Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 225 of 444
Found at i:63362697 original size:29 final size:28
Alignment explanation
Indices: 63362632--63362703 Score: 110
Period size: 29 Copynumber: 2.5 Consensus size: 28
63362622 AAAATTGTAC
*
63362632 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGTCTGATTATAT
63362660 AGCACTAAGTGTGCGAG-CTGAATGTATAT
1 AGCACTAAGTGTGCGAGTCTG-AT-TATAT
63362689 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
63362704 GATTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 2 0.05
28 19 0.46
29 20 0.49
ACGTcount: A:0.29, C:0.14, G:0.28, T:0.29
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTCTGATTATAT
Found at i:63365692 original size:40 final size:40
Alignment explanation
Indices: 63365570--63365780 Score: 185
Period size: 40 Copynumber: 5.3 Consensus size: 40
63365560 TATTCGAATG
* * * * * * * *
63365570 ATATCCAGGCTACGTCCCGAAGGCTTTTATGCTAATAACT
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGTGACT
* * * * *
63365610 ATATCCGGACTAAAATCCAAAGGCATTTGTACGAGTTG-CT
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAG-TGACT
*
63365650 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGTGACT
* * * *
63365690 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGTGACT
* * * **
63365730 ATATCCGGGCTAAGACCCGAAGGC-CTTGTGCGAGTGGTT
1 ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGTGACT
63365769 ATATCC-GGCTAA
1 ATATCCGGGCTAA
63365781 ATCCCGAAGA
Statistics
Matches: 138, Mismatches: 31, Indels: 6
0.79 0.18 0.03
Matches are distributed among these distances:
38 6 0.04
39 16 0.12
40 115 0.83
41 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.24, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCAAAGGCATTTGTGCTAGTGACT
Found at i:63367473 original size:27 final size:27
Alignment explanation
Indices: 63367443--63367543 Score: 102
Period size: 27 Copynumber: 3.9 Consensus size: 27
63367433 AATCTCATAT
* * *
63367443 CTGTAGGCTAGTATTACTGAAATGCCC
1 CTGTAGGATAGAATTACTGAAATGCCA
*
63367470 CTGTAGGATAGAATTACTGAGATGCCA
1 CTGTAGGATAGAATTACTGAAATGCCA
*
63367497 CTGTAGG--A-AATTACT-AAGATGCCG
1 CTGTAGGATAGAATTACTGAA-ATGCCA
* *
63367521 CTGTAGGGTAGAATTACTAAAAT
1 CTGTAGGATAGAATTACTGAAAT
63367544 ACCCTTGGTT
Statistics
Matches: 63, Mismatches: 6, Indels: 10
0.80 0.08 0.13
Matches are distributed among these distances:
23 1 0.02
24 19 0.30
25 1 0.02
26 1 0.02
27 39 0.62
28 2 0.03
ACGTcount: A:0.33, C:0.16, G:0.24, T:0.28
Consensus pattern (27 bp):
CTGTAGGATAGAATTACTGAAATGCCA
Found at i:63367562 original size:27 final size:27
Alignment explanation
Indices: 63367532--63367925 Score: 302
Period size: 27 Copynumber: 14.7 Consensus size: 27
63367522 TGTAGGGTAG
* * **
63367532 AATTACTAAAATACCCTTGGTTTACAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * * *
63367559 AATTACCAAAATACCATCGATTAGCAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
63367586 AATTACCAAAATATCCC-TGGTTTGTAA
1 AATTACCAAAATA-CCCTTGATTTGTAA
* * *
63367613 AATTAACAAAATACCCTTGATTTAT-G
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
63367639 AATTACCGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * **
63367666 AA-TACCGAAATACCCTCGACCTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
63367692 AA-TACCGAAATACCCTTGACTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* *
63367718 AATTATCAAAATACCCTCGATTTGTAA
1 AATTACCAAAATACCCTTGATTTGTAA
* * *
63367745 AATTATCAAAATACCCCTGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
*
63367772 AATTACCAAAATACCC-TGATTTGGAA
1 AATTACCAAAATACCCTTGATTTGTAA
**
63367798 AATTA-CAGAAATACCCTTGATTTACAA
1 AATTACCA-AAATACCCTTGATTTGTAA
*
63367825 AATTA-TAGAAATACCCTTGACTTT-TAAA
1 AATTACCA-AAATACCCTTGA-TTTGT-AA
* * * *
63367853 AATTA-TAGAAATACCATTGGTTTGCAA
1 AATTACCA-AAATACCCTTGATTTGTAA
* * * *
63367880 AATTATCGAAATACCCTTGGTTTGTAG
1 AATTACCAAAATACCCTTGATTTGTAA
* *
63367907 ATTTACCAAAACACCCTTG
1 AATTACCAAAATACCCTTG
63367926 TAGGGTGAAA
Statistics
Matches: 309, Mismatches: 48, Indels: 20
0.82 0.13 0.05
Matches are distributed among these distances:
25 2 0.01
26 95 0.31
27 187 0.61
28 25 0.08
ACGTcount: A:0.40, C:0.20, G:0.10, T:0.30
Consensus pattern (27 bp):
AATTACCAAAATACCCTTGATTTGTAA
Found at i:63367671 original size:26 final size:26
Alignment explanation
Indices: 63367642--63367747 Score: 149
Period size: 26 Copynumber: 4.0 Consensus size: 26
63367632 ATTTATGAAT
63367642 TACCGAAATACCCTCGACCTGTAAAA
1 TACCGAAATACCCTCGACCTGTAAAA
63367668 TACCGAAATACCCTCGACCTGTAAAA
1 TACCGAAATACCCTCGACCTGTAAAA
* *
63367694 TACCGAAATACCCTTGACTTGTAAAA
1 TACCGAAATACCCTCGACCTGTAAAA
* * **
63367720 TTATCAAAATACCCTCGATTTGTAAAA
1 -TACCGAAATACCCTCGACCTGTAAAA
63367747 T
1 T
63367748 TATCAAAATA
Statistics
Matches: 73, Mismatches: 6, Indels: 2
0.90 0.07 0.02
Matches are distributed among these distances:
26 51 0.70
27 22 0.30
ACGTcount: A:0.39, C:0.25, G:0.10, T:0.25
Consensus pattern (26 bp):
TACCGAAATACCCTCGACCTGTAAAA
Found at i:63367698 original size:52 final size:53
Alignment explanation
Indices: 63367608--63367814 Score: 168
Period size: 53 Copynumber: 3.9 Consensus size: 53
63367598 ATCCCTGGTT
* * ** * * *
63367608 TGTAAAATTAACAAAATACCCTTGATTTATGAATTACCGAAATACCCTCGACC
1 TGTAAAATTACCAAAATACCCTCGACCTGTAAAATACCGAAATACCCTCGACC
* * *
63367661 TGTAAAA-TACCGAAATACCCTCGACCTGTAAAATACCGAAATACCCTTGACT
1 TGTAAAATTACCAAAATACCCTCGACCTGTAAAATACCGAAATACCCTCGACC
* ** * * **
63367713 TGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCAAAATACCC-CTGATT
1 TGTAAAATTACCAAAATACCCTCGACCTGTAAAA-TACCGAAATACCCTC-GACC
* ** * *
63367767 TGGAAAATTACCAAAATACCCT-GATTTGGAAAATTACAGAAATACCCT
1 TGTAAAATTACCAAAATACCCTCGACCTGTAAAA-TACCGAAATACCCT
63367815 TGATTTACAA
Statistics
Matches: 126, Mismatches: 24, Indels: 7
0.80 0.15 0.04
Matches are distributed among these distances:
52 42 0.33
53 50 0.40
54 34 0.27
ACGTcount: A:0.41, C:0.22, G:0.10, T:0.28
Consensus pattern (53 bp):
TGTAAAATTACCAAAATACCCTCGACCTGTAAAATACCGAAATACCCTCGACC
Found at i:63367881 original size:55 final size:52
Alignment explanation
Indices: 63367698--63367898 Score: 199
Period size: 55 Copynumber: 3.7 Consensus size: 52
63367688 GTAAAATACC
* * *
63367698 GAAATACCCTTGACTTGTAAAATTATCAAAATACCCTCGATTTGTAAAATTATCA
1 GAAATACCCTTGATTTGCAAAATTAT-AAAATACCCTTGATTT-TAAAATTAT-A
* * * * *
63367753 -AAATACCCCTGATTTGGAAAATTACCAAAATACCC-TGATTTGGAAAATTACA
1 GAAATACCCTTGATTTGCAAAATTA-TAAAATACCCTTGATTT-TAAAATTATA
*
63367805 GAAATACCCTTGATTTACAAAATTATAGAAATACCCTTGACTTTTAAAAATTATA
1 GAAATACCCTTGATTTGCAAAATTATA-AAATACCCTTGA-TTTT-AAAATTATA
* * *
63367860 GAAATACCATTGGTTTGCAAAATTATCGAAATACCCTTG
1 GAAATACCCTTGATTTGCAAAATTAT-AAAATACCCTTG
63367899 GTTTGTAGAT
Statistics
Matches: 122, Mismatches: 17, Indels: 14
0.80 0.11 0.09
Matches are distributed among these distances:
52 2 0.02
53 42 0.34
54 33 0.27
55 45 0.37
ACGTcount: A:0.41, C:0.17, G:0.10, T:0.31
Consensus pattern (52 bp):
GAAATACCCTTGATTTGCAAAATTATAAAATACCCTTGATTTTAAAATTATA
Found at i:63368223 original size:41 final size:41
Alignment explanation
Indices: 63368162--63368284 Score: 192
Period size: 41 Copynumber: 3.0 Consensus size: 41
63368152 GGAGGAAGAA
*
63368162 ATTAAGGATCGCATGGTTGCTTGACAACCGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
* * **
63368203 ATTGAGGATCGCATGGTTGCTTGATGACCGTGGATCCACAA
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
*
63368244 ATTAAGGATCGCATGGTTGCTTGACGATCGTGGATCCACCG
1 ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
63368285 GTGGCTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 72 1.00
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (41 bp):
ATTAAGGATCGCATGGTTGCTTGACGACCGTGGATCCACCG
Found at i:63368480 original size:21 final size:21
Alignment explanation
Indices: 63368430--63368490 Score: 86
Period size: 22 Copynumber: 2.9 Consensus size: 21
63368420 AATTATTTTG
* *
63368430 ATTATGGCTTTGCGCCAACCT
1 ATTATGGCTCTGTGCCAACCT
63368451 ATATATGGCTCTGTGCCAACCT
1 AT-TATGGCTCTGTGCCAACCT
*
63368473 ATTATGGCTGTGTGCCAA
1 ATTATGGCTCTGTGCCAA
63368491 ACGTATTTGC
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
21 17 0.47
22 19 0.53
ACGTcount: A:0.21, C:0.25, G:0.21, T:0.33
Consensus pattern (21 bp):
ATTATGGCTCTGTGCCAACCT
Found at i:63371654 original size:71 final size:71
Alignment explanation
Indices: 63371566--63371729 Score: 310
Period size: 71 Copynumber: 2.3 Consensus size: 71
63371556 GAGATGTATC
63371566 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
63371631 AGGACA
66 AGGACA
*
63371637 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
*
63371702 CGGACA
66 AGGACA
63371708 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
63371730 AGACAAATCG
Statistics
Matches: 91, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
71 91 1.00
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:63379181 original size:71 final size:69
Alignment explanation
Indices: 63379093--63379254 Score: 306
Period size: 71 Copynumber: 2.3 Consensus size: 69
63379083 GAGATGTATC
63379093 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCT-GGTCGCATGCGTGATTCCAAGTG-
63379158 AGGACA
64 AGGACA
63379164 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGTCGCATGCGTGATTCCAAGTGAG
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGTCGCATGCGTGATTCCAAGTGAG
63379229 GACA
66 GACA
63379233 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
63379255 AGACAAATCG
Statistics
Matches: 91, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
69 28 0.31
70 23 0.25
71 40 0.44
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTGGTCGCATGCGTGATTCCAAGTGAG
GACA
Found at i:63380790 original size:42 final size:43
Alignment explanation
Indices: 63380719--63380833 Score: 110
Period size: 42 Copynumber: 2.7 Consensus size: 43
63380709 TCTTACAGGT
63380719 AATCAAAAATCGATGCCACTGTCCCAGACAGGGTCCTACACAA
1 AATCAAAAATCGATGCCACTGTCCCAGACAGGGTCCTACACAA
* * * * *
63380762 AATCAAATAT-GATGCCAAC-GTCCTAGACATGGTCTTACACGTA
1 AATCAAAAATCGATGCC-ACTGTCCCAGACAGGGTCCTACAC-AA
** *
63380805 AATCTCAAATCAATGCCAAC-GTCCCAGAC
1 AATCAAAAATCGATGCC-ACTGTCCCAGAC
63380834 GTGGTCTTAT
Statistics
Matches: 59, Mismatches: 10, Indels: 5
0.80 0.14 0.07
Matches are distributed among these distances:
42 24 0.41
43 19 0.32
44 16 0.27
ACGTcount: A:0.37, C:0.29, G:0.15, T:0.20
Consensus pattern (43 bp):
AATCAAAAATCGATGCCACTGTCCCAGACAGGGTCCTACACAA
Found at i:63385217 original size:70 final size:69
Alignment explanation
Indices: 63385099--63385304 Score: 222
Period size: 70 Copynumber: 3.0 Consensus size: 69
63385089 CACTGTCGAA
* * * * * *
63385099 TACTTGATGTTTCGCATAGTAAGTGCCATAGCATAGCCGAAGCTATTATAATTTCGCACACTAAG
1 TACTCGATGTTTCACACACTAAGTGCCATCGCATAGTCGAAGCTATTATAA-TTCGCACACTAAG
*
63385164 TGCCT
65 TGCAT
* *
63385169 TACTCGATGTTTCACACACTAAATGCCATCGCATAGTCGAAGCTATTATAATTCTACACACTAAG
1 TACTCGATGTTTCACACACTAAGTGCCATCGCATAGTCGAAGCTATTATAATTC-GCACACTAAG
63385234 TGCAT
65 TGCAT
* * **
63385239 TACTCAATGTTTCGA-ACACTAAGTGCC-GCATATAGTCGAAGCTATCTCA-AA-TCGCACACTA
1 TACTCGATGTTTC-ACACACTAAGTGCCATCGCATAGTCGAAGCTAT-T-ATAATTCGCACACTA
63385300 AGTGC
63 AGTGC
63385305 TAAACTTTGT
Statistics
Matches: 117, Mismatches: 15, Indels: 10
0.82 0.11 0.07
Matches are distributed among these distances:
68 12 0.10
69 20 0.17
70 83 0.71
71 2 0.02
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (69 bp):
TACTCGATGTTTCACACACTAAGTGCCATCGCATAGTCGAAGCTATTATAATTCGCACACTAAGT
GCAT
Found at i:63395926 original size:47 final size:47
Alignment explanation
Indices: 63395872--63396249 Score: 564
Period size: 47 Copynumber: 8.1 Consensus size: 47
63395862 TTAGGATTTT
** * * *
63395872 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63395919 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63395966 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63396013 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63396060 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
63396107 ATGTGATGAATGTGAATATGCATATATGTGATAAGGCTGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63396154 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGG-CA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * *
63396200 ATGTGATGAACATG-GAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATG-A-ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
63396247 ATG
1 ATG
63396250 CGAAATGTGT
Statistics
Matches: 311, Mismatches: 17, Indels: 6
0.93 0.05 0.02
Matches are distributed among these distances:
46 32 0.10
47 276 0.89
48 3 0.01
ACGTcount: A:0.34, C:0.10, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:63395996 original size:25 final size:25
Alignment explanation
Indices: 63395967--63396091 Score: 76
Period size: 25 Copynumber: 5.2 Consensus size: 25
63395957 GAATGGCCAA
63395967 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
63395992 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
63396014 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
63396039 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
63396061 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
63396086 TGTGAT
1 TGTGAT
63396092 AAGGCCGAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 16 0.22
24 16 0.22
25 24 0.32
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:63396273 original size:46 final size:46
Alignment explanation
Indices: 63396223--63396405 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
63396213 GGAAGTGTAT
* *
63396223 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
63396269 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
63396315 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
* * * * **
63396361 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATG
63396406 TGTATATATA
Statistics
Matches: 129, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 129 1.00
ACGTcount: A:0.34, C:0.09, G:0.32, T:0.25
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
Found at i:63398643 original size:40 final size:40
Alignment explanation
Indices: 63398594--63398798 Score: 184
Period size: 40 Copynumber: 5.1 Consensus size: 40
63398584 CAGAGTTTAA
** *
63398594 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACATAAC
* *
63398634 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
* * * **
63398674 CCGGATTTAGTAACTTGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * **
63398714 CCGGATTTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGA-CATAAC
* * * *
63398754 CCGGATATAGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACATAAC
63398794 CCGGA
1 CCGGA
63398799 CATCATTCGA
Statistics
Matches: 146, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
39 4 0.03
40 131 0.90
41 11 0.08
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACATAAC
Found at i:63398725 original size:80 final size:82
Alignment explanation
Indices: 63398613--63398798 Score: 258
Period size: 80 Copynumber: 2.3 Consensus size: 82
63398603 GCTACTCGTT
*
63398613 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCC
1 CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCC
*
63398676 GGATTTAGTAACTT-GCA
65 GGATATAGTAACTTAGCA
* **
63398693 CAAATGCCTTC-GGATCTTAGTCCGGATT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCC
1 CAAATGCCTTCGGGA-CTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCC
*
63398756 GGATATAGTCACTTAGCA
65 GGATATAGTAACTTAGCA
63398774 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
63398799 CATCATTCGA
Statistics
Matches: 94, Mismatches: 7, Indels: 10
0.85 0.06 0.09
Matches are distributed among these distances:
79 6 0.06
80 76 0.81
81 12 0.13
ACGTcount: A:0.26, C:0.26, G:0.22, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCG
GATATAGTAACTTAGCA
Found at i:63401304 original size:40 final size:40
Alignment explanation
Indices: 63401249--63401525 Score: 509
Period size: 40 Copynumber: 6.9 Consensus size: 40
63401239 TGAGAGTTAT
63401249 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
63401289 ATATATCCGGGCTAAGTCCCGAAGAGCGTTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
* *
63401329 ATATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
63401369 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
*
63401409 ATAAATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
63401449 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
63401489 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTA
63401526 CTAAGTCCCG
Statistics
Matches: 227, Mismatches: 10, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 227 1.00
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
Found at i:63401465 original size:120 final size:120
Alignment explanation
Indices: 63401249--63401583 Score: 509
Period size: 120 Copynumber: 2.9 Consensus size: 120
63401239 TGAGAGTTAT
*
63401249 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGA
* *
63401314 GCGTTCGTGCTAGTGATATATCCGGGCTAAGTCTCAAAGAGCATTCGTGCTAGTG
66 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
*
63401369 ATGTATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGA
*
63401434 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTG
66 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
63401489 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC------T--A------CTAAGTCCCGAAGA
1 ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGA
* *
63401540 GCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAT
66 GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCAAAGAGCAT
63401584 GTAACACCCC
Statistics
Matches: 208, Mismatches: 7, Indels: 14
0.91 0.03 0.06
Matches are distributed among these distances:
106 57 0.27
112 1 0.00
114 1 0.00
120 149 0.72
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (120 bp):
ATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATAAATCCGGGCTAAGTCCCGAAGA
GCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCAAAGAGCATTCGTGCTAGTG
Found at i:63401532 original size:26 final size:26
Alignment explanation
Indices: 63401500--63401551 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
63401490 TATATCCGGG
*
63401500 CTAAGTCCCGAAGAGCATTCGTGCTA
1 CTAAGTCCCGAAGAGCATTCATGCTA
63401526 CTAAGTCCCGAAGAGCATTCATGCTA
1 CTAAGTCCCGAAGAGCATTCATGCTA
63401552 GTGATATATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (26 bp):
CTAAGTCCCGAAGAGCATTCATGCTA
Found at i:63401566 original size:66 final size:66
Alignment explanation
Indices: 63401460--63401583 Score: 239
Period size: 66 Copynumber: 1.9 Consensus size: 66
63401450 TATATCCGGG
*
63401460 CTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
1 CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
63401525 A
66 A
63401526 CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAT
1 CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCAT
63401584 GTAACACCCC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 57 1.00
ACGTcount: A:0.27, C:0.24, G:0.25, T:0.23
Consensus pattern (66 bp):
CTAAGTCCCGAAGAGCATTCATGCTAGTGATATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCT
A
Found at i:63403082 original size:29 final size:28
Alignment explanation
Indices: 63403048--63403150 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
63403038 TACTCAATCA
*
63403048 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
63403077 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
63403106 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
63403135 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
63403151 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:63404844 original size:40 final size:40
Alignment explanation
Indices: 63404789--63405221 Score: 758
Period size: 40 Copynumber: 10.8 Consensus size: 40
63404779 AGGCTGTCAC
*
63404789 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63404829 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63404869 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGACCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63404909 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63404949 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCTCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63404989 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63405029 AGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTCCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
* *
63405069 AGAGCATTCGTGCTAGTGATATATTCGGGCTAAGTCGCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
*
63405109 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCTCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
* *
63405149 AGAGCATTCATGCTAGTGATATATCCGGGCTAAGTGCCGA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
63405189 AGAGCATTCGTGCTAGTGATATATCCGGGCTAA
1 AGAGCATTCGTGCTAGTGATATATCCGGGCTAA
63405222 ACCTAGAAGG
Statistics
Matches: 376, Mismatches: 17, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 376 1.00
ACGTcount: A:0.24, C:0.21, G:0.29, T:0.26
Consensus pattern (40 bp):
AGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTCCCGA
Found at i:63405710 original size:17 final size:17
Alignment explanation
Indices: 63405688--63405720 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
63405678 GATTATGTAG
*
63405688 AAAAAATAAAAAATGAA
1 AAAAAAAAAAAAATGAA
63405705 AAAAAAAAAAAAATGA
1 AAAAAAAAAAAAATGA
63405721 GCATGGATGC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.06, T:0.09
Consensus pattern (17 bp):
AAAAAAAAAAAAATGAA
Found at i:63408176 original size:29 final size:28
Alignment explanation
Indices: 63408106--63408180 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 28
63408096 ATACTCGATT
* *
63408106 TCGCACACTTAGTGCCATGCGATTTAGC
1 TCGCACACTTAGTGCCATGCCATTGAGC
* ** *
63408134 CCGCACACACAGTGCCATGCCCTTCGAGC
1 TCGCACACTTAGTGCCATGCCATT-GAGC
63408163 TCGCACACTTAGTGCCAT
1 TCGCACACTTAGTGCCAT
63408181 ATATTTCCAG
Statistics
Matches: 37, Mismatches: 9, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
28 19 0.51
29 18 0.49
ACGTcount: A:0.21, C:0.36, G:0.20, T:0.23
Consensus pattern (28 bp):
TCGCACACTTAGTGCCATGCCATTGAGC
Found at i:63408197 original size:29 final size:29
Alignment explanation
Indices: 63408164--63408237 Score: 139
Period size: 29 Copynumber: 2.6 Consensus size: 29
63408154 CCTTCGAGCT
63408164 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
63408193 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
63408222 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
63408238 ATCTCGTCAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.31, G:0.15, T:0.27
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:63415773 original size:25 final size:25
Alignment explanation
Indices: 63415745--63415795 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
63415735 ATTCACATAG
63415745 CTAAATGAATCACTTTAGTAATACA
1 CTAAATGAATCACTTTAGTAATACA
63415770 CTAAATGAATCACTTTAGTAATACA
1 CTAAATGAATCACTTTAGTAATACA
63415795 C
1 C
63415796 ATTCTCATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (25 bp):
CTAAATGAATCACTTTAGTAATACA
Found at i:63416049 original size:40 final size:40
Alignment explanation
Indices: 63416005--63416207 Score: 194
Period size: 40 Copynumber: 5.1 Consensus size: 40
63415995 GGAATTTAGT
* * * *
63416005 CGGATATAACCACAAGCACAATTGCCTTCGCGTCTTAACC
1 CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
**** *
63416045 CGGAT-TTGGTATCTTGCACAAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCA-CTAGCACAAATGCCTTCGGGTCTTAGCC
* * *
63416085 CGGATATGACAACTCA-CACGAATGCCTTCGGGTCTTAGCC
1 CGGATATAACCACT-AGCACAAATGCCTTCGGGTCTTAGCC
* * * *
63416125 CGGATATAATCACTAGCATAAATGCCGTCGGGACTTAGCC
1 CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
** * *
63416165 CGGATATATTCACTAGCATAAATGCCTTCGGGACTTAGCC
1 CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
63416205 CGG
1 CGG
63416208 GTATCATTCA
Statistics
Matches: 135, Mismatches: 24, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.02
40 130 0.96
41 2 0.01
ACGTcount: A:0.26, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGCC
Found at i:63421872 original size:47 final size:47
Alignment explanation
Indices: 63421818--63422196 Score: 589
Period size: 47 Copynumber: 8.1 Consensus size: 47
63421808 TTAGGATTTT
** * * *
63421818 ATGTGATGAATGTGAATGTGTATATATGAGATAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63421865 ATGTGATGAATGTGAACATGCATATATGAGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63421912 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63421959 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63422006 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63422053 ATGTGATGAATGTGAACATGCATATATGTGATAAGGACGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
63422100 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * * * * *
63422147 ATGTGATGAAGGTGGAA-GTGTATATATGTGGTAAAGCCGAATGGCTA
1 ATGTGATGAATGT-GAACATGCATATATGTGATAAGGCCGAATGGCCA
63422194 ATG
1 ATG
63422197 CGAAATGTGT
Statistics
Matches: 314, Mismatches: 17, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
47 311 0.99
48 3 0.01
ACGTcount: A:0.34, C:0.11, G:0.30, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:63421942 original size:25 final size:25
Alignment explanation
Indices: 63421913--63422037 Score: 76
Period size: 25 Copynumber: 5.2 Consensus size: 25
63421903 GAATGGCCAA
63421913 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
63421938 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
63421960 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
* *
63421985 TGTGAT-AAGGCCG-A-ATGGCCA-A--
1 TGTGATGAATG-TGAACAT-G-CATATG
63422007 TGTGATGAATGTGAACATGCATATG
1 TGTGATGAATGTGAACATGCATATG
63422032 TGTGAT
1 TGTGAT
63422038 AAGGCCGAAT
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 18 0.24
23 16 0.22
24 16 0.22
25 24 0.32
ACGTcount: A:0.31, C:0.11, G:0.30, T:0.28
Consensus pattern (25 bp):
TGTGATGAATGTGAACATGCATATG
Found at i:63421965 original size:22 final size:22
Alignment explanation
Indices: 63421938--63422059 Score: 58
Period size: 22 Copynumber: 5.3 Consensus size: 22
63421928 CATGCATATG
63421938 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* *
63421960 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
63421983 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
* *
63422007 TGTGATGAATG-TGAACAT-G-CATA
1 TGTGAT-AAGGCCG-A-ATGGCCA-A
63422030 TGTGTGATAAGGCCGAATGGCCAA
1 --TGTGATAAGGCCGAATGGCCAA
63422054 TGTGAT
1 TGTGAT
63422060 GAATGTGAAC
Statistics
Matches: 74, Mismatches: 8, Indels: 36
0.63 0.07 0.31
Matches are distributed among these distances:
22 24 0.32
23 16 0.22
24 16 0.22
25 18 0.24
ACGTcount: A:0.31, C:0.13, G:0.30, T:0.25
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:63422226 original size:46 final size:46
Alignment explanation
Indices: 63422170--63422352 Score: 294
Period size: 46 Copynumber: 4.0 Consensus size: 46
63422160 GGAAGTGTAT
*
63422170 ATATGTGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
63422216 ATATGAGGTAAAGCCGAATGGCTAATGCGAAACGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
*
63422262 ATATGAGGTAAAGCTGAATGGCTAATGCGAAATGTGTATGAGATGG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
* * * * *
63422308 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATG
63422353 TGTCAATATA
Statistics
Matches: 127, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 127 1.00
ACGTcount: A:0.34, C:0.08, G:0.32, T:0.26
Consensus pattern (46 bp):
ATATGAGGTAAAGCCGAATGGCTAATGCGAAATGTGTATGAGATGG
Found at i:63425251 original size:86 final size:85
Alignment explanation
Indices: 63425094--63425263 Score: 202
Period size: 86 Copynumber: 2.0 Consensus size: 85
63425084 TGGAAAGCTC
* * * *
63425094 GTACAATGCCAATGTCCCAGGCGTGGTCTTACATGTAATCAAATATCGATACCACTGTCCCAGAC
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAACCAAATATCGATACCACTGTCCCAGAC
63425159 AGGGTCTTACACAAAATCAA
66 AGGGTCTTACACAAAATCAA
* * * *
63425179 GTACGATGCCAACGTCCTAGACGTGGTCTTACACGTAAACCATAA-GTCGATGCCAAC-GTCCCA
1 GTACAATGCCAACGTCCCAGACGTGGTCTTACACGT-AACCA-AATATCGATACC-ACTGTCCCA
*
63425242 GAC-GTGGTCTTACACGAAATCA
63 GACAG-GGTCTTACACAAAATCA
63425264 CATATCGGAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
85 32 0.44
86 36 0.50
87 4 0.06
ACGTcount: A:0.31, C:0.27, G:0.19, T:0.22
Consensus pattern (85 bp):
GTACAATGCCAACGTCCCAGACGTGGTCTTACACGTAACCAAATATCGATACCACTGTCCCAGAC
AGGGTCTTACACAAAATCAA
Found at i:63432479 original size:50 final size:50
Alignment explanation
Indices: 63432346--63432538 Score: 217
Period size: 50 Copynumber: 3.9 Consensus size: 50
63432336 ATCTATTGTG
* * *
63432346 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCAATAACTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAA-TT
*** * * **
63432397 CCATCAAGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT
* * *
63432447 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTGCCAGATAATT
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT
* * * *
63432497 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCA
1 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCA
63432539 GATAGCTTTG
Statistics
Matches: 116, Mismatches: 26, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
49 36 0.31
50 42 0.36
51 38 0.33
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.28
Consensus pattern (50 bp):
AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATAATT
Found at i:63436622 original size:93 final size:93
Alignment explanation
Indices: 63436513--63436684 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
63436503 CGCCCATAAG
* * *
63436513 CGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAAATCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
63436578 ACGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
* * * **
63436606 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCTGACTCAGCTCA
1 CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
63436671 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
63436685 TCAACCATCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAAATCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:63436681 original size:46 final size:46
Alignment explanation
Indices: 63436506--63436681 Score: 171
Period size: 46 Copynumber: 3.8 Consensus size: 46
63436496 TGTAACCCGC
* * * * *
63436506 CCATAAGCGAACTCAGACTCAACTCAATGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
63436552 CCATAAGTGAACTCGGACTCAAATCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
63436602 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
63436645 CCATAAGTGAACTCTGACTCAGCTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
63436682 TGCTCAACCA
Statistics
Matches: 105, Mismatches: 16, Indels: 18
0.76 0.12 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 58 0.55
47 28 0.27
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:63444078 original size:46 final size:46
Alignment explanation
Indices: 63444011--63444139 Score: 222
Period size: 46 Copynumber: 2.8 Consensus size: 46
63444001 TGTAACCCGC
* * * *
63444011 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGCCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
63444057 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
63444103 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
63444140 TGCTCAACCA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
46 79 1.00
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:63444158 original size:46 final size:45
Alignment explanation
Indices: 63444019--63444158 Score: 140
Period size: 46 Copynumber: 3.0 Consensus size: 45
63444009 GCCCATAAGC
* ** * *
63444019 GAACTCGGACTCAACTCAACGAGCTCGGCCGTTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
*** *
63444065 GAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T-AGT
63444111 GAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCTAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCTAGT
63444157 GA
1 GA
63444159 CATGTCACTT
Statistics
Matches: 85, Mismatches: 7, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
46 79 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.30, G:0.21, T:0.21
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCTAGT
Found at i:63449075 original size:40 final size:40
Alignment explanation
Indices: 63449016--63449223 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 40
63449006 CAATTGAATG
* * * *
63449016 ATATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * *
63449056 ATATCCGGGTTAAGACCCGAAGGCCA-TTGTGCTAGTGACT
1 ATATCCGGGCTAAGACCCGAAGG-CATTTGTGCAAGTAATT
* * **
63449096 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * **
63449136 AAATCCGGGCTAATACCCGAAGGCATTTGTGCAAGTCGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
* * * **
63449176 CTATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
63449216 ATATCCGG
1 ATATCCGG
63449224 TTGTATTCCG
Statistics
Matches: 142, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
39 2 0.01
40 138 0.97
41 2 0.01
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAATT
Found at i:63449154 original size:80 final size:80
Alignment explanation
Indices: 63449017--63449223 Score: 240
Period size: 80 Copynumber: 2.6 Consensus size: 80
63449007 AATTGAATGA
* * ** * * *
63449017 TATCCGGGCTAAGTCCCGAAGACATTTATGCTAGTAATTATATCCGGGTTAAGACCCGAAGGCCA
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGG-CA
*
63449082 -TTGTGCTAGT-G-AC
65 TTTGTGCAAGTCGTAC
* * *
63449095 TACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTAAATCCGGGCTAATACCCGAAGGC
1 T--ATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGC
*
63449160 ATTTGTGCAAGTCGTTC
64 ATTTGTGCAAGTCGTAC
* *
63449177 TATCCGGGCTAAGACCCGAAGGCATTCGTGCATGTGGTTATATCCGG
1 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGG
63449224 TTGTATTCCG
Statistics
Matches: 109, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
78 1 0.01
79 2 0.02
80 103 0.94
81 1 0.01
82 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.26, T:0.26
Consensus pattern (80 bp):
TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTAGTTATATCCGGGCTAAGACCCGAAGGCAT
TTGTGCAAGTCGTAC
Found at i:63453599 original size:7 final size:7
Alignment explanation
Indices: 63453587--63453613 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
63453577 GGTTTCCTCC
63453587 CCATTTA
1 CCATTTA
63453594 CCATTTA
1 CCATTTA
63453601 CCATTTA
1 CCATTTA
63453608 CCATTT
1 CCATTT
63453614 TTCATTTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.26, C:0.30, G:0.00, T:0.44
Consensus pattern (7 bp):
CCATTTA
Found at i:63453636 original size:16 final size:16
Alignment explanation
Indices: 63453617--63453662 Score: 62
Period size: 16 Copynumber: 3.0 Consensus size: 16
63453607 ACCATTTTTC
63453617 ATTTTTATTTATATTT
1 ATTTTTATTTATATTT
63453633 ATTTTTATTCTA-ATTT
1 ATTTTTATT-TATATTT
63453649 A-TTTTATTT-TATTT
1 ATTTTTATTTATATTT
63453663 TGTTTCTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
14 5 0.18
15 7 0.25
16 14 0.50
17 2 0.07
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (16 bp):
ATTTTTATTTATATTT
Found at i:63453656 original size:5 final size:5
Alignment explanation
Indices: 63453619--63453686 Score: 59
Period size: 5 Copynumber: 13.4 Consensus size: 5
63453609 CATTTTTCAT
* * * *
63453619 TTTTA -TTTA TATTTA TTTTTA TTCTA ATTTA TTTTA TTTTA TTTT- GTTTC
1 TTTTA TTTTA T-TTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA
63453669 TTTTA TTTTA CTTTTA TT
1 TTTTA TTTTA -TTTTA TT
63453687 ATTTTTCATA
Statistics
Matches: 51, Mismatches: 7, Indels: 10
0.75 0.10 0.15
Matches are distributed among these distances:
4 7 0.14
5 30 0.59
6 13 0.25
7 1 0.02
ACGTcount: A:0.19, C:0.04, G:0.01, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:63453691 original size:19 final size:19
Alignment explanation
Indices: 63453647--63453691 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
63453637 TTATTCTAAT
*
63453647 TTATTTTATTTTATTTTGT
1 TTATTTTATTTTATTTTGA
*
63453666 TTCTTTTATTTTACTTTT-A
1 TTATTTTATTTTA-TTTTGA
63453685 TTATTTT
1 TTATTTT
63453692 TCATATTAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.16, C:0.04, G:0.02, T:0.78
Consensus pattern (19 bp):
TTATTTTATTTTATTTTGA
Found at i:63453751 original size:13 final size:13
Alignment explanation
Indices: 63453733--63453761 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
63453723 ACTCTTTACT
63453733 GTTATTTTATTTA
1 GTTATTTTATTTA
63453746 GTTATTTTATTTA
1 GTTATTTTATTTA
63453759 GTT
1 GTT
63453762 TGGTTATTAT
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:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (13 bp):
GTTATTTTATTTA
Found at i:63456544 original size:40 final size:39
Alignment explanation
Indices: 63456499--63456628 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
63456489 CGGAATATAA
63456499 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
63456539 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
63456579 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
63456619 CCGGATATAA
1 CCGGATATAA
63456629 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:63456643 original size:40 final size:40
Alignment explanation
Indices: 63456515--63456666 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
63456505 ATAACCATGT
* * *
63456515 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
63456555 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
63456595 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
63456635 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
63456667 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:63456649 original size:80 final size:80
Alignment explanation
Indices: 63456515--63456664 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
63456505 ATAACCATGT
*
63456515 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
63456579 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
63456595 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
63456658 CCCGGAT
64 CCCGGAT
63456665 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:63464474 original size:40 final size:40
Alignment explanation
Indices: 63464429--63464558 Score: 131
Period size: 40 Copynumber: 3.2 Consensus size: 40
63464419 CGGAATATAA
63464429 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
* ** * *
63464469 CCGGATAGAA-TGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCATGT-GCACAAATGCCTTCGGGTCTTAGC
* * * *
63464509 CCGGATGTAGCCACTAGT--ACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-T-GTGCACAAATGCCTTCGGGTCTTAGC
63464549 CCGGATATAA
1 CCGGATATAA
63464559 TTTCCAGCAT
Statistics
Matches: 70, Mismatches: 16, Indels: 8
0.74 0.17 0.09
Matches are distributed among these distances:
39 2 0.03
40 66 0.94
42 1 0.01
43 1 0.01
ACGTcount: A:0.24, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
Found at i:63464573 original size:40 final size:40
Alignment explanation
Indices: 63464445--63464596 Score: 139
Period size: 40 Copynumber: 3.8 Consensus size: 40
63464435 ATAACCATGT
* * *
63464445 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
63464485 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* * *
63464525 GTACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
63464565 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
63464597 CATTCAATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 8
0.77 0.16 0.07
Matches are distributed among these distances:
39 2 0.02
40 84 0.94
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:63464579 original size:80 final size:80
Alignment explanation
Indices: 63464447--63464594 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
63464437 AACCATGTGC
*
63464447 ACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGCCC
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGCCC
63464511 GGATGTAGCCACTAGT
65 GGATGTAGCCACTAGT
* * * * *
63464527 ACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAGCC
1 ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAGCC
63464590 CGGAT
64 CGGAT
63464595 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 6
0.83 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 55 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
ACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCCCG
GATGTAGCCACTAGT
Found at i:63473246 original size:14 final size:13
Alignment explanation
Indices: 63473221--63473262 Score: 59
Period size: 14 Copynumber: 3.2 Consensus size: 13
63473211 GTTCTTTCCC
63473221 TTTCTTTCTTTCT
1 TTTCTTTCTTTCT
*
63473234 TTTTTTTCGTTTCT
1 TTTCTTTC-TTTCT
63473248 TTTCTTTC-TTCT
1 TTTCTTTCTTTCT
63473260 TTT
1 TTT
63473263 AACTCCTTCG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 7 0.27
13 7 0.27
14 12 0.46
ACGTcount: A:0.00, C:0.19, G:0.02, T:0.79
Consensus pattern (13 bp):
TTTCTTTCTTTCT
Found at i:63477369 original size:87 final size:87
Alignment explanation
Indices: 63477210--63477374 Score: 242
Period size: 87 Copynumber: 1.9 Consensus size: 87
63477200 AGGCTAAGTG
* * * *
63477210 TAACACCCCTAACTCGTATCCATCGCTGGAATAGGGTTACGGAGCATTATCGAGCTTAGAACACA
1 TAACACCCCTAACCCGTATCCATCGCTGGAAGAGGGTTACGGAGCATTACCGAACTTAGAACACA
*
63477275 ATTGAACATACATAAATAAATA
66 ATCGAACATACATAAATAAATA
* * *
63477297 TAACACCCCTAACCCGTATCCATTG-TCGGAAGAGGGTTACGGAGCATTACCGAACTTATAACAT
1 TAACACCCCTAACCCGTATCCATCGCT-GGAAGAGGGTTACGGAGCATTACCGAACTTAGAACAC
63477361 AATCGAACATACAT
65 AATCGAACATACAT
63477375 TTCACATACA
Statistics
Matches: 69, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
86 1 0.01
87 68 0.99
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (87 bp):
TAACACCCCTAACCCGTATCCATCGCTGGAAGAGGGTTACGGAGCATTACCGAACTTAGAACACA
ATCGAACATACATAAATAAATA
Found at i:63481952 original size:29 final size:29
Alignment explanation
Indices: 63481913--63481989 Score: 118
Period size: 29 Copynumber: 2.7 Consensus size: 29
63481903 CATTATATTC
*
63481913 ATATGGCCCATTAGGCCCAAATCACCTGT
1 ATATGGCCCATTAGGCCCAAATCACATGT
* *
63481942 ATATGGCCCATTAGGTCCAAATCACATTT
1 ATATGGCCCATTAGGCCCAAATCACATGT
*
63481971 ATATGGCCCGTTAGGCCCA
1 ATATGGCCCATTAGGCCCA
63481990 GTCACATTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 43 1.00
ACGTcount: A:0.27, C:0.29, G:0.18, T:0.26
Consensus pattern (29 bp):
ATATGGCCCATTAGGCCCAAATCACATGT
Found at i:63485367 original size:27 final size:26
Alignment explanation
Indices: 63485319--63485378 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
63485309 GCGAAGCTGC
*
63485319 CAGATATTGTGACGAAGTCACCAGATA
1 CAGATATTGTGACGAAGCCACCAGA-A
* * *
63485346 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
63485372 CAGATAT
1 CAGATAT
63485379 ATATATATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.35, C:0.20, G:0.23, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:63485382 original size:2 final size:2
Alignment explanation
Indices: 63485375--63485400 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
63485365 ACCAGAACAG
63485375 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
63485401 GTGGCGAAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63485481 original size:27 final size:26
Alignment explanation
Indices: 63485434--63485484 Score: 66
Period size: 27 Copynumber: 1.9 Consensus size: 26
63485424 CGAGGCTGCT
*
63485434 AGATATTGTGACGAAGTCACCAGAAC
1 AGATATTGTGACGAAGCCACCAGAAC
* *
63485460 AGATATATGTGGCGAGGCCACCAGA
1 AGATAT-TGTGACGAAGCCACCAGA
63485485 TTACAGCGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 6 0.29
27 15 0.71
ACGTcount: A:0.35, C:0.20, G:0.27, T:0.18
Consensus pattern (26 bp):
AGATATTGTGACGAAGCCACCAGAAC
Found at i:63486111 original size:26 final size:26
Alignment explanation
Indices: 63486082--63486145 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
63486072 TCATACAAGT
*
63486082 TAGTCATTTACGCACGAGGGGCAAAA
1 TAGTCATTTACACACGAGGGGCAAAA
* *
63486108 TAGTCATTTAACACCCTAGGGGCAAAA
1 TAGTCATTT-ACACACGAGGGGCAAAA
* *
63486135 TGGTAATTTAC
1 TAGTCATTTAC
63486146 CCCACAAGGG
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 11 0.34
27 21 0.66
ACGTcount: A:0.34, C:0.19, G:0.22, T:0.25
Consensus pattern (26 bp):
TAGTCATTTACACACGAGGGGCAAAA
Found at i:63486173 original size:27 final size:27
Alignment explanation
Indices: 63486136--63486253 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
63486126 GGGGCAAAAT
* *
63486136 GGTAATT-TACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63486162 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63486189 GGTATTTCTACCCTACAAGGGTATTTA
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
63486216 GGTAATTCTATCCTATAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
63486243 AGTAATTCTAC
1 GGTAATTCTAC
63486254 AACTTATCCA
Statistics
Matches: 77, Mismatches: 14, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
26 7 0.09
27 70 0.91
ACGTcount: A:0.25, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:63486252 original size:54 final size:54
Alignment explanation
Indices: 63486137--63486253 Score: 155
Period size: 54 Copynumber: 2.2 Consensus size: 54
63486127 GGGCAAAATG
* **
63486137 GTAATT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTG
1 GTAATTCTACCCCACAAGGGTATCTAGGTAATTCTACCCTACAGGGGTATTTCA
* * * * *
63486190 GTATTTCTACCCTACAAGGGTATTTAGGTAATTCTATCCTATAGGGGTATTTCA
1 GTAATTCTACCCCACAAGGGTATCTAGGTAATTCTACCCTACAGGGGTATTTCA
63486244 GTAATTCTAC
1 GTAATTCTAC
63486254 AACTTATCCA
Statistics
Matches: 54, Mismatches: 9, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
53 5 0.09
54 49 0.91
ACGTcount: A:0.26, C:0.20, G:0.19, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCCACAAGGGTATCTAGGTAATTCTACCCTACAGGGGTATTTCA
Found at i:63494180 original size:40 final size:40
Alignment explanation
Indices: 63494135--63494301 Score: 149
Period size: 40 Copynumber: 4.2 Consensus size: 40
63494125 CGGAATATAA
*
63494135 CCGGATTTAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * * * *
63494175 CCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGT
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * *
63494215 CCGGATATAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * ** *
63494255 CCGGATATAATTTCCAGCATAGTTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
63494294 CCGGATAT
1 CCGGATAT
63494302 CATTCAATTT
Statistics
Matches: 101, Mismatches: 25, Indels: 3
0.78 0.19 0.02
Matches are distributed among these distances:
39 14 0.14
40 87 0.86
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:63496188 original size:70 final size:71
Alignment explanation
Indices: 63496105--63496267 Score: 319
Period size: 71 Copynumber: 2.3 Consensus size: 71
63496095 CGATTTGTCT
63496105 CGTAGCTCTCTTGTCTACATGGTGTCC-TCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
63496169 CTTTCA
66 CTTTCA
63496175 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
63496240 CTTTCA
66 CTTTCA
63496246 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
63496268 GATACATCTC
Statistics
Matches: 92, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
70 27 0.29
71 65 0.71
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:63496305 original size:71 final size:70
Alignment explanation
Indices: 63496105--63496301 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
63496095 CGATTTGTCT
* * *
63496105 CGTAGCTCTCTTGTCTACATGGTGT-CCTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
63496169 CTTTCA
65 CTTTCA
* * * *
63496175 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
63496240 CTTTCA
65 CTTTCA
* *
63496246 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
63496302 TACAGGGTGT
Statistics
Matches: 118, Mismatches: 7, Indels: 6
0.90 0.05 0.05
Matches are distributed among these distances:
68 22 0.19
69 1 0.01
70 26 0.22
71 69 0.58
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:63503460 original size:39 final size:39
Alignment explanation
Indices: 63503403--63503563 Score: 168
Period size: 40 Copynumber: 4.1 Consensus size: 39
63503393 TGAATGATAC
* * *
63503403 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TCATAT
* *
63503443 CC-GGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTCATAT
* *
63503482 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--CATAT
* *
63503522 CCGGGTTAAGACCCGAAGGCAATTGTGCT-GTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTCATAT
63503560 CCGG
1 CCGG
63503564 TTAAATTTCG
Statistics
Matches: 102, Mismatches: 12, Indels: 16
0.78 0.09 0.12
Matches are distributed among these distances:
38 10 0.10
39 31 0.30
40 58 0.57
41 3 0.03
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.24
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTCATAT
Found at i:63508953 original size:40 final size:39
Alignment explanation
Indices: 63508803--63508955 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
63508793 GAATGTTCGA
*
63508803 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
63508842 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
63508881 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
63508920 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
63508956 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:63508971 original size:40 final size:39
Alignment explanation
Indices: 63508804--63508986 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
63508794 AATGTTCGAG
* *
63508804 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
63508843 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
63508882 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
63508921 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
63508961 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
63508987 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:63516430 original size:40 final size:39
Alignment explanation
Indices: 63516280--63516432 Score: 252
Period size: 39 Copynumber: 3.9 Consensus size: 39
63516270 GAATGTTCGA
*
63516280 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
63516319 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
*
63516358 ATGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
1 GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
* *
63516397 GTGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 GTGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCG
63516433 GGTTACCATA
Statistics
Matches: 106, Mismatches: 7, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 89 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (39 bp):
GTGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTT
Found at i:63516448 original size:40 final size:39
Alignment explanation
Indices: 63516281--63516463 Score: 249
Period size: 39 Copynumber: 4.6 Consensus size: 39
63516271 AATGTTCGAG
* *
63516281 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
63516320 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGCTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
63516359 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
63516398 TGATATCCGGGTTAAGTCCCGAAGGCATTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
63516438 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
63516464 GTTTGAACGA
Statistics
Matches: 129, Mismatches: 14, Indels: 1
0.90 0.10 0.01
Matches are distributed among these distances:
39 88 0.68
40 41 0.32
ACGTcount: A:0.23, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:63522225 original size:40 final size:39
Alignment explanation
Indices: 63522170--63522332 Score: 177
Period size: 40 Copynumber: 4.1 Consensus size: 39
63522160 TGAATGATAC
* * *
63522170 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTG-TCATAT
* *
63522210 CCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATT-GTGCTAG-TGTCATAT
* *
63522250 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGT-TACCAAAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGT--CATAT
* * *
63522290 CCGGGTTAAGACCCGAAGGCAATTGTGCTTGTGTTATAT
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTCATAT
63522329 CCGG
1 CCGG
63522333 TTAAATCCCG
Statistics
Matches: 104, Mismatches: 13, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
38 1 0.01
39 10 0.10
40 87 0.84
41 6 0.06
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (39 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGTCATAT
Found at i:63522303 original size:80 final size:79
Alignment explanation
Indices: 63522170--63522332 Score: 211
Period size: 80 Copynumber: 2.1 Consensus size: 79
63522160 TGAATGATAC
* * * * *
63522170 CCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGATCATATCCGGGCTAAGACCCGAAGGC-ATTC
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATT-
63522234 GTGCGAGTTGTTATAT
65 GTGCGAG-TGTTATAT
* * *
63522250 CCGGGCTAAGACCCGAAGGCAATTGTGCAAGTTACCAAATCCGGGTTAAGACCCGAAGGCAATTG
1 CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
**
63522315 TGCTTGTGTTATAT
66 TGCGAGTGTTATAT
63522329 CCGG
1 CCGG
63522333 TTAAATCCCG
Statistics
Matches: 72, Mismatches: 10, Indels: 3
0.85 0.12 0.04
Matches are distributed among these distances:
79 12 0.17
80 57 0.79
81 3 0.04
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGACCCGAAGGCAATTATGCAAGTGACCAAATCCGGGCTAAGACCCGAAGGCAATTG
TGCGAGTGTTATAT
Found at i:63529677 original size:20 final size:19
Alignment explanation
Indices: 63529652--63529692 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
63529642 ACTAAAATCT
63529652 AACCTAAAA-AGAAAATAGAA
1 AACCTAAAATA-AAAAT-GAA
63529672 AACCTAAAATAAAAATGAA
1 AACCTAAAATAAAAATGAA
63529691 AA
1 AA
63529693 GAAAAACCCT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 5 0.25
20 14 0.70
21 1 0.05
ACGTcount: A:0.71, C:0.10, G:0.07, T:0.12
Consensus pattern (19 bp):
AACCTAAAATAAAAATGAA
Found at i:63529698 original size:25 final size:26
Alignment explanation
Indices: 63529656--63529705 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
63529646 AAATCTAACC
*
63529656 TAAAAAGAAAATAGAAAA-CCTAAAA
1 TAAAAAGAAAAGAGAAAACCCTAAAA
63529681 TAAAAATGAAAAGA-AAAACCCTAAA
1 TAAAAA-GAAAAGAGAAAACCCTAAA
63529706 CCTAACCTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.70, C:0.10, G:0.08, T:0.12
Consensus pattern (26 bp):
TAAAAAGAAAAGAGAAAACCCTAAAA
Found at i:63529992 original size:21 final size:21
Alignment explanation
Indices: 63529966--63530021 Score: 85
Period size: 21 Copynumber: 2.7 Consensus size: 21
63529956 TGGGGTCTCG
*
63529966 GTATCGCGATACCCATCCTCA
1 GTATCGCGATACCAATCCTCA
*
63529987 GTATCGCGATACCAATCCTTA
1 GTATCGCGATACCAATCCTCA
*
63530008 GTATCGCAATACCA
1 GTATCGCGATACCA
63530022 TTGTAGGTGG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.29, C:0.32, G:0.14, T:0.25
Consensus pattern (21 bp):
GTATCGCGATACCAATCCTCA
Found at i:63531586 original size:44 final size:43
Alignment explanation
Indices: 63531532--63531668 Score: 213
Period size: 42 Copynumber: 3.1 Consensus size: 43
63531522 TTAAGCCCGG
* *
63531532 ATATAGTACCAGCACTAAGCCTGCGGGATTTAACCCGAATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCG-ATATAT
63531576 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGA-ATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGATATAT
*
63531618 ATATATTACCAGCACGAAGCCTGCGGAATTTAACCCGGATATAT
1 ATATATTACCAGCACGAAGCCTGCGGGATTTAACCC-GATATAT
63531662 AATATAT
1 -ATATAT
63531669 CGAGTGCTAA
Statistics
Matches: 87, Mismatches: 3, Indels: 5
0.92 0.03 0.05
Matches are distributed among these distances:
42 39 0.45
43 3 0.03
44 39 0.45
45 6 0.07
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (43 bp):
ATATATTACCAGCACGAAGCCTGCGGGATTTAACCCGATATAT
Found at i:63532894 original size:49 final size:49
Alignment explanation
Indices: 63532730--63532951 Score: 243
Period size: 49 Copynumber: 4.5 Consensus size: 49
63532720 TGGGGTCGCA
* * * * *
63532730 TGTGTAGTAATAAGTGCAGGCTACTATGCGTACCT-GAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CTGGATAA-T-TGGTCACG
* **
63532781 TGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTTTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-GGAT-AATTGGTCACG
*
63532831 TGTGTAGTACTAAGT-CTAGGCTACTACGTATACTGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGC-AGGCTACTACGTGTACTGGATAATTGGTCACG
* * *
63532880 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
* *
63532929 AGTGTAGTACTATGTGCAGGCTA
1 TGTGTAGTACTAAGTGCAGGCTA
63532952 TTATGCGTAC
Statistics
Matches: 148, Mismatches: 17, Indels: 14
0.83 0.09 0.08
Matches are distributed among these distances:
49 75 0.51
50 40 0.27
51 33 0.22
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATAATTGGTCACG
Found at i:63535967 original size:15 final size:14
Alignment explanation
Indices: 63535942--63536014 Score: 76
Period size: 15 Copynumber: 5.0 Consensus size: 14
63535932 CATAGTATCG
63535942 TATCTTGGGTTTCTT
1 TATC-TGGGTTTCTT
63535957 TACTCTGGGTTTCTT
1 TA-TCTGGGTTTCTT
*
63535972 TATTCTGGGTTTCTC
1 TA-TCTGGGTTTCTT
*
63535987 TATCTTGGATTTCTT
1 TATC-TGGGTTTCTT
*
63536002 TAT-TGGTTTTCTT
1 TATCTGGGTTTCTT
63536015 GTTATCTTTA
Statistics
Matches: 51, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
13 9 0.18
14 2 0.04
15 38 0.75
16 2 0.04
ACGTcount: A:0.08, C:0.15, G:0.18, T:0.59
Consensus pattern (14 bp):
TATCTGGGTTTCTT
Found at i:63535981 original size:30 final size:30
Alignment explanation
Indices: 63535947--63536005 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
63535937 TATCGTATCT
* *
63535947 TGGGTTTCTTTA-CTCTGGGTTTCTTTATTC
1 TGGGTTTCTCTATCT-TGGATTTCTTTATTC
63535977 TGGGTTTCTCTATCTTGGATTTCTTTATT
1 TGGGTTTCTCTATCTTGGATTTCTTTATT
63536006 GGTTTTCTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
30 24 0.92
31 2 0.08
ACGTcount: A:0.08, C:0.15, G:0.19, T:0.58
Consensus pattern (30 bp):
TGGGTTTCTCTATCTTGGATTTCTTTATTC
Found at i:63537850 original size:49 final size:49
Alignment explanation
Indices: 63537675--63537920 Score: 278
Period size: 49 Copynumber: 5.0 Consensus size: 49
63537665 TCTATTGTAA
* * * *
63537675 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTA-AAAACTGT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGATAA-T-T
* * * * **
63537726 GATCACGTGTGTAGTACTAAGTGCAGGCTACTACATGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
63537775 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* *
63537825 GGTCACATGTGTAGTACTAACTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
* * * * *
63537874 GGTCGCAAGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA
63537921 CTTTGGCTAC
Statistics
Matches: 168, Mismatches: 25, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
49 88 0.52
50 45 0.27
51 35 0.21
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT
Found at i:63540480 original size:28 final size:26
Alignment explanation
Indices: 63540439--63540553 Score: 131
Period size: 27 Copynumber: 4.3 Consensus size: 26
63540429 TGGAGGAAGC
63540439 GTTCTGGTGGCTATGCCACAAATATCT
1 GTTCTGGTGGCTATGCCAC-AATATCT
*
63540466 GTTTCTGGTGGCTATGCCACAAACATCT
1 G-TTCTGGTGGCTATGCCAC-AATATCT
* *
63540494 GTTCTGATGGCTCTGCCACAATATCT
1 GTTCTGGTGGCTATGCCACAATATCT
* * * *
63540520 GTATCTAGTGACTCTGTCACAATATCT
1 GT-TCTGGTGGCTATGCCACAATATCT
63540547 GTTCTGG
1 GTTCTGG
63540554 CAGCCATGCT
Statistics
Matches: 77, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
26 12 0.16
27 39 0.51
28 26 0.34
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (26 bp):
GTTCTGGTGGCTATGCCACAATATCT
Found at i:63542204 original size:10 final size:10
Alignment explanation
Indices: 63542180--63542238 Score: 75
Period size: 10 Copynumber: 5.8 Consensus size: 10
63542170 AAACGAGTTC
63542180 ATTGAGCTAGA
1 ATTGAGCT-GA
63542191 ATTGAGCTGA
1 ATTGAGCTGA
63542201 ATTGAGCTGA
1 ATTGAGCTGA
*
63542211 ATTGAGCTCA
1 ATTGAGCTGA
63542221 A-TGAGCTAGA
1 ATTGAGCT-GA
*
63542231 TTTGAGCT
1 ATTGAGCT
63542239 AGGTCAACTT
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
9 6 0.14
10 23 0.53
11 14 0.33
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (10 bp):
ATTGAGCTGA
Found at i:63542214 original size:20 final size:21
Alignment explanation
Indices: 63542180--63542238 Score: 86
Period size: 20 Copynumber: 2.9 Consensus size: 21
63542170 AAACGAGTTC
*
63542180 ATTGAGCTAGAATTGAGCTGA
1 ATTGAGCTAGAATTGAGCTCA
63542201 ATTGAGCT-GAATTGAGCTCA
1 ATTGAGCTAGAATTGAGCTCA
*
63542221 A-TGAGCTAGATTTGAGCT
1 ATTGAGCTAGAATTGAGCT
63542239 AGGTCAACTT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
19 6 0.17
20 21 0.60
21 8 0.23
ACGTcount: A:0.31, C:0.12, G:0.27, T:0.31
Consensus pattern (21 bp):
ATTGAGCTAGAATTGAGCTCA
Found at i:63544173 original size:15 final size:16
Alignment explanation
Indices: 63544155--63544188 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 16
63544145 GCACACTTTC
63544155 TTCCTTTTC-ACTCAT
1 TTCCTTTTCAACTCAT
63544170 TTCCTTTTCTAACTCAT
1 TTCCTTTTC-AACTCAT
63544187 TT
1 TT
63544189 TCAAACTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 9 0.53
17 8 0.47
ACGTcount: A:0.15, C:0.29, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCCTTTTCAACTCAT
Found at i:63544368 original size:12 final size:12
Alignment explanation
Indices: 63544353--63544396 Score: 61
Period size: 12 Copynumber: 3.7 Consensus size: 12
63544343 CAAATCTTTC
* *
63544353 TCTTTTTCAACT
1 TCTTTTTCGATT
*
63544365 TCTTTTTTGATT
1 TCTTTTTCGATT
63544377 TCTTTTTCGATT
1 TCTTTTTCGATT
63544389 TCTTTTTC
1 TCTTTTTC
63544397 TTTGACTCCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 28 1.00
ACGTcount: A:0.09, C:0.18, G:0.05, T:0.68
Consensus pattern (12 bp):
TCTTTTTCGATT
Found at i:63546415 original size:38 final size:38
Alignment explanation
Indices: 63546350--63546443 Score: 152
Period size: 38 Copynumber: 2.4 Consensus size: 38
63546340 TCAATCATGC
* *
63546350 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATATTTCATATTTCATAAT
*
63546389 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
63546427 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
63546444 ACTGTAAACG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 41 0.79
39 11 0.21
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATATTTCATATTTCATAAT
Found at i:63546681 original size:24 final size:24
Alignment explanation
Indices: 63546635--63546729 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
63546625 GCTTTATCAT
*
63546635 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
63546660 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
63546684 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
63546707 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63546730 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63546714 original size:47 final size:49
Alignment explanation
Indices: 63546635--63546728 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
63546625 GCTTTATCAT
*
63546635 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
63546684 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
63546729 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:63546805 original size:20 final size:20
Alignment explanation
Indices: 63546780--63546839 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
63546770 TATGATTACC
63546780 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
63546800 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
63546820 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
63546840 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:63554699 original size:31 final size:31
Alignment explanation
Indices: 63554657--63554770 Score: 147
Period size: 31 Copynumber: 3.5 Consensus size: 31
63554647 CCTTTTCGTA
63554657 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCAT
1 TTTCATATTTCATAATACTGGGCCGAAG-C----C-T
63554694 GTTTCATATTTCATAATACTGGGCCGAAGCCT
1 -TTTCATATTTCATAATACTGGGCCGAAGCCT
*
63554726 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCATAATACTGGGCCGAAGCCT
*
63554757 TTTCATGTTTCATA
1 TTTCATATTTCATA
63554771 TTTCATAATA
Statistics
Matches: 74, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
31 43 0.58
32 1 0.01
33 1 0.01
37 1 0.01
38 28 0.38
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.40
Consensus pattern (31 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCT
Found at i:63554699 original size:38 final size:38
Alignment explanation
Indices: 63554634--63554796 Score: 232
Period size: 38 Copynumber: 4.4 Consensus size: 38
63554624 TCAATCATGC
* * *
63554634 ACTGGGCCGTAGCCCTTTTCGTATTTCATATTTCATAAT
1 ACTGGGCCGAAG-CCTTTTCATGTTTCATATTTCATAAT
63554673 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
*
63554711 ACTGGGCCGAAG-C----C-T-TTTCATATTTCATATT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
63554742 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
1 ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
63554780 ACTGGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
63554797 ACTGTAAACG
Statistics
Matches: 112, Mismatches: 5, Indels: 15
0.85 0.04 0.11
Matches are distributed among these distances:
31 27 0.24
32 2 0.02
33 1 0.01
36 1 0.01
37 2 0.02
38 68 0.61
39 11 0.10
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.38
Consensus pattern (38 bp):
ACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAAT
Found at i:63554768 original size:69 final size:69
Alignment explanation
Indices: 63554657--63554796 Score: 271
Period size: 69 Copynumber: 2.0 Consensus size: 69
63554647 CCTTTTCGTA
63554657 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
63554722 GCCT
66 GCCT
*
63554726 TTTCATATTTCATATTACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
1 TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
63554791 GCCT
66 GCCT
63554795 TT
1 TT
63554797 ACTGTAAACG
Statistics
Matches: 70, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 70 1.00
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.39
Consensus pattern (69 bp):
TTTCATATTTCATAATACTGGGCCGAAGCCTTTTCATGTTTCATATTTCATAATACTGGGCCGAA
GCCT
Found at i:63555034 original size:24 final size:24
Alignment explanation
Indices: 63554988--63555082 Score: 124
Period size: 24 Copynumber: 4.0 Consensus size: 24
63554978 GCTTTATCAT
*
63554988 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
*
63555013 ATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGGG-CATAAGCCCTTTTA
63555037 ATAACTGGGGCATAAGCCCTTTT-
1 ATAACTGGGGCATAAGCCCTTTTA
63555060 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
63555083 TCACTTCCTC
Statistics
Matches: 64, Mismatches: 3, Indels: 8
0.85 0.04 0.11
Matches are distributed among these distances:
23 25 0.39
24 26 0.41
25 13 0.20
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.28
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:63555067 original size:47 final size:49
Alignment explanation
Indices: 63554988--63555081 Score: 133
Period size: 47 Copynumber: 2.0 Consensus size: 49
63554978 GCTTTATCAT
*
63554988 ATAACTGGAGGCCTAGCCTCTTTTAATAACTGGGGCCA-AAGCCCTTTCA
1 ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGG-CATAAGCCCTTTCA
63555037 ATAACTGG-GGCATAAGCC-CTTTT-ATAACTGGGGCATAAGCCCTTT
1 ATAACTGGAGGCAT-AGCCTCTTTTAATAACTGGGGCATAAGCCCTTT
63555082 TTCACTTCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
46 2 0.05
47 19 0.45
48 9 0.21
49 12 0.29
ACGTcount: A:0.27, C:0.24, G:0.21, T:0.28
Consensus pattern (49 bp):
ATAACTGGAGGCATAGCCTCTTTTAATAACTGGGGCATAAGCCCTTTCA
Found at i:63555158 original size:20 final size:20
Alignment explanation
Indices: 63555133--63555192 Score: 102
Period size: 20 Copynumber: 3.0 Consensus size: 20
63555123 TATGATTACC
63555133 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
* *
63555153 TCATGTGCGTATCATACATT
1 TCATGTGCATATCATACATA
63555173 TCATGTGCATATCATACATA
1 TCATGTGCATATCATACATA
63555193 CCATATTTAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.37
Consensus pattern (20 bp):
TCATGTGCATATCATACATA
Found at i:63555267 original size:25 final size:25
Alignment explanation
Indices: 63555235--63555282 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
63555225 ATACATAAAC
* * *
63555235 CCTAGGGGTATAATGGTCATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
63555260 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
63555283 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:63564208 original size:6 final size:6
Alignment explanation
Indices: 63564197--63564389 Score: 157
Period size: 6 Copynumber: 31.8 Consensus size: 6
63564187 AACCAAAATG
63564197 AGAATC AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC
1 AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC
* * * * *
63564245 A-ATATT AGTAA-C AGAATC AGAATC AGAATC AAAATT AG-GTGAC AGAATT
1 AGA-ATC AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC
* * *
63564294 AGAATC AGAATC AGTAA-C AGAATC AGAATC AAAATC AGTATT AGTAA-C
1 AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC
* * *
63564342 AGAATC AGAATC AGAATC AAAATT AGGTGAT- AGAATC AGAATC AGAAT
1 AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC AGAATC AGAAT
63564390 GTGAATGCAA
Statistics
Matches: 150, Mismatches: 21, Indels: 32
0.74 0.10 0.16
Matches are distributed among these distances:
5 12 0.08
6 125 0.83
7 9 0.06
8 4 0.03
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (6 bp):
AGAATC
Found at i:63564231 original size:30 final size:30
Alignment explanation
Indices: 63564197--63564389 Score: 229
Period size: 30 Copynumber: 6.6 Consensus size: 30
63564187 AACCAAAATG
*
63564197 AGAATCAGAATCAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
63564227 AGAATCAGAATCAGAATCA-ATATTAGTAAC
1 AGAATCAGAATCAGAATCAGA-ATTAGTAAC
*
63564257 AGAATCAGAATCAGAATCAAAATTAGGT---
1 AGAATCAGAATCAGAATCAGAATTA-GTAAC
* *
63564285 -G-A-CAGAATTAGAATCAGAATCAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
* *
63564312 AGAATCAGAATCAAAATCAGTATTAGTAAC
1 AGAATCAGAATCAGAATCAGAATTAGTAAC
* * *
63564342 AGAATCAGAATCAGAATCAAAATTAGGTGAT
1 AGAATCAGAATCAGAATCAGAATTA-GTAAC
63564373 AGAATCAGAATCAGAAT
1 AGAATCAGAATCAGAAT
63564390 GTGAATGCAA
Statistics
Matches: 140, Mismatches: 13, Indels: 19
0.81 0.08 0.11
Matches are distributed among these distances:
24 2 0.01
25 17 0.12
26 1 0.01
27 1 0.01
28 1 0.01
29 2 0.01
30 93 0.66
31 23 0.16
ACGTcount: A:0.50, C:0.13, G:0.17, T:0.21
Consensus pattern (30 bp):
AGAATCAGAATCAGAATCAGAATTAGTAAC
Found at i:63564301 original size:85 final size:85
Alignment explanation
Indices: 63564202--63564389 Score: 340
Period size: 85 Copynumber: 2.2 Consensus size: 85
63564192 AAATGAGAAT
*
63564202 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAA
63564267 TCAGAATCAAAATTAGGTGA
66 TCAGAATCAAAATTAGGTGA
* *
63564287 CAGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAGTATTAGTAACAGAATCAGAA
1 CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAA
63564352 TCAGAATCAAAATTAGGTGA
66 TCAGAATCAAAATTAGGTGA
*
63564372 TAGAATCAGAATCAGAAT
1 CAGAATCAGAATCAGAAT
63564390 GTGAATGCAA
Statistics
Matches: 98, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 98 1.00
ACGTcount: A:0.49, C:0.13, G:0.16, T:0.21
Consensus pattern (85 bp):
CAGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAAAATCAATATTAGTAACAGAATCAGAA
TCAGAATCAAAATTAGGTGA
Found at i:63564550 original size:27 final size:27
Alignment explanation
Indices: 63564512--63564564 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
63564502 GGCTGCTAGA
* * *
63564512 ACAGATATTGTGACAGAGTCACCAGAT
1 ACAGACATTGTGACAAAGCCACCAGAT
*
63564539 ACAGACATTGTGGCAAAGCCACCAGA
1 ACAGACATTGTGACAAAGCCACCAGA
63564565 ATCAAATAAC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.23, T:0.17
Consensus pattern (27 bp):
ACAGACATTGTGACAAAGCCACCAGAT
Found at i:63564793 original size:22 final size:22
Alignment explanation
Indices: 63564745--63564803 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
63564735 GTAAATACGT
*
63564745 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
63564767 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
63564789 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
63564804 TAATAACAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:63564970 original size:27 final size:26
Alignment explanation
Indices: 63564891--63564973 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
63564881 TCGATCGATC
* * *
63564891 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
63564917 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
63564944 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
63564971 AAC
1 AAC
63564974 GCTTCCTCCG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:63565202 original size:27 final size:27
Alignment explanation
Indices: 63565172--63565313 Score: 158
Period size: 27 Copynumber: 5.3 Consensus size: 27
63565162 GGGGCAAAAT
* * *
63565172 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
63565199 GGTAATTCTACCCTATAGGGGTATTTT
1 GGTAATTCTACCCTACAAGGGTATTTC
*
63565226 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
63565253 GATAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * * *
63565280 AGTAATTCTATCCTATAAGGGTATTCC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
63565307 GATAATT
1 GGTAATT
63565314 TTACAAACCA
Statistics
Matches: 94, Mismatches: 21, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 94 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:63565274 original size:54 final size:54
Alignment explanation
Indices: 63565171--63565313 Score: 180
Period size: 54 Copynumber: 2.6 Consensus size: 54
63565161 AGGGGCAAAA
* * * *
63565171 TGGTAATTT-TACCCCACAAGGGTATCTCGGTAATTCTACCCTATAGGGGTATTT
1 TGGT-ATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
63565225 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
** * * * *
63565279 CAGTAATTCTATCCTATAAGGGTATTCCGATAATT
1 TGGTATTTCTACCCTACAAGGGTATTTCGATAATT
63565314 TTACAAACCA
Statistics
Matches: 78, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
53 4 0.05
54 74 0.95
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
TGGTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTT
Found at i:63565326 original size:54 final size:54
Alignment explanation
Indices: 63565173--63565332 Score: 153
Period size: 54 Copynumber: 3.0 Consensus size: 54
63565163 GGGCAAAATG
* * * ** * **
63565173 GTAATTTTACCCCACAAGGGTA-TCTCGGTAATTCTACCCTATAGGGGTATTTTG
1 GTAATTCTACCCTACAAGGGTATTC-CGATAATTCTACCAAACAGGGGTATTTCA
* * **
63565227 GTATTTCTACCCTACAAGGGTATTTCGATAATTCTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCAAACAGGGGTATTTCA
* * *
63565281 GTAATTCTATCCTATAAGGGTATTCCGATAATTTTA-CAAACCAGGGGTATTT
1 GTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCAAA-CAGGGGTATTT
63565333 TGTTGATTTT
Statistics
Matches: 89, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
53 2 0.02
54 86 0.97
55 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (54 bp):
GTAATTCTACCCTACAAGGGTATTCCGATAATTCTACCAAACAGGGGTATTTCA
Found at i:63565328 original size:27 final size:27
Alignment explanation
Indices: 63565296--63565422 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
63565286 TCTATCCTAT
**
63565296 AAGGGTATTCCGATAATTTTACAAACC
1 AAGGGTATTTTGATAATTTTACAAACC
* * * *
63565323 AGGGGTATTTTGTTGATTTTATAAACC
1 AAGGGTATTTTGATAATTTTACAAACC
* * *
63565350 AAGGGTATTTTGGTGATTTTATAAACC
1 AAGGGTATTTTGATAATTTTACAAACC
*
63565377 AAGGGTATTTTAATAATTTTACAAACC
1 AAGGGTATTTTGATAATTTTACAAACC
* *
63565404 AGGGGTATTTTGGTAATTT
1 AAGGGTATTTTGATAATTT
63565423 GGTAAACTAA
Statistics
Matches: 85, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 85 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGATAATTTTACAAACC
Found at i:63565429 original size:27 final size:27
Alignment explanation
Indices: 63565309--63565422 Score: 147
Period size: 27 Copynumber: 4.2 Consensus size: 27
63565299 GGTATTCCGA
* * *
63565309 TAATTTTACAAACCAGGGGTATTTTGT
1 TAATTTTATAAACCAAGGGTATTTTGG
*
63565336 TGATTTTATAAACCAAGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
* **
63565363 TGATTTTATAAACCAAGGGTATTTTAA
1 TAATTTTATAAACCAAGGGTATTTTGG
* *
63565390 TAATTTTACAAACCAGGGGTATTTTGG
1 TAATTTTATAAACCAAGGGTATTTTGG
63565417 TAATTT
1 TAATTT
63565423 GGTAAACTAA
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 76 1.00
ACGTcount: A:0.32, C:0.09, G:0.18, T:0.41
Consensus pattern (27 bp):
TAATTTTATAAACCAAGGGTATTTTGG
Found at i:63567411 original size:30 final size:30
Alignment explanation
Indices: 63567375--63567578 Score: 208
Period size: 30 Copynumber: 6.9 Consensus size: 30
63567365 AAGAAACATT
* *
63567375 ATCAGAATT-GGAACCAAAATGAGAATCAGA
1 ATCAGAATTAGGAA-CAGAATCAGAATCAGA
* *
63567405 ATCAGAATCAGTAACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
63567435 ATCA-ATATTAGTAACAGAATCAGAATCAGA
1 ATCAGA-ATTAGGAACAGAATCAGAATCAGA
* *
63567465 ATCAGAATTAGGTGACAGAATTAGAATCAGA
1 ATCAGAATTAGG-AACAGAATCAGAATCAGA
63567496 ATCAG---T---AACAGAATCAGAATCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
* * * *
63567520 ATTAGTATTAGTAACAGAATCAGAACCAGA
1 ATCAGAATTAGGAACAGAATCAGAATCAGA
*
63567550 ATCAGAATTAGGTGACAGAATCAGAATCA
1 ATCAGAATTAGG-AACAGAATCAGAATCA
63567579 AAATGTGAAT
Statistics
Matches: 146, Mismatches: 17, Indels: 21
0.79 0.09 0.11
Matches are distributed among these distances:
24 20 0.14
27 1 0.01
28 1 0.01
29 1 0.01
30 84 0.58
31 39 0.27
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (30 bp):
ATCAGAATTAGGAACAGAATCAGAATCAGA
Found at i:63567497 original size:85 final size:85
Alignment explanation
Indices: 63567396--63567578 Score: 330
Period size: 85 Copynumber: 2.2 Consensus size: 85
63567386 AACCAAAATG
*
63567396 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAT
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAC
63567461 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
* * *
63567481 AGAATTAGAATCAGAATCAGTAACAGAATCAGAATCAGAATTAGTATTAGTAACAGAATCAGAAC
1 AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAC
63567546 CAGAATCAGAATTAGGTGAC
66 CAGAATCAGAATTAGGTGAC
63567566 AGAATCAGAATCA
1 AGAATCAGAATCA
63567579 AAATGTGAAT
Statistics
Matches: 93, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
85 93 1.00
ACGTcount: A:0.48, C:0.14, G:0.18, T:0.20
Consensus pattern (85 bp):
AGAATCAGAATCAGAATCAGTAACAGAATCAGAATCAGAATCAATATTAGTAACAGAATCAGAAC
CAGAATCAGAATTAGGTGAC
Found at i:63567577 original size:6 final size:6
Alignment explanation
Indices: 63567396--63567557 Score: 147
Period size: 6 Copynumber: 26.8 Consensus size: 6
63567386 AACCAAAATG
*
63567396 AGAATC AGAATC AGAATC AGTAA-C AGAATC AGAATC AGAATC A-ATATT
1 AGAATC AGAATC AGAATC AG-AATC AGAATC AGAATC AGAATC AGA-ATC
* * *
63567444 AGTAA-C AGAATC AGAATC AGAATC AGAATT AG-GTGAC AGAATT AGAATC
1 AG-AATC AGAATC AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC
* * *
63567493 AGAATC AGTAA-C AGAATC AGAATC AGAATT AGTATT AGTAA-C AGAATC
1 AGAATC AG-AATC AGAATC AGAATC AGAATC AGAATC AG-AATC AGAATC
*
63567541 AGAACC AGAATC AGAAT
1 AGAATC AGAATC AGAAT
63567558 TAGGTGACAG
Statistics
Matches: 129, Mismatches: 14, Indels: 26
0.76 0.08 0.15
Matches are distributed among these distances:
5 10 0.08
6 109 0.84
7 8 0.06
8 2 0.02
ACGTcount: A:0.49, C:0.14, G:0.17, T:0.20
Consensus pattern (6 bp):
AGAATC
Found at i:63567986 original size:22 final size:22
Alignment explanation
Indices: 63567938--63567996 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 22
63567928 GTAAATACGT
*
63567938 TTGGCACGAAGCCATAGTCAAG
1 TTGGCACAAAGCCATAGTCAAG
* * * *
63567960 ATGGCACAAAGCCATATTTAGG
1 TTGGCACAAAGCCATAGTCAAG
*
63567982 TTGGCACAGAGCCAT
1 TTGGCACAAAGCCAT
63567997 TAATAACAGG
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAGTCAAG
Found at i:63568163 original size:27 final size:26
Alignment explanation
Indices: 63568084--63568166 Score: 112
Period size: 27 Copynumber: 3.1 Consensus size: 26
63568074 TCGATCGATC
* * *
63568084 AACAGATATTGTGACAGAGTCACCAA
1 AACAGATATTGTGGCAGAGCCACCAG
63568110 ATACAGATATTGTGGCAGAGCCACCAG
1 A-ACAGATATTGTGGCAGAGCCACCAG
*
63568137 AACAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-TTGTGGCAGAGCCACCAG
63568164 AAC
1 AAC
63568167 GCTTCCTCTG
Statistics
Matches: 51, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
26 8 0.16
27 43 0.84
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.19
Consensus pattern (26 bp):
AACAGATATTGTGGCAGAGCCACCAG
Found at i:63568395 original size:27 final size:27
Alignment explanation
Indices: 63568365--63568506 Score: 142
Period size: 27 Copynumber: 5.3 Consensus size: 27
63568355 GGGGCAAAAT
* * *
63568365 GGTAATTTTACCCCATAAGGGTATCTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* * *
63568392 GGTAATTCTACCCTACAGGGGTATTTT
1 GGTAATTCTACCCTATAAGGGTATTTC
* **
63568419 GGTATTTCTACCCTGCAAGGGTATTTC
1 GGTAATTCTACCCTATAAGGGTATTTC
* *
63568446 GATAATTCTACCCTA-CAGAGGTATTTC
1 GGTAATTCTACCCTATAAG-GGTATTTC
* * *
63568473 GATAATTCTATCCTATAAGGGTATTCC
1 GGTAATTCTACCCTATAAGGGTATTTC
63568500 GGTAATT
1 GGTAATT
63568507 TTACAAACCA
Statistics
Matches: 95, Mismatches: 18, Indels: 4
0.81 0.15 0.03
Matches are distributed among these distances:
26 2 0.02
27 91 0.96
28 2 0.02
ACGTcount: A:0.25, C:0.20, G:0.19, T:0.36
Consensus pattern (27 bp):
GGTAATTCTACCCTATAAGGGTATTTC
Found at i:63568482 original size:54 final size:54
Alignment explanation
Indices: 63568367--63568506 Score: 163
Period size: 54 Copynumber: 2.6 Consensus size: 54
63568357 GGCAAAATGG
* * * * * * *
63568367 TAATTTTACCCCATAAGGGTATCTCGGTAATTCTACCCTACAGGGGTATTTTGG
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGA
* * *
63568421 TATTTCTACCCTGCAAGGGTATTTCGATAATTCTACCCTACAGAGGTATTTCGA
1 TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGA
* * *
63568475 TAATTCTATCCTATAAGGGTATTCCGGTAATT
1 TAATTCTACCCTACAAGGGTATTTCGGTAATT
63568507 TTACAAACCA
Statistics
Matches: 70, Mismatches: 16, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
54 70 1.00
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (54 bp):
TAATTCTACCCTACAAGGGTATTTCGGTAATTCTACCCTACAGAGGTATTTCGA
Found at i:63568622 original size:27 final size:27
Alignment explanation
Indices: 63568489--63568615 Score: 146
Period size: 27 Copynumber: 4.7 Consensus size: 27
63568479 TCTATCCTAT
** *
63568489 AAGGGTATTCCGGTAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
* * * *
63568516 AGGGGTATTTTGTTGATATTATAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
*
63568543 AAGGGTATTTTGGTGATTTTATAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
** *
63568570 AAGGGTATTTTAATAATTTTACAAACC
1 AAGGGTATTTTGGTAATTTTATAAACC
*
63568597 AGGGGTATTTTGGTAATTT
1 AAGGGTATTTTGGTAATTT
63568616 GGTAAACTAA
Statistics
Matches: 83, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 83 1.00
ACGTcount: A:0.31, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
AAGGGTATTTTGGTAATTTTATAAACC
Found at i:63577544 original size:40 final size:40
Alignment explanation
Indices: 63577417--63577546 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
63577407 ATGCTGGAAA
* * *
63577417 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * **
63577457 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
63577497 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
63577537 TTATATCCGG
1 TTATATCCGG
63577547 TTATATTCCG
Statistics
Matches: 74, Mismatches: 15, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
39 1 0.01
40 73 0.99
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:63584768 original size:40 final size:40
Alignment explanation
Indices: 63584641--63584770 Score: 172
Period size: 40 Copynumber: 3.2 Consensus size: 40
63584631 ATGCTGGAAA
* * *
63584641 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * **
63584681 CTACATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTCA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
63584721 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
63584761 TTATATCCGG
1 TTATATCCGG
63584771 TTATATTCCG
Statistics
Matches: 76, Mismatches: 13, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
39 1 0.01
40 75 0.99
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:63588184 original size:56 final size:56
Alignment explanation
Indices: 63588124--63588257 Score: 214
Period size: 56 Copynumber: 2.4 Consensus size: 56
63588114 TCCCAGATAA
* * *
63588124 GGTCTTACTCGTACACATATCTCGAAGTAACATATCAATGCCAACATATAAAATGT
1 GGTCTTACTCGCACACATATATCGAAGTAACATATCAATGCCAACATATAAAACGT
* * *
63588180 GGTCTTACTCGCACACATATATCGAAGTCACATATCGATGCCAACGTATAAAACGT
1 GGTCTTACTCGCACACATATATCGAAGTAACATATCAATGCCAACATATAAAACGT
63588236 GGTCTTACTCGCACACATATAT
1 GGTCTTACTCGCACACATATAT
63588258 TGATGCCATG
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
56 72 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGAAGTAACATATCAATGCCAACATATAAAACGT
Found at i:63589428 original size:11 final size:11
Alignment explanation
Indices: 63589414--63589440 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
63589404 AATTTCACAC
63589414 ACACATAATAA
1 ACACATAATAA
63589425 ACACATAATAA
1 ACACATAATAA
63589436 ACACA
1 ACACA
63589441 AAAATAATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (11 bp):
ACACATAATAA
Found at i:63593916 original size:43 final size:43
Alignment explanation
Indices: 63593837--63593992 Score: 181
Period size: 43 Copynumber: 3.6 Consensus size: 43
63593827 TTCGGGCCTT
* * * *
63593837 GGCCTAGCAAGCTTTAA-GCTGGTGAATAATATTATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTG-A-AATAATATCGGGCTTCG
* *
63593881 GGCCTAGCAGGCTATAATGTCGGTGAGATAATATCGGGCTTCG
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
* *
63593924 GGCCTAGTAGGCTATAATGCCGGTGAAATAATATCGGGCTTCA
1 GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
* * *
63593967 AGCCTAGCAGGC-AAAATGCCAGTGAA
1 GGCCTAGCAGGCTATAATGCCGGTGAA
63593993 TGAGTTCAGA
Statistics
Matches: 97, Mismatches: 14, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
42 12 0.12
43 64 0.66
44 16 0.16
45 5 0.05
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.24
Consensus pattern (43 bp):
GGCCTAGCAGGCTATAATGCCGGTGAAATAATATCGGGCTTCG
Found at i:63595571 original size:46 final size:46
Alignment explanation
Indices: 63595521--63595696 Score: 198
Period size: 46 Copynumber: 3.8 Consensus size: 46
63595511 TGGTTGAGCA
63595521 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
63595567 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
63595612 CATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
63595660 CCCGAGCTCGTTGATTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
63595697 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.56
47 28 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Done.