Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr14
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: 244914714
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.31
Warning! 4503000 characters in sequence are not A, C, G, or T
File 639 of 770
Found at i:200662120 original size:38 final size:38
Alignment explanation
Indices: 200662057--200662129 Score: 87
Period size: 38 Copynumber: 1.9 Consensus size: 38
200662047 ATAATTATAA
* *
200662057 TAATAATAACTAATAATAAATATAATGAATAATAACAG
1 TAATAATAACTAATAAGAAATATAATGAAAAATAACAG
*
200662095 TAATAATAA-TAATGAAG-AATAATAATTAAAAATAA
1 TAATAATAACTAAT-AAGAAAT-ATAATGAAAAATAA
200662130 ATAAATAAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
37 7 0.23
38 23 0.77
ACGTcount: A:0.63, C:0.03, G:0.05, T:0.29
Consensus pattern (38 bp):
TAATAATAACTAATAAGAAATATAATGAAAAATAACAG
Found at i:200662408 original size:19 final size:19
Alignment explanation
Indices: 200662376--200662417 Score: 59
Period size: 19 Copynumber: 2.2 Consensus size: 19
200662366 GGGAGAAAGG
200662376 GAAAGAAAGAGGAAAGAAA
1 GAAAGAAAGAGGAAAGAAA
*
200662395 GAAAGGAAAG-GGAAGGAAA
1 GAAA-GAAAGAGGAAAGAAA
200662414 GAAA
1 GAAA
200662418 ATGAATGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (19 bp):
GAAAGAAAGAGGAAAGAAA
Found at i:200666722 original size:389 final size:386
Alignment explanation
Indices: 200665975--200666738 Score: 1158
Period size: 389 Copynumber: 2.0 Consensus size: 386
200665965 ATGGTCACTA
* *
200665975 AACTAACTAAAAATTCGACTGAAGCAAGATCGCCTATCGAACAGTAGTATAGTTATGGTTAGACC
1 AACTAACTAAAAATTCGACTGAAGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
*
200666040 GGAAATATTGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
66 GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
* * *
200666105 CAATTAAGAATGTTTTAAACTAAGACTAATTATCTAATTAACTCAAATTACGACAGATATTAAAG
131 CAATTAAGAATGTTTTAAACTAAAACTAATTATCTAATTAACTCAAATTACGACAAAGATTAAAG
** *
200666170 TTGGAAAATACTTTTTAGAAAACAGATGGAAAAGACAATACCCAAGGAAGAATCCACCTAGACTT
196 TTGGAAAATACTTTGGAGAAAACAGATGGAAAAGACAATACCCAAGGAACAATCCACCTAGACTT
* * * *
200666235 CACTTATCACTTCTGAATTAGACGATTTATTCACTTGACTTAATCCGTATAAATCCCTGATTTAT
261 CACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAGAAATCCCTAATTTAT
200666300 GTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCGTGT
326 GTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCGTGT
* *
200666361 AACTAACTAAAAATTCGACTTAAGGCAAGCA-CACCTATCGAACAGTTGTATAGTTATGGTGAGA
1 AACTAACTAAAAATTCGACTGAA-GCAAG-ATCACCTATCGAACAGTAGTATAGTTATGGTGAGA
** *
200666425 CCGGAAATATCGTATCCATGAGGAGTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCT
64 CCGGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCT
* ** * *
200666490 AAGAATTAAAGTGTGTTTTTAAACTAAAACTATTTATCTAATTGACT-AAGATTACGACAAAGA-
129 AACAATT-AAGAATG-TTTTAAACTAAAACTAATTATCTAATTAACTCAA-ATTACGACAAAGAT
* * * *
200666553 TGAAGTTTTGAAAATACTTTGG-GAAAAACTGATGGAGAAGACAATACCCAAGGAACAATCCACC
191 TAAAG-TTGGAAAATACTTTGGAG-AAAACAGATGGAAAAGACAATACCCAAGGAACAATCCACC
*
200666617 TAGACTTCACTTATTACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAGAAATCCCT
254 TAGACTTCACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAGAAATCCCT
* * *
200666682 AATTTATGTTAATATCTCTCTCGAGACTAAGAATAACTGACTTTAGGTTGATTAATT
319 AATTTATGTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATT
200666739 AAAATCTCTT
Statistics
Matches: 340, Mismatches: 31, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
386 22 0.06
387 102 0.30
388 13 0.04
389 203 0.60
ACGTcount: A:0.38, C:0.16, G:0.14, T:0.32
Consensus pattern (386 bp):
AACTAACTAAAAATTCGACTGAAGCAAGATCACCTATCGAACAGTAGTATAGTTATGGTGAGACC
GGAAATATCGTATCCACAAGGACTAAAAGTACTAGTAATTACTATCTTTTTATTATCTAGCCTAA
CAATTAAGAATGTTTTAAACTAAAACTAATTATCTAATTAACTCAAATTACGACAAAGATTAAAG
TTGGAAAATACTTTGGAGAAAACAGATGGAAAAGACAATACCCAAGGAACAATCCACCTAGACTT
CACTTATCACTTCTGAATTAGACAATTTATTCACTTAACTTAATCCGTAGAAATCCCTAATTTAT
GTTAATATCTCTCTCGAGACTAAAAACAACTGACTCTAGGTTGATTAATTGATGATCGTGT
Found at i:200669240 original size:40 final size:40
Alignment explanation
Indices: 200669195--200669324 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
200669185 CGGAATATAA
200669195 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
200669235 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
200669275 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
200669315 CCGGATATAA
1 CCGGATATAA
200669325 TTTCCAGCAT
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:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200669345 original size:80 final size:80
Alignment explanation
Indices: 200669211--200669360 Score: 194
Period size: 80 Copynumber: 1.9 Consensus size: 80
200669201 ATAACCACGT
* * *
200669211 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
200669276 CGGATGTAGCCACTA
66 CGGATGTAGCCACTA
* * ** ** *
200669291 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCATTAACGTCTTCGGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTC-GCACGAACGCCTTCGGGGCTTAGC
200669355 CCGGAT
65 CCGGAT
200669361 ATCATTCAAT
Statistics
Matches: 59, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
79 1 0.02
80 58 0.98
ACGTcount: A:0.22, C:0.28, G:0.25, T:0.25
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGACTCGCACGAACGCCTTCGGGGCTTAGCC
CGGATGTAGCCACTA
Found at i:200677919 original size:40 final size:40
Alignment explanation
Indices: 200677874--200678003 Score: 163
Period size: 40 Copynumber: 3.2 Consensus size: 40
200677864 CGGAATATAA
200677874 CCGGATATAACCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
200677914 CCGGATAGAATGACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
200677954 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
200677994 CCGGATATAA
1 CCGGATATAA
200678004 TTTCCAGCAT
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:0.25, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CCGGATATAACCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200682978 original size:11 final size:11
Alignment explanation
Indices: 200682962--200683008 Score: 51
Period size: 11 Copynumber: 4.3 Consensus size: 11
200682952 TTATTTACAA
200682962 AATCATATATT
1 AATCATATATT
200682973 AATCATATATT
1 AATCATATATT
** *
200682984 -ATTTTAAATTT
1 AATCATATA-TT
200682995 AATCATATATT
1 AATCATATATT
200683006 AAT
1 AAT
200683009 TCTGAAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
10 5 0.18
11 18 0.64
12 5 0.18
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (11 bp):
AATCATATATT
Found at i:200689096 original size:80 final size:80
Alignment explanation
Indices: 200689012--200689160 Score: 183
Period size: 80 Copynumber: 1.9 Consensus size: 80
200689002 TATGGTAACC
* * * *
200689012 CGCACCAAGGCCTACGGGACTTAACCCGGATATCA-CGATTTGCACAAATGCCTTCGGGTCTTAG
1 CGCACCAAGGCCTACGGGACTTAACCCGGATAT-AGCCACTAGCACAAATGCCTTCGGGTCTTAA
200689076 CCCGGATAGAATGACT
65 CCCGGATAGAATGACT
* * * * * * *
200689092 CGCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
200689157 CCGG
66 CCGG
200689161 TTATAATTTC
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
79 1 0.02
80 56 0.98
ACGTcount: A:0.23, C:0.30, G:0.25, T:0.22
Consensus pattern (80 bp):
CGCACCAAGGCCTACGGGACTTAACCCGGATATAGCCACTAGCACAAATGCCTTCGGGTCTTAAC
CCGGATAGAATGACT
Found at i:200689102 original size:40 final size:38
Alignment explanation
Indices: 200689053--200689160 Score: 128
Period size: 40 Copynumber: 2.7 Consensus size: 38
200689043 ATCACGATTT
*
200689053 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATG-ACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGAT-GAA-GCACTA
*
200689093 GCACGAATGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATGAAG-CACTA
*
200689133 GCACAATTGCCTTCGGGTCTTAACCCGG
1 GCACAA-TGCCTTCGGGTCTTAGCCCGG
200689161 TTATAATTTC
Statistics
Matches: 61, Mismatches: 4, Indels: 6
0.86 0.06 0.08
Matches are distributed among these distances:
38 1 0.02
39 4 0.07
40 56 0.92
ACGTcount: A:0.21, C:0.30, G:0.26, T:0.23
Consensus pattern (38 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATGAAGCACTA
Found at i:200693045 original size:29 final size:28
Alignment explanation
Indices: 200693011--200693113 Score: 107
Period size: 29 Copynumber: 3.6 Consensus size: 28
200693001 TACTCAATCA
*
200693011 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * **
200693040 CGCACACATAGTGCCATATAGTCCAAATT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
200693069 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
200693098 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
200693114 ATCTCGTCAC
Statistics
Matches: 59, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
28 2 0.03
29 57 0.97
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:200695218 original size:29 final size:29
Alignment explanation
Indices: 200695175--200695274 Score: 114
Period size: 29 Copynumber: 3.5 Consensus size: 29
200695165 CATTAAAGCC
* *
200695175 AATCATATTCATATGGCCCATTAGGCCCA
1 AATCACATTTATATGGCCCATTAGGCCCA
*
200695204 AATCGC-TTGTATATGGCCCATTAGGCCCA
1 AATCACATT-TATATGGCCCATTAGGCCCA
* *
200695233 AATCACATTTATATGGCTCGTTAGGCCC-
1 AATCACATTTATATGGCCCATTAGGCCCA
* *
200695261 AGTCACATTCATAT
1 AATCACATTTATAT
200695275 TCATGCTCAC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.23
29 45 0.74
30 2 0.03
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.30
Consensus pattern (29 bp):
AATCACATTTATATGGCCCATTAGGCCCA
Found at i:200695966 original size:19 final size:21
Alignment explanation
Indices: 200695925--200695972 Score: 64
Period size: 19 Copynumber: 2.3 Consensus size: 21
200695915 TAAGTGAAAC
200695925 AAAGAAAATTGTGTAGAGAAGA
1 AAAG-AAATTGTGTAGAGAAGA
*
200695947 ATAGAAATTG-GTAG-GAAGA
1 AAAGAAATTGTGTAGAGAAGA
200695966 AAAGAAA
1 AAAGAAA
200695973 GAAAAACAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 11 0.46
20 4 0.17
21 6 0.25
22 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.27, T:0.17
Consensus pattern (21 bp):
AAAGAAATTGTGTAGAGAAGA
Found at i:200696620 original size:16 final size:16
Alignment explanation
Indices: 200696595--200696625 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
200696585 AAGTTTAGGA
*
200696595 TTTCGGGATTTTTGGG
1 TTTCGAGATTTTTGGG
200696611 TTTCGAGATTTTTGG
1 TTTCGAGATTTTTGG
200696626 AGCGTTACAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.10, C:0.06, G:0.32, T:0.52
Consensus pattern (16 bp):
TTTCGAGATTTTTGGG
Found at i:200697142 original size:14 final size:14
Alignment explanation
Indices: 200697123--200697152 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
200697113 TCTATCTAGT
200697123 CCATTAACTCTGGC
1 CCATTAACTCTGGC
200697137 CCATTAACTCTGGC
1 CCATTAACTCTGGC
200697151 CC
1 CC
200697153 TAGCCCTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.20, C:0.40, G:0.13, T:0.27
Consensus pattern (14 bp):
CCATTAACTCTGGC
Found at i:200699602 original size:29 final size:29
Alignment explanation
Indices: 200699539--200699635 Score: 117
Period size: 29 Copynumber: 3.4 Consensus size: 29
200699529 TTCACATACT
* * *
200699539 TGTATCTGGCCCATTAAGCCC-AATCATA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
200699567 T-TCATATGGCCCATTAGGCCCAAATCACC
1 TGT-ATATGGCCCATTAGGCCCAAATCACA
*
200699596 TGTATATGGACCATTAGGCCCAAATCACA
1 TGTATATGGCCCATTAGGCCCAAATCACA
*
200699625 TTTATATGGCC
1 TGTATATGGCC
200699636 GGTTATGTAA
Statistics
Matches: 58, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
27 1 0.02
28 17 0.29
29 39 0.67
30 1 0.02
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (29 bp):
TGTATATGGCCCATTAGGCCCAAATCACA
Found at i:200703950 original size:43 final size:44
Alignment explanation
Indices: 200703889--200703996 Score: 112
Period size: 44 Copynumber: 2.5 Consensus size: 44
200703879 ATTTGAACTT
* * * **
200703889 GTTGAGTTAGTCCAAGTTCGTGATATTTGTG-GCAT-TCGAGCTC
1 GTTGAGTTGGTCCGAGTTCATGATAGATGTGAGCATCT-GAGCTC
* * * *
200703932 GTTGAGTTGGTCTGAGTTCATTATGGATGTGAGCATCTGAGCTT
1 GTTGAGTTGGTCCGAGTTCATGATAGATGTGAGCATCTGAGCTC
200703976 GTTGAGTTGGTCCGAGTTCAT
1 GTTGAGTTGGTCCGAGTTCAT
200703997 TATGGATGCG
Statistics
Matches: 53, Mismatches: 10, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
43 23 0.43
44 29 0.55
45 1 0.02
ACGTcount: A:0.18, C:0.14, G:0.31, T:0.38
Consensus pattern (44 bp):
GTTGAGTTGGTCCGAGTTCATGATAGATGTGAGCATCTGAGCTC
Found at i:200706675 original size:34 final size:31
Alignment explanation
Indices: 200706611--200706675 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 31
200706601 AATGTTGAAG
*
200706611 AGTCTTCCAATGTGAACAAGGTGAACCGAAT
1 AGTCTTCCAATGTGAACAAGGTGAAACGAAT
200706642 AGTCTTGCC-ATGTGAACATAGGTGTGAAACGAAT
1 AGTCTT-CCAATGTGAACA-A-G-GTGAAACGAAT
200706676 TAAGGAGAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
31 15 0.52
32 3 0.10
33 1 0.03
34 10 0.34
ACGTcount: A:0.34, C:0.17, G:0.25, T:0.25
Consensus pattern (31 bp):
AGTCTTCCAATGTGAACAAGGTGAAACGAAT
Found at i:200719778 original size:47 final size:47
Alignment explanation
Indices: 200719715--200719986 Score: 436
Period size: 47 Copynumber: 5.7 Consensus size: 47
200719705 CCCTTCGGGA
* * *
200719715 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
200719762 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
200719809 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
200719858 CTTATCACATATATACACACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATAT----ACACTTTCACATTCATCACATCGGCCATTAGGC
*
200719909 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
200719956 CTTATCACATATATACACTTTCACATTCATC
1 CTTATCACATATATACACTTTCACATTCATC
200719987 GCGTAAAATC
Statistics
Matches: 210, Mismatches: 9, Indels: 12
0.91 0.04 0.05
Matches are distributed among these distances:
47 118 0.56
49 46 0.22
51 46 0.22
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:200723933 original size:43 final size:43
Alignment explanation
Indices: 200723596--200723926 Score: 599
Period size: 43 Copynumber: 7.7 Consensus size: 43
200723586 CACTGGCATT
* *
200723596 AAGCCTGCTAGGCACGAAGACCCGAATACATATCACCGGTACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
200723639 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
200723682 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
200723725 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
200723768 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACTGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
200723811 AAGCCTGCTAGGCTCGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
200723854 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
*
200723897 AAGCCTGCTAGGCACGAAGGCCTGAATACA
1 AAGCCTGCTAGGCACGAAGGCCCGAATACA
200723927 CGTCACCAGC
Statistics
Matches: 279, Mismatches: 9, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 279 1.00
ACGTcount: A:0.32, C:0.31, G:0.23, T:0.13
Consensus pattern (43 bp):
AAGCCTGCTAGGCACGAAGGCCCGAATACATATCACCGGCACA
Found at i:200724075 original size:42 final size:40
Alignment explanation
Indices: 200723930--200724087 Score: 163
Period size: 40 Copynumber: 3.9 Consensus size: 40
200723920 GAATACACGT
* * * * * * *
200723930 CACCAGCATGACTGCTCTTCGGGACCTGGTCCGGATACAT
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* * * *
200723970 CACTAGCATGAATGCTCTTCGGGATTTAGCCCGGATGTAA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
* *
200724010 CACCAGCACGAATGCTCTACGGGACTTAACCCGGATATATA
1 CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATA-A
* *
200724051 TCGCCAGTACGAATGCTCTTCGGGACTTAGCCCGGAT
1 -CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGAT
200724088 CATCGTCGAG
Statistics
Matches: 97, Mismatches: 19, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
40 64 0.66
41 1 0.01
42 32 0.33
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.23
Consensus pattern (40 bp):
CACCAGCACGAATGCTCTTCGGGACTTAGCCCGGATATAA
Found at i:200730452 original size:49 final size:49
Alignment explanation
Indices: 200730325--200730596 Score: 439
Period size: 49 Copynumber: 5.7 Consensus size: 49
200730315 CCCTTCGGGA
* * *
200730325 CTTATCACAT-T-TATACACTTTCACATTCATCACATTGGCCATTCGGA
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
200730372 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
200730419 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
200730468 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTCGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
200730517 CTTATCAC--ATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
200730564 CTTATCACATATATATACACTTTCACATTCATC
1 CTTATCACATATATATACACTTTCACATTCATC
200730597 GCGTAAAATC
Statistics
Matches: 208, Mismatches: 11, Indels: 10
0.91 0.05 0.04
Matches are distributed among these distances:
46 1 0.00
47 92 0.44
49 115 0.55
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (49 bp):
CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:200730529 original size:96 final size:96
Alignment explanation
Indices: 200730325--200730596 Score: 449
Period size: 96 Copynumber: 2.8 Consensus size: 96
200730315 CCCTTCGGGA
* * * *
200730325 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGACTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
200730390 -C-TTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
200730419 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
200730484 ACACTTTCACATTCATCACATCGGCCATTCGGC
64 ACACTTTCACATTCATCACATCGGCCATTAGGC
* *
200730517 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
200730582 ACTTTCACATTCATC
66 ACTTTCACATTCATC
200730597 GCGTAAAATC
Statistics
Matches: 167, Mismatches: 7, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
94 8 0.05
96 123 0.74
97 1 0.01
98 35 0.21
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:200730533 original size:145 final size:143
Alignment explanation
Indices: 200730325--200730596 Score: 499
Period size: 145 Copynumber: 1.9 Consensus size: 143
200730315 CCCTTCGGGA
* *
200730325 CTTATCACATTTATACACTTTCACATTCATCACATTGGCCATTCGGACTTATCACATATATACAC
1 CTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTCGGACTTATCACATATATACAC
200730390 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
66 CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
200730455 TCGGCCATTAGGC
131 TCGGCCATTAGGC
*
200730468 CTTATCACATATATACACACTTTCACATTCATCACATCGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACAT-T-TACACACTTTCACATTCATCACATCGGCCATTCGGACTTATCACATATATAC
200730533 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
64 ACCTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
200730597 GCGTAAAATC
Statistics
Matches: 124, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
143 10 0.08
144 1 0.01
145 113 0.91
ACGTcount: A:0.30, C:0.30, G:0.07, T:0.33
Consensus pattern (143 bp):
CTTATCACATTTACACACTTTCACATTCATCACATCGGCCATTCGGACTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACA
TCGGCCATTAGGC
Found at i:200746538 original size:40 final size:40
Alignment explanation
Indices: 200746453--200746603 Score: 141
Period size: 40 Copynumber: 3.8 Consensus size: 40
200746443 AATTGAATGA
* * * *
200746453 TATCCGGGCTAAGCCCCGAAGACAATTATGCTG-GAAATTA-
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC-GAGACA-TAC
* * *
200746493 TATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC-TAC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC--GAGACATAC
*
200746534 -ATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGACATTC
1 TATCCGGGCTAAGACCCGAAGGCAATT-GTGCGAGACATAC
*
200746573 TATCCGGGCTAAGACCCGAAGGCATTTGTGC
1 TATCCGGGCTAAGACCCGAAGGCAATTGTGC
200746604 ACGTGGTTAT
Statistics
Matches: 92, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
38 3 0.03
39 5 0.05
40 80 0.87
41 3 0.03
42 1 0.01
ACGTcount: A:0.26, C:0.25, G:0.27, T:0.22
Consensus pattern (40 bp):
TATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGACATAC
Found at i:200746617 original size:40 final size:40
Alignment explanation
Indices: 200746490--200746619 Score: 154
Period size: 40 Copynumber: 3.2 Consensus size: 40
200746480 ATGCTGGAAA
* * *
200746490 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
* * * ***
200746530 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGACA
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
*
200746570 TTCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-GTGG
200746610 TTATATCCGG
1 TTATATCCGG
200746620 TTATATTCCG
Statistics
Matches: 72, Mismatches: 17, Indels: 2
0.79 0.19 0.02
Matches are distributed among these distances:
39 1 0.01
40 71 0.99
ACGTcount: A:0.24, C:0.24, G:0.28, T:0.24
Consensus pattern (40 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTGG
Found at i:200746618 original size:80 final size:80
Alignment explanation
Indices: 200746452--200746619 Score: 207
Period size: 80 Copynumber: 2.1 Consensus size: 80
200746442 AAATTGAATG
* *
200746452 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGGAAATTATATCCGGGTTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
200746517 ATTGTGCTAGTGGCT
66 ATTGTGCTAGTGGCT
* * * * *
200746532 ACATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGACATTCTATCCGGGCTAAGACCCGAAGG
1 ATATCCGGGCTAAGACCCGAAGACAATT-ATGCTG-GAAATTATATCCGGGCTAAGACCCGAAGG
* *
200746595 CATTTGTGC-ACGTGGTT
64 CAATTGTGCTA-GTGGCT
200746612 ATATCCGG
1 ATATCCGG
200746620 TTATATTCCG
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
79 5 0.07
80 70 0.93
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.23
Consensus pattern (80 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTGGAAATTATATCCGGGCTAAGACCCGAAGGCA
ATTGTGCTAGTGGCT
Found at i:200752062 original size:70 final size:70
Alignment explanation
Indices: 200751949--200752096 Score: 280
Period size: 70 Copynumber: 2.1 Consensus size: 70
200751939 NNNNNNNNNN
200751949 GAGCTACGTGAAAGATAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGA
1 GAGCTACGTGAAAGATAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGA
200752014 CAAGA
66 CAAGA
200752019 GAGCTACGTGAAAGATAAATGTAGC-AGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAG
1 GAGCTACGTGAAAGAT-AATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAG
200752083 ACAAGA
65 ACAAGA
200752089 GAGCTACG
1 GAGCTACG
200752097 AGACAAATCG
Statistics
Matches: 77, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
70 69 0.90
71 8 0.10
ACGTcount: A:0.34, C:0.18, G:0.29, T:0.19
Consensus pattern (70 bp):
GAGCTACGTGAAAGATAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGA
CAAGA
Found at i:200759536 original size:68 final size:70
Alignment explanation
Indices: 200759464--200759661 Score: 294
Period size: 71 Copynumber: 2.8 Consensus size: 70
200759454 ACACCCTGTA
* * * *
200759464 GTAGCTAGGTCACATGCGTGATA-CGAGATGTA-TC-CCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAG-TGAAGACACCATGTAGACAAGAGAGCTACGTGAAAG
200759526 ATAAAT
65 ATAAAT
*
200759532 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGTGAAAG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACGTGAAAG
200759597 ATAAAT
65 ATAAAT
*
200759603 GTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACG
1 GTAGCTAGGTCGCATGCGTGATACCAAGTGAA-GACACCATGTAGACAAGAGAGCTACG
200759662 AGACAAATCG
Statistics
Matches: 121, Mismatches: 5, Indels: 5
0.92 0.04 0.04
Matches are distributed among these distances:
68 24 0.20
69 3 0.02
70 1 0.01
71 93 0.77
ACGTcount: A:0.34, C:0.18, G:0.28, T:0.20
Consensus pattern (70 bp):
GTAGCTAGGTCGCATGCGTGATACCAAGTGAAGACACCATGTAGACAAGAGAGCTACGTGAAAGA
TAAAT
Found at i:200759575 original size:41 final size:41
Alignment explanation
Indices: 200759530--200759647 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
200759520 TGAAAGATAA
200759530 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
200759571 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
200759601 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
200759642 ATGTAG
1 ATGTAG
200759648 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:200759587 original size:71 final size:71
Alignment explanation
Indices: 200759498--200759661 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
200759488 GAGATGTATC
200759498 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
200759563 AGGACA
66 AGGACA
200759569 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
200759634 AGGACA
66 AGGACA
200759640 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
200759662 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:200763207 original size:30 final size:30
Alignment explanation
Indices: 200763173--200763232 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
200763163 ATTTAATACG
200763173 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
200763203 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
200763233 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:200768240 original size:40 final size:40
Alignment explanation
Indices: 200768087--200768271 Score: 180
Period size: 40 Copynumber: 4.7 Consensus size: 40
200768077 TCGAATGATG
* * * *
200768087 TCCGGGCTAAGTCCCAAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-AAGTTACTAAA
* * * * *
200768127 TCTGGACTAAGAT-CCGAAGACATTTGTGCGAGTTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCAAGTTACTAAA
* **
200768167 TCCGGGCTAAG-CCCGAAGGCATTGGTGTGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
* *
200768206 TCCGGGTTAAGTCCCGAAGGCATTTGTGCAAGTTATTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTA-AA
*
200768247 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
200768272 AACGAGTAGC
Statistics
Matches: 118, Mismatches: 22, Indels: 10
0.79 0.15 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 10 0.08
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTAAA
Found at i:200769859 original size:27 final size:28
Alignment explanation
Indices: 200769803--200769872 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
200769793 AAATTTGTAC
200769803 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
200769831 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
200769858 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
200769873 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:200769883 original size:27 final size:27
Alignment explanation
Indices: 200769803--200769884 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
200769793 AAATTTGTAC
* *
200769803 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
200769831 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
200769858 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
200769885 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:200777683 original size:27 final size:28
Alignment explanation
Indices: 200777627--200777696 Score: 124
Period size: 27 Copynumber: 2.5 Consensus size: 28
200777617 AAATTTGTAC
200777627 AGCACTAAGTGTGCGAGTTTGATCATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
*
200777655 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGTTTGATCATAT
200777682 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
200777697 GACTCACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 24 0.59
28 17 0.41
ACGTcount: A:0.29, C:0.14, G:0.27, T:0.30
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGTTTGATCATAT
Found at i:200777707 original size:27 final size:27
Alignment explanation
Indices: 200777627--200777708 Score: 78
Period size: 27 Copynumber: 3.0 Consensus size: 27
200777617 AAATTTGTAC
* *
200777627 AGCACTAAGTGTGCGAGTTTGA-TCATAT
1 AGCACTAAGTGTGCGAG-CTCACT-ATAT
* * *
200777655 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGCTCACTATAT
200777682 AGCACTAAGTGTGCG-GACTCACTATAT
1 AGCACTAAGTGTGCGAG-CTCACTATAT
200777709 GCTTTTGAAT
Statistics
Matches: 49, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
26 1 0.02
27 30 0.61
28 18 0.37
ACGTcount: A:0.29, C:0.16, G:0.24, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGCTCACTATAT
Found at i:200784730 original size:39 final size:39
Alignment explanation
Indices: 200784687--200784848 Score: 261
Period size: 39 Copynumber: 4.2 Consensus size: 39
200784677 TATGGTAACC
* * *
200784687 CGCACAAATGCCTTCGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
* *
200784726 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
200784765 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
200784804 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
200784843 CGCACA
1 CGCACA
200784849 TTCATTCACA
Statistics
Matches: 115, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 115 1.00
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:200792653 original size:40 final size:39
Alignment explanation
Indices: 200792609--200792801 Score: 251
Period size: 39 Copynumber: 4.9 Consensus size: 39
200792599 GTTCAAAACA
* * ** * *
200792609 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
200792649 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
200792689 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
200792728 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
200792767 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACA
200792802 TTCATTCACA
Statistics
Matches: 139, Mismatches: 14, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
39 99 0.71
40 40 0.29
ACGTcount: A:0.24, C:0.32, G:0.21, T:0.23
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:200792720 original size:39 final size:39
Alignment explanation
Indices: 200792639--200792801 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
200792629 TATGGTAACC
* *
200792639 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
200792679 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
200792718 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
200792757 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
200792796 CGCACA
1 CGCACA
200792802 TTCATTCACA
Statistics
Matches: 116, Mismatches: 7, Indels: 1
0.94 0.06 0.01
Matches are distributed among these distances:
39 99 0.85
40 17 0.15
ACGTcount: A:0.25, C:0.32, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:200798023 original size:40 final size:40
Alignment explanation
Indices: 200797927--200798078 Score: 137
Period size: 40 Copynumber: 3.8 Consensus size: 40
200797917 CGAATGATGT
* * * * *
200797927 CCGGGCTAAGTCCCGAAGGC-TTGGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACCAAAA
* *
200797967 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGTTCCCAAAA
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * ** *
200798007 CCGGGTTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
* * *
200798047 CCGGGCTATGTCCCGAAGGCTTTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
200798079 CGCGATATCC
Statistics
Matches: 90, Mismatches: 19, Indels: 6
0.78 0.17 0.05
Matches are distributed among these distances:
39 1 0.01
40 82 0.91
41 7 0.08
ACGTcount: A:0.24, C:0.24, G:0.29, T:0.24
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACCAAAA
Found at i:200803946 original size:33 final size:35
Alignment explanation
Indices: 200803903--200803983 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 35
200803893 GCCTAAGCCC
**
200803903 ATTCAGATAACAGTGATTCTGGGCCAGAGCC-CTT
1 ATTCAGATAACAGTGAAACTGGGCCAGAGCCTCTT
* **
200803937 -TTCAGATAACA-TTAAACTGGGCCTTAGCCTCTT
1 ATTCAGATAACAGTGAAACTGGGCCAGAGCCTCTT
200803970 ATTCAGATAACAGT
1 ATTCAGATAACAGT
200803984 ATGGCCCATA
Statistics
Matches: 39, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
32 13 0.33
33 14 0.36
34 11 0.28
35 1 0.03
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.30
Consensus pattern (35 bp):
ATTCAGATAACAGTGAAACTGGGCCAGAGCCTCTT
Found at i:200804331 original size:25 final size:27
Alignment explanation
Indices: 200804294--200804346 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
200804284 TCAAACATGC
200804294 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
200804320 ATTTTGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
200804346 A
1 A
200804347 AAACTATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.13, G:0.23, T:0.40
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:200806322 original size:40 final size:40
Alignment explanation
Indices: 200806267--200806488 Score: 367
Period size: 40 Copynumber: 5.6 Consensus size: 40
200806257 TATTCGGATG
*
200806267 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
200806307 ATATCCGGGCTAAGTCCCGAAGGCCTTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
200806347 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
200806387 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
200806427 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
200806467 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
200806489 TACTGGGGTT
Statistics
Matches: 172, Mismatches: 9, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 14 0.08
40 156 0.91
41 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:200814371 original size:40 final size:40
Alignment explanation
Indices: 200814209--200814425 Score: 340
Period size: 39 Copynumber: 5.6 Consensus size: 40
200814199 TATTCGGATG
200814209 ATATCCGGGCTAAGTCCCGAAGGCA-TT-TG-TAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
200814246 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
*
200814285 ATATCCGGGCTAAGTCCCGAAGGCATTTATG-TAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
200814324 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
* *
200814364 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGACT
*
200814404 ATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
200814426 TACTTGGGTT
Statistics
Matches: 168, Mismatches: 6, Indels: 10
0.91 0.03 0.05
Matches are distributed among these distances:
37 26 0.15
38 2 0.01
39 84 0.50
40 54 0.32
41 2 0.01
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
Found at i:200814383 original size:79 final size:77
Alignment explanation
Indices: 200814209--200814425 Score: 341
Period size: 79 Copynumber: 2.8 Consensus size: 77
200814199 TATTCGGATG
200814209 ATATCCGGGCTAAGTCCCGAAGGCA-TTTGTAGTGACTATATCCGGGCTAAGTCCCGAAGGCTTT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTTGTAGTGACTATATCCGGGCTAAGTCCCGAAGGCTTT
200814273 GTGCTAGTGACT
66 GTGCTAGTGACT
200814285 ATATCCGGGCTAAGTCCCGAAGGCATTTATGTAGTGACTATATCCGGGCTAAGTCCCGAAGGCAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-TGTAGTGACTATATCCGGGCTAAGTCCCGAAGGC-T
200814350 TTGTGCTAGTGACT
64 TTGTGCTAGTGACT
* * *
200814364 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAATTCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGGCATTT-TG-TAG-TGACTATATCCGGGCTAAGTCCCGAAGG
200814426 TACTTGGGTT
Statistics
Matches: 132, Mismatches: 4, Indels: 7
0.92 0.03 0.05
Matches are distributed among these distances:
76 25 0.19
77 2 0.02
78 34 0.26
79 59 0.45
80 10 0.08
81 2 0.02
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.27
Consensus pattern (77 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTTGTAGTGACTATATCCGGGCTAAGTCCCGAAGGCTTT
GTGCTAGTGACT
Found at i:200821155 original size:40 final size:39
Alignment explanation
Indices: 200821028--200821157 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
200821018 ATGCTGGAAA
* *
200821028 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
200821068 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
200821108 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
200821148 TTATATCCGG
1 TTATATCCGG
200821158 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:200829198 original size:40 final size:39
Alignment explanation
Indices: 200829071--200829200 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
200829061 ATGCTGGAAA
* *
200829071 TTATATCCGGGTTAAGACCCGAAGGCAATT-GTGCTAGCGG
1 TTATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-AGTGG
* * *
200829111 CTACATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTCG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGC-AGTGG
*
200829151 TTCTATCCGGGCTAAGACCCGAAGGCATTCGTGCACGTGG
1 TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA-GTGG
200829191 TTATATCCGG
1 TTATATCCGG
200829201 TTGTATTCCG
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 4 0.05
40 73 0.95
ACGTcount: A:0.23, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
TTATATCCGGGCTAAGACCCGAAGGCATTCGTGCAGTGG
Found at i:200830589 original size:9 final size:9
Alignment explanation
Indices: 200830575--200830607 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
200830565 GGGTGTTACA
*
200830575 CGAATAACT
1 CGAATAATT
200830584 CGAATAATT
1 CGAATAATT
200830593 CGAATAATT
1 CGAATAATT
200830602 CGAATA
1 CGAATA
200830608 TCAAACTATA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.45, C:0.15, G:0.12, T:0.27
Consensus pattern (9 bp):
CGAATAATT
Found at i:200831141 original size:19 final size:19
Alignment explanation
Indices: 200831105--200831157 Score: 58
Period size: 17 Copynumber: 2.9 Consensus size: 19
200831095 TATATCTACT
200831105 ATTTACATTATTAAATTAA
1 ATTTACATTATTAAATTAA
*
200831124 ATTTCACATT-TTATATT--
1 ATTT-ACATTATTAAATTAA
*
200831141 ATTTATATTATTAAATT
1 ATTTACATTATTAAATT
200831158 TTTAGTCATA
Statistics
Matches: 29, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
16 4 0.14
17 10 0.34
19 10 0.34
20 5 0.17
ACGTcount: A:0.40, C:0.06, G:0.00, T:0.55
Consensus pattern (19 bp):
ATTTACATTATTAAATTAA
Found at i:200844496 original size:40 final size:40
Alignment explanation
Indices: 200844451--200844617 Score: 167
Period size: 40 Copynumber: 4.2 Consensus size: 40
200844441 CGGAATATAA
200844451 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* * * *
200844491 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * *
200844531 CCGGATATAGCCACTAGCACAATTGCCATCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * ** * *
200844571 CCGGATATAATTTCCAGCGTAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
200844610 CCGGATAT
1 CCGGATAT
200844618 CATTCAATTT
Statistics
Matches: 104, Mismatches: 22, Indels: 3
0.81 0.17 0.02
Matches are distributed among these distances:
39 14 0.13
40 90 0.87
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.26
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:200850137 original size:15 final size:15
Alignment explanation
Indices: 200850117--200850172 Score: 87
Period size: 15 Copynumber: 3.7 Consensus size: 15
200850107 GTATCTTGGG
200850117 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
200850132 TTTCTTTATTCTGGA
1 TTTCTTTATTCTGGA
*
200850147 TTTCTCTA-TCTTGGA
1 TTTCTTTATTC-TGGA
200850162 TTTCTTTATTC
1 TTTCTTTATTC
200850173 GGTTTTCCTT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
14 2 0.05
15 33 0.89
16 2 0.05
ACGTcount: A:0.12, C:0.16, G:0.11, T:0.61
Consensus pattern (15 bp):
TTTCTTTATTCTGGA
Found at i:200855110 original size:39 final size:40
Alignment explanation
Indices: 200855010--200855192 Score: 176
Period size: 40 Copynumber: 4.6 Consensus size: 40
200855000 TCGAATGATG
* * *
200855010 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGC-AAGTTACTAAA
* * * *
200855050 TCCGGACTAGGAT-CCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTCGTGCAAGTTACTAAA
*
200855090 TCCGGGCTAAG-CCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
* * * *
200855129 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTCACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTA-AA
* **
200855170 -CCAGGCTTCGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
200855193 TGAGCGAGTC
Statistics
Matches: 117, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
39 33 0.28
40 75 0.64
41 9 0.08
ACGTcount: A:0.25, C:0.25, G:0.27, T:0.23
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCAAGTTACTAAA
Found at i:200855150 original size:79 final size:80
Alignment explanation
Indices: 200855010--200855161 Score: 211
Period size: 79 Copynumber: 1.9 Consensus size: 80
200855000 TCGAATGATG
* * *
200855010 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
200855075 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* **
200855090 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
200855152 TCGTGCGAGT
64 TCGTGCGAGT
200855162 CACTATAACC
Statistics
Matches: 64, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
78 1 0.02
79 45 0.70
80 18 0.28
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:200855225 original size:79 final size:79
Alignment explanation
Indices: 200855062--200855227 Score: 174
Period size: 79 Copynumber: 2.1 Consensus size: 79
200855052 CGGACTAGGA
* * * *
200855062 TCCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTA
1 TCCGAAGGCATTCGTGCGAGTCAATAAATCCAGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
*
200855127 AACCCGGGTTAAGT
66 AACCCGGGTTAAAT
* * ** * **
200855141 CCCGAAGGCATTCGTGCGAGTCACTATAA-CCAGGCTTCGTCCCGAAGGCATTTGAGCGAGTCGT
1 TCCGAAGGCATTCGTGCGAGTCAATA-AATCCAGGCTAAG-CCCGAAGGCATTTGAGCAAGTCAC
* *
200855205 TATATCC-GGTTAAAT
64 TAAACCCGGGTTAAAT
200855220 TCCGAAGG
1 TCCGAAGG
200855228 TATGTGATTC
Statistics
Matches: 70, Mismatches: 15, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
79 44 0.63
80 26 0.37
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (79 bp):
TCCGAAGGCATTCGTGCGAGTCAATAAATCCAGGCTAAGCCCGAAGGCATTTGAGCAAGTCACTA
AACCCGGGTTAAAT
Found at i:200856594 original size:52 final size:52
Alignment explanation
Indices: 200856511--200856614 Score: 163
Period size: 52 Copynumber: 2.0 Consensus size: 52
200856501 TTTGAAGCCT
** * *
200856511 GTTAACACCTCGTGTTCGACTCCGGCGACGGTCTCGGGTTCGGGGTGTTACA
1 GTTAACACCTCGTGTTCGACTCCGGAAACGGTCTCGGGTACGGGGCGTTACA
*
200856563 GTTAACATCTCGTGTTCGACTCCGGAAACGGTCTCGGGTACGGGGCGTTACA
1 GTTAACACCTCGTGTTCGACTCCGGAAACGGTCTCGGGTACGGGGCGTTACA
200856615 TCACTATTCT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 47 1.00
ACGTcount: A:0.16, C:0.26, G:0.32, T:0.26
Consensus pattern (52 bp):
GTTAACACCTCGTGTTCGACTCCGGAAACGGTCTCGGGTACGGGGCGTTACA
Found at i:200858563 original size:14 final size:14
Alignment explanation
Indices: 200858544--200858571 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
200858534 AAGCATTGAG
200858544 ACAGATAGTTAGTT
1 ACAGATAGTTAGTT
200858558 ACAGATAGTTAGTT
1 ACAGATAGTTAGTT
200858572 GTATCAATTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.07, G:0.21, T:0.36
Consensus pattern (14 bp):
ACAGATAGTTAGTT
Found at i:200864401 original size:25 final size:25
Alignment explanation
Indices: 200864367--200864424 Score: 107
Period size: 25 Copynumber: 2.3 Consensus size: 25
200864357 TGTGTGAATT
200864367 AGTGAAAATTTAGAGTTTCCATAGA
1 AGTGAAAATTTAGAGTTTCCATAGA
200864392 AGTGAAAATTTAGAGTTTCCATAGA
1 AGTGAAAATTTAGAGTTTCCATAGA
*
200864417 AGAGAAAA
1 AGTGAAAA
200864425 ATGTTCAGCA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.45, C:0.07, G:0.21, T:0.28
Consensus pattern (25 bp):
AGTGAAAATTTAGAGTTTCCATAGA
Found at i:200864923 original size:46 final size:46
Alignment explanation
Indices: 200864871--200865046 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
200864861 TGGTTGAGCA
* *
200864871 TCCGAACTCGTCGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
200864917 TTCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
* *
200864962 CATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* *
200865010 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
200865047 GCAGGTTACA
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 62 0.57
47 27 0.25
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:200865027 original size:93 final size:93
Alignment explanation
Indices: 200864868--200865038 Score: 279
Period size: 93 Copynumber: 1.8 Consensus size: 93
200864858 GGATGGTTGA
* * **
200864868 GCATCCGAACTCGTCGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
200864933 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
200864961 GCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
200865026 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
200865039 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTCGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:200869305 original size:40 final size:39
Alignment explanation
Indices: 200869261--200869442 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
200869251 GTTCAAAACA
* * ** * *
200869261 CCTTCGGGACATAGCCCGGTTATGGTAACCCGCACAAATG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
* *
200869301 CCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTG
1 CCTTCGGG-CTTAGCCCGGATATCATAACTCGCACAATTG
*
200869341 CCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
* *
200869380 CCTTCGGGCTTAGCCCGGATATCACAATTCGCACAATTG
1 CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
*
200869419 CCTTCGGGCTTAGCCTGGATATCA
1 CCTTCGGGCTTAGCCCGGATATCA
200869443 CTCGAACATT
Statistics
Matches: 127, Mismatches: 15, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 87 0.69
40 40 0.31
ACGTcount: A:0.23, C:0.31, G:0.22, T:0.24
Consensus pattern (39 bp):
CCTTCGGGCTTAGCCCGGATATCATAACTCGCACAATTG
Found at i:200869372 original size:39 final size:39
Alignment explanation
Indices: 200869291--200869443 Score: 243
Period size: 39 Copynumber: 3.9 Consensus size: 39
200869281 TATGGTAACC
* *
200869291 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
200869331 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
200869370 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
200869409 CGCACAATTGCCTTCGGGCTTAGCCTGGATATCAC
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCAC
200869444 TCGAACATTC
Statistics
Matches: 105, Mismatches: 8, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 88 0.84
40 17 0.16
ACGTcount: A:0.24, C:0.31, G:0.21, T:0.24
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:200876020 original size:40 final size:40
Alignment explanation
Indices: 200875954--200876120 Score: 169
Period size: 40 Copynumber: 4.2 Consensus size: 40
200875944 AAATTGAATG
* * *
200875954 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * **
200875993 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* *
200876033 ATATCCGGGCTAAGGCCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * ** *
200876073 CTATCCGGGCTAAGACCCGAAGGCATTTGTGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
200876113 ATATCCGG
1 ATATCCGG
200876121 TTATATTCCG
Statistics
Matches: 105, Mismatches: 18, Indels: 9
0.80 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 87 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:200885449 original size:40 final size:40
Alignment explanation
Indices: 200885393--200885560 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
200885383 CAATTGAATG
* *
200885393 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
200885434 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
200885473 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
200885513 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
200885553 ATATCCGG
1 ATATCCGG
200885561 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:200885526 original size:80 final size:79
Alignment explanation
Indices: 200885393--200885560 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
200885383 CAATTGAATG
* *
200885393 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
200885458 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
200885473 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
200885537 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
200885553 ATATCCGG
1 ATATCCGG
200885561 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:200893383 original size:40 final size:40
Alignment explanation
Indices: 200893327--200893494 Score: 184
Period size: 40 Copynumber: 4.2 Consensus size: 40
200893317 CAATTGAATG
* *
200893327 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTG-CTT
200893368 -TATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTG-TT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAG-TGCTT
* * *
200893407 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGT-CGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGC-TT
** *
200893447 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTGCTT
200893487 ATATCCGG
1 ATATCCGG
200893495 TTGTATTCCG
Statistics
Matches: 110, Mismatches: 9, Indels: 17
0.81 0.07 0.12
Matches are distributed among these distances:
39 8 0.07
40 98 0.89
41 4 0.04
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTGCTT
Found at i:200893460 original size:80 final size:79
Alignment explanation
Indices: 200893327--200893494 Score: 239
Period size: 80 Copynumber: 2.1 Consensus size: 79
200893317 CAATTGAATG
* *
200893327 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGACTTTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGA-TTTATCCGGGCTAAGACCCGAAGGCA
*
200893392 TTCGTGCAAGTTGTT
65 TTCGTGCAAGTGGTT
* *
200893407 ATATCCGGGCTAATACCCGAAGGCATTTGTGCGAGTCG-TTATATCCGGGCTAAGACCCGAAGGC
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGT-GATT-TATCCGGGCTAAGACCCGAAGGC
**
200893471 ATTCGTGCGTGTGGTT
64 ATTCGTGCAAGTGGTT
200893487 ATATCCGG
1 ATATCCGG
200893495 TTGTATTCCG
Statistics
Matches: 79, Mismatches: 7, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
79 2 0.03
80 76 0.96
81 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.29, T:0.26
Consensus pattern (79 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCGAGTGATTTATCCGGGCTAAGACCCGAAGGCAT
TCGTGCAAGTGGTT
Found at i:200895975 original size:29 final size:29
Alignment explanation
Indices: 200895942--200896101 Score: 180
Period size: 29 Copynumber: 5.5 Consensus size: 29
200895932 GTGACGAGAT
200895942 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
200895971 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
200896000 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
200896029 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
200896058 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
200896087 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
200896102 GAAATCGAGT
Statistics
Matches: 111, Mismatches: 17, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
28 2 0.02
29 108 0.97
30 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:200904130 original size:29 final size:29
Alignment explanation
Indices: 200904097--200904227 Score: 122
Period size: 29 Copynumber: 4.5 Consensus size: 29
200904087 GTGACGAGAT
200904097 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
200904126 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCATGCTGGAAATATA
* ** * ***
200904155 CGGCACTGGGTGTGCGA-GCTCGAAGGGTA
1 TGGCACTAAGTGTGC-ATGCTGGAAATATA
* ** * *
200904184 TGGCACTATGTGTGCGGGCT-TAAATCACA
1 TGGCACTAAGTGTGCATGCTGGAAAT-ATA
200904213 TGGCACTAAGTGTGC
1 TGGCACTAAGTGTGC
200904228 GAAATCGAGT
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
28 2 0.02
29 79 0.96
30 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.32, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCATGCTGGAAATATA
Found at i:200905984 original size:17 final size:19
Alignment explanation
Indices: 200905964--200906004 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 19
200905954 GAAGGGTATT
200905964 TTTTTAGAA-ATGGT-AAG
1 TTTTTAGAAGATGGTCAAG
* *
200905981 TTTTTCGAAGATGTTCAAG
1 TTTTTAGAAGATGGTCAAG
200906000 TTTTT
1 TTTTT
200906005 TTTCTATTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 8 0.40
18 4 0.20
19 8 0.40
ACGTcount: A:0.27, C:0.05, G:0.20, T:0.49
Consensus pattern (19 bp):
TTTTTAGAAGATGGTCAAG
Found at i:200911038 original size:20 final size:20
Alignment explanation
Indices: 200911013--200911050 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
200911003 GTTTATTCGC
*
200911013 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
200911033 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
200911051 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:200912711 original size:28 final size:28
Alignment explanation
Indices: 200912679--200912747 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
200912669 GCGTAGATCA
200912679 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
200912707 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
200912735 CGATA-TACCCCTA
1 CGAAATTACCCCTA
200912748 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:200914183 original size:27 final size:27
Alignment explanation
Indices: 200914111--200914189 Score: 68
Period size: 27 Copynumber: 2.9 Consensus size: 27
200914101 CTTAAACTAT
* * * * *
200914111 AAAATTACTGAAATACCTTTATAGTGGA
1 AAAATTACTGATATACCCTTA-GGAGCA
* *
200914139 AAAATTTACAGATTTACCCTTAGGAGCA
1 AAAA-TTACTGATATACCCTTAGGAGCA
*
200914167 AAAATTACTGATATACCCCTAGG
1 AAAATTACTGATATACCCTTAGG
200914190 GTTAAGGTTG
Statistics
Matches: 40, Mismatches: 10, Indels: 3
0.75 0.19 0.06
Matches are distributed among these distances:
27 16 0.40
28 11 0.28
29 13 0.32
ACGTcount: A:0.41, C:0.16, G:0.14, T:0.29
Consensus pattern (27 bp):
AAAATTACTGATATACCCTTAGGAGCA
Found at i:200916753 original size:40 final size:39
Alignment explanation
Indices: 200916708--200916837 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
200916698 CGGAATACAA
200916708 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
200916748 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
200916788 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
200916828 CCGGATATAA
1 CCGGATATAA
200916838 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:200924789 original size:40 final size:39
Alignment explanation
Indices: 200924744--200924873 Score: 163
Period size: 40 Copynumber: 3.3 Consensus size: 39
200924734 CGGAATACAA
200924744 CCGGATATAACCACGTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* *
200924784 CCGGATAGAACGACTTGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAC-TGCACGAATGCCTTCGGGTCTTAGC
* * * *
200924824 CCGGATGTAGCCGCTAGCAC-AATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCACT-GCACGAA-TGCCTTCGGGTCTTAGC
200924864 CCGGATATAA
1 CCGGATATAA
200924874 TTTCCAGCAT
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
39 3 0.04
40 74 0.96
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.23
Consensus pattern (39 bp):
CCGGATATAACCACTGCACGAATGCCTTCGGGTCTTAGC
Found at i:200927488 original size:23 final size:23
Alignment explanation
Indices: 200927462--200927505 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
200927452 TCCTTATATG
200927462 GGTTGGTTCCATTATATAGATCC
1 GGTTGGTTCCATTATATAGATCC
200927485 GGTTGGTTCCATTATATAGAT
1 GGTTGGTTCCATTATATAGAT
200927506 GCTCTCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.23, C:0.14, G:0.23, T:0.41
Consensus pattern (23 bp):
GGTTGGTTCCATTATATAGATCC
Found at i:200929292 original size:29 final size:29
Alignment explanation
Indices: 200929258--200929389 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
200929248 TAATCGATCA
*
200929258 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
200929287 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
200929316 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
200929345 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
200929374 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
200929390 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:200937240 original size:29 final size:29
Alignment explanation
Indices: 200937206--200937337 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
200937196 TAATCGATCA
*
200937206 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
200937235 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
200937264 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
200937293 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
200937322 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
200937338 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:200945183 original size:29 final size:29
Alignment explanation
Indices: 200945149--200945280 Score: 137
Period size: 29 Copynumber: 4.6 Consensus size: 29
200945139 TAATCGATCA
*
200945149 CGCACACTTAGTGCCAT-GTGATTT-AAGCT
1 CGCACACTTAGTGCCATACT--TTTCAAGCT
* * **
200945178 CGCACACATAGTGCCGTATA-ATTT-AAATT
1 CGCACACTTAGTGCC--ATACTTTTCAAGCT
200945207 CGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
200945236 TGCACACTTAGTGCCATACTTTTCAAGCT
1 CGCACACTTAGTGCCATACTTTTCAAGCT
*
200945265 TGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
200945281 ATCTTGTCAC
Statistics
Matches: 89, Mismatches: 9, Indels: 10
0.82 0.08 0.09
Matches are distributed among these distances:
27 3 0.03
28 3 0.03
29 81 0.91
31 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (29 bp):
CGCACACTTAGTGCCATACTTTTCAAGCT
Found at i:200949919 original size:40 final size:39
Alignment explanation
Indices: 200949751--200949921 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
200949741 AGAAATTGAA
* *
200949751 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
200949791 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
200949831 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
200949871 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
200949911 TGATATCCGGG
1 TGATATCCGGG
200949922 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:200957696 original size:40 final size:39
Alignment explanation
Indices: 200957528--200957698 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
200957518 AGAAATTGAA
* *
200957528 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
200957568 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
200957608 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
200957648 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
200957688 TGATATCCGGG
1 TGATATCCGGG
200957699 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:200961001 original size:48 final size:48
Alignment explanation
Indices: 200960947--200961088 Score: 194
Period size: 48 Copynumber: 3.0 Consensus size: 48
200960937 GTCTCATATT
* * * * **
200960947 GATGCCAATGCCATATCCCAAATATGGTCTTACATGAGATCACACGTC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACACC
* * *
200960995 GGTGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCATACC
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACACC
*
200961043 GATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATCACACA
1 GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACA
200961089 TAACCCTAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
48 81 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (48 bp):
GATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCACACACC
Found at i:200964007 original size:14 final size:14
Alignment explanation
Indices: 200963981--200964018 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
200963971 TAAATAAAAG
*
200963981 GAAATA-AAAGAAA
1 GAAATAGAATGAAA
200963994 GAAATAGAATGAAA
1 GAAATAGAATGAAA
*
200964008 GAAACAGAATG
1 GAAATAGAATG
200964019 TGGAACGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 6 0.27
14 16 0.73
ACGTcount: A:0.66, C:0.03, G:0.21, T:0.11
Consensus pattern (14 bp):
GAAATAGAATGAAA
Found at i:200964059 original size:17 final size:19
Alignment explanation
Indices: 200964039--200964076 Score: 62
Period size: 19 Copynumber: 2.1 Consensus size: 19
200964029 CAAGGGAAGG
200964039 AAGAAAG-A-AAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
200964056 AAGAAAGAAGAAAAGAGAA
1 AAGAAAGAAGAAAAGAGAA
200964075 AA
1 AA
200964077 TTAAAGGTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.37
18 1 0.05
19 11 0.58
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (19 bp):
AAGAAAGAAGAAAAGAGAA
Found at i:200964692 original size:3 final size:3
Alignment explanation
Indices: 200964684--200964716 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
200964674 GAATGGTAAG
200964684 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
200964717 GGTATTGAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:200965286 original size:18 final size:18
Alignment explanation
Indices: 200965265--200965299 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
200965255 CTAAATAATT
*
200965265 GACTGTTACAGAATAAAC
1 GACTGATACAGAATAAAC
*
200965283 GACTGATACTGAATAAA
1 GACTGATACAGAATAAA
200965300 TGAATATTAC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.46, C:0.14, G:0.17, T:0.23
Consensus pattern (18 bp):
GACTGATACAGAATAAAC
Found at i:200970640 original size:40 final size:39
Alignment explanation
Indices: 200970472--200970642 Score: 159
Period size: 40 Copynumber: 4.3 Consensus size: 39
200970462 AGAAATTGAA
* *
200970472 TGATATCCGGGCTAAGCCCCGAAGACAATTATGCTG-AAAT-
1 TGATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCAAATG
* * * * *
200970512 TTATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
* *
200970552 CT-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTG
1 -TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAA-ATG
* *
200970592 TTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCG
1 TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAAT-G
200970632 TGATATCCGGG
1 TGATATCCGGG
200970643 TAAAGTCCCG
Statistics
Matches: 107, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 95 0.89
41 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.26, T:0.24
Consensus pattern (39 bp):
TGATATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATG
Found at i:200978567 original size:39 final size:40
Alignment explanation
Indices: 200978509--200978609 Score: 132
Period size: 39 Copynumber: 2.5 Consensus size: 40
200978499 AAATTGAATG
* *
200978509 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
* * * * *
200978548 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
200978588 ATATCCGGGCTAAGACCCGAAG
1 ATATCCGGGCTAAGACCCGAAG
200978610 GCATTCGTGC
Statistics
Matches: 53, Mismatches: 8, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
39 29 0.55
40 24 0.45
ACGTcount: A:0.31, C:0.23, G:0.25, T:0.22
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGACAATTATGCTAGAAACT
Found at i:200978602 original size:40 final size:40
Alignment explanation
Indices: 200978509--200978685 Score: 180
Period size: 40 Copynumber: 4.5 Consensus size: 40
200978499 AAATTGAATG
* * * * *
200978509 ATATCCGGGCTAAGCCCCGAAGACAATTATGCT-GAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
200978548 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
* *
200978588 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTAGTAGTT
* * * * * *
200978628 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGTG
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
*
200978668 ATATCCGGG-TAAGTCCCG
1 ATATCCGGGCTAAGACCCG
200978686 TGGCCTTGGT
Statistics
Matches: 117, Mismatches: 18, Indels: 6
0.83 0.13 0.04
Matches are distributed among these distances:
39 40 0.34
40 75 0.64
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTAGTAGTT
Found at i:200982840 original size:20 final size:20
Alignment explanation
Indices: 200982815--200982852 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
200982805 GTTTATTCGC
*
200982815 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
200982835 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
200982853 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:200984508 original size:28 final size:28
Alignment explanation
Indices: 200984476--200984544 Score: 122
Period size: 28 Copynumber: 2.5 Consensus size: 28
200984466 GCGTAGATCA
200984476 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
200984504 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
200984532 CGATA-TACCCCTA
1 CGAAATTACCCCTA
200984545 GGGTTTTAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 8 0.20
28 32 0.80
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:200990842 original size:20 final size:20
Alignment explanation
Indices: 200990817--200990854 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
200990807 GTTTATTCGC
*
200990817 GATTTTCAATATTTTGTAAA
1 GATTTTCAAAATTTTGTAAA
*
200990837 GATTTTTAAAATTTTGTA
1 GATTTTCAAAATTTTGTA
200990855 TTTGGATGTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.11, T:0.53
Consensus pattern (20 bp):
GATTTTCAAAATTTTGTAAA
Found at i:200992547 original size:27 final size:27
Alignment explanation
Indices: 200992482--200992535 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
200992472 GTAGATCACG
200992482 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
200992509 AAATTACCCCTAAAGAGCAAAATTACC
1 AAATTACCCCTAAAGAGCAAAATTACC
200992536 GATATACCCC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.48, C:0.26, G:0.07, T:0.19
Consensus pattern (27 bp):
AAATTACCCCTAAAGAGCAAAATTACC
Found at i:200994189 original size:29 final size:28
Alignment explanation
Indices: 200994155--200994257 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
200994145 GTGACGAGAT
* *
200994155 TGGCACTATGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTG-AATATA
* *
200994184 TGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTT-GAATATA
* * *
200994213 TGGCACTATGTGTGCGGGCTTGAATCACA
1 TGGCACTAAGTGTGCGAGCTTGAAT-ATA
200994242 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
200994258 TGATTGAGTA
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
28 3 0.05
29 58 0.94
30 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.32, T:0.30
Consensus pattern (28 bp):
TGGCACTAAGTGTGCGAGCTTGAATATA
Found at i:200997997 original size:12 final size:12
Alignment explanation
Indices: 200997980--200998005 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
200997970 CAAAATAGGG
200997980 TTTTAGCGGCAT
1 TTTTAGCGGCAT
200997992 TTTTAGCGGCAT
1 TTTTAGCGGCAT
200998004 TT
1 TT
200998006 GAATAGAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.23, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCAT
Found at i:200998111 original size:40 final size:40
Alignment explanation
Indices: 200998034--200998114 Score: 99
Period size: 40 Copynumber: 2.0 Consensus size: 40
200998024 AAAATCGAAT
* * * *
200998034 AGATCGAGTATTAACGGCGTTTTTATGAAAGTACCGCTAA
1 AGATCGAGCATTAACAGCGTTTTTAAGAAAGCACCGCTAA
* * *
200998074 AGATCGAGCATTAGCAGCGTTTTTAAGGAAGCCCCGCTAA
1 AGATCGAGCATTAACAGCGTTTTTAAGAAAGCACCGCTAA
200998114 A
1 A
200998115 AGATTAAAGA
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 34 1.00
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.26
Consensus pattern (40 bp):
AGATCGAGCATTAACAGCGTTTTTAAGAAAGCACCGCTAA
Found at i:200998985 original size:21 final size:21
Alignment explanation
Indices: 200998961--200999054 Score: 55
Period size: 21 Copynumber: 4.2 Consensus size: 21
200998951 TCTATAGTGG
*
200998961 TAAATTATAAACTATAAACCT
1 TAAACTATAAACTATAAACCT
**
200998982 TAAACCCTAAA-TATTAAACCT
1 TAAACTATAAACTA-TAAACCT
* * * * *
200999003 TGAATTCTAAACCATAAAACCC
1 TAAACTATAAACTAT-AAACCT
200999025 TAAACTATAAACAGTACTAAACCCT
1 TAAACTATAAAC--TA-TAAA-CCT
200999050 TAAAC
1 TAAAC
200999055 CCTTAAATAT
Statistics
Matches: 53, Mismatches: 13, Indels: 10
0.70 0.17 0.13
Matches are distributed among these distances:
20 2 0.04
21 24 0.45
22 15 0.28
24 4 0.08
25 8 0.15
ACGTcount: A:0.49, C:0.22, G:0.02, T:0.27
Consensus pattern (21 bp):
TAAACTATAAACTATAAACCT
Found at i:200999549 original size:3 final size:3
Alignment explanation
Indices: 200999541--200999599 Score: 82
Period size: 3 Copynumber: 19.7 Consensus size: 3
200999531 ATTAATAGTA
* * * *
200999541 AAT AAT AAT AAT AAT AAG AAT AAG AAT AAG AAT AAG AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
200999589 AAT AAT AAT AA
1 AAT AAT AAT AA
200999600 AAGAGAAAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.68, C:0.00, G:0.07, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:200999779 original size:22 final size:22
Alignment explanation
Indices: 200999752--200999795 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
200999742 AGAGAATGTA
200999752 AAACGGTGTCGTTTACATCCTT
1 AAACGGTGTCGTTTACATCCTT
200999774 AAACGGTGTCGTTTACATCCTT
1 AAACGGTGTCGTTTACATCCTT
200999796 CTTATTAGTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.23, C:0.23, G:0.18, T:0.36
Consensus pattern (22 bp):
AAACGGTGTCGTTTACATCCTT
Found at i:201002326 original size:40 final size:40
Alignment explanation
Indices: 201002220--201002403 Score: 147
Period size: 40 Copynumber: 4.6 Consensus size: 40
201002210 TGCTGGAAAT
* * * * * **
201002220 TATAACCGGGTTAAGACCCGAAGGCAATGGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
*
201002260 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAT
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * *
201002300 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-AATC-G
1 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * * * * * *
201002338 TGATATCCGGGTTAAGTCCCGTAGGCCTTGGTGCGGGTTAC
1 T-ATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
* * *
201002379 CATATCCGGGCTATGTCCCGAAGGC
1 TATATCCGGGCTAAGACCCGAAGGC
201002404 GTTTGAACGA
Statistics
Matches: 115, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
38 1 0.01
39 29 0.25
40 85 0.74
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.23
Consensus pattern (40 bp):
TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTCAC
Found at i:201005223 original size:46 final size:46
Alignment explanation
Indices: 201005170--201005345 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
201005160 TATTTGGGCA
201005170 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
201005216 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
201005263 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
201005309 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
201005346 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:201005325 original size:93 final size:93
Alignment explanation
Indices: 201005166--201005337 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
201005156 GGGATATTTG
* *
201005166 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
201005231 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
201005259 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
201005324 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
201005338 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:201008321 original size:15 final size:15
Alignment explanation
Indices: 201008301--201008369 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
201008291 GTATCTTGGG
201008301 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
201008316 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
201008331 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
201008346 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
201008361 TTTCTTTAT
1 TTTCTTTAT
201008370 TCGGTTTTCG
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:201008370 original size:30 final size:30
Alignment explanation
Indices: 201008292--201008371 Score: 99
Period size: 30 Copynumber: 2.7 Consensus size: 30
201008282 CATAGTATCG
* * *
201008292 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATCTCTC
* *
201008322 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATCTCTC
201008352 TATCTTGGATTTCTTTATTC
1 TATCTTGGATTTCTTTATTC
201008372 GGTTTTCGTT
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 41 0.95
31 1 0.02
ACGTcount: A:0.11, C:0.17, G:0.15, T:0.56
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATCTCTC
Found at i:201010806 original size:46 final size:46
Alignment explanation
Indices: 201010756--201010931 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
201010746 ATATTTGGCA
201010756 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* * * *
201010802 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG---CGA-GCG
*
201010849 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
* *
201010895 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
201010932 GCGGGTTACA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 4 0.04
45 2 0.02
46 67 0.60
47 33 0.29
48 2 0.02
50 4 0.04
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCG
Found at i:201010911 original size:93 final size:93
Alignment explanation
Indices: 201010752--201010923 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
201010742 CTGGATATTT
* *
201010752 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAGCGTCCGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
201010817 TTGAGTCCGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
*
201010845 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
201010910 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
201010924 ACTTATGGGC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.20, C:0.22, G:0.30, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:201016641 original size:13 final size:13
Alignment explanation
Indices: 201016623--201016648 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
201016613 CAAAATCATA
201016623 ATTATAATAATTT
1 ATTATAATAATTT
201016636 ATTATAATAATTT
1 ATTATAATAATTT
201016649 CGGTAAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
ATTATAATAATTT
Found at i:201019990 original size:40 final size:40
Alignment explanation
Indices: 201019935--201020144 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
201019925 AACATTGGAA
201019935 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
201019975 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
201020015 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
201020055 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
201020094 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
201020135 CTATATCCGG
1 ATATATCCGG
201020145 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:201028124 original size:40 final size:40
Alignment explanation
Indices: 201028069--201028278 Score: 305
Period size: 40 Copynumber: 5.2 Consensus size: 40
201028059 AACATTGGAA
201028069 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
201028109 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
201028149 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * *
201028189 ATATATCCGGGCTAAGACCCGAAGGCCTTTGTGCAAG-TC
1 ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
* * * * * *
201028228 ACCAAATCCGGGTTATGACCCGAAGGCAATCGTGCGAGTCG
1 A-TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
*
201028269 CTATATCCGG
1 ATATATCCGG
201028279 TTAAATCCCG
Statistics
Matches: 151, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
39 2 0.01
40 149 0.99
ACGTcount: A:0.25, C:0.24, G:0.29, T:0.22
Consensus pattern (40 bp):
ATATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTG
Found at i:201030259 original size:24 final size:24
Alignment explanation
Indices: 201030224--201030274 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
201030214 CATTAAATGC
201030224 TTACTAGATTTTCTTTACTCAGTT
1 TTACTAGATTTTCTTTACTCAGTT
* * *
201030248 TTACTAGGTTTTCTTTTCTCTGTT
1 TTACTAGATTTTCTTTACTCAGTT
201030272 TTA
1 TTA
201030275 TTAGTGCTCG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.16, C:0.16, G:0.10, T:0.59
Consensus pattern (24 bp):
TTACTAGATTTTCTTTACTCAGTT
Found at i:201031003 original size:18 final size:18
Alignment explanation
Indices: 201030982--201031017 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
201030972 GACATGGGCT
201030982 AGGACACGGCCATGTGCC
1 AGGACACGGCCATGTGCC
201031000 AGGACACGGCCATGTGCC
1 AGGACACGGCCATGTGCC
201031018 TTACATCGAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.33, T:0.11
Consensus pattern (18 bp):
AGGACACGGCCATGTGCC
Found at i:201037002 original size:29 final size:29
Alignment explanation
Indices: 201036970--201037104 Score: 155
Period size: 29 Copynumber: 4.7 Consensus size: 29
201036960 ATACCCTCCG
** * *
201036970 AGCTCGCACACCCAGTGCCGTATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
* * * *
201036999 AGCTTGCACACATAGTGTCATATTTTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
201037028 AGCAT-GCACACTTAGTGCCTTATATTTCC
1 AGC-TCGCACACTTAGTGCCATATATTTCC
*
201037057 AGCACGCACACTTAGTGCCATATATTTCC
1 AGCTCGCACACTTAGTGCCATATATTTCC
*
201037086 AGCACGCACACTTAGTGCC
1 AGCTCGCACACTTAGTGCC
201037105 GATCTCGTCA
Statistics
Matches: 93, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
29 92 0.99
30 1 0.01
ACGTcount: A:0.24, C:0.31, G:0.16, T:0.30
Consensus pattern (29 bp):
AGCTCGCACACTTAGTGCCATATATTTCC
Found at i:201037037 original size:58 final size:58
Alignment explanation
Indices: 201036916--201037105 Score: 179
Period size: 58 Copynumber: 3.3 Consensus size: 58
201036906 TACTCGATTT
* * * *** *
201036916 CGCACACTTAGTGCCACGTA-ATTT-AAGCCCGCACACACAGTGCCATA-CCCTCCGAGCT
1 CGCACACTTAGTG-C-CGTATATTTCCAGCACGCACACATAGTGCCATATATTTCC-AGCA
** * ** * *
201036974 CGCACACCCAGTGCCGTATTTTTCCAGCTTGCACACATAGTGTCATATTTTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
* * *
201037032 TGCACACTTAGTGCCTTATATTTCCAGCACGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
201037090 CGCACACTTAGTGCCG
1 CGCACACTTAGTGCCG
201037106 ATCTCGTCAC
Statistics
Matches: 105, Mismatches: 24, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
56 4 0.04
57 4 0.04
58 94 0.90
59 3 0.03
ACGTcount: A:0.24, C:0.33, G:0.16, T:0.26
Consensus pattern (58 bp):
CGCACACTTAGTGCCGTATATTTCCAGCACGCACACATAGTGCCATATATTTCCAGCA
Found at i:201048848 original size:44 final size:45
Alignment explanation
Indices: 201048758--201048886 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
201048748 GACAGAACGA
*
201048758 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
201048804 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
201048848 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
201048887 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:201050871 original size:9 final size:9
Alignment explanation
Indices: 201050857--201050984 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
201050847 ATGTATTAGT
201050857 TAAGTTATG
1 TAAGTTATG
201050866 TAAGTTGTTATG
1 TAA---GTTATG
*
201050878 TACGTTATG
1 TAAGTTATG
*
201050887 TGAGTTATG
1 TAAGTTATG
*
201050896 TAAATTATG
1 TAAGTTATG
201050905 TAAGTTATG
1 TAAGTTATG
*
201050914 TGAGTTATG
1 TAAGTTATG
201050923 TAAGTTGTTATG
1 TAA---GTTATG
*
201050935 TAAATTATG
1 TAAGTTATG
*
201050944 TAAGTTATA
1 TAAGTTATG
* *
201050953 TGAGTTATT
1 TAAGTTATG
201050962 TAAGTTATG
1 TAAGTTATG
* *
201050971 TAATTTATT
1 TAAGTTATG
201050980 TAAGT
1 TAAGT
201050985 AATGATCAAT
Statistics
Matches: 95, Mismatches: 18, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 78 0.82
12 17 0.18
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:201050984 original size:57 final size:57
Alignment explanation
Indices: 201050857--201050984 Score: 166
Period size: 57 Copynumber: 2.2 Consensus size: 57
201050847 ATGTATTAGT
** * *
201050857 TAAGTTATGTAAGTTGTTATGTACGTTATGTGAGTTATGTAAATTATGTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * * *
201050914 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATTTAAGTTATG
1 TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
201050971 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
201050985 AATGATCAAT
Statistics
Matches: 60, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
57 60 1.00
ACGTcount: A:0.31, C:0.01, G:0.20, T:0.48
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:201052438 original size:183 final size:183
Alignment explanation
Indices: 201052130--201052498 Score: 693
Period size: 183 Copynumber: 2.0 Consensus size: 183
201052120 CCTAGAACAG
* **
201052130 ATGTAAGATTATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAATCCTTTATCTAT
1 ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
*
201052195 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAACCAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAGG
201052260 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
201052313 ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
1 ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
201052378 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAGG
66 ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAGG
*
201052443 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAGTACAGACAC
131 AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
201052496 ATG
1 ATG
201052499 GAACTATATC
Statistics
Matches: 181, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 181 1.00
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.27
Consensus pattern (183 bp):
ATGTAAGATCATAAGAGTAGCACCAAATATATTTCAGTTTAAGCAAATATAAAAACTTTATCTAT
ATCAGTACCAAATATTAATTCGAAGATTAAATGGCAGCTTCAGTTGAAACAATAGTTGCAGGAGG
AGCAGGAAGCAGTAACTGAAATACATACAACATTAATTCACTAATACAGACAC
Found at i:201052588 original size:14 final size:13
Alignment explanation
Indices: 201052569--201052598 Score: 51
Period size: 14 Copynumber: 2.2 Consensus size: 13
201052559 CAATATAATT
201052569 TTACTTCATATATA
1 TTACTTCATATA-A
201052583 TTACTTCATATAA
1 TTACTTCATATAA
201052596 TTA
1 TTA
201052599 TTATAGTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (13 bp):
TTACTTCATATAA
Found at i:201054920 original size:28 final size:29
Alignment explanation
Indices: 201054863--201054934 Score: 94
Period size: 28 Copynumber: 2.5 Consensus size: 29
201054853 TTAATCAAAA
*
201054863 CTCTAAACCTTAAACCATTAAACTATATC
1 CTCTAAACCTTAAACCACTAAACTATATC
*
201054892 C-CTATAACCTTAAACC-CTAAAGTATATC
1 CTCTA-AACCTTAAACCACTAAACTATATC
*
201054920 CTCTAAACCCTAAAC
1 CTCTAAACCTTAAAC
201054935 TATATCCCCT
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 23 0.61
29 15 0.39
ACGTcount: A:0.40, C:0.31, G:0.01, T:0.28
Consensus pattern (29 bp):
CTCTAAACCTTAAACCACTAAACTATATC
Found at i:201054926 original size:21 final size:21
Alignment explanation
Indices: 201054893--201054954 Score: 74
Period size: 21 Copynumber: 3.0 Consensus size: 21
201054883 AACTATATCC
*
201054893 CTATAACCT-TAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
*
201054913 GTATATCCTCTAAACCCTAAA
1 CTATATCCTCTAAACCCTAAA
* *
201054934 CTATATCCCCT-AACCATAAA
1 CTATATCCTCTAAACCCTAAA
201054954 C
1 C
201054955 CACAAAACAA
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
20 16 0.44
21 20 0.56
ACGTcount: A:0.40, C:0.32, G:0.02, T:0.26
Consensus pattern (21 bp):
CTATATCCTCTAAACCCTAAA
Found at i:201054971 original size:28 final size:28
Alignment explanation
Indices: 201054922--201054989 Score: 77
Period size: 28 Copynumber: 2.5 Consensus size: 28
201054912 AGTATATCCT
* * *
201054922 CTAAACC-CTAAACTATATCCCCTAA-C
1 CTAAACCACAAAACAATAACCCCTAATC
201054948 CATAAACCACAAAACAATAACCCCTAATC
1 C-TAAACCACAAAACAATAACCCCTAATC
*
201054977 CTTAACCACAAAA
1 CTAAACCACAAAA
201054990 TGTATGAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
26 1 0.03
27 6 0.17
28 26 0.74
29 2 0.06
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.18
Consensus pattern (28 bp):
CTAAACCACAAAACAATAACCCCTAATC
Done.