment explanation
Indices: 54423863--54423906 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
54423853 TTCCTCCTTC
*
54423863 TCTTCTTCTCTTCTTGATTCTT
1 TCTTCTTCTCTTCATGATTCTT
54423885 TCTT-TTCTCTTCAATG-TTCTT
1 TCTTCTTCTCTTC-ATGATTCTT
54423906 T
1 T
54423907 TTTGTGGGGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 14 0.70
22 6 0.30
ACGTcount: A:0.07, C:0.25, G:0.05, T:0.64
Consensus pattern (22 bp):
TCTTCTTCTCTTCATGATTCTT
Found at i:54447973 original size:27 final size:27
Alignment explanation
Indices: 54447943--54448006 Score: 101
Period size: 27 Copynumber: 2.4 Consensus size: 27
54447933 CACGAGCGTG
*
54447943 TGGGCCTATTTGGGCCGAGAAGGGCTT
1 TGGGCCCATTTGGGCCGAGAAGGGCTT
*
54447970 TGGGCCCATTTGGGTCGAGAAGGGCTT
1 TGGGCCCATTTGGGCCGAGAAGGGCTT
*
54447997 TAGGCCCATT
1 TGGGCCCATT
54448007 CGTATTGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.16, C:0.20, G:0.38, T:0.27
Consensus pattern (27 bp):
TGGGCCCATTTGGGCCGAGAAGGGCTT
Found at i:54448073 original size:26 final size:27
Alignment explanation
Indices: 54448044--54448169 Score: 96
Period size: 27 Copynumber: 4.7 Consensus size: 27
54448034 TTAGTTTACC
54448044 AAATTACTAAAATACCCTCAG-TTGTA
1 AAATTACTAAAATACCCTCAGTTTGTA
* * * * *
54448070 AAATTACCAAAGTATCCTCGGTTTATA
1 AAATTACTAAAATACCCTCAGTTTGTA
** * *
54448097 AAATTACCCAAATATCCT-TGATTTGTA
1 AAATTACTAAAATACCCTCAG-TTTGTA
* *
54448124 AAATTA-TCGAAATACCCTCAGTTTGCA
1 AAATTACT-AAAATACCCTCAGTTTGTA
* *
54448151 AAAATACTGAAATACCCTC
1 AAATTACTAAAATACCCTC
54448170 GATTTACAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 9
0.77 0.14 0.09
Matches are distributed among these distances:
26 18 0.22
27 60 0.75
28 2 0.03
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.31
Consensus pattern (27 bp):
AAATTACTAAAATACCCTCAGTTTGTA
Done.