Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 188 of 235
Found at i:64044504 original size:46 final size:48
Alignment explanation
Indices: 64044445--64044557 Score: 149
Period size: 48 Copynumber: 2.4 Consensus size: 48
64044435 CAGGACAGAT
* *
64044445 ATGAGCCATGTAAGTCCATATCA-GT-TATATGGCTTTGGAGATAGGA
1 ATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGATAGGA
* *
64044491 ATGAGCCATGTAAGCCCATATTATATATATATGGCATTGGAGATAGGA
1 ATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGATAGGA
* **
64044539 ATAATTCATGTAAGTCCAT
1 ATGAGCCATGTAAGTCCAT
64044558 GTCGAAGACA
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
46 21 0.37
47 1 0.02
48 35 0.61
ACGTcount: A:0.34, C:0.13, G:0.22, T:0.31
Consensus pattern (48 bp):
ATGAGCCATGTAAGTCCATATCATATATATATGGCATTGGAGATAGGA
Found at i:64057815 original size:46 final size:44
Alignment explanation
Indices: 64057763--64057884 Score: 156
Period size: 46 Copynumber: 2.7 Consensus size: 44
64057753 AACAAGAGCT
64057763 AGTGTAAGACATGTCTGGGACATGCATCGGCCT-CGAGATGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCATCGG-CTACGAGATGT--GCC
* * *
64057809 AGTGTAAGAGATGTCTGAGACATGCATCGGCTACGAGATGTGTC
1 AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
*
64057853 AGTGTAAGACCATGTCTAGGACATGGCATCGG
1 AGTGTAAGA-CATGTCTGGGACAT-GCATCGG
64057885 TATTCTACCC
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
44 11 0.16
45 13 0.19
46 43 0.64
ACGTcount: A:0.27, C:0.19, G:0.31, T:0.23
Consensus pattern (44 bp):
AGTGTAAGACATGTCTGGGACATGCATCGGCTACGAGATGTGCC
Found at i:64059360 original size:68 final size:68
Alignment explanation
Indices: 64059272--64059497 Score: 416
Period size: 68 Copynumber: 3.3 Consensus size: 68
64059262 TTCACTTGGA
* *
64059272 ATCACTCATGTGACCTAGCTACATTTATCTCTTACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
64059337 CGT
66 CGT
64059340 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
64059405 CGT
66 CGT
*
64059408 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCC
1 ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
64059473 CGT
66 CGT
*
64059476 AACACACATGTGACCTAGCTAC
1 ATCACACATGTGACCTAGCTAC
64059498 TATATAGTAT
Statistics
Matches: 154, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 154 1.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (68 bp):
ATCACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCT
CGT
Found at i:64059362 original size:38 final size:38
Alignment explanation
Indices: 64059320--64059431 Score: 91
Period size: 38 Copynumber: 3.2 Consensus size: 38
64059310 GCTCTCTTGT
64059320 CTACATGGGATACATCTCGTATCACACATGTGACCTAG
1 CTACATGGGATACATCTCGTATCACACATGTGACCTAG
** * * *
64059358 CTACAT-TTAT-C-TCTCACGTAGCTCTC-T-TG---T--
1 CTACATGGGATACATCT--CGTATCACACATGTGACCTAG
64059388 CTACATGGGATACATCTCGTATCACACATGTGACCTAG
1 CTACATGGGATACATCTCGTATCACACATGTGACCTAG
64059426 CTACAT
1 CTACAT
64059432 TTATCTCTCA
Statistics
Matches: 52, Mismatches: 10, Indels: 24
0.60 0.12 0.28
Matches are distributed among these distances:
30 6 0.12
31 9 0.17
32 3 0.06
33 5 0.10
35 5 0.10
36 3 0.06
37 9 0.17
38 12 0.23
ACGTcount: A:0.26, C:0.28, G:0.15, T:0.31
Consensus pattern (38 bp):
CTACATGGGATACATCTCGTATCACACATGTGACCTAG
Found at i:64059553 original size:136 final size:135
Alignment explanation
Indices: 64059278--64059565 Score: 379
Period size: 136 Copynumber: 2.1 Consensus size: 135
64059268 TGGAATCACT
* * *
64059278 CATGTGACCTAGCTACATTTATCTCTTACGTAGCTCTCTTGTCTACATGGGATACATCTCGTATC
1 CATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTAAC
* * *
64059343 ACACATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCTCGT
66 ACACATGTGACCTAGCTACATATATATCTCAC-TAGCTCTCTTGTCTACATGGGATACATCTCGC
*
64059408 ATCACA
130 ACCACA
64059414 CATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTAAC
1 CATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTAAC
* * *
64059479 ACACATGTGACCTAGCTACTATATAGTATCTTA-TAGC-CTTCTTGTAC-ACATGATG-TGCA-C
66 ACACATGTGACCTAGCTAC-ATATA-TATCTCACTAGCTC-TCTTGT-CTACATG-GGATACATC
*
64059539 TCGGCACCATA
126 TC-GCACCACA
64059550 CATGTGACCTAGCTAC
1 CATGTGACCTAGCTAC
64059566 GCTCCCTCTA
Statistics
Matches: 135, Mismatches: 11, Indels: 12
0.85 0.07 0.08
Matches are distributed among these distances:
135 4 0.03
136 120 0.89
137 6 0.04
138 5 0.04
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.33
Consensus pattern (135 bp):
CATGTGACCTAGCTACATTTATCTCTCACGTAGCTCTCTTGTCTACATGGGATACATCCCGTAAC
ACACATGTGACCTAGCTACATATATATCTCACTAGCTCTCTTGTCTACATGGGATACATCTCGCA
CCACA
Found at i:64076737 original size:65 final size:66
Alignment explanation
Indices: 64076651--64076833 Score: 244
Period size: 65 Copynumber: 2.7 Consensus size: 66
64076641 CACTTAGTAC
*
64076651 CACTCATGCGACCTAGCCGATTTATCTCGTAGCTCTCTTGTCTACATAGTCTCCTTCACTTGGAA
1 CACTCATGCGACCTAGCCGATTTATCTCGTAGCTCTCTTGTCTACATAGTCTCATTCACTTGGAA
64076716 T
66 T
* * * * *
64076717 CACTCAT-TGACCTTGCCGATTTATCTCGTAGCTCTCTTGCCTACATGGTGTCATTCACTTGGAA
1 CACTCATGCGACCTAGCCGATTTATCTCGTAGCTCTCTTGTCTACATAGTCTCATTCACTTGGAA
64076781 T
66 T
64076782 CACTCATGCGACCTAGCTAC-ATTTATCTCTCACGTAGCTCTCTTGTCTACAT
1 CACTCATGCGACCTAGC--CGATTTA--TCT--CGTAGCTCTCTTGTCTACAT
64076834 GGGATACATC
Statistics
Matches: 101, Mismatches: 9, Indels: 9
0.85 0.08 0.08
Matches are distributed among these distances:
65 59 0.58
66 14 0.14
67 5 0.05
68 1 0.01
69 3 0.03
71 19 0.19
ACGTcount: A:0.20, C:0.30, G:0.15, T:0.36
Consensus pattern (66 bp):
CACTCATGCGACCTAGCCGATTTATCTCGTAGCTCTCTTGTCTACATAGTCTCATTCACTTGGAA
T
Found at i:64078026 original size:302 final size:302
Alignment explanation
Indices: 64077480--64078081 Score: 1159
Period size: 302 Copynumber: 2.0 Consensus size: 302
64077470 ATCGCTTAGA
64077480 AAAGATCGTTCCCCTAACTTCAAACATTCATATTCTACCATAAAACAACAAAATACATGCCTAAC
1 AAAGATCGTTCCCCTAACTTCAAACATTCATATTCTACCATAAAACAACAAAATACATGCCTAAC
*
64077545 ATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAACTAATGGTAGAAATAAGTAAACTGAA
66 ATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAACTAATGGTAGAAATAAGTAAACCGAA
64077610 CTACGAGGATTTCAAAAATGTGAAGAACATTAAAAACGGGGCTTGAATTCACTTACTATGAAGCT
131 CTACGAGGATTTCAAAAATGTGAAGAACATTAAAAACGGGGCTTGAATTCACTTACTATGAAGCT
*
64077675 TGAAAGTTGAAGAAACCCTAGCTATGGAGGAGATAAATTTTCAGCAGCAACTAATGAAGATGATA
196 TGAAAGTTGAAGAAACCCTAGCTATGGAGGAGAGAAATTTTCAGCAGCAACTAATGAAGATGATA
64077740 ACCAATTTTGTGTAATTTTTCCCATTTTATTTCATTTAATTT
261 ACCAATTTTGTGTAATTTTTCCCATTTTATTTCATTTAATTT
64077782 AAAGATCGTTCCCCTAACTTCAAACATTCATATTCTACCATAAAACAACAAAATACATGCCTAAC
1 AAAGATCGTTCCCCTAACTTCAAACATTCATATTCTACCATAAAACAACAAAATACATGCCTAAC
*
64077847 ATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAACTAATGGTAGAAATAAGTAAACCGAG
66 ATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAACTAATGGTAGAAATAAGTAAACCGAA
64077912 CTACGAGGATTTCAAAAATGTGAAGAACATTAAAAACGGGGCTTGAATTCACTTACTATGAAGCT
131 CTACGAGGATTTCAAAAATGTGAAGAACATTAAAAACGGGGCTTGAATTCACTTACTATGAAGCT
*
64077977 TGAAAGTTGAAGAAACCCTAGCTATGTAGGAGAGAAATTTTCAGCAGCAACTAATGAAGATGATA
196 TGAAAGTTGAAGAAACCCTAGCTATGGAGGAGAGAAATTTTCAGCAGCAACTAATGAAGATGATA
*
64078042 ACCAATTTTGTGTTATTTTTCCCATTTTATTTCATTTAAT
261 ACCAATTTTGTGTAATTTTTCCCATTTTATTTCATTTAAT
64078082 ATACAAATGA
Statistics
Matches: 295, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
302 295 1.00
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (302 bp):
AAAGATCGTTCCCCTAACTTCAAACATTCATATTCTACCATAAAACAACAAAATACATGCCTAAC
ATTCATGGGTAAATTTTTAAACATAAACCCTAACTCGAACTAATGGTAGAAATAAGTAAACCGAA
CTACGAGGATTTCAAAAATGTGAAGAACATTAAAAACGGGGCTTGAATTCACTTACTATGAAGCT
TGAAAGTTGAAGAAACCCTAGCTATGGAGGAGAGAAATTTTCAGCAGCAACTAATGAAGATGATA
ACCAATTTTGTGTAATTTTTCCCATTTTATTTCATTTAATTT
Found at i:64079825 original size:20 final size:20
Alignment explanation
Indices: 64079800--64079856 Score: 78
Period size: 20 Copynumber: 2.9 Consensus size: 20
64079790 TTATGATTAC
*
64079800 ATCATGTACATTTCATACAT
1 ATCATGTACATATCATACAT
*
64079820 ATCATGTGCATATCATACAT
1 ATCATGTACATATCATACAT
**
64079840 ATCATGTGTATATCATA
1 ATCATGTACATATCATA
64079857 TCCCACGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.35, C:0.18, G:0.09, T:0.39
Consensus pattern (20 bp):
ATCATGTACATATCATACAT
Found at i:64086392 original size:12 final size:12
Alignment explanation
Indices: 64086375--64086400 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
64086365 CTTGCACCCT
64086375 TCCGCGACCACG
1 TCCGCGACCACG
64086387 TCCGCGACCACG
1 TCCGCGACCACG
64086399 TC
1 TC
64086401 TGCGGCCTCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.50, G:0.23, T:0.12
Consensus pattern (12 bp):
TCCGCGACCACG
Found at i:64087972 original size:26 final size:26
Alignment explanation
Indices: 64087914--64088049 Score: 181
Period size: 26 Copynumber: 5.3 Consensus size: 26
64087904 CTGGAGGCCT
*
64087914 AGCCTCTTTT-AAT-AACTAGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
64087938 AGCCCTTTTCGGTAAACTAGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
64087964 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
64087990 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
64088016 AGCCCTTTTCAATAAACTGGGGCAT-
1 AGCCCTTTTCAATAAACTGGGGCATA
64088041 AGCCCTTTT
1 AGCCCTTTT
64088050 GCACTTCCTC
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 19 0.19
26 71 0.71
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:64087994 original size:52 final size:52
Alignment explanation
Indices: 64087914--64088049 Score: 217
Period size: 52 Copynumber: 2.7 Consensus size: 52
64087904 CTGGAGGCCT
*
64087914 AGCCTCTTTT-AAT-AACTAGGGCA-AAGCCCTTTTCGGTAAACTAGGGCATA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
*
64087964 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
64088016 AGCCCTTTTCAATAAACTGGGGCAT-AGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
64088050 GCACTTCCTC
Statistics
Matches: 81, Mismatches: 2, Indels: 5
0.92 0.02 0.06
Matches are distributed among these distances:
49 5 0.06
50 7 0.09
51 18 0.22
52 51 0.63
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.29
Consensus pattern (52 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTAGGGCATA
Found at i:64088124 original size:20 final size:20
Alignment explanation
Indices: 64088099--64088155 Score: 96
Period size: 20 Copynumber: 2.9 Consensus size: 20
64088089 TTATGATTAC
*
64088099 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
64088119 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
64088139 ATCATGTGTATATCATA
1 ATCATGTGCATATCATA
64088156 TAATTCATGT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.39
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:64088163 original size:20 final size:21
Alignment explanation
Indices: 64088099--64088174 Score: 72
Period size: 20 Copynumber: 3.9 Consensus size: 21
64088089 TTATGATTAC
* * *
64088099 ATCATGTGCATTTCATA-CAT
1 ATCATGTGTATATCATATAAT
* *
64088119 ATCATGTGCATATCATA-CAT
1 ATCATGTGTATATCATATAAT
64088139 ATCATGTGTATATCATATAAT
1 ATCATGTGTATATCATATAAT
64088160 -TCA--TGTATATCATAT
1 ATCATGTGTATATCATAT
64088175 CCCACGTATC
Statistics
Matches: 52, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
18 12 0.23
20 38 0.73
21 2 0.04
ACGTcount: A:0.34, C:0.16, G:0.09, T:0.41
Consensus pattern (21 bp):
ATCATGTGTATATCATATAAT
Found at i:64090473 original size:38 final size:38
Alignment explanation
Indices: 64090414--64090488 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
64090404 GTATTTGGGT
* *
64090414 TAAAACCCGCAGGCTTCGTGCTGGTATTATATCCGGGA
1 TAAAACCCGCAGGCCTAGTGCTGGTATTATATCCGGGA
* *
64090452 TAAATCCCGCAGGCCTAGTGCTGGTATTATATTCGGG
1 TAAAACCCGCAGGCCTAGTGCTGGTATTATATCCGGG
64090489 CCTTCGTGCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.28
Consensus pattern (38 bp):
TAAAACCCGCAGGCCTAGTGCTGGTATTATATCCGGGA
Found at i:64090541 original size:43 final size:42
Alignment explanation
Indices: 64090488--64090727 Score: 330
Period size: 43 Copynumber: 5.8 Consensus size: 42
64090478 TTATATTCGG
*
64090488 GCCTTCGTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTA-TTCA
64090531 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTC-A
* * *
64090574 GCCTTCGTGCCTAGCAGGCTTCGTGCTGATGATGTGTATTCA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCA
*
64090616 ------GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTA-TTCA
*
64090653 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCGG
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTC-A
* *
64090696 GCCTTCGTGCCTAGCAGGCATAATGCCGGTGA
1 GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGA
64090728 AATGATATGT
Statistics
Matches: 176, Mismatches: 12, Indels: 18
0.85 0.06 0.09
Matches are distributed among these distances:
36 28 0.16
37 4 0.02
42 7 0.04
43 137 0.78
ACGTcount: A:0.15, C:0.23, G:0.32, T:0.31
Consensus pattern (42 bp):
GCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTCA
Found at i:64090627 original size:79 final size:79
Alignment explanation
Indices: 64090537--64090693 Score: 262
Period size: 79 Copynumber: 2.0 Consensus size: 79
64090527 TTCAGCCTTC
* *
64090537 GTGCCTAGCAGGCTTAGTGCCGGTGATGTGTA-TTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCT
1 GTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTTC-AGCCTTCGTGCCTAGCAGGCTTAGTGCC
64090601 GATGATGTGTATTCA
65 GATGATGTGTATTCA
*
64090616 GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
1 GTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
*
64090681 GTGATGTGTATTC
66 ATGATGTGTATTC
64090694 GGGCCTTCGT
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
79 70 0.96
80 3 0.04
ACGTcount: A:0.15, C:0.21, G:0.32, T:0.32
Consensus pattern (79 bp):
GTGCCTAGCAGGCTTAGTGCCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
ATGATGTGTATTCA
Found at i:64090633 original size:122 final size:122
Alignment explanation
Indices: 64090494--64090714 Score: 433
Period size: 122 Copynumber: 1.8 Consensus size: 122
64090484 TCGGGCCTTC
64090494 GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
1 GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
64090559 GTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCTGATGATGTGTATTCA
66 GTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCTGATGATGTGTATTCA
64090616 GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
1 GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
*
64090681 GTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGC
66 GTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGC
64090715 ATAATGCCGG
Statistics
Matches: 98, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
122 98 1.00
ACGTcount: A:0.14, C:0.22, G:0.32, T:0.32
Consensus pattern (122 bp):
GTGCCTAGCAGGCTTAGTGTCGGTGATGTGTATTTCAGCCTTCGTGCCTAGCAGGCTTAGTGCCG
GTGATGTGTATTCGAGCCTTCGTGCCTAGCAGGCTTCGTGCTGATGATGTGTATTCA
Found at i:64091110 original size:45 final size:42
Alignment explanation
Indices: 64091043--64091150 Score: 119
Period size: 45 Copynumber: 2.5 Consensus size: 42
64091033 TTGACTTGAT
* *
64091043 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCAGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCC-G-GAGA-AC
** *
64091088 TATTCGGGCCTTCGAGCCTAGCAGGCTATAATGCCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGAGAAC
64091130 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
64091151 ACAGGTAAAA
Statistics
Matches: 56, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
42 3 0.05
43 14 0.25
44 8 0.14
45 31 0.55
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGAGAAC
Found at i:64092385 original size:48 final size:48
Alignment explanation
Indices: 64092290--64092393 Score: 113
Period size: 48 Copynumber: 2.2 Consensus size: 48
64092280 TGTGCTAAGC
* * **
64092290 GTAAGACCTATCTGGGATAGGCATCGGCACAGCCCAGTGAGTGCTAGT
1 GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
**
64092338 GTAAGACCTATC-GGGAATAGGCATCAGCAC-GGGCAGAGCAGAACTAGT
1 GTAAGACCTATCTGGG-ATAGGCATCAGCACAGCCCAGAG-AGAACTAGT
*
64092386 ATAAGACC
1 GTAAGACC
64092394 ATAGTTGGAA
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
47 8 0.17
48 39 0.83
ACGTcount: A:0.31, C:0.22, G:0.30, T:0.17
Consensus pattern (48 bp):
GTAAGACCTATCTGGGATAGGCATCAGCACAGCCCAGAGAGAACTAGT
Found at i:64094994 original size:38 final size:38
Alignment explanation
Indices: 64094937--64095009 Score: 101
Period size: 38 Copynumber: 1.9 Consensus size: 38
64094927 ATTCGGTTTA
* * * *
64094937 AATCCCGCAGGCTTCGTGCTGGTATTATATCCGGGATT
1 AATCCCGCAAGCCTAGTGCTAGTATTATATCCGGGATT
*
64094975 AATCCCGCAAGCCTAGTGCTAGTATTATATTCGGG
1 AATCCCGCAAGCCTAGTGCTAGTATTATATCCGGG
64095010 CCTTCATGCC
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.22, C:0.23, G:0.25, T:0.30
Consensus pattern (38 bp):
AATCCCGCAAGCCTAGTGCTAGTATTATATCCGGGATT
Found at i:64095211 original size:43 final size:43
Alignment explanation
Indices: 64095002--64095196 Score: 320
Period size: 43 Copynumber: 4.6 Consensus size: 43
64094992 GCTAGTATTA
*
64095002 TATTCGGGCCTTCATGCCTAGCAGGCTTAGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
64095045 -ATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCTGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
64095087 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
* * *
64095130 TATTCGGGCCTTCGTGCCTAACAGGCTTCGTACCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
*
64095173 TATTCGAGCCTTCGTGCCTAGCAG
1 TATTCGGGCCTTCGTGCCTAGCAG
64095197 ATGTAATACC
Statistics
Matches: 143, Mismatches: 8, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
42 40 0.28
43 103 0.72
ACGTcount: A:0.13, C:0.25, G:0.32, T:0.30
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTAGTGCCGGTGATGTG
Found at i:64095601 original size:45 final size:42
Alignment explanation
Indices: 64095527--64095634 Score: 110
Period size: 45 Copynumber: 2.5 Consensus size: 42
64095517 TTGACTTGAT
* *
64095527 TATTCGGGCCTTTGAGCTTAGCAAACTATAATGCCGGTGAGATAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGT--GA-AC
* ** *
64095572 TATTCGGGCCTTCGAGCCTAGTAGGCTATAATGTCGGTGAAC
1 TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
64095614 TGATATCGGGCC-TCGAGCCTA
1 T-AT-TCGGGCCTTCGAGCCTA
64095635 ACAGGCGAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 6
0.82 0.09 0.09
Matches are distributed among these distances:
42 3 0.05
43 13 0.24
44 7 0.13
45 32 0.58
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.28
Consensus pattern (42 bp):
TATTCGGGCCTTCGAGCCTAGCAAACTATAATGCCGGTGAAC
Found at i:64108766 original size:13 final size:13
Alignment explanation
Indices: 64108748--64108776 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
64108738 TCCTATTATG
64108748 AAAGGAAGTGATC
1 AAAGGAAGTGATC
64108761 AAAGGAAGTGATC
1 AAAGGAAGTGATC
64108774 AAA
1 AAA
64108777 CGATTGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.07, G:0.28, T:0.14
Consensus pattern (13 bp):
AAAGGAAGTGATC
Found at i:64109733 original size:54 final size:54
Alignment explanation
Indices: 64109651--64109759 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
64109641 CCTATTTACT
*
64109651 ATGCAAGTAGAACTTTGACTGGAGCCCAACTCAATTATATGGTCATTGAAAAGG
1 ATGCAAGTAGAACTTTGACTGGAGCCCAACTCAATTATATGGTAATTGAAAAGG
64109705 ATGCAAGTAGAACTTTGACTGGAGCCCAACTCAATTATATGGTAATTGAAAAGG
1 ATGCAAGTAGAACTTTGACTGGAGCCCAACTCAATTATATGGTAATTGAAAAGG
64109759 A
1 A
64109760 GCTCTTTGCT
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (54 bp):
ATGCAAGTAGAACTTTGACTGGAGCCCAACTCAATTATATGGTAATTGAAAAGG
Found at i:64117878 original size:55 final size:53
Alignment explanation
Indices: 64117756--64118010 Score: 243
Period size: 55 Copynumber: 4.8 Consensus size: 53
64117746 ATTAGGGTTT
* * * *
64117756 AAGGATACCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTCTC-TAAGGC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGC-ATTGGTAA-GT-TCATAAGAC
* * *
64117811 AAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATAAGTTACTATAAGAC
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTT-C-ATAAGAC
* * * * *
64117866 AAAGG-TCCCATGTAAGACCATGCCAAGGCATGGCATTGGTGAGTTCATAAGGC
1 -AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGAC
* * *
64117919 AAGGATACCATGTATGACCATGTCAAGACATGGCAATGGTAAGTT--TCA-A-
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGAC
* * * *
64117968 AAGGATACCACGTAAGACCATGACAAGTCATGGCAATGGTAAG
1 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAG
64118011 GTACCCGTGT
Statistics
Matches: 168, Mismatches: 27, Indels: 16
0.80 0.13 0.08
Matches are distributed among these distances:
49 39 0.23
51 2 0.01
52 5 0.03
53 43 0.26
54 8 0.05
55 67 0.40
56 4 0.02
ACGTcount: A:0.36, C:0.18, G:0.24, T:0.21
Consensus pattern (53 bp):
AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGTTCATAAGAC
Found at i:64117962 original size:108 final size:110
Alignment explanation
Indices: 64117763--64117963 Score: 309
Period size: 108 Copynumber: 1.8 Consensus size: 110
64117753 TTTAAGGATA
*
64117763 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTCTCTAAGGCAAGGAAATCATGTAAGA
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
*
64117828 CCATGTCAAGACATGGCATTGATAAGTTACTATAAGACAAAGGTC
66 CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
* * * *
64117873 CCATGTAAGACCATGCCAAGGCATGGC-ATTGGTGA-GT-TCATAAGGCAAGGATACCATGTATG
1 CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTCTC-TAAGGCAAGGAAACCATGTAAG
*
64117935 ACCATGTCAAGACATGGCAATGGTAAGTT
65 ACCATGTCAAGACATGGCAATGATAAGTT
64117964 TCAAAAGGAT
Statistics
Matches: 83, Mismatches: 7, Indels: 4
0.88 0.07 0.04
Matches are distributed among these distances:
107 2 0.02
108 48 0.58
109 7 0.08
110 26 0.31
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.22
Consensus pattern (110 bp):
CCATGTAAGACCATGCCAAGGCATGACAATTGGTAAGGTCTCTAAGGCAAGGAAACCATGTAAGA
CCATGTCAAGACATGGCAATGATAAGTTACTATAAGACAAAGGTC
Found at i:64119737 original size:3 final size:3
Alignment explanation
Indices: 64119729--64119769 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
64119719 GCTCATGCTA
64119729 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
64119770 ACAACGAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:64121091 original size:7 final size:7
Alignment explanation
Indices: 64121070--64121106 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
64121060 ACCCCTTCAT
64121070 TCCCTCA
1 TCCCTCA
* *
64121077 TTCATCA
1 TCCCTCA
64121084 TCCCTCA
1 TCCCTCA
64121091 TCCCTCA
1 TCCCTCA
64121098 TCCCTCA
1 TCCCTCA
64121105 TC
1 TC
64121107 ATTCTCTCTT
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.16, C:0.51, G:0.00, T:0.32
Consensus pattern (7 bp):
TCCCTCA
Found at i:64123513 original size:50 final size:49
Alignment explanation
Indices: 64123392--64123567 Score: 212
Period size: 50 Copynumber: 3.5 Consensus size: 49
64123382 TGAGGTCGCA
* * * *
64123392 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAA-ACTATGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA--CGAAATAAT-TGGTCACG
**
64123443 TGTGTAGTACTAAGTGCAGGCTACTACGTGTATC-AAATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CGAAATAATT-GGTCACG
** *
64123493 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACGGGATAATTGGTCATG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACGAAATAATTGGTCACG
64123542 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
64123568 TGCGTAGCAG
Statistics
Matches: 111, Mismatches: 11, Indels: 8
0.85 0.08 0.06
Matches are distributed among these distances:
49 37 0.33
50 44 0.40
51 30 0.27
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACGAAATAATTGGTCACG
Found at i:64126547 original size:7 final size:7
Alignment explanation
Indices: 64126534--64126584 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
64126524 AACACCTGAA
64126534 AATAAAT
1 AATAAAT
*
64126541 CATAAAT
1 AATAAAT
64126548 AATAAAT
1 AATAAAT
*
64126555 AATTAAAA
1 AA-TAAAT
64126563 AATAAA-
1 AATAAAT
*
64126569 AATAATT
1 AATAAAT
*
64126576 AAAAAAT
1 AATAAAT
64126583 AA
1 AA
64126585 ATAACCAAAT
Statistics
Matches: 36, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
6 5 0.14
7 25 0.69
8 6 0.17
ACGTcount: A:0.73, C:0.02, G:0.00, T:0.25
Consensus pattern (7 bp):
AATAAAT
Found at i:64126556 original size:11 final size:11
Alignment explanation
Indices: 64126542--64126588 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
64126532 AAAATAAATC
64126542 ATAAATAATAA
1 ATAAATAATAA
* *
64126553 ATAATTAAAAA
1 ATAAATAATAA
64126564 ATAAA-AATAA
1 ATAAATAATAA
* *
64126574 TTAAAAAATAA
1 ATAAATAATAA
64126585 ATAA
1 ATAA
64126589 CCAAATTGCA
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
10 8 0.28
11 21 0.72
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (11 bp):
ATAAATAATAA
Found at i:64126573 original size:17 final size:17
Alignment explanation
Indices: 64126544--64126585 Score: 75
Period size: 17 Copynumber: 2.4 Consensus size: 17
64126534 AATAAATCAT
64126544 AAATAATAAATAATTAAA
1 AAATAA-AAATAATTAAA
64126562 AAATAAAAATAATTAAA
1 AAATAAAAATAATTAAA
64126579 AAATAAA
1 AAATAAA
64126586 TAACCAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 18 0.75
18 6 0.25
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAAATAATTAAA
Found at i:64130016 original size:18 final size:18
Alignment explanation
Indices: 64129993--64130029 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
64129983 CGAATAAAAG
64129993 AGTTAATTTTGAATACAT
1 AGTTAATTTTGAATACAT
64130011 AGTTAATTTTGAATACAT
1 AGTTAATTTTGAATACAT
64130029 A
1 A
64130030 TAGATCAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.11, T:0.43
Consensus pattern (18 bp):
AGTTAATTTTGAATACAT
Found at i:64133951 original size:15 final size:15
Alignment explanation
Indices: 64133925--64133980 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
64133915 CAAGGAAACC
64133925 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
*
64133940 -AGATAGAGAAATCCA
1 GA-ATAAAGAAATCCA
64133955 GAATAAAGAAATCCA
1 GAATAAAGAAATCCA
64133970 GAATAAAGAAA
1 GAATAAAGAAA
64133981 CCCAAGATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
14 1 0.03
15 35 0.95
16 1 0.03
ACGTcount: A:0.61, C:0.11, G:0.16, T:0.12
Consensus pattern (15 bp):
GAATAAAGAAATCCA
Found at i:64136646 original size:40 final size:40
Alignment explanation
Indices: 64136595--64136681 Score: 149
Period size: 40 Copynumber: 2.2 Consensus size: 40
64136585 AGGAGTGAGT
*
64136595 AAGCATAAATGCTTAGTAAGTTCACATGCAAATAGCAAGC
1 AAGCATAAATGCTTAGCAAGTTCACATGCAAATAGCAAGC
*
64136635 AAGCATAAATGCTTAGCAAGTTCACATGCAAATAGCAAGT
1 AAGCATAAATGCTTAGCAAGTTCACATGCAAATAGCAAGC
64136675 AA-CATAA
1 AAGCATAA
64136682 CCATATAAGC
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
39 5 0.11
40 40 0.89
ACGTcount: A:0.45, C:0.17, G:0.16, T:0.22
Consensus pattern (40 bp):
AAGCATAAATGCTTAGCAAGTTCACATGCAAATAGCAAGC
Found at i:64142368 original size:40 final size:40
Alignment explanation
Indices: 64142303--64142394 Score: 123
Period size: 40 Copynumber: 2.3 Consensus size: 40
64142293 GACTATGTTC
* *
64142303 GGCACTAAGTGTGCGATTTGAAATAGCTTCGGCTATAAGTA
1 GGCACTAAGTGTGCAAATTGAAATAGCTTCGGCTATAAG-A
* * *
64142344 -GCACTAAGTGTGCAAATTGGAATAGCTTTGGCTATATGA
1 GGCACTAAGTGTGCAAATTGAAATAGCTTCGGCTATAAGA
64142383 GGCACTAAGTGT
1 GGCACTAAGTGT
64142395 ACGATACCGA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.02
40 44 0.98
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.29
Consensus pattern (40 bp):
GGCACTAAGTGTGCAAATTGAAATAGCTTCGGCTATAAGA
Found at i:64153241 original size:25 final size:25
Alignment explanation
Indices: 64153198--64153272 Score: 89
Period size: 25 Copynumber: 3.0 Consensus size: 25
64153188 CTTGTAGCCT
64153198 TACTGCAGCTCGTACGAGCTTACCGA
1 TACT-CAGCTCGTACGAGCTTACCGA
* *
64153224 TTCTCAGCTCGTGA-GAGCTTATCGA
1 TACTCAGCTCGT-ACGAGCTTACCGA
* *
64153249 TACTCAGCTCGAATGAGCTTACCG
1 TACTCAGCTCGTACGAGCTTACCG
64153273 TTTATCGCTC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
24 1 0.02
25 37 0.88
26 4 0.10
ACGTcount: A:0.23, C:0.28, G:0.23, T:0.27
Consensus pattern (25 bp):
TACTCAGCTCGTACGAGCTTACCGA
Found at i:64158541 original size:19 final size:19
Alignment explanation
Indices: 64158517--64158558 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
64158507 TAGAAGTGGG
64158517 AATGATGAATTGGGGATTT
1 AATGATGAATTGGGGATTT
64158536 AATGATGAATTGGGGATTT
1 AATGATGAATTGGGGATTT
64158555 AATG
1 AATG
64158559 TTTGAGAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.33, C:0.00, G:0.31, T:0.36
Consensus pattern (19 bp):
AATGATGAATTGGGGATTT
Found at i:64160102 original size:22 final size:22
Alignment explanation
Indices: 64160072--64160141 Score: 115
Period size: 22 Copynumber: 3.2 Consensus size: 22
64160062 CTAAGGACTG
*
64160072 TGTGATCTGAGCTCATGAGTTA
1 TGTGGTCTGAGCTCATGAGTTA
64160094 TGTGGTCTGAGCTCATGAGTTA
1 TGTGGTCTGAGCTCATGAGTTA
64160116 TGTGGTCTGAGCTCATGA-TATA
1 TGTGGTCTGAGCTCATGAGT-TA
64160138 TGTG
1 TGTG
64160142 ACACATGTTA
Statistics
Matches: 46, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
21 1 0.02
22 45 0.98
ACGTcount: A:0.20, C:0.13, G:0.30, T:0.37
Consensus pattern (22 bp):
TGTGGTCTGAGCTCATGAGTTA
Found at i:64164092 original size:24 final size:24
Alignment explanation
Indices: 64164065--64164110 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
64164055 GTGAAAGGTG
64164065 TTAGCATGAAAACACCTCAAAGAA
1 TTAGCATGAAAACACCTCAAAGAA
64164089 TTAGCATGAAAACACCTCAAAG
1 TTAGCATGAAAACACCTCAAAG
64164111 GACTATTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.48, C:0.22, G:0.13, T:0.17
Consensus pattern (24 bp):
TTAGCATGAAAACACCTCAAAGAA
Found at i:64164765 original size:46 final size:46
Alignment explanation
Indices: 64164689--64164805 Score: 132
Period size: 46 Copynumber: 2.5 Consensus size: 46
64164679 TATGAGAGAT
* * * *
64164689 AGTGTAGGACCATGTCTGGG--ATGGCATCGGCATTGAGACG-AGTGCT
1 AGTGTAAGA-CATGTCTGGGACAT-GCTTCGGCATTGAGACGTA-AGCC
* *
64164735 AGTGTAAGACATGTTTGGGACATGCTTCGGCCTTGAGACGTAAGCC
1 AGTGTAAGACATGTCTGGGACATGCTTCGGCATTGAGACGTAAGCC
64164781 AGTGTAAGACATGTCTGGGACATGC
1 AGTGTAAGACATGTCTGGGACATGC
64164806 ATCTGTTACG
Statistics
Matches: 61, Mismatches: 7, Indels: 6
0.82 0.09 0.08
Matches are distributed among these distances:
45 9 0.15
46 49 0.80
47 3 0.05
ACGTcount: A:0.24, C:0.18, G:0.33, T:0.25
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGCTTCGGCATTGAGACGTAAGCC
Found at i:64165871 original size:13 final size:13
Alignment explanation
Indices: 64165853--64165877 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64165843 TGGCCATGTG
64165853 AAGGACACGGGCC
1 AAGGACACGGGCC
64165866 AAGGACACGGGC
1 AAGGACACGGGC
64165878 GTGTACCAGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.28, G:0.40, T:0.00
Consensus pattern (13 bp):
AAGGACACGGGCC
Found at i:64175673 original size:40 final size:40
Alignment explanation
Indices: 64175618--64175819 Score: 277
Period size: 40 Copynumber: 5.0 Consensus size: 40
64175608 GATTATAACA
* *
64175618 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
64175658 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
64175698 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* * **
64175738 GAGCTAAGTCCCGAAGGCATTTGTACGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
64175778 GGGCTAAG-CCTCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCC-CGAAGGCATTTGTGCGAGTTA-CTATATCC
64175818 GG
1 GG
64175820 TTAAATCCCA
Statistics
Matches: 149, Mismatches: 10, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
39 4 0.03
40 144 0.97
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:64179628 original size:5 final size:5
Alignment explanation
Indices: 64179618--64179642 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
64179608 CAATTTGCAC
64179618 ATTTA ATTTA ATTTA ATTTA ATTTA
1 ATTTA ATTTA ATTTA ATTTA ATTTA
64179643 CTAAAACATC
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
ATTTA
Found at i:64181488 original size:21 final size:21
Alignment explanation
Indices: 64181463--64181503 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
64181453 CATTGATTTG
64181463 GTAAATTAGTTTATGAAATTC
1 GTAAATTAGTTTATGAAATTC
64181484 GTAAATTAGTTTATGAAATT
1 GTAAATTAGTTTATGAAATT
64181504 AGAATATGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.02, G:0.15, T:0.44
Consensus pattern (21 bp):
GTAAATTAGTTTATGAAATTC
Found at i:64181618 original size:23 final size:21
Alignment explanation
Indices: 64181572--64181618 Score: 51
Period size: 23 Copynumber: 2.1 Consensus size: 21
64181562 GGGGATAAAT
*
64181572 GTAATTGTTGATTGTAGCCTA
1 GTAATTGTTGATTGTAGCATA
64181593 GTAATATGTTCGATTGT-GCATGA
1 GTAAT-TGTT-GATTGTAGCAT-A
64181616 GTA
1 GTA
64181619 GGGCATATGT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
21 5 0.23
22 7 0.32
23 10 0.45
ACGTcount: A:0.26, C:0.09, G:0.26, T:0.40
Consensus pattern (21 bp):
GTAATTGTTGATTGTAGCATA
Found at i:64182206 original size:39 final size:39
Alignment explanation
Indices: 64182151--64182227 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
64182141 ATGATATTTG
*
64182151 GAAACATATCCGGACTTGACATCCGCAGGCTACGTGCTA
1 GAAACATATCCAGACTTGACATCCGCAGGCTACGTGCTA
** *
64182190 GAAACATATCCAGACTTGAGGTCTGCAGGCTACGTGCT
1 GAAACATATCCAGACTTGACATCCGCAGGCTACGTGCT
64182228 GGAATATATC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.27, C:0.26, G:0.25, T:0.22
Consensus pattern (39 bp):
GAAACATATCCAGACTTGACATCCGCAGGCTACGTGCTA
Found at i:64205567 original size:15 final size:15
Alignment explanation
Indices: 64205548--64205589 Score: 50
Period size: 15 Copynumber: 2.8 Consensus size: 15
64205538 ATGACAGAGG
64205548 AATCCAAGATA-AAA
1 AATCCAAGATACAAA
* *
64205562 ATATCCAAGGTACAGA
1 A-ATCCAAGATACAAA
64205578 AATCCAAGATAC
1 AATCCAAGATAC
64205590 CATATCATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
14 1 0.04
15 19 0.83
16 3 0.13
ACGTcount: A:0.52, C:0.19, G:0.12, T:0.17
Consensus pattern (15 bp):
AATCCAAGATACAAA
Found at i:64214589 original size:44 final size:44
Alignment explanation
Indices: 64214533--64214622 Score: 171
Period size: 44 Copynumber: 2.0 Consensus size: 44
64214523 TTCTAATTGG
64214533 TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
1 TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
*
64214577 TATTCTACAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
1 TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
64214621 TA
1 TA
64214623 ACTCCTTCAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.38, C:0.19, G:0.02, T:0.41
Consensus pattern (44 bp):
TATTCTAAAAAATTATTTTCCCATTCCATAGAATCTAAAATTTC
Found at i:64217017 original size:27 final size:27
Alignment explanation
Indices: 64216987--64217110 Score: 149
Period size: 27 Copynumber: 4.6 Consensus size: 27
64216977 AAATTGTACA
*
64216987 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
64217014 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * **
64217041 GCACTAAGTGTGCGAATTAACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* *
64217068 GCACTAAGTGTGCGAGTTTGACTATGTA
1 GCACTAAGTGTGCGA-ATTGACTATGTT
64217096 GCACTAAGTGTGCGA
1 GCACTAAGTGTGCGA
64217111 CACTATTGAG
Statistics
Matches: 81, Mismatches: 15, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
27 59 0.73
28 22 0.27
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.28
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:64224714 original size:9 final size:9
Alignment explanation
Indices: 64224700--64224760 Score: 56
Period size: 9 Copynumber: 7.0 Consensus size: 9
64224690 TACACATGAG
64224700 ATTAATTAA
1 ATTAATTAA
64224709 ATTAATTAA
1 ATTAATTAA
*
64224718 CTTAATTAA
1 ATTAATTAA
*
64224727 CA--AA-AAA
1 -ATTAATTAA
*
64224734 AGTAATTAA
1 ATTAATTAA
64224743 ATTAATTAA
1 ATTAATTAA
*
64224752 CTTAATTAA
1 ATTAATTAA
64224761 CAAAAAAAGT
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 1 0.02
7 2 0.05
8 4 0.10
9 35 0.83
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.38
Consensus pattern (9 bp):
ATTAATTAA
Found at i:64224745 original size:34 final size:34
Alignment explanation
Indices: 64224702--64224770 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
64224692 CACATGAGAT
64224702 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
1 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
64224736 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
1 TAATTAAATTAATTAACTTAATTAACAAAAAAAG
64224770 T
1 T
64224771 GAAAGGCCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (34 bp):
TAATTAAATTAATTAACTTAATTAACAAAAAAAG
Found at i:64237907 original size:24 final size:24
Alignment explanation
Indices: 64237874--64237922 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
64237864 GAGGTGGTAT
64237874 TTCTTCCTTTAAAATGTAATCCAA
1 TTCTTCCTTTAAAATGTAATCCAA
*
64237898 TTCTTTCTTTAAAATGTAATCCAA
1 TTCTTCCTTTAAAATGTAATCCAA
64237922 T
1 T
64237923 AAGGCTCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.45
Consensus pattern (24 bp):
TTCTTCCTTTAAAATGTAATCCAA
Found at i:64239843 original size:31 final size:34
Alignment explanation
Indices: 64239788--64239854 Score: 86
Period size: 31 Copynumber: 2.1 Consensus size: 34
64239778 ATCTAAACTT
* * *
64239788 TTTTTTATTATCCAATTAGGTACCTGAACTTGGC
1 TTTTTTATTATCCAATTAGATACCTAAACTTAGC
64239822 TTTTTTA-T-TCCAATTA-ATACCTAAACTTAGC
1 TTTTTTATTATCCAATTAGATACCTAAACTTAGC
64239853 TT
1 TT
64239855 CATGGTTCAA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
31 14 0.47
32 8 0.27
33 1 0.03
34 7 0.23
ACGTcount: A:0.27, C:0.18, G:0.09, T:0.46
Consensus pattern (34 bp):
TTTTTTATTATCCAATTAGATACCTAAACTTAGC
Found at i:64247427 original size:30 final size:30
Alignment explanation
Indices: 64247391--64247448 Score: 98
Period size: 30 Copynumber: 1.9 Consensus size: 30
64247381 TTCCAAGCTA
64247391 AGGGGCAAAAGTGTAATTATGATAAAATTT
1 AGGGGCAAAAGTGTAATTATGATAAAATTT
* *
64247421 AGGGGCAAAAGTGTAATTTTGCTAAAAT
1 AGGGGCAAAAGTGTAATTATGATAAAAT
64247449 ATAATATTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.41, C:0.05, G:0.24, T:0.29
Consensus pattern (30 bp):
AGGGGCAAAAGTGTAATTATGATAAAATTT
Found at i:64250170 original size:29 final size:29
Alignment explanation
Indices: 64250136--64250194 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
64250126 AAAAGGATAT
64250136 TGAGATGATTGAAACATGCTTATGATGTG
1 TGAGATGATTGAAACATGCTTATGATGTG
64250165 TGAGATGATTGAAACATGCTTATGATGTG
1 TGAGATGATTGAAACATGCTTATGATGTG
64250194 T
1 T
64250195 CAAAAGTTGG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.31, C:0.07, G:0.27, T:0.36
Consensus pattern (29 bp):
TGAGATGATTGAAACATGCTTATGATGTG
Found at i:64250207 original size:29 final size:29
Alignment explanation
Indices: 64250142--64250200 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 29
64250132 ATATTGAGAT
* * *
64250142 GATTGAAACATGCTTATGATGTGTGAGAT
1 GATTGAAACATGCTTATGATGTGTCAAAA
64250171 GATTGAAACATGCTTATGATGTGTCAAAA
1 GATTGAAACATGCTTATGATGTGTCAAAA
64250200 G
1 G
64250201 TTGGAAAGGT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.34, C:0.08, G:0.25, T:0.32
Consensus pattern (29 bp):
GATTGAAACATGCTTATGATGTGTCAAAA
Found at i:64250498 original size:46 final size:48
Alignment explanation
Indices: 64250440--64250561 Score: 151
Period size: 46 Copynumber: 2.6 Consensus size: 48
64250430 GGTGGTATGT
* * *
64250440 GAGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGA-CGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAGAC
* * *
64250486 GAGCTAGTGTAAGACATGTCTGGGACAT-CATCGGCCTCGGGATATAC
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAGAC
* *
64250533 AAGCTAGTGTAAGACCTGTCTGGGACATG
1 GAGCTAGTGTAAGACATGTCTGGGACATG
64250562 GTGTCAGCTT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
45 11 0.17
46 28 0.43
47 26 0.40
ACGTcount: A:0.27, C:0.20, G:0.31, T:0.22
Consensus pattern (48 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGATAGAC
Found at i:64250655 original size:49 final size:49
Alignment explanation
Indices: 64250582--64250707 Score: 139
Period size: 49 Copynumber: 2.6 Consensus size: 49
64250572 GTTGTGTTTC
* * *
64250582 AGTGTAAGACCTGTCTAAGG-CATGGCATCGACAC-CAATGGATGAGAGCT
1 AGTGTAAGACCTGTCT-GGGACATGGCATCGAC-CTCAATAGATGAAAGCT
* * * * * *
64250631 AGTGTAAAACCTGTCTGGGACATGGCATTGGCCTCGATATATGAAAGTT
1 AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCT
64250680 AGTGTAAGACCTGTCTGGGACATGGCAT
1 AGTGTAAGACCTGTCTGGGACATGGCAT
64250708 TGACTTTAAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
48 3 0.05
49 62 0.95
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.25
Consensus pattern (49 bp):
AGTGTAAGACCTGTCTGGGACATGGCATCGACCTCAATAGATGAAAGCT
Found at i:64279936 original size:48 final size:48
Alignment explanation
Indices: 64279821--64279968 Score: 224
Period size: 48 Copynumber: 3.0 Consensus size: 48
64279811 CACAAGATAA
* * * *
64279821 ATATATATGTGTGGTAAAGCCGAATGGCTAATGTGAAATATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATGTATGAG
64279871 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
* *
64279919 ATATGTATATGTGGTAAACCCGAATGGCTAGTGTGAAATATGTAGGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
64279967 AT
1 AT
64279969 GTGTGTATAT
Statistics
Matches: 92, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
48 58 0.63
49 2 0.02
50 32 0.35
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.31
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
Found at i:64280217 original size:37 final size:37
Alignment explanation
Indices: 64280109--64280217 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
64280099 GGAAATATAT
*
64280109 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
*
64280146 TCTGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
64280183 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
64280218 CATCTGAGCT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
37 67 1.00
ACGTcount: A:0.23, C:0.18, G:0.31, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:64281040 original size:21 final size:21
Alignment explanation
Indices: 64281014--64281056 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
64281004 GTGTTACAAA
64281014 TGCCATGTCCCAGACATGGTC
1 TGCCATGTCCCAGACATGGTC
*
64281035 TGCCATGTTCCAGACATGGTC
1 TGCCATGTCCCAGACATGGTC
64281056 T
1 T
64281057 TACACTGGCT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.19, C:0.30, G:0.23, T:0.28
Consensus pattern (21 bp):
TGCCATGTCCCAGACATGGTC
Found at i:64281089 original size:47 final size:47
Alignment explanation
Indices: 64281035--64281254 Score: 261
Period size: 47 Copynumber: 4.7 Consensus size: 47
64281025 AGACATGGTC
* *
64281035 TGCCATGTTCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCGA
* *
64281082 TGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCA-CATCTC-AAGCCGA
* * * *
64281130 TG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATTTTGAGGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-TCTCAAGCCGA
* * *
64281176 TG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCGTCTCAATGCCGA
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAA-GCCGA
*
64281222 TGCCATGTCCCAGACATGGTCTTACATTGGCTC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTC
64281255 TCATAATGCA
Statistics
Matches: 148, Mismatches: 18, Indels: 13
0.83 0.10 0.07
Matches are distributed among these distances:
45 3 0.02
46 58 0.39
47 67 0.45
48 20 0.14
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (47 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCGA
Found at i:64281229 original size:93 final size:95
Alignment explanation
Indices: 64281035--64281254 Score: 281
Period size: 93 Copynumber: 2.3 Consensus size: 95
64281025 AGACATGGTC
* *
64281035 TGCCATGTTCCAGACATGGTCTTACACTGGCTCACATCTCAAGTCGATGCCATGTCCCAGACATG
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCGATGCCATGTCCCAGACATG
*
64281100 GTCTTACACTGACTATCATCTCGTAGCCGA
66 GTCTTACACTGACTATCATCTCATAGCCGA
* * * *
64281130 TG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATTTTGAGGCCGATG-CATGTCCCAGACAT
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTCACA-TCTCAAGCCGATGCCATGTCCCAGACAT
* *
64281192 -GTCTTACACT-AGCTCTCGTCTCA-ATGCCGA
65 GGTCTTACACTGA-CTATCATCTCATA-GCCGA
*
64281222 TGCCATGTCCCAGACATGGTCTTACATTGGCTC
1 TGCCATGTCCCAGACATGGTCTTACACTGGCTC
64281255 TCATAATGCA
Statistics
Matches: 109, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
91 2 0.02
92 25 0.23
93 45 0.41
94 35 0.32
95 2 0.02
ACGTcount: A:0.22, C:0.30, G:0.20, T:0.29
Consensus pattern (95 bp):
TGCCATGTCCCAGACATGGTCTTACACTGGCTCACATCTCAAGCCGATGCCATGTCCCAGACATG
GTCTTACACTGACTATCATCTCATAGCCGA
Found at i:64285687 original size:27 final size:27
Alignment explanation
Indices: 64285644--64285815 Score: 209
Period size: 27 Copynumber: 6.4 Consensus size: 27
64285634 CACCAAAATT
* * *
64285644 GGTAAAATAACCATAATGCCCCTTTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
64285671 GGTAAAATGACTGTAATGCCACTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
64285698 GGTAAAATGACCATAATGCCCCTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
64285725 GGTAAAATAACCGTAATACCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
64285752 GGTAAAATGAACGTAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
64285779 GGTAAAATGACCGTAATACCCATGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
64285806 GGTAAAATGA
1 GGTAAAATGA
64285816 TGATTATGCC
Statistics
Matches: 123, Mismatches: 22, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 123 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:64285780 original size:81 final size:81
Alignment explanation
Indices: 64285643--64285813 Score: 254
Period size: 81 Copynumber: 2.1 Consensus size: 81
64285633 ACACCAAAAT
* * *
64285643 TGGTAAAATAACCATAATGCCCCTTTAGGGTAAAATGACTGTAATGCCACTGTAGGGTAAAATGA
1 TGGTAAAATAACCATAATACCCCTATAGGGTAAAATGACTGTAATGCCACTATAGGGTAAAATGA
* *
64285708 CCATAATGCCCCTGTA
66 CCATAATACCCATGTA
* *
64285724 TGGTAAAATAACCGTAATACCCCTATAGGGTAAAATGAAC-GTAATGCCCCTATAGGGTAAAATG
1 TGGTAAAATAACCATAATACCCCTATAGGGTAAAATG-ACTGTAATGCCACTATAGGGTAAAATG
*
64285788 ACCGTAATACCCATGTA
65 ACCATAATACCCATGTA
64285805 TGGTAAAAT
1 TGGTAAAAT
64285814 GATGATTATG
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
81 79 0.98
82 2 0.02
ACGTcount: A:0.37, C:0.19, G:0.19, T:0.25
Consensus pattern (81 bp):
TGGTAAAATAACCATAATACCCCTATAGGGTAAAATGACTGTAATGCCACTATAGGGTAAAATGA
CCATAATACCCATGTA
Found at i:64286001 original size:27 final size:26
Alignment explanation
Indices: 64285952--64286003 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
64285942 TGGAGGAAGT
*
64285952 ACTGTACTGGTGACTATGTCACATTC
1 ACTGTACTGGTGACTATGCCACATTC
* *
64285978 ACTGTTACTGGTGGCTTTGCCACATT
1 ACTG-TACTGGTGACTATGCCACATT
64286004 TACTATTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.19, C:0.23, G:0.21, T:0.37
Consensus pattern (26 bp):
ACTGTACTGGTGACTATGCCACATTC
Found at i:64286198 original size:33 final size:34
Alignment explanation
Indices: 64286160--64286264 Score: 109
Period size: 33 Copynumber: 3.3 Consensus size: 34
64286150 TATTGCATTA
*
64286160 CACTGTACTGATACTGTATTGGGCTTAGGCCC-G
1 CACTGTACTGATACTGTATAGGGCTTAGGCCCAG
* *
64286193 CACTG---T--TACTGTATAAGGCTAAGGCCCAG
1 CACTGTACTGATACTGTATAGGGCTTAGGCCCAG
*
64286222 -ACTGTACTGATACTGAATAGGGCTTAGGCCCAG
1 CACTGTACTGATACTGTATAGGGCTTAGGCCCAG
64286255 -ACTGTTACTG
1 CACTG-TACTG
64286265 CATGCACTGT
Statistics
Matches: 59, Mismatches: 6, Indels: 13
0.76 0.08 0.17
Matches are distributed among these distances:
28 22 0.37
29 1 0.02
30 1 0.02
31 1 0.02
33 29 0.49
34 5 0.08
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.28
Consensus pattern (34 bp):
CACTGTACTGATACTGTATAGGGCTTAGGCCCAG
Found at i:64288419 original size:51 final size:50
Alignment explanation
Indices: 64288343--64288444 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 50
64288333 GGGAGTATTC
*
64288343 TTTCCCTCTTTCGTGACGGTTTACCCGATCCACTGCGCAACCTAACTGCT
1 TTTCCCTATTTCGTGACGGTTTACCCGATCCACTGCGCAACCTAACTGCT
64288393 NTTTCCCTATTTCGTGACGGTTTACCCGATCCACTGCGCAACCTAACTGCT
1 -TTTCCCTATTTCGTGACGGTTTACCCGATCCACTGCGCAACCTAACTGCT
64288444 T
1 T
64288445 AACCACTAAA
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
50 1 0.02
51 49 0.98
ACGTcount: A:0.17, C:0.34, G:0.16, T:0.32
Consensus pattern (50 bp):
TTTCCCTATTTCGTGACGGTTTACCCGATCCACTGCGCAACCTAACTGCT
Found at i:64290602 original size:42 final size:43
Alignment explanation
Indices: 64290499--64290646 Score: 181
Period size: 43 Copynumber: 3.4 Consensus size: 43
64290489 TGTGTTATCG
** * *
64290499 TGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTGATTTACA
1 TGTAAGACCATGTCTGGGACAATGGCATCGATATATGATTT-CA
*
64290543 TGTAAGACCATGTCTGGGACAATGGCATCG-TATATGATTTCG
1 TGTAAGACCATGTCTGGGACAATGGCATCGATATATGATTTCA
* * * * *
64290585 TGTAAGACCCTTTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCATGTCTGGGACAATGGCATCGATATATGATTTCA
*
64290628 TGTAAGACCACGTCTGGGA
1 TGTAAGACCATGTCTGGGA
64290647 TGTTGGCATT
Statistics
Matches: 89, Mismatches: 14, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
42 28 0.31
43 33 0.37
44 28 0.31
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACAATGGCATCGATATATGATTTCA
Found at i:64290644 original size:43 final size:43
Alignment explanation
Indices: 64290499--64290646 Score: 169
Period size: 44 Copynumber: 3.4 Consensus size: 43
64290489 TGTGTTATCG
*
64290499 TGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTGTGATTTACA
1 TGTAAGACCACGTCTGGGACAG-TGGCATCGATATT-TGA-TTACA
* * * * *
64290543 TGTAAGACCATGTCTGGGACAATGGCATCG-TATATGATTTCG
1 TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
*
64290585 TGTAAGACC-CTTTCTGGGACAGTGGCATCGATATTTGATTACA
1 TGTAAGACCAC-GTCTGGGACAGTGGCATCGATATTTGATTACA
64290628 TGTAAGACCACGTCTGGGA
1 TGTAAGACCACGTCTGGGA
64290647 TGTTGGCATT
Statistics
Matches: 88, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
42 29 0.33
43 29 0.33
44 30 0.34
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACAGTGGCATCGATATTTGATTACA
Found at i:64290867 original size:19 final size:20
Alignment explanation
Indices: 64290835--64290873 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
64290825 TATGACAACG
64290835 AATGATATGAATG-TATATA
1 AATGATATGAATGTTATATA
64290854 AATGA-ATGATATGTTATATA
1 AATGATATGA-ATGTTATATA
64290874 TGCTCATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 4 0.22
19 8 0.44
20 6 0.33
ACGTcount: A:0.46, C:0.00, G:0.15, T:0.38
Consensus pattern (20 bp):
AATGATATGAATGTTATATA
Found at i:64297666 original size:44 final size:43
Alignment explanation
Indices: 64297617--64297775 Score: 130
Period size: 44 Copynumber: 3.7 Consensus size: 43
64297607 TATGTGTTAT
64297617 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTTATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTG-TATTTA
* * * *
64297661 CGTGTATGACCATGTCTGGGACATTGGCATAGTATATG-ATTT-
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCG-ATTTGTATTTA
* * * *
64297703 CGTGTAAGACCCTATCTAGAACAG-TGGCATCGATATT-TGA-TTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCGAT-TTGT-ATTTA
* * * *
64297746 CATGTAAGACTACGTCTGGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
64297776 TGTACAAGCT
Statistics
Matches: 88, Mismatches: 20, Indels: 15
0.72 0.16 0.12
Matches are distributed among these distances:
41 2 0.02
42 28 0.32
43 25 0.28
44 29 0.33
45 4 0.05
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.33
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCGATTTGTATTTA
Found at i:64305802 original size:13 final size:13
Alignment explanation
Indices: 64305784--64305808 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64305774 GTAAGTGATT
64305784 TTGATGATTTTTC
1 TTGATGATTTTTC
64305797 TTGATGATTTTT
1 TTGATGATTTTT
64305809 GTACTTTTAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
TTGATGATTTTTC
Found at i:64306553 original size:47 final size:47
Alignment explanation
Indices: 64306477--64306797 Score: 221
Period size: 47 Copynumber: 6.8 Consensus size: 47
64306467 GGGTTATTGT
64306477 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGACGA
* * *
64306525 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATTAGCCTCGAGACGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCA-TCGGCTTGAGACG-A
* * * *
64306572 -AGCCAGTGTCAGA-CATGTATGGGACAT-GTATCGGC-T-ACGA-GA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGA-GACGA
* * * * ** * *
64306614 TGTGTTAGTGTAAGACCATGTCTGGGACATGGAATCGACACAGATATGTGA
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGC-TTGAGA--CGA
* * * * *
64306665 GAGCTAGTGTAAAACCATGTCTAGGACATGGCGTCAGCCTCGATGACGA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATC-GGCTTGA-GACGA
* * * *
64306714 TAG-TCAGTGTAAGACCATGTCTGGGACATGGCATCGACTTAAGA-TA
1 GAGCT-AGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGA
** *
64306760 TGAGCCGGTGTAAGACCATGTCTAGGACATGGCATCGG
1 -GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG
64306798 TATTCTACCC
Statistics
Matches: 212, Mismatches: 43, Indels: 37
0.73 0.15 0.13
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 11 0.05
45 16 0.08
46 43 0.20
47 51 0.24
48 20 0.09
49 32 0.15
50 31 0.15
51 5 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (47 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCTTGAGACGA
Found at i:64306586 original size:46 final size:46
Alignment explanation
Indices: 64306477--64306748 Score: 151
Period size: 46 Copynumber: 5.7 Consensus size: 46
64306467 GGGTTATTGT
* * *
64306477 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGAGACGA
* * *
64306525 GAGCTAGTGTAAGACATGTCTGGGACATGCATTAGCCTCGAGACGTA
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACG-A
* * * * *
64306572 -AGCCAGTGTCAGACATGTATGGGACATGTATCGGC-TACGAGA--T
1 GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCAT-CGAGACGA
* ** * * *
64306615 GTGTTAGTGTAAGACCATGTCTGGGACATGGAATC-GACA-CAGATATGTGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAG-CATC-GAGA--CGA
* * * * *
64306665 GAGCTAGTGTAAAACCATGTCTAGGACATGGCGTCAGCCTCGATGACGA
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGCATCGA-GACGA
* *
64306714 TAGTCAGTGTAAGACCATGTCTGGGACATGGCATC
1 GAGCCAGTGTAAGA-CATGTCTGGGACAT-GCATC
64306749 GACTTAAGAT
Statistics
Matches: 175, Mismatches: 34, Indels: 29
0.74 0.14 0.12
Matches are distributed among these distances:
44 9 0.05
45 16 0.09
46 55 0.31
47 15 0.09
48 14 0.08
49 31 0.18
50 32 0.18
51 3 0.02
ACGTcount: A:0.28, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
GAGCCAGTGTAAGACATGTCTGGGACATGCATCAGCATCGAGACGA
Found at i:64307992 original size:21 final size:22
Alignment explanation
Indices: 64307953--64307993 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
64307943 TCGAATTGGT
*
64307953 CACACGGGCGTGTTGCCCCTTC
1 CACACAGGCGTGTTGCCCCTTC
64307975 CACACAGGCGTG-TGCCCCT
1 CACACAGGCGTGTTGCCCCT
64307994 CTGTCTAGTG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.12, C:0.41, G:0.27, T:0.20
Consensus pattern (22 bp):
CACACAGGCGTGTTGCCCCTTC
Found at i:64309872 original size:41 final size:40
Alignment explanation
Indices: 64309718--64309930 Score: 164
Period size: 40 Copynumber: 5.3 Consensus size: 40
64309708 TTTTTTAATG
* * * * * * *
64309718 AAAAACGCTGCTAAAGAACGAGCATTAGCGGCGCTTCTTCA
1 AAAAACACCGCTAATGATCGAGTATTAGCGGCACTT-TTTA
* * * * *
64309759 AAAAA-TCCGCTAAAGAAT-GAGCATTAGCGGCGCTTTATA
1 AAAAACACCGCTAATG-ATCGAGTATTAGCGGCACTTTTTA
* * * * *
64309798 AAAAACGCCGCTATAGGTTC-ACCT-TTAGTGGCACTTTTTA
1 AAAAACACCGCTA-ATGATCGA-GTATTAGCGGCACTTTTTA
*
64309838 AAAAAGAGCCGCTAATGATCGAGTATTAGCGGCACTTTTTGA
1 AAAAACA-CCGCTAATGATCGAGTATTAGCGGCACTTTTT-A
*
64309880 AAAAACACCGCTAATGATCGAGTATTAGCGGCACTTTTTG
1 AAAAACACCGCTAATGATCGAGTATTAGCGGCACTTTTTA
*
64309920 AAAAACCCCGC
1 AAAAACACCGC
64309931 AAAAAATTTA
Statistics
Matches: 141, Mismatches: 22, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
39 7 0.05
40 66 0.47
41 61 0.43
42 7 0.05
ACGTcount: A:0.34, C:0.22, G:0.20, T:0.24
Consensus pattern (40 bp):
AAAAACACCGCTAATGATCGAGTATTAGCGGCACTTTTTA
Found at i:64310479 original size:28 final size:28
Alignment explanation
Indices: 64310442--64310510 Score: 72
Period size: 29 Copynumber: 2.4 Consensus size: 28
64310432 CGTATACAAA
64310442 ATTTGAAAATAAAAACATATAAAA-A-TA-T
1 ATTT-AAAATAAAAA-AT-TAAAATACTATT
64310470 ATGTTAAAATGAAAAAATTAAAATACTATT
1 AT-TTAAAAT-AAAAAATTAAAATACTATT
64310500 ATTTAAAATAA
1 ATTTAAAATAA
64310511 TTTTAAAATT
Statistics
Matches: 36, Mismatches: 0, Indels: 10
0.78 0.00 0.22
Matches are distributed among these distances:
27 5 0.14
28 12 0.33
29 16 0.44
30 3 0.08
ACGTcount: A:0.61, C:0.03, G:0.04, T:0.32
Consensus pattern (28 bp):
ATTTAAAATAAAAAATTAAAATACTATT
Found at i:64310645 original size:7 final size:7
Alignment explanation
Indices: 64310624--64310663 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
64310614 TTAATTAGCA
*
64310624 TTATAGT
1 TTATGGT
*
64310631 TTAGGGT
1 TTATGGT
64310638 TTATGGT
1 TTATGGT
*
64310645 TTAGGGT
1 TTATGGT
64310652 TTATGGT
1 TTATGGT
64310659 TTATG
1 TTATG
64310664 AGTTAATATT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (7 bp):
TTATGGT
Found at i:64310646 original size:14 final size:14
Alignment explanation
Indices: 64310624--64310661 Score: 67
Period size: 14 Copynumber: 2.7 Consensus size: 14
64310614 TTAATTAGCA
*
64310624 TTATAGTTTAGGGT
1 TTATGGTTTAGGGT
64310638 TTATGGTTTAGGGT
1 TTATGGTTTAGGGT
64310652 TTATGGTTTA
1 TTATGGTTTA
64310662 TGAGTTAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (14 bp):
TTATGGTTTAGGGT
Found at i:64310745 original size:7 final size:7
Alignment explanation
Indices: 64310735--64310842 Score: 72
Period size: 7 Copynumber: 14.4 Consensus size: 7
64310725 TAGTGGGTAT
64310735 GGGTTAA
1 GGGTTAA
64310742 GGGTTTTAA
1 GGG--TTAA
*
64310751 GGGTTAT
1 GGGTTAA
64310758 GGGTTTAA
1 GGG-TTAA
*
64310766 GGGTCAA
1 GGGTTAA
*
64310773 GGGTTAT
1 GGGTTAA
*
64310780 GGGTTAT
1 GGGTTAA
64310787 GGGTTTAA
1 GGG-TTAA
*
64310795 TGGTTAA
1 GGGTTAA
*
64310802 GGGGATAA
1 -GGGTTAA
* *
64310810 AGGTTAG
1 GGGTTAA
64310817 GGGTTAA
1 GGGTTAA
64310824 GGGGTTTAA
1 -GGG-TTAA
*
64310833 TGGTTAA
1 GGGTTAA
64310840 GGG
1 GGG
64310843 GACATGGGTT
Statistics
Matches: 78, Mismatches: 16, Indels: 14
0.72 0.15 0.13
Matches are distributed among these distances:
7 46 0.59
8 21 0.27
9 11 0.14
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.33
Consensus pattern (7 bp):
GGGTTAA
Found at i:64310754 original size:22 final size:23
Alignment explanation
Indices: 64310732--64310800 Score: 81
Period size: 22 Copynumber: 3.1 Consensus size: 23
64310722 GATTAGTGGG
*
64310732 TATGGGTTAAGGGTTTTAAGGGT
1 TATGGGTTAAGGGTTTCAAGGGT
64310755 TATGGGTTTAAGGG--TCAAGGGT
1 TATGGG-TTAAGGGTTTCAAGGGT
* *
64310777 TATGGGTTATGGGTTT-AATGGT
1 TATGGGTTAAGGGTTTCAAGGGT
64310799 TA
1 TA
64310801 AGGGGATAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
21 6 0.15
22 20 0.50
23 7 0.17
24 7 0.17
ACGTcount: A:0.22, C:0.01, G:0.38, T:0.39
Consensus pattern (23 bp):
TATGGGTTAAGGGTTTCAAGGGT
Found at i:64310766 original size:15 final size:15
Alignment explanation
Indices: 64310735--64310826 Score: 80
Period size: 15 Copynumber: 6.2 Consensus size: 15
64310725 TAGTGGGTAT
64310735 GGGTTAAGGGTTTTAA
1 GGGTTAAGGG-TTTAA
*
64310751 GGGTTATGGGTTTAA
1 GGGTTAAGGGTTTAA
* *
64310766 GGGTCAAGGG-TTAT
1 GGGTTAAGGGTTTAA
*
64310780 GGGTTATGGGTTTAA
1 GGGTTAAGGGTTTAA
* **
64310795 TGGTTAAGGGGATAA
1 GGGTTAAGGGTTTAA
* *
64310810 AGGTT-AGGGGTTAA
1 GGGTTAAGGGTTTAA
64310824 GGG
1 GGG
64310827 GTTTAATGGT
Statistics
Matches: 61, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
14 21 0.34
15 31 0.51
16 9 0.15
ACGTcount: A:0.24, C:0.01, G:0.42, T:0.33
Consensus pattern (15 bp):
GGGTTAAGGGTTTAA
Found at i:64310835 original size:38 final size:37
Alignment explanation
Indices: 64310774--64310859 Score: 118
Period size: 38 Copynumber: 2.3 Consensus size: 37
64310764 AAGGGTCAAG
* * *
64310774 GGTTATGGGTTATGGGTTTAATGGTTAAGGGGATAAA
1 GGTTAGGGGTTAGGGGTTTAATGGTTAAGGGGACAAA
**
64310811 GGTTAGGGGTTAAGGGGTTTAATGGTTAAGGGGACATG
1 GGTTAGGGGTT-AGGGGTTTAATGGTTAAGGGGACAAA
64310849 GGTTAGGGGTT
1 GGTTAGGGGTT
64310860 TATGGTTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
37 10 0.23
38 33 0.77
ACGTcount: A:0.23, C:0.01, G:0.43, T:0.33
Consensus pattern (37 bp):
GGTTAGGGGTTAGGGGTTTAATGGTTAAGGGGACAAA
Found at i:64310972 original size:14 final size:15
Alignment explanation
Indices: 64310955--64310989 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
64310945 ACTAGGATGC
64310955 AAGGTTT-AGGGTTT
1 AAGGTTTAAGGGTTT
64310969 AAGGTTTAAGGGTTT
1 AAGGTTTAAGGGTTT
*
64310984 AGGGTT
1 AAGGTT
64310990 AATAGGATAG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.23, C:0.00, G:0.37, T:0.40
Consensus pattern (15 bp):
AAGGTTTAAGGGTTT
Found at i:64311138 original size:26 final size:26
Alignment explanation
Indices: 64311109--64311209 Score: 141
Period size: 26 Copynumber: 3.9 Consensus size: 26
64311099 AATAATTTCA
*
64311109 AATTTTAAAGATTTCAAA-TTTAGAAT
1 AATTTTCAAGATTTCAAATTTTA-AAT
* *
64311135 AATTTTCAAGAATTAAAATTTTAAAT
1 AATTTTCAAGATTTCAAATTTTAAAT
64311161 AATTTTCAAGATTTCAAATTTTAAAT
1 AATTTTCAAGATTTCAAATTTTAAAT
* *
64311187 AATTTTCAATATTTCAAAATTTA
1 AATTTTCAAGATTTCAAATTTTA
64311210 TCTAATTCTT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
26 63 0.94
27 4 0.06
ACGTcount: A:0.46, C:0.06, G:0.04, T:0.45
Consensus pattern (26 bp):
AATTTTCAAGATTTCAAATTTTAAAT
Found at i:64311947 original size:27 final size:28
Alignment explanation
Indices: 64311916--64311970 Score: 94
Period size: 27 Copynumber: 2.0 Consensus size: 28
64311906 CTTCGGACCT
64311916 GACCATCTGTTGCATCACCGTCG-ACTC
1 GACCATCTGTTGCATCACCGTCGCACTC
*
64311943 GACCATCTGTTGCATCACTGTCGCACTC
1 GACCATCTGTTGCATCACCGTCGCACTC
64311971 CTCTGTTGCA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 22 0.85
28 4 0.15
ACGTcount: A:0.18, C:0.36, G:0.18, T:0.27
Consensus pattern (28 bp):
GACCATCTGTTGCATCACCGTCGCACTC
Found at i:64311980 original size:24 final size:25
Alignment explanation
Indices: 64311917--64311980 Score: 78
Period size: 27 Copynumber: 2.5 Consensus size: 25
64311907 TTCGGACCTG
64311917 ACCATCTGTTGCATCACCGTCGACT
1 ACCATCTGTTGCATCACCGTCGACT
*
64311942 CGACCATCTGTTGCATCACTGTCGCACT
1 --ACCATCTGTTGCATCACCGTCG-ACT
64311970 -CC-TCTGTTGCA
1 ACCATCTGTTGCA
64311981 ACCAATCGAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
24 9 0.26
25 2 0.06
27 21 0.60
28 3 0.09
ACGTcount: A:0.17, C:0.36, G:0.17, T:0.30
Consensus pattern (25 bp):
ACCATCTGTTGCATCACCGTCGACT
Found at i:64314663 original size:24 final size:24
Alignment explanation
Indices: 64314636--64314682 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
64314626 ATTATTATTT
*
64314636 AAATATTCTCATACGTTTTATCAC
1 AAATATTATCATACGTTTTATCAC
*
64314660 AAATATTATCATCCGTTTTATCA
1 AAATATTATCATACGTTTTATCA
64314683 TTTAAGTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (24 bp):
AAATATTATCATACGTTTTATCAC
Found at i:64314949 original size:29 final size:29
Alignment explanation
Indices: 64314917--64314982 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
64314907 TAATTTGGAT
*
64314917 TAATTTATT-TAAATATTATTAAATTAATA
1 TAATTT-TTATAAATATTATTAAATTAAAA
*
64314946 TAATTTTTATAAATATTATTTAATTAAAA
1 TAATTTTTATAAATATTATTAAATTAAAA
64314975 TAATTTTT
1 TAATTTTT
64314983 TTTTGCATTT
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
28 2 0.06
29 32 0.94
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (29 bp):
TAATTTTTATAAATATTATTAAATTAAAA
Found at i:64314973 original size:15 final size:15
Alignment explanation
Indices: 64314919--64314973 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
64314909 ATTTGGATTA
*
64314919 ATTTATTTAAATATT
1 ATTTAATTAAATATT
*
64314934 ATTAAATTAATATAATT
1 ATTTAATTAA-AT-ATT
64314951 -TTT-A-TAAATATT
1 ATTTAATTAAATATT
64314963 ATTTAATTAAA
1 ATTTAATTAAA
64314974 ATAATTTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 10
0.71 0.07 0.22
Matches are distributed among these distances:
12 3 0.09
13 5 0.16
14 4 0.12
15 13 0.41
16 4 0.12
17 3 0.09
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAAATATT
Found at i:64315272 original size:9 final size:9
Alignment explanation
Indices: 64315255--64315404 Score: 219
Period size: 9 Copynumber: 16.7 Consensus size: 9
64315245 TATATACTTG
64315255 AACTTACAT
1 AACTTACAT
*
64315264 AACTCACAT
1 AACTTACAT
*
64315273 AACTTATAT
1 AACTTACAT
*
64315282 AACTTATAT
1 AACTTACAT
64315291 AACTTACAT
1 AACTTACAT
64315300 AACTTACAT
1 AACTTACAT
*
64315309 AACTCACAT
1 AACTTACAT
*
64315318 AACTCACAT
1 AACTTACAT
*
64315327 AACTCACAT
1 AACTTACAT
*
64315336 AACTCACAT
1 AACTTACAT
*
64315345 AACTTATAT
1 AACTTACAT
64315354 AACTTACAT
1 AACTTACAT
64315363 AACTTACAT
1 AACTTACAT
64315372 AACTTACAT
1 AACTTACAT
*
64315381 AACTTACAG
1 AACTTACAT
64315390 AACTTACAT
1 AACTTACAT
64315399 AACTTA
1 AACTTA
64315405 ATTATACTTA
Statistics
Matches: 131, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 131 1.00
ACGTcount: A:0.45, C:0.23, G:0.01, T:0.31
Consensus pattern (9 bp):
AACTTACAT
Found at i:64320455 original size:13 final size:14
Alignment explanation
Indices: 64320439--64320467 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
64320429 TTATAAATAT
64320439 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
64320452 TTATAATGGTTTAA
1 TTATAATGGTTTAA
64320466 TT
1 TT
64320468 CATCATTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:64321199 original size:32 final size:32
Alignment explanation
Indices: 64321163--64321242 Score: 126
Period size: 31 Copynumber: 2.5 Consensus size: 32
64321153 TTAGAATTAA
*
64321163 TGTTTTTGGTTGTATTTTTATGCTAAATTTGC
1 TGTTTTTGGTTGCATTTTTATGCTAAATTTGC
*
64321195 TGTTTTTGGTTGCA-TTTTATGCTATATTTGC
1 TGTTTTTGGTTGCATTTTTATGCTAAATTTGC
*
64321226 TGTTTTTGGTTGGATTT
1 TGTTTTTGGTTGCATTT
64321243 AATGCAGGAA
Statistics
Matches: 44, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
31 29 0.66
32 15 0.34
ACGTcount: A:0.12, C:0.06, G:0.21, T:0.60
Consensus pattern (32 bp):
TGTTTTTGGTTGCATTTTTATGCTAAATTTGC
Found at i:64321849 original size:49 final size:49
Alignment explanation
Indices: 64321780--64321906 Score: 155
Period size: 49 Copynumber: 2.6 Consensus size: 49
64321770 TGTTAGCTGT
* * **
64321780 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAAATGAGGGC
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACATCGATAAATGAAAGC
* * * * * *
64321829 CAGTGTAAGACCTTTTTGGGACATGACATCGGCCTCGATATATGAAAGT
1 CAGTGTAAGACCTGTTTGGGACATGGCATCGACATCGATAAATGAAAGC
*
64321878 CAGTGTAAGACCTGTTTGGGACACGGCAT
1 CAGTGTAAGACCTGTTTGGGACATGGCAT
64321907 TGACTTTAAT
Statistics
Matches: 65, Mismatches: 13, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
49 65 1.00
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (49 bp):
CAGTGTAAGACCTGTTTGGGACATGGCATCGACATCGATAAATGAAAGC
Found at i:64321891 original size:142 final size:138
Alignment explanation
Indices: 64321642--64321900 Score: 299
Period size: 142 Copynumber: 1.8 Consensus size: 138
64321632 ACATGAGTGC
* * * * *
64321642 CAGTGTAAGACATGTTTGGGACATGTATCGACATTGAGACGAGAGCTATTGTAAGACATGTCTGG
1 CAGTGTAAGACATGTCTGGGACATGCATCGACATTGAAACGAGAGCCAGTGTAAGACATGTCTGG
*
64321707 GACATGCATCGACCTCGGGATATACAAGCTAGTGTTAAACCTGTCTGGGACATGGCGTCAACTTG
66 GACATGCATCGACCTCGAGATATACAAGCTAGTGTTAAACCTGTCTGGGACATGGCGTCAACTTG
64321772 TTAGCTGT
131 TTAGCTGT
* * * * * *
64321780 CAGTGTAAGACCTGTCTGGGACATGGCATCGACATTGATAAATGAGGGCCAGTGTAAGACCTTTT
1 CAGTGTAAGACATGTCTGGGACAT-GCATCGACATTG--AAACGAGAGCCAGTGTAAGACATGTC
* * *
64321845 TGGGACATGACATCGGCCTCGATATATGA-AAG-TCAGTG-TAAGACCTGTTTGGGACA
63 TGGGACATG-CATCGACCTCGAGATAT-ACAAGCT-AGTGTTAA-ACCTGTCTGGGACA
64321901 CGGCATTGAC
Statistics
Matches: 99, Mismatches: 15, Indels: 10
0.80 0.12 0.08
Matches are distributed among these distances:
138 22 0.22
139 11 0.11
141 31 0.31
142 34 0.34
143 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (138 bp):
CAGTGTAAGACATGTCTGGGACATGCATCGACATTGAAACGAGAGCCAGTGTAAGACATGTCTGG
GACATGCATCGACCTCGAGATATACAAGCTAGTGTTAAACCTGTCTGGGACATGGCGTCAACTTG
TTAGCTGT
Found at i:64324053 original size:26 final size:26
Alignment explanation
Indices: 64324024--64324075 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
64324014 CTTCCAAAAT
64324024 AAGGGATATTGTGATACTCAGTTAGG
1 AAGGGATATTGTGATACTCAGTTAGG
64324050 AAGGGATATTGTGATACTCAGTTAGG
1 AAGGGATATTGTGATACTCAGTTAGG
64324076 GTATCACCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.31
Consensus pattern (26 bp):
AAGGGATATTGTGATACTCAGTTAGG
Found at i:64327892 original size:27 final size:27
Alignment explanation
Indices: 64327862--64327915 Score: 90
Period size: 27 Copynumber: 2.0 Consensus size: 27
64327852 TTACAATGAT
*
64327862 AACTAACTTAACTAATTCCAAGAACAC
1 AACTAACTTAACTAACTCCAAGAACAC
*
64327889 AACTAACTTAACTAACTCTAAGAACAC
1 AACTAACTTAACTAACTCCAAGAACAC
64327916 TAAGAATAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.48, C:0.26, G:0.04, T:0.22
Consensus pattern (27 bp):
AACTAACTTAACTAACTCCAAGAACAC
Found at i:64328403 original size:13 final size:13
Alignment explanation
Indices: 64328385--64328409 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
64328375 AAGTAATCGC
64328385 ACACGGGCGTGTT
1 ACACGGGCGTGTT
64328398 ACACGGGCGTGT
1 ACACGGGCGTGT
64328410 CCCTGCCGAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:64337058 original size:31 final size:31
Alignment explanation
Indices: 64337014--64337092 Score: 122
Period size: 31 Copynumber: 2.5 Consensus size: 31
64337004 TTTAACGATT
*
64337014 ACTGGGTCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
64337045 ACTGGGCCAAAGCCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
64337076 ACTGGGCCGAAGACTTT
1 ACTGGGCCGAAGCCTTT
64337093 ACTGTAAACG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:64337168 original size:42 final size:42
Alignment explanation
Indices: 64337116--64337207 Score: 130
Period size: 42 Copynumber: 2.2 Consensus size: 42
64337106 TGGCCCATAG
* * ** *
64337116 GCCCGTTTCAATATCACATGTAATGTCAATGGATATATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
*
64337158 GCCCATTTCAATATCACATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
64337200 GCCCATTT
1 GCCCATTT
64337208 GGGGAGACTA
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.35, C:0.22, G:0.14, T:0.29
Consensus pattern (42 bp):
GCCCATTTCAATATCACATGAAATACCAATGAATATATGCAA
Found at i:64337397 original size:26 final size:26
Alignment explanation
Indices: 64337352--64337449 Score: 162
Period size: 26 Copynumber: 3.8 Consensus size: 26
64337342 CCTCTTTAAT
64337352 AACTGGGGCA-AAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
64337377 AACTGGGGCATAAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
64337403 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
*
64337429 AACTAGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
64337450 GCACTTCCTC
Statistics
Matches: 67, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 10 0.15
26 57 0.85
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:64338545 original size:81 final size:81
Alignment explanation
Indices: 64338457--64338772 Score: 476
Period size: 81 Copynumber: 3.9 Consensus size: 81
64338447 TTTGTAAATC
64338457 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTT
*
64338522 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
64338538 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTT
*
64338603 GGTAATTTTACAAACT
66 AGTAATTTTACAAACT
* *
64338619 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTTACAAACCAAG-GGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACC-AGTGGTATTT
*
64338683 TAGCAATTTTACAAACT
65 TAGTAATTTTACAAACT
** * * * ***
64338700 A-GGGTATTTTGGTAATTTTACTGATCGAGGGTATTTTGGTAATTTTGTAAACC-GATGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAG-TGGTATTT
64338763 TAGTAATTTT
65 TAGTAATTTT
64338773 GTAAATCGAG
Statistics
Matches: 221, Mismatches: 11, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
78 1 0.00
80 62 0.28
81 156 0.71
82 2 0.01
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.41
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGATAATTTCACAAACCAGTGGTATTTT
AGTAATTTTACAAACT
Found at i:64338759 original size:27 final size:27
Alignment explanation
Indices: 64338459--64338786 Score: 333
Period size: 27 Copynumber: 12.2 Consensus size: 27
64338449 TGTAAATCAG
*
64338459 GGGTATTTTGGTAATTTTACAAATTGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * * *
64338486 GGGTATTTCGATAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
64338512 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTATTTTGGTAATTTTACAAATCGA
*
64338539 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* * * *
64338567 GGGTATTTCGATAATTTCACAAA-CCA
1 GGGTATTTTGGTAATTTTACAAATCGA
*
64338593 GTGGTATTTTGGTAATTTTACAAA-CTA
1 G-GGTATTTTGGTAATTTTACAAATCGA
*
64338620 GGGGTATTTTGGTAATTTTACAAATTGA
1 -GGGTATTTTGGTAATTTTACAAATCGA
* * *
64338648 GGGTATTTCGGTAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * *
64338675 GGGTATTTTAGCAATTTTACAAA-CTA
1 GGGTATTTTGGTAATTTTACAAATCGA
**
64338701 GGGTATTTTGGTAATTTTACTGATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
** *
64338728 GGGTATTTTGGTAATTTTGTAAACCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
* * **
64338755 TGGTATTTTAGTAATTTTGTAAATCGA
1 GGGTATTTTGGTAATTTTACAAATCGA
64338782 GGGTA
1 GGGTA
64338787 AAACAGTAAT
Statistics
Matches: 250, Mismatches: 44, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
26 25 0.10
27 221 0.88
28 4 0.02
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAATCGA
Found at i:64338894 original size:27 final size:27
Alignment explanation
Indices: 64338764--64338887 Score: 203
Period size: 27 Copynumber: 4.6 Consensus size: 27
64338754 ATGGTATTTT
*
64338764 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
64338791 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
64338818 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
64338845 GGTAATTCTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTAAAAC
*
64338872 AGTAATTCTATAAATC
1 AGTAATTCTGTAAATC
64338888 AATGGTAGTT
Statistics
Matches: 89, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 89 1.00
ACGTcount: A:0.42, C:0.10, G:0.19, T:0.28
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:64338931 original size:81 final size:81
Alignment explanation
Indices: 64338756--64338932 Score: 201
Period size: 81 Copynumber: 2.2 Consensus size: 81
64338746 GTAAACCGAT
* * *
64338756 GGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGT
1 GGTATTTCAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGT
*
64338821 AATTCTATAAATCGAG
66 AATTCTACAAATCGAG
*** * * *****
64338837 GGTAAAACGGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAATGGTAGTTTGGT
1 GGTATTTCAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGT
* * *
64338902 AATTTTACAATTTGAG
66 AATTCTACAAATCGAG
64338918 GGTATTTCAGTAATT
1 GGTATTTCAGTAATT
64338933 TGGTAAACTA
Statistics
Matches: 75, Mismatches: 21, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
81 75 1.00
ACGTcount: A:0.37, C:0.08, G:0.20, T:0.34
Consensus pattern (81 bp):
GGTATTTCAGTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAACAGT
AATTCTACAAATCGAG
Found at i:64341219 original size:44 final size:45
Alignment explanation
Indices: 64341169--64341280 Score: 192
Period size: 44 Copynumber: 2.5 Consensus size: 45
64341159 TCCCAGACAG
* *
64341169 GGTCTTACTCGCACACATATATCGA-AGTCACATATCGATGCCAT
1 GGTCTTACTCGCACACATATATCGAGAGTCACATATCAATCCCAT
64341213 GGTCTTACTCGCACACATATATC-AGAGTCACATATCAATCCCAT
1 GGTCTTACTCGCACACATATATCGAGAGTCACATATCAATCCCAT
64341257 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATATATCG
64341281 GAATCCTATG
Statistics
Matches: 64, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
43 1 0.02
44 63 0.98
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.28
Consensus pattern (45 bp):
GGTCTTACTCGCACACATATATCGAGAGTCACATATCAATCCCAT
Found at i:64348816 original size:15 final size:15
Alignment explanation
Indices: 64348777--64348856 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
64348767 GTATCTTGGG
*
64348777 TTTCTTTATCCTGGA
1 TTTCTTTATTCTGGA
*
64348792 TCTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
* *
64348807 TTTCTTTATTCCGGG
1 TTTCTTTATTCTGGA
*
64348822 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
*
64348837 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGA
64348851 TTTCTT
1 TTTCTT
64348857 GTTATCTTTG
Statistics
Matches: 53, Mismatches: 10, Indels: 5
0.78 0.15 0.07
Matches are distributed among these distances:
14 10 0.19
15 41 0.77
16 2 0.04
ACGTcount: A:0.10, C:0.19, G:0.14, T:0.57
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:64348846 original size:30 final size:30
Alignment explanation
Indices: 64348768--64348855 Score: 92
Period size: 30 Copynumber: 3.0 Consensus size: 30
64348758 CATAGTATCG
* * *
64348768 TATCTTGGGTTTCTTTA-TCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCC-GGATTTCTC
*
64348798 TAT-TCTGGATTTCTTTATTCCGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCCGGATTTCTC
*
64348828 TATCTTGGATTTCTTTATT-CGGTTTTCT
1 TATCTTGGATTTCTTTATTCCGGATTTCT
64348856 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 5, Indels: 7
0.81 0.08 0.11
Matches are distributed among these distances:
29 9 0.18
30 37 0.74
31 4 0.08
ACGTcount: A:0.10, C:0.18, G:0.16, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCCGGATTTCTC
Found at i:64367424 original size:20 final size:20
Alignment explanation
Indices: 64367382--64367424 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
64367372 TTTACATGCT
* *
64367382 AATTTGACATATTTTGTTCC
1 AATTTGACATACTTTGGTCC
* *
64367402 AATTTGACGTACTTTGGTGC
1 AATTTGACATACTTTGGTCC
64367422 AAT
1 AAT
64367425 AGAAAAAAAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTTGACATACTTTGGTCC
Found at i:64373086 original size:19 final size:19
Alignment explanation
Indices: 64373062--64373098 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
64373052 AGGAATCAAT
*
64373062 GATATCATATGAGGGTAAG
1 GATATCATACGAGGGTAAG
64373081 GATATCATACGAGGGTAA
1 GATATCATACGAGGGTAA
64373099 CACACACATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.08, G:0.30, T:0.24
Consensus pattern (19 bp):
GATATCATACGAGGGTAAG
Found at i:64375888 original size:57 final size:56
Alignment explanation
Indices: 64375817--64375985 Score: 203
Period size: 57 Copynumber: 3.0 Consensus size: 56
64375807 GAAATACAAA
* * * *
64375817 ATCTTAACTCATATAGAATATCAATATTTTAGGTAACTAATTTCGTGAGAATCAGTT
1 ATCTTAACTAATATAAAATATCAATATTTTAGGTAACTAATTTC-TAAGAATCAGCT
* * * *
64375874 GTCTTAACTAATATAAAATATCAGTATTTCAGGTAATTAATCTTCTAAGAATCAGCT
1 ATCTTAACTAATATAAAATATCAATATTTTAGGTAACTAAT-TTCTAAGAATCAGCT
** * *
64375931 ATCTTAACTTGTATAAAATATCATTATTTTAGGTAACTAATCTCCTAAGAATCAG
1 ATCTTAACTAATATAAAATATCAATATTTTAGGTAACTAAT-TTCTAAGAATCAG
64375986 GTATACAGTG
Statistics
Matches: 96, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
57 93 0.97
58 3 0.03
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.38
Consensus pattern (56 bp):
ATCTTAACTAATATAAAATATCAATATTTTAGGTAACTAATTTCTAAGAATCAGCT
Found at i:64385613 original size:124 final size:124
Alignment explanation
Indices: 64385389--64385635 Score: 415
Period size: 124 Copynumber: 2.0 Consensus size: 124
64385379 ATAATAGGCT
*
64385389 GAAATATAAGAATGTAAATGAAATTAATGTATTATTTACATACAAACTTACCTTAGTGCAAAATA
1 GAAATATAAGAATGTAAATGAAATTAATGTATTATTTACATACAAACTTACCTCAGTGCAAAATA
* *
64385454 TGGGAATTTTGCAATTTAGTCTAAAACTTTTTCCTTCCCCCGTTCGAGGT-TGATTCCAC
66 TGGGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTCCCCCGTTCGAGGTCT-ATTCCAC
* *
64385513 GAAATATAAGAATGTAAATGAAATTAATGTATTATTTACATACAAACTTACCTCGGTGCAAATTA
1 GAAATATAAGAATGTAAATGAAATTAATGTATTATTTACATACAAACTTACCTCAGTGCAAAATA
* *
64385578 TGGGAATTTTTCAATTTAGTCCAAAACTTTCTCCTTCCCCCGTTTGAGGTCTATTCCA
66 TGGGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTCCCCCGTTCGAGGTCTATTCCA
64385636 TGCCTTTCTT
Statistics
Matches: 115, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
124 114 0.99
125 1 0.01
ACGTcount: A:0.34, C:0.17, G:0.13, T:0.36
Consensus pattern (124 bp):
GAAATATAAGAATGTAAATGAAATTAATGTATTATTTACATACAAACTTACCTCAGTGCAAAATA
TGGGAATTTTGCAATTTAGTCCAAAACTTTCTCCTTCCCCCGTTCGAGGTCTATTCCAC
Found at i:64388007 original size:20 final size:21
Alignment explanation
Indices: 64387979--64388027 Score: 55
Period size: 22 Copynumber: 2.3 Consensus size: 21
64387969 ACCTCTCAAT
*
64387979 GCAAGACT-AGCATAGGTATC
1 GCAATACTAAGCATAGGTATC
* *
64387999 GCAATACTAAAGCATGGGTATT
1 GCAATACT-AAGCATAGGTATC
64388021 GCAATAC
1 GCAATAC
64388028 CAGTGTCGAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
20 7 0.29
22 17 0.71
ACGTcount: A:0.37, C:0.18, G:0.22, T:0.22
Consensus pattern (21 bp):
GCAATACTAAGCATAGGTATC
Found at i:64390332 original size:53 final size:54
Alignment explanation
Indices: 64390269--64390376 Score: 173
Period size: 53 Copynumber: 2.0 Consensus size: 54
64390259 CTATTAAATG
* *
64390269 AATACTTTATAATTCGATCCAACTCGATATTTG-TTTTCTGTTTCCCAAAATAA
1 AATACTTTATAATTCGATCCAACTCAATATTTGTTTTTCTATTTCCCAAAATAA
* *
64390322 AATACTTTATAATTCGATCCAAGTCAATATTTGTTTTTCTATTTCCTAAAATAA
1 AATACTTTATAATTCGATCCAACTCAATATTTGTTTTTCTATTTCCCAAAATAA
64390376 A
1 A
64390377 CTTTTCAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
53 31 0.62
54 19 0.38
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (54 bp):
AATACTTTATAATTCGATCCAACTCAATATTTGTTTTTCTATTTCCCAAAATAA
Found at i:64396334 original size:29 final size:28
Alignment explanation
Indices: 64396298--64396375 Score: 95
Period size: 29 Copynumber: 2.7 Consensus size: 28
64396288 TCATGAGATT
64396298 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
* *
64396328 -GCACTAAGTGTGTGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
64396355 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
64396376 GATTATTAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
27 5 0.12
29 33 0.80
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:64396593 original size:174 final size:174
Alignment explanation
Indices: 64396328--64396655 Score: 629
Period size: 174 Copynumber: 1.9 Consensus size: 174
64396318 AAATTGTACA
64396328 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* *
64396393 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACTTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64396458 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
64396502 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
64396567 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
64396632 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
64396656 ACCTTGAGTT
Statistics
Matches: 151, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
174 151 1.00
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:64404491 original size:29 final size:28
Alignment explanation
Indices: 64404455--64404532 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
64404445 TAATGAGATT
64404455 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
64404485 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
64404512 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
64404533 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:64404750 original size:174 final size:174
Alignment explanation
Indices: 64404485--64404812 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
64404475 AAATTGTACA
*
64404485 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
64404550 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGGCCTTACCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
64404615 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
* *
64404659 GCACTAAGTGTGTGAGTTTAAAGTGCATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
64404724 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
64404789 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
64404813 ACCTTGAGTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Done.