Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032254.1 Gossypioides kirkii chromosome KI_12
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: 43711324
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 1700 characters in sequence are not A, C, G, or T
File 106 of 135
Found at i:36460710 original size:239 final size:238
Alignment explanation
Indices: 36460286--36460999 Score: 1194
Period size: 239 Copynumber: 3.0 Consensus size: 238
36460276 TAAAAAATGC
* * *
36460286 CTCCAATTTACTTGTAACTTGACTAAAACGTATCCACCAAACTTATCTAATTTACAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
* *
36460351 AGAGATTTTTACTTCTAACAAGAACCCTAAAGGATACCTAAATAATTCTAGCAAAATACCTTCAA
66 AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAA
* *
36460416 TTCTTACAATTAATTCTATTTTAGAATCCTAAAAAAACTTAAAAAAATTACTAATGAATTAAGAG
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCT-AAAAAATTACTAATGAATTAAGAG
* * *
36460481 AAATATTAAAATTCATCTCCAACTTATTCGATATTTTATCATCG
195 AAATATTAAAATTCATCTTCAACTTATTCGATCTTTTATCATCA
* * *
36460525 CTCCTATTTACTTGTAACTTGACTAAGACATGTTCACCAAACTTATCTAATTTAAAACTTAAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
*
36460590 AGAGATTTTTACTTCTAACGAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACCTTCAA
66 AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAA
36460655 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCCTAAAAAATTACTAATGAATTAAGAG
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAA-CCTAAAAAATTACTAATGAATTAAGAG
*
36460720 AAATATTAAAATTCATCTTCAACTTATTCGATCTTTTATCATTA
195 AAATATTAAAATTCATCTTCAACTTATTCGATCTTTTATCATCA
* *
36460764 CTCCGATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTGAATT
1 CTCCAATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
* * * *
36460829 AGAGATTTTTACTTCTAACGAGAATCTTAAAGGATACCTAAATAATTTTAGTAAAATACATTCAA
66 AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAA
* *
36460894 TTCTTAAAATTAATTCTATTTTAAAATCCTAAAAGAACCTAAAAAATTACTAATGAATTAAGAGA
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAATTACTAATGAATTAAGAGA
*
36460959 AATATTAAAATTCATCTTCAACTTATTCAATCTTTTATCAT
196 AATATTAAAATTCATCTTCAACTTATTCGATCTTTTATCAT
36461000 TATTATTATT
Statistics
Matches: 447, Mismatches: 27, Indels: 3
0.94 0.06 0.01
Matches are distributed among these distances:
238 68 0.15
239 377 0.84
240 2 0.00
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (238 bp):
CTCCAATTTACTTGTAACTTGACTAAGACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACCTTCAA
TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAATTACTAATGAATTAAGAGA
AATATTAAAATTCATCTTCAACTTATTCGATCTTTTATCATCA
Found at i:36462568 original size:51 final size:51
Alignment explanation
Indices: 36462322--36462726 Score: 158
Period size: 51 Copynumber: 8.0 Consensus size: 51
36462312 TTTTTTAATG
** * * * * *
36462322 AAAATCACTACTTTAGTTAAAAATCTAAATTTTTATTTCGAAATAATT-AAA
1 AAAATCAAAACTTTATTTAAAAATTTAAACTTTTCTTT-AAAATAATTAAAA
* * * *
36462373 AAAATTAAAACTTTGTTTAAAATTTTAAACTTTTTCTTTAAAATAACT---A
1 AAAATCAAAACTTTATTTAAAAATTTAAAC-TTTTCTTTAAAATAATTAAAA
* * ** * * ** ** *
36462422 AAAAGCATATTTTTATCTTTAAAAATATATACTTTCTCTTT--TTTCTTTAAAG
1 AAAATCAAAACTTTA--TTTAAAAATTTAAACTTT-TCTTTAAAATAATTAAAA
** * * ** * * * *
36462474 AAAATCACTATTTTACTT-AAAATCCAAATTTTTATTTCGAAATAGTTAAAA
1 AAAATCAAAACTTTATTTAAAAATTTAAACTTTTCTTT-AAAATAATTAAAA
* *
36462525 AAAATTAAAACTTTATTTAAAAATTTAAACTTTTCTTTAAAATAACT-AAA
1 AAAATCAAAACTTTATTTAAAAATTTAAACTTTTCTTTAAAATAATTAAAA
* ** * * *
36462575 AAAA-CATATTTTTATTTTTAAAAATATAAACTTTGTCTTT----T--TTTAAG
1 AAAATCAAAACTTTA--TTTAAAAATTTAAACTTT-TCTTTAAAATAATTAAAA
** * * * * * *
36462622 AAAATCACTATTTTACTTAAAAATTCAAATTTTTATTTCGAAATAATT-AAA
1 AAAATCAAAACTTTATTTAAAAATTTAAACTTTTCTTT-AAAATAATTAAAA
*
36462673 AAAATCAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAA
1 AAAATCAAAACTTTATTTAAAAATTTAAAC-TTTTCTTTAAAATAATTAAAA
36462725 AA
1 AA
36462727 CATATTTTTA
Statistics
Matches: 251, Mismatches: 78, Indels: 49
0.66 0.21 0.13
Matches are distributed among these distances:
45 4 0.02
46 15 0.06
47 6 0.02
48 12 0.05
49 28 0.11
50 13 0.05
51 121 0.48
52 52 0.21
ACGTcount: A:0.45, C:0.09, G:0.02, T:0.43
Consensus pattern (51 bp):
AAAATCAAAACTTTATTTAAAAATTTAAACTTTTCTTTAAAATAATTAAAA
Found at i:36462646 original size:97 final size:97
Alignment explanation
Indices: 36462536--36462711 Score: 221
Period size: 97 Copynumber: 1.8 Consensus size: 97
36462526 AAATTAAAAC
* * * * **
36462536 TTTATTTAAAAATTTAAACTTTTCTTT-AAAATAACTAAAAAAA-CATATTTTTATTTTTAAAAA
1 TTTACTTAAAAATTCAAACTTTTATTTCAAAATAACTAAAAAAATCAAAACTTTA--TTTAAAAA
36462599 TATAAACTTTGTCTTTTTTTAAGAAAATCACTAT
64 TATAAACTTTGTCTTTTTTTAAGAAAATCACTAT
* * * *
36462633 TTTACTTAAAAATTCAAATTTTTATTTCGAAATAATTAAAAAAATCAAAACTTTATTTAAAAATT
1 TTTACTTAAAAATTCAAACTTTTATTTCAAAATAACTAAAAAAATCAAAACTTTATTTAAAAATA
*
36462698 TAAACTTTTTCTTT
66 TAAACTTTGTCTTT
36462712 AAAATAACTA
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
97 45 0.68
98 14 0.21
99 7 0.11
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.46
Consensus pattern (97 bp):
TTTACTTAAAAATTCAAACTTTTATTTCAAAATAACTAAAAAAATCAAAACTTTATTTAAAAATA
TAAACTTTGTCTTTTTTTAAGAAAATCACTAT
Found at i:36462743 original size:51 final size:50
Alignment explanation
Indices: 36462536--36462762 Score: 189
Period size: 51 Copynumber: 4.6 Consensus size: 50
36462526 AAATTAAAAC
36462536 TTTATTTAAAAATTTAAAC-TTTTCTTTAAAATAACTAAAAAAACATATT
1 TTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAACATATT
* * *** * **
36462585 TTTATTTTTAAAAATATAAACTTTGTCTTT-TTTTAA-GAAAATCAC-TA-T
1 TTTA--TTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAACATATT
* * * * * * **
36462633 TTTACTTAAAAATTCAAA-TTTTTATTTCGAAATAATTAAAAAAATCAAAAC
1 TTTATTTAAAAATTTAAACTTTTTCTTT-AAAATAACTAAAAAAA-CATATT
36462684 TTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAAACATATT
1 TTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAACATATT
* *
36462733 TTTATTTTTAAAAATATAAACTTTGTCTTT
1 TTTA--TTTAAAAATTTAAACTTTTTCTTT
36462763 TTTTAAAGAA
Statistics
Matches: 135, Mismatches: 31, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
45 7 0.05
46 11 0.08
47 3 0.02
48 10 0.07
49 14 0.10
50 13 0.10
51 62 0.46
52 15 0.11
ACGTcount: A:0.44, C:0.08, G:0.02, T:0.45
Consensus pattern (50 bp):
TTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAACATATT
Found at i:36462824 original size:149 final size:149
Alignment explanation
Indices: 36462020--36462836 Score: 974
Period size: 149 Copynumber: 5.4 Consensus size: 149
36462010 TGATTAAAAC
* * *
36462020 AAAATCACTACTTTACTTCAAAA-TCAAAACTTTTATTTCAAAATAA-TAAAAAAATCAAAATTT
1 AAAATCACTACTTTACTTAAAAATTC-AAACTTTTATTTCGAAATAATTAAAAAAATCAAAACTT
* * * * *
36462083 TGTTTAAAAATTTAAATTTTTTCTTCAAAATCACTAAAAAATAGATTTTTATTTTTTTTAATAAT
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTA---TTTTTAA-AA-
* * * *
36462148 CTAAAAAAAATTT-TC-TTTTTTAATG
125 --ATATAAACTTTGTCTTTTTTTAAAG
* ** * *
36462173 AAAATCACTACTTTACATAAAAATTCAGCCTTTTATTTCAAAATAGTT-AAAAAAT-AAAACTTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
* * * *
36462236 GTTTAAAAATTTAAACTTTTTCCTTAAAATCACTAAAAATAGAT-TTTTGT-TTTTTAAAAATCT
66 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAA-ACATATTTT-TATTTTTAAAAATAT
* * *
36462299 AAATTTTCTTTCTTTTTTTAATG
129 AAA-CTT-TGTCTTTTTTTAAAG
* * *
36462322 AAAATCACTACTTTAGTTAAAAA-TCTAAATTTTTATTTCGAAATAATTAAAAAAATTAAAACTT
1 AAAATCACTACTTTACTTAAAAATTC-AAACTTTTATTTCGAAATAATTAAAAAAATCAAAACTT
* * *
36462386 TGTTTAAAATTTTAAACTTTTTCTTTAAAATAACTAAAAAGCATATTTTTATCTTTAAAAATATA
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATA
* *
36462451 TACTTTCTCTTTTTTCTTTAAAG
130 AACTTTGTC--TTTT-TTTAAAG
* * * * *
36462474 AAAATCACTATTTTACTT-AAAATCCAAATTTTTATTTCGAAATAGTTAAAAAAAATTAAAACTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCGAAATAATT-AAAAAAATCAAAACTT
*
36462538 TATTTAAAAATTTAAAC-TTTTCTTTAAAATAACTAAAAAAACATATTTTTATTTTTAAAAATAT
65 TGTTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAAACATATTTTTATTTTTAAAAATAT
36462602 AAACTTTGTCTTTTTTT-AAG
129 AAACTTTGTCTTTTTTTAAAG
* *
36462622 AAAATCACTATTTTACTTAAAAATTCAAATTTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
*
36462687 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAA
66 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAA
36462752 ACTTTGTCTTTTTTTAAAG
131 ACTTTGTCTTTTTTTAAAG
* ** *
36462771 AAAATCACTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATTGTTTAAAAAAACCAAAACTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCGAAA-TAATTAAAAAAATCAAAACTT
36462836 T
65 T
36462837 TCCTAAAATC
Statistics
Matches: 591, Mismatches: 50, Indels: 49
0.86 0.07 0.07
Matches are distributed among these distances:
145 4 0.01
146 2 0.00
147 1 0.00
148 105 0.18
149 150 0.25
150 35 0.06
151 107 0.18
152 136 0.23
153 48 0.08
154 3 0.01
ACGTcount: A:0.44, C:0.10, G:0.03, T:0.43
Consensus pattern (149 bp):
AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCGAAATAATTAAAAAAATCAAAACTTT
GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAA
ACTTTGTCTTTTTTTAAAG
Found at i:36463268 original size:3 final size:3
Alignment explanation
Indices: 36463260--36463301 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
36463250 AAACCTTAAA
*
36463260 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT GAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
36463302 TTGAGCCTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:36466595 original size:16 final size:16
Alignment explanation
Indices: 36466574--36466604 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
36466564 GAAATTTTTG
*
36466574 TGTTAAAGGACTAAAA
1 TGTTAAAGGAATAAAA
36466590 TGTTAAAGGAATAAA
1 TGTTAAAGGAATAAA
36466605 TTTGTAAAGA
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:0.52, C:0.03, G:0.19, T:0.26
Consensus pattern (16 bp):
TGTTAAAGGAATAAAA
Found at i:36467294 original size:61 final size:61
Alignment explanation
Indices: 36467184--36467508 Score: 424
Period size: 61 Copynumber: 5.3 Consensus size: 61
36467174 GGATTCTCTA
* *
36467184 TGTCATCGTGAGTATTACATGGAAATGAATCCTATTATGGATT-AAAGGTCCGATGACTTTG
1 TGTCATCGTGAGTATTAAAT-GAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* *
36467245 TGTTATCGTGAGTATTAAATGCAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
1 TGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* * *
36467306 TGTCAT-ATGGAGTATTAAATGAAATGAATCCAATTATTGATTAAAAGGTCTGATGACTTTG
1 TGTCATCGT-GAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* * * * **
36467367 TGTCATCGTGAATACTAAATGCAATGAATCTAATTACAGATTAAAAGGTCCGATGACTTTG
1 TGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* * * *
36467428 TGTCATCGTGAGTATTAAATGAAATGAATCCGAA-TATGGATT-ATAGGTTCGATGACTCTA
1 TGTCATCGTGAGTATTAAATGAAATGAATCC-AATTATGGATTAAAAGGTCCGATGACTTTG
* *
36467488 TGACATCGTGAGTATCAAATG
1 TGTCATCGTGAGTATTAAATG
36467509 CGAATTGAAA
Statistics
Matches: 231, Mismatches: 29, Indels: 9
0.86 0.11 0.03
Matches are distributed among these distances:
60 54 0.23
61 174 0.75
62 3 0.01
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.34
Consensus pattern (61 bp):
TGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
Found at i:36471647 original size:77 final size:75
Alignment explanation
Indices: 36471524--36471742 Score: 253
Period size: 77 Copynumber: 2.9 Consensus size: 75
36471514 GCGCCCAGTG
* * * *
36471524 CTAGTTGGTTAAACCGACGATATGAAATGTGAGCCCATCTCTAGTTGGATATACCAACAATATTT
1 CTAGTCGGATAAACCGACGATATG-AATGTGAGCCCAACTCTAGTTGGATATACCAACGATATTT
36471589 TGCG-TCCAGCA
65 TGCGCT-CAGCA
* *
36471600 CTAGTCGGATAAACTGACGAATATTGAATGTGAGCCCAACTCTAGTTGGATATGCCAACGATGA-
1 CTAGTCGGATAAACCGACG-ATA-TGAATGTGAGCCCAACTCTAGTTGGATATACCAACGAT-AT
**
36471664 TTTGCGCTCAGTG
63 TTTGCGCTCAGCA
* ** * *
36471677 CTAGTCGGATAAACCGACGATATCAACAATGAGCCCAGCTCTAGTTGGATATTCCAACGATATTT
1 CTAGTCGGATAAACCGACGATATGAA-TGTGAGCCCAACTCTAGTTGGATATACCAACGATATTT
36471742 T
65 T
36471743 TCGCCCAATG
Statistics
Matches: 123, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
75 4 0.03
76 52 0.42
77 63 0.51
78 4 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (75 bp):
CTAGTCGGATAAACCGACGATATGAATGTGAGCCCAACTCTAGTTGGATATACCAACGATATTTT
GCGCTCAGCA
Found at i:36471735 original size:76 final size:75
Alignment explanation
Indices: 36471511--36471765 Score: 296
Period size: 76 Copynumber: 3.3 Consensus size: 75
36471501 TGTAACAGAG
* * *
36471511 TTTGCGCCCAGTGCTAGTTGGTTAAACCGACGATATGAAATGTGAGCCCATCTCTAGTTGGATAT
1 TTTGCGCCCAGTGCTAGTCGGATAAACCGACGATATGAAA-GTGAGCCCAACTCTAGTTGGATAT
*
36471576 ACCAACAATAT
65 ACCAACGATAT
* ** * *
36471587 TTTGCGTCCAGCACTAGTCGGATAAACTGACGAATATTGAATGTGAGCCCAACTCTAGTTGGATA
1 TTTGCGCCCAGTGCTAGTCGGATAAACCGACG-ATA-TGAAAGTGAGCCCAACTCTAGTTGGATA
*
36471652 TGCCAACGATGA-
64 TACCAACGAT-AT
* * * *
36471664 TTTGCGCTCAGTGCTAGTCGGATAAACCGACGATATCAACAATGAGCCCAGCTCTAGTTGGATAT
1 TTTGCGCCCAGTGCTAGTCGGATAAACCGACGATATGAA-AGTGAGCCCAACTCTAGTTGGATAT
*
36471729 TCCAACGATAT
65 ACCAACGATAT
* * *
36471740 TTTTCGCCCAATGCTAGTGGGATAAA
1 TTTGCGCCCAGTGCTAGTCGGATAAA
36471766 TTGACGATTT
Statistics
Matches: 150, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
75 4 0.03
76 81 0.54
77 60 0.40
78 5 0.03
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.27
Consensus pattern (75 bp):
TTTGCGCCCAGTGCTAGTCGGATAAACCGACGATATGAAAGTGAGCCCAACTCTAGTTGGATATA
CCAACGATAT
Found at i:36473461 original size:15 final size:15
Alignment explanation
Indices: 36473441--36473473 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
36473431 CATTCCATAT
36473441 ATTTATTT-TTTTATC
1 ATTTATTTATTTT-TC
36473456 ATTTATTTATTTTTC
1 ATTTATTTATTTTTC
36473471 ATT
1 ATT
36473474 CTCTTTGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.73
Consensus pattern (15 bp):
ATTTATTTATTTTTC
Found at i:36473625 original size:24 final size:24
Alignment explanation
Indices: 36473579--36473624 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36473569 TTCATTTAAT
36473579 TTTATTTATTCGTCGATATTTTTA
1 TTTATTTATTCGTCGATATTTTTA
36473603 TTTATTTATAT-GTC-ATATTTTT
1 TTTATTTAT-TCGTCGATATTTTT
36473625 TGTGCCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.38
24 12 0.57
25 1 0.05
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.65
Consensus pattern (24 bp):
TTTATTTATTCGTCGATATTTTTA
Found at i:36473760 original size:13 final size:13
Alignment explanation
Indices: 36473739--36473768 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
36473729 AAATAATTAA
*
36473739 TATTTGCTATTTT
1 TATTCGCTATTTT
36473752 TATTCGCTATTTT
1 TATTCGCTATTTT
36473765 TATT
1 TATT
36473769 TGTCTCCTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.67
Consensus pattern (13 bp):
TATTCGCTATTTT
Found at i:36491580 original size:240 final size:239
Alignment explanation
Indices: 36491049--36491764 Score: 1202
Period size: 240 Copynumber: 3.0 Consensus size: 239
36491039 TAAAAAATGT
* * *
36491049 CTCCAATTTACTTGTAACTTGACTAAAACGTATCCACCAAACTTATCTAATTTACAACTTAAATT
1 CTCCGATTTACTTGTAACTTGACTAAAACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
* * *
36491114 AGAGATTTTTACTTCTAACAAGAACCCTAAAGGATACCTAAATAATTCTAGCAAAATACCTTCAA
66 AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACATTCAA
36491179 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAAATTACTAATGAATTAAGAG
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAAATTACTAATGAATTAAGAG
* *
36491244 AAATATTAAAATTCATCTCCAACTTATTCGATATTTTATCATTG
196 AAATATTAAAATTCATCTTCAACTTATTCGATATTTTATCATTA
* * * *
36491288 CTCCGATTTACTTGTAACTTGACTAAGACATGTTCACCGAACTTATCTAATTTAAAACTTAAATT
1 CTCCGATTTACTTGTAACTTGACTAAAACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
* *
36491353 AGAGATTTTTACTTCTAACGAGAACCCTAAAAGATACCTAAATAATTCTAGTAAAATACTTTCAA
66 AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACATTCAA
*
36491418 TTCTTAAAATTAATTCTATTTTAGAATTCTAAAAAAACCCTAAAAAAATTACTAATGAATTAAGA
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAA-CCTAAAAAAATTACTAATGAATTAAGA
*
36491483 GAAATATTAAAATTCATCTTCAACTTATTCGATCTTTTATCATTA
195 GAAATATTAAAATTCATCTTCAACTTATTCGATATTTTATCATTA
*
36491528 CTCCGATTTACTTGTAACTTGACTAAAACGTATTCACCAAACTTATCTAATTTAAAACTTGAATT
1 CTCCGATTTACTTGTAACTTGACTAAAACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
* *
36491593 AGATATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTTTAGTAAAATACATTCAA
66 AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACATTCAA
* * *
36491658 TTCTGAAAATTAATTTTATTTTAAAATCCT-AAAAAACCT-AAAAAATTACTAATGAATTAAGAG
131 TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAAATTACTAATGAATTAAGAG
*
36491721 AAATATTAAAATTCATCTTCAACTTATTCGATTTTTTATCATTA
196 AAATATTAAAATTCATCTTCAACTTATTCGATATTTTATCATTA
36491765 TTATTATTTT
Statistics
Matches: 447, Mismatches: 29, Indels: 4
0.93 0.06 0.01
Matches are distributed among these distances:
237 67 0.15
238 3 0.01
239 161 0.36
240 216 0.48
ACGTcount: A:0.41, C:0.16, G:0.07, T:0.36
Consensus pattern (239 bp):
CTCCGATTTACTTGTAACTTGACTAAAACGTATTCACCAAACTTATCTAATTTAAAACTTAAATT
AGAGATTTTTACTTCTAACGAGAACCCTAAAGGATACCTAAATAATTCTAGTAAAATACATTCAA
TTCTTAAAATTAATTCTATTTTAGAATCCTAAAAAAACCTAAAAAAATTACTAATGAATTAAGAG
AAATATTAAAATTCATCTTCAACTTATTCGATATTTTATCATTA
Found at i:36493161 original size:51 final size:51
Alignment explanation
Indices: 36492966--36493201 Score: 147
Period size: 51 Copynumber: 4.7 Consensus size: 51
36492956 ATTACTTTAC
* * * *
36492966 TTAAAAATTC-AACCTTCTATTTCAAAAT-AGTTAAAAAAT-AAAACTTTGT
1 TTAAAAATTCAAACTTTTTATTT-AAAATAACTAAAAAAATCAAAACTTTGT
* * * ****
36493015 TTAAAAATTTAAACTTTTTCTTTAAAATCACTAAAAATAGATTTTTA-TTT-T
1 TTAAAAATTCAAACTTTTTATTTAAAATAACTAAAAA-A-ATCAAAACTTTGT
*** * **
36493066 TTAAAAA-TCTAAACTTTCTT-TTT-TTTTAA-T--GAAAATCACTACTTTAG-
1 TTAAAAATTC-AAACTTT-TTATTTAAAATAACTAAAAAAATCAAAACTTT-GT
36493113 TTAAAAATTCAAA-TTTTTATTTCAAAATAACTAAAAAAATCAAAACTTTGT
1 TTAAAAATTCAAACTTTTTATTT-AAAATAACTAAAAAAATCAAAACTTTGT
* *
36493164 TTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAA
1 TTAAAAATTCAAACTTTTTATTTAAAATAACTAAAAAA
36493202 CATACTTTTA
Statistics
Matches: 142, Mismatches: 26, Indels: 36
0.70 0.13 0.18
Matches are distributed among these distances:
45 6 0.04
46 10 0.07
47 12 0.08
48 5 0.04
49 16 0.11
50 19 0.13
51 58 0.41
52 15 0.11
53 1 0.01
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.42
Consensus pattern (51 bp):
TTAAAAATTCAAACTTTTTATTTAAAATAACTAAAAAAATCAAAACTTTGT
Found at i:36493216 original size:149 final size:148
Alignment explanation
Indices: 36492800--36493609 Score: 987
Period size: 149 Copynumber: 5.4 Consensus size: 148
36492790 TGATTAAAAC
* * * *
36492800 AAAATCATTACTTTACTTCAAAA-TCAAAACTTTTATTTCAAAATAGTAAAAAAAAATCAAAACT
1 AAAATCACTACTTTACTTAAAAATTC-AAACTTTTATTTCAAAATAAT-TAAAAAAATCAAAACT
* * * *
36492864 TTATTTAAAAATTTAAATTTTTTCTTAAAAATCACTACAAAAACAGATTTTTATTTTTTTAAAAA
64 TTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTA-AAAAACATATTTTTA--TTTTT-AAAA
*
36492929 ATCTAAA----CTTTTTTTTTAATG
125 ATATAAACTTTCTTTTTTTTTAA-G
* * * *
36492950 AAAATCATTACTTTACTTAAAAATTCAACCTTCTATTTCAAAATAGTT-AAAAAAT-AAAACTTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAATTAAAAAAATCAAAACTTT
* * * * *
36493013 GTTTAAAAATTTAAACTTTTTCTTTAAAATCACT-AAAAATAGATTTTTATTTTTTAAAAATCTA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTA-TTTTTAAAAATATA
36493077 AACTTTCTTTTTTTTTAATG
130 AACTTTCTTTTTTTTTAA-G
* * *
36493097 AAAATCACTACTTTAGTTAAAAATTCAAATTTTTATTTCAAAATAACTAAAAAAATCAAAACTTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAATTAAAAAAATCAAAACTTT
* *
36493162 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATACTTTTATTTTTAAAAATATAA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAA
36493227 ACTTTCTCTTTTTTTTAAAG
131 ACTTTCT-TTTTTTTT-AAG
* * * * * *
36493247 AAAATCACTATTTTACTT-AAAATCCAAA-TTTTATTTCGAAATAGTTTAAAAAATTAAAACTTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAATTAAAAAAATCAAAACTTT
* *
36493310 ATTTAAAAATTTAATCTTTTTCTTTAAAATAACTAAAAAAACAGATTTTTATTTTTAAAAATATA
66 ATTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAAACATATTTTTATTTTTAAAAATATA
*
36493375 AACTGTC--TTTTTTTAAG
130 AACTTTCTTTTTTTTTAAG
* * *
36493392 AAAATCATTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAATTAAAAAAAATCAAAACTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAATT-AAAAAAATCAAAAC-T
*
36493457 TTATTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATAT
64 TTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATAT
*
36493522 AAACTTTGTTTTTTTTTTTAAG
129 AAAC-TT-TCTTTTTTTTTAAG
* * * * ** *
36493544 AAAATCACTATTTTACTTAAAAAATCAAACTTTTATTTTGAAATTGTTTAAAAAAACCAAAACTT
1 AAAATCACTACTTTACTTAAAAATTCAAACTTTTA-TTTCAAAATAATTAAAAAAATCAAAACTT
36493609 T
65 T
36493610 TCCTAAAATC
Statistics
Matches: 589, Mismatches: 51, Indels: 39
0.87 0.08 0.06
Matches are distributed among these distances:
143 11 0.02
144 6 0.01
145 34 0.06
146 16 0.03
147 111 0.19
148 120 0.20
149 141 0.24
150 79 0.13
151 7 0.01
152 56 0.10
153 8 0.01
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (148 bp):
AAAATCACTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAATTAAAAAAATCAAAACTTT
ATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAA
ACTTTCTTTTTTTTTAAG
Found at i:36493317 original size:297 final size:291
Alignment explanation
Indices: 36492800--36493598 Score: 1047
Period size: 297 Copynumber: 2.7 Consensus size: 291
36492790 TGATTAAAAC
* *
36492800 AAAATCATTACTTTACTTCAAAA-TCAAAACTTTTATTTCAAAATAGTAAAAAAAAATCAAAACT
1 AAAATCATTACTTTACTTAAAAATTC-AAACTTTTATTTCAAAATA--ATAAAAAAATCAAAACT
* * * *
36492864 TTATTTAAAAATTTAAATTTTTTCTTAAAAATCACTACAAAAACAGATTTTTATTTTTTTAAAAA
63 TTATTTAAAAATTTAAAATTTTTCTTTAAAATAACTA-AAAAACATATTTTTA--TTTTT-AAAA
* * * * * * *
36492929 ATCTAAA----CTTTTTTTTTAATGAAAATCATTACTTTACTTAAAAATTCAACCTTCTATTTCA
124 ATATAAACTTTCTTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAA-TCAA-ATTTTATTTCG
* * *
36492990 AAATAG-TTAAAAAATAAAACTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATCACT-AAAAAT
187 AAATAGTTTAAAAAATAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAAC
* *
36493053 AGATTTTTATTTTTTAAAAATCTAAACTTTCTTTTTTTTTAATG
252 AGATTTTTA-TTTTTAAAAATATAAACTGTC--TTTTTTTAA-G
* * *
36493097 AAAATCACTACTTTAGTTAAAAATTCAAATTTTTATTTCAAAATAACTAAAAAAATCAAAACTTT
1 AAAATCATTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAA-TAAAAAAATCAAAACTTT
* * *
36493162 GTTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACATACTTTTATTTTTAAAAATATAA
65 ATTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAA
36493227 ACTTTCTCTTTTTTTTAAAGAAAATCACTATTTTACTT-AAAATCCAAATTTTATTTCGAAATAG
130 ACTTTCT-TTTTTTTTAAAGAAAATCACTATTTTACTTAAAAAT-CAAATTTTATTTCGAAATAG
*
36493291 TTTAAAAAATTAAAACTTTATTTAAAAATTTAATCTTTTTCTTTAAAATAACTAAAAAAACAGAT
193 TTTAAAAAA-TAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACT-AAAAAACAGAT
36493356 TTTTATTTTTAAAAATATAAACTGTCTTTTTTTAAG
256 TTTTATTTTTAAAAATATAAACTGTCTTTTTTTAAG
* *
36493392 AAAATCATTATTTTACTTAAAAATTCAAACTTTTATTTCGAAATAATTAAAAAAAATCAAAACTT
1 AAAATCATTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAA-T-AAAAAAATCAAAAC-T
36493457 TTATTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATAT
63 TTATTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATAT
* * *
36493522 AAACTTTGTTTTTTTTTTTAAGAAAATCACTATTTTACTTAAAAAATCAAACTTTTATTTTGAAA
128 AAACTTT-CTTTTTTTTTAAAGAAAATCACTATTTTACTT-AAAAATCAAA-TTTTATTTCGAAA
*
36493587 TTGTTTAAAAAA
190 TAGTTTAAAAAA
36493599 ACCAAAACTT
Statistics
Matches: 447, Mismatches: 37, Indels: 34
0.86 0.07 0.07
Matches are distributed among these distances:
292 10 0.02
293 5 0.01
295 72 0.16
296 88 0.20
297 204 0.46
298 26 0.06
299 42 0.09
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.43
Consensus pattern (291 bp):
AAAATCATTACTTTACTTAAAAATTCAAACTTTTATTTCAAAATAATAAAAAAATCAAAACTTTA
TTTAAAAATTTAAAATTTTTCTTTAAAATAACTAAAAAACATATTTTTATTTTTAAAAATATAAA
CTTTCTTTTTTTTTAAAGAAAATCACTATTTTACTTAAAAATCAAATTTTATTTCGAAATAGTTT
AAAAAATAAAACTTTATTTAAAAATTTAAACTTTTTCTTTAAAATAACTAAAAAACAGATTTTTA
TTTTTAAAAATATAAACTGTCTTTTTTTAAG
Found at i:36493468 original size:20 final size:21
Alignment explanation
Indices: 36493445--36493487 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
36493435 TAATTAAAAA
36493445 AAAT-CAAAACTTTTATTTAA
1 AAATTCAAAACTTTTATTTAA
* * *
36493465 AAATTTAAAATTTTTCTTTAA
1 AAATTCAAAACTTTTATTTAA
36493486 AA
1 AA
36493488 TAACTAAAAA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (21 bp):
AAATTCAAAACTTTTATTTAA
Found at i:36494024 original size:3 final size:3
Alignment explanation
Indices: 36494016--36494049 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
36494006 CATGAAACCT
*
36494016 TAA TAA TAA TAA TAA TAA TAA TGA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
36494050 TTGAGCCTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:36497418 original size:16 final size:16
Alignment explanation
Indices: 36497379--36497411 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
36497369 GAAATTTTTG
*
36497379 TGTTAAAGGACTAAAT
1 TGTTAAAGGAATAAAT
36497395 TGTTAAAGGAATAAAT
1 TGTTAAAGGAATAAAT
36497411 T
1 T
36497412 TGTAAAGACT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.45, C:0.03, G:0.18, T:0.33
Consensus pattern (16 bp):
TGTTAAAGGAATAAAT
Found at i:36498089 original size:61 final size:61
Alignment explanation
Indices: 36497981--36498305 Score: 415
Period size: 61 Copynumber: 5.3 Consensus size: 61
36497971 GAATTCTCTA
* * *
36497981 TGTCATCGTGAGTATTACATGGAAATGAATCCTATTATGGATT-AAAGGTCCAATGACTTTG
1 TGTCATCGTGAGTATTAAAT-GAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* * * *
36498042 TGTTATCGTGAGTATTAAATGCAATGAATCCAATTACGGATTAAAAGGTCCGATGACTTCG
1 TGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* * *
36498103 TGTCAT-ATGGAGTTTTAAATGAAATGAATCCAATTATGGATTAAAAGGTCTGATGACTTTG
1 TGTCATCGT-GAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* * * ** *
36498164 TGTCATCGTGAATATTAAATGCAATAAATCCAATTACAGATTAAAAGGTCCGATGACTTTA
1 TGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
* *
36498225 TGTCATCGTGAGTATTAAATGAAATGAATCCGAA-TATGGATT-ATAGGTCCGATGACTCTG
1 TGTCATCGTGAGTATTAAATGAAATGAATCC-AATTATGGATTAAAAGGTCCGATGACTTTG
* *
36498285 TGACATCGTGAGTATCAAATG
1 TGTCATCGTGAGTATTAAATG
36498306 CGAATTGAAA
Statistics
Matches: 227, Mismatches: 33, Indels: 9
0.84 0.12 0.03
Matches are distributed among these distances:
60 54 0.24
61 170 0.75
62 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.21, T:0.33
Consensus pattern (61 bp):
TGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAAGGTCCGATGACTTTG
Found at i:36498198 original size:122 final size:121
Alignment explanation
Indices: 36497980--36498306 Score: 460
Period size: 122 Copynumber: 2.7 Consensus size: 121
36497970 CGAATTCTCT
* * *
36497980 ATGTCATCGTGAGTATTACATGGAAATGAATCCTATTATGGATTAAAGGTCCAATGACTTTGTGT
1 ATGTCATCGTGAGTATTAAAT-GAAATGAATCCAATTATGGATTAAAGGTCCGATGACTTTGTGT
* * *
36498045 TATCGTGAGTATTAAATGCAATGAATCCAATTACGGATTAAAAGGTCCGATGACTTC
65 CATCGTGAGTATTAAATGCAATAAATCCAATTACAGATTAAAAGGTCCGATGACTTC
* * * *
36498102 GTGTCAT-ATGGAGTTTTAAATGAAATGAATCCAATTATGGATTAAAAGGTCTGATGACTTTGTG
1 ATGTCATCGT-GAGTATTAAATGAAATGAATCCAATTATGGATT-AAAGGTCCGATGACTTTGTG
* *
36498166 TCATCGTGAATATTAAATGCAATAAATCCAATTACAGATTAAAAGGTCCGATGACTTT
64 TCATCGTGAGTATTAAATGCAATAAATCCAATTACAGATTAAAAGGTCCGATGACTTC
* * *
36498224 ATGTCATCGTGAGTATTAAATGAAATGAATCCGAA-TATGGATTATAGGTCCGATGACTCTGTGA
1 ATGTCATCGTGAGTATTAAATGAAATGAATCC-AATTATGGATTAAAGGTCCGATGACTTTGTGT
*
36498288 CATCGTGAGTATCAAATGC
65 CATCGTGAGTATTAAATGC
36498307 GAATTGAAAC
Statistics
Matches: 180, Mismatches: 21, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
121 56 0.31
122 121 0.67
123 3 0.02
ACGTcount: A:0.34, C:0.13, G:0.20, T:0.32
Consensus pattern (121 bp):
ATGTCATCGTGAGTATTAAATGAAATGAATCCAATTATGGATTAAAGGTCCGATGACTTTGTGTC
ATCGTGAGTATTAAATGCAATAAATCCAATTACAGATTAAAAGGTCCGATGACTTC
Found at i:36505991 original size:77 final size:76
Alignment explanation
Indices: 36505844--36506106 Score: 284
Period size: 76 Copynumber: 3.4 Consensus size: 76
36505834 TGTAACAGAG
* * *
36505844 TTTGCG-CCTAGTGCTAGTTGGATAAACTGACGATAT-GAAATGTGAGCCCATCTCTAGTTGGAT
1 TTTGCGACC-AGTGCTAGTCGGATAAACCGACGATATCG-AATGTGAGCCCAACTCTAGTTGGAT
*
36505907 ACACCAACAATAT
64 ATACCAACAATAT
* ** *
36505920 TTTGCGTCCAGCACTAGTCGGATAAACCGACGAATATCGAATGTGATCCCAACTCTAGTTGGATA
1 TTTGCGACCAGTGCTAGTCGGATAAACCGACG-ATATCGAATGTGAGCCCAACTCTAGTTGGATA
* *
36505985 TGCCAACGATGA-
65 TACCAACAAT-AT
* *
36505997 TTTGC-ACTCAGTGCTAGTCGGATAAACTGACGATATC-AACAGTGAGCCCAACTCTAGTTGGAT
1 TTTGCGAC-CAGTGCTAGTCGGATAAACCGACGATATCGAA-TGTGAGCCCAACTCTAGTTGGAT
*
36506060 ATTCCAACAATAT
64 ATACCAACAATAT
* * * *
36506073 TTTGCGCCCAATGCTAGTGGGATAAATCGACGAT
1 TTTGCGACCAGTGCTAGTCGGATAAACCGACGAT
36506107 TTATGTGCCC
Statistics
Matches: 157, Mismatches: 22, Indels: 16
0.81 0.11 0.08
Matches are distributed among these distances:
75 3 0.02
76 88 0.56
77 64 0.41
78 2 0.01
ACGTcount: A:0.30, C:0.22, G:0.21, T:0.27
Consensus pattern (76 bp):
TTTGCGACCAGTGCTAGTCGGATAAACCGACGATATCGAATGTGAGCCCAACTCTAGTTGGATAT
ACCAACAATAT
Found at i:36507784 original size:16 final size:15
Alignment explanation
Indices: 36507763--36507796 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
36507753 CATTCCATAT
*
36507763 ATTTATTTTTTTTATC
1 ATTTATTTATTTT-TC
36507779 ATTTATTTATTTTTC
1 ATTTATTTATTTTTC
36507794 ATT
1 ATT
36507797 CTCTTTGTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.21, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTATTTATTTTTC
Found at i:36507948 original size:24 final size:24
Alignment explanation
Indices: 36507902--36507947 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
36507892 TTCATTTAAT
36507902 TTTATTTATTCATCCATATTTTTA
1 TTTATTTATTCATCCATATTTTTA
36507926 TTTATTTATAT-AT-CATATTTTT
1 TTTATTTAT-TCATCCATATTTTT
36507948 TGTGCCTTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 9 0.43
24 11 0.52
25 1 0.05
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (24 bp):
TTTATTTATTCATCCATATTTTTA
Found at i:36514593 original size:21 final size:21
Alignment explanation
Indices: 36514518--36514624 Score: 65
Period size: 20 Copynumber: 5.0 Consensus size: 21
36514508 AAAACGCATA
** *
36514518 AAAAATAAC-ATCTAAATAAC
1 AAAAATAACAATAAAAACAAC
*** *
36514538 AAAAATAACAGCCAAAACAGC
1 AAAAATAACAATAAAAACAAC
* *
36514559 -AAAACAACATTAAAAACAAC
1 AAAAATAACAATAAAAACAAC
*
36514579 AAAAATAGCAATAAAAAAAGCAAC
1 AAAAATAACAAT--AAAAA-CAAC
**
36514603 AAAAATAACAGCAAAAACAAC
1 AAAAATAACAATAAAAACAAC
36514624 A
1 A
36514625 TGAAAACAGC
Statistics
Matches: 66, Mismatches: 16, Indels: 9
0.73 0.18 0.10
Matches are distributed among these distances:
20 24 0.36
21 19 0.29
22 5 0.08
23 5 0.08
24 13 0.20
ACGTcount: A:0.68, C:0.18, G:0.05, T:0.09
Consensus pattern (21 bp):
AAAAATAACAATAAAAACAAC
Found at i:36514594 original size:12 final size:12
Alignment explanation
Indices: 36514575--36514619 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
36514565 ACATTAAAAA
36514575 CAACAAAAATAG
1 CAACAAAAATAG
* *
36514587 CAATAAAAAAAG
1 CAACAAAAATAG
*
36514599 CAACAAAAATAA
1 CAACAAAAATAG
*
36514611 CAGCAAAAA
1 CAACAAAAA
36514620 CAACATGAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.71, C:0.16, G:0.07, T:0.07
Consensus pattern (12 bp):
CAACAAAAATAG
Found at i:36514618 original size:24 final size:23
Alignment explanation
Indices: 36514561--36514624 Score: 65
Period size: 24 Copynumber: 2.7 Consensus size: 23
36514551 AAAACAGCAA
*
36514561 AACAACATTAAAAACAACAAAAAT
1 AACAACA-AAAAAACAACAAAAAT
* *
36514585 AGCAATAAAAAAAGCAACAAAAAT
1 AACAACAAAAAAA-CAACAAAAAT
*
36514609 AACAGCAAAAACAACA
1 AACAACAAAAA-AACA
36514625 TGAAAACAGC
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
23 5 0.16
24 25 0.78
25 2 0.06
ACGTcount: A:0.70, C:0.17, G:0.05, T:0.08
Consensus pattern (23 bp):
AACAACAAAAAAACAACAAAAAT
Found at i:36514631 original size:56 final size:55
Alignment explanation
Indices: 36514553--36514662 Score: 134
Period size: 56 Copynumber: 2.0 Consensus size: 55
36514543 TAACAGCCAA
36514553 AACAGCAAAACAACATTAAAAACAACAA-AAATAGCAATAAAAAAAGCAACAAAAAT
1 AACAGCAAAACAACATTAAAAACAACAACAAA-A-CAATAAAAAAAGCAACAAAAAT
* * * *
36514609 AACAGCAAAAACAACA-TGAAAACAGCAACCAAAACAGTAAAAAAAGCACCAAAA
1 AACAGC-AAAACAACATTAAAAACAACAA-CAAAACAATAAAAAAAGCAACAAAA
36514663 CAACAATATA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
56 34 0.72
57 10 0.21
58 3 0.06
ACGTcount: A:0.67, C:0.19, G:0.07, T:0.06
Consensus pattern (55 bp):
AACAGCAAAACAACATTAAAAACAACAACAAAACAATAAAAAAAGCAACAAAAAT
Found at i:36516349 original size:3 final size:3
Alignment explanation
Indices: 36516343--36516375 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
36516333 AGCAGCGGGC
*
36516343 GGA GGA GGA GGA GGA GGA GGA GGA GGA GAA GGA
1 GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA GGA
36516376 CATCAGCCGC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.36, C:0.00, G:0.64, T:0.00
Consensus pattern (3 bp):
GGA
Found at i:36520711 original size:4 final size:4
Alignment explanation
Indices: 36520702--36520728 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
36520692 AAGTTTGAGG
36520702 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
36520729 GCTCCTGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:36523444 original size:5 final size:5
Alignment explanation
Indices: 36523434--36523461 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
36523424 ATATGTTAAT
36523434 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATA
36523462 TTTAGATATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:36524707 original size:25 final size:23
Alignment explanation
Indices: 36524663--36524709 Score: 58
Period size: 25 Copynumber: 2.0 Consensus size: 23
36524653 AACTAATATG
* *
36524663 TTAAAAAAACATTAATTAAAAAT
1 TTAAAAAAACATGAAATAAAAAT
36524686 TTAAAAAGCAACATGAAATAAAAA
1 TTAAAAA--AACATGAAATAAAAA
36524710 AATACAAATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 7 0.35
25 13 0.65
ACGTcount: A:0.66, C:0.06, G:0.04, T:0.23
Consensus pattern (23 bp):
TTAAAAAAACATGAAATAAAAAT
Found at i:36524888 original size:139 final size:137
Alignment explanation
Indices: 36524470--36524879 Score: 440
Period size: 135 Copynumber: 3.0 Consensus size: 137
36524460 ATGGAACCTC
* * * ** *
36524470 AGACTCAAGGATGTAATTGTAATTATTTAACCATCTAACAAAAGGAGTTAATATGTTAAAAATAT
1 AGACTCAAGGATGTAATTGCAACTATCTAACCATCTAACAAAA-GAACTAATATGTTAAAAAAAT
* * * *
36524535 TAA-TTAAAAATAAAAAAGCTTGAAGCAACGTGAAATAAAAAATACAAATGTGAGTAGTAGAAGA
65 TAATTTAAAATTTAAAAAGCTT-AAGCAA-ATGAAATAAAAAATACAAATGTGAGTAGGAGAAGA
** *
36524599 ATCAAACTTA
128 ATTGAACTAA
* * * *
36524609 AGACTCAATGATGTAATTACAACTATCTAACCATCTAAAAAAAAAACTAATATGTTAAAAAAACA
1 AGACTCAAGGATGTAATTGCAACTATCTAACCATCTAACAAAAGAACTAATATGTT-AAAAAA-A
* *
36524674 TTAATTAAAAATTTAAAAAGC--AA-C--ATGAAATAAAAAAATACAAATG-GAAGTAGGAGAGG
64 TTAATTTAAAATTTAAAAAGCTTAAGCAAATGAAAT-AAAAAATACAAATGTG-AGTAGGAGAAG
36524733 AATTGAACTAA
127 AATTGAACTAA
* * * * *
36524744 AGACTCAAGGAAT-TAATTGCAAGTATCTAAACATCTAACCAAAGAACTATTATATTAAAAAAAT
1 AGACTCAAGG-ATGTAATTGCAACTATCTAACCATCTAACAAAAGAACTAATATGTTAAAAAAAT
* *
36524808 AAATTTAAAATTTAAAAAGCGTTAAGCAAAATGAAATAAAAAATATAAATGTGAGTAGGAGAAGA
65 TAATTTAAAATTTAAAAAGC-TTAAGC-AAATGAAATAAAAAATACAAATGTGAGTAGGAGAAGA
36524873 ATTGAAC
128 ATTGAAC
36524880 CCGGGACTCG
Statistics
Matches: 225, Mismatches: 32, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
133 20 0.09
134 13 0.06
135 75 0.33
136 4 0.02
137 2 0.01
138 12 0.05
139 73 0.32
140 13 0.06
141 13 0.06
ACGTcount: A:0.53, C:0.09, G:0.13, T:0.25
Consensus pattern (137 bp):
AGACTCAAGGATGTAATTGCAACTATCTAACCATCTAACAAAAGAACTAATATGTTAAAAAAATT
AATTTAAAATTTAAAAAGCTTAAGCAAATGAAATAAAAAATACAAATGTGAGTAGGAGAAGAATT
GAACTAA
Found at i:36526301 original size:73 final size:73
Alignment explanation
Indices: 36526182--36526328 Score: 294
Period size: 73 Copynumber: 2.0 Consensus size: 73
36526172 AAGATATAGT
36526182 CGAACATAAAATTGTTTAAGAATAGAAATCGTGTATGTTAGGTGTTATTTGAAAATTAAATTTCA
1 CGAACATAAAATTGTTTAAGAATAGAAATCGTGTATGTTAGGTGTTATTTGAAAATTAAATTTCA
36526247 CAAATAAA
66 CAAATAAA
36526255 CGAACATAAAATTGTTTAAGAATAGAAATCGTGTATGTTAGGTGTTATTTGAAAATTAAATTTCA
1 CGAACATAAAATTGTTTAAGAATAGAAATCGTGTATGTTAGGTGTTATTTGAAAATTAAATTTCA
36526320 CAAATAAA
66 CAAATAAA
36526328 C
1 C
36526329 AATCTCTTTC
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 74 1.00
ACGTcount: A:0.44, C:0.07, G:0.15, T:0.34
Consensus pattern (73 bp):
CGAACATAAAATTGTTTAAGAATAGAAATCGTGTATGTTAGGTGTTATTTGAAAATTAAATTTCA
CAAATAAA
Found at i:36526775 original size:30 final size:28
Alignment explanation
Indices: 36526730--36526896 Score: 102
Period size: 30 Copynumber: 5.6 Consensus size: 28
36526720 GGAAAAATGA
*
36526730 GGTCAAAATCAAAATTTTAGAAAGTTTAG
1 GGTCAAAAT-GAAATTTTAGAAAGTTTAG
* *
36526759 GGTCCAAAATGTAAATTTTAAAAAGTTTGGG
1 GGT-CAAAATG-AAATTTTAGAAAGTTT-AG
* * *
36526790 GGTCGAAATGCAATTGTTAGAAAGATTGAG
1 GGTCAAAATGAAATT-TTAGAAAG-TTTAG
* * * *
36526820 GGTCAAAATCAAATTTTTGGAAAATTCGAG
1 GGTCAAAATGAAA-TTTTAGAAAGTT-TAG
* *
36526850 GGTCAAAACT-AAATTTTTAGGAAGTTAAG
1 GGTCAAAA-TGAAA-TTTTAGAAAGTTTAG
* *
36526879 GGATCAAATTTAAATTTT
1 GG-TCAAAATGAAATTTT
36526897 TGGGAAGTTC
Statistics
Matches: 110, Mismatches: 18, Indels: 20
0.74 0.12 0.14
Matches are distributed among these distances:
29 18 0.16
30 83 0.75
31 9 0.08
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.32
Consensus pattern (28 bp):
GGTCAAAATGAAATTTTAGAAAGTTTAG
Found at i:36526918 original size:30 final size:30
Alignment explanation
Indices: 36526819--36526929 Score: 105
Period size: 30 Copynumber: 3.7 Consensus size: 30
36526809 GAAAGATTGA
* * * * *
36526819 GGGTCAAAATCAAATTTTTGGAAAATTCGA
1 GGGTCAAATTTAAATTTTTGGGAAGTTCGG
** * **
36526849 GGGTCAAAACTAAATTTTTAGGAAGTTAAG
1 GGGTCAAATTTAAATTTTTGGGAAGTTCGG
*
36526879 GGATCAAATTTAAATTTTTGGGAAGTTCGG
1 GGGTCAAATTTAAATTTTTGGGAAGTTCGG
* *
36526909 GGGTTAAATTCAAATTTTTGG
1 GGGTCAAATTTAAATTTTTGG
36526930 ATAAAATAGG
Statistics
Matches: 64, Mismatches: 17, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
30 64 1.00
ACGTcount: A:0.35, C:0.07, G:0.23, T:0.34
Consensus pattern (30 bp):
GGGTCAAATTTAAATTTTTGGGAAGTTCGG
Found at i:36528369 original size:13 final size:13
Alignment explanation
Indices: 36528318--36528369 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
36528308 CATTACATAT
36528318 TTTGTTTTTTTTC
1 TTTGTTTTTTTTC
*
36528331 TTTTTTGTCTTTCTTC
1 TTTGTT-T-TTT-TTC
* *
36528347 TCTGTCTTTTTTC
1 TTTGTTTTTTTTC
36528360 TTTGTTTTTT
1 TTTGTTTTTT
36528370 CGTCTTTGCA
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
13 16 0.53
14 4 0.13
15 4 0.13
16 6 0.20
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (13 bp):
TTTGTTTTTTTTC
Found at i:36529174 original size:45 final size:45
Alignment explanation
Indices: 36529076--36529257 Score: 202
Period size: 45 Copynumber: 4.0 Consensus size: 45
36529066 ACTTCTGTGA
* * * *
36529076 GATGGTAGCTTCAATCTTCCCCTCCTGATTTAGGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCT-CTTAATTAGGGGTAAAAGATTG
* *
36529122 GATGGTGGCTTCAATTTGCCCCTCTTAATTAGGGGTAAAAGATCG
1 GATGGTGGCTTCAATCTGCCCCTCTTAATTAGGGGTAAAAGATTG
* * * * ** * *
36529167 AACGGTGGCTTCAATCTACCCTTCTTGGTCATGGGTAAAAGATTG
1 GATGGTGGCTTCAATCTGCCCCTCTTAATTAGGGGTAAAAGATTG
*
36529212 GATGGTGGCTTCAATCTGCCCCTCTTAACTTTAGGAGTAAAAGATT
1 GATGGTGGCTTCAATCTGCCCCTCTTAA--TTAGGGGTAAAAGATT
36529258 CTAGTGCTTC
Statistics
Matches: 109, Mismatches: 25, Indels: 3
0.80 0.18 0.02
Matches are distributed among these distances:
45 76 0.70
46 20 0.18
47 13 0.12
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.32
Consensus pattern (45 bp):
GATGGTGGCTTCAATCTGCCCCTCTTAATTAGGGGTAAAAGATTG
Found at i:36529726 original size:98 final size:98
Alignment explanation
Indices: 36529624--36530251 Score: 788
Period size: 98 Copynumber: 6.4 Consensus size: 98
36529614 TTTACAACTT
* * * *
36529624 TAAGGTATAAGGTTCACCGTTGCGGCTTCAACTTTTCCCTCCATATCTCTATAGTACAAGATTCG
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
*
36529689 TCGTTGCGGCTTCAATCTTTCCCATCACATCTC
66 CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
* * * * *
36529722 TAAGGTATAAGGTTCACCGTAGCGGCTTCAACCTTTCCTTCCATATCCCCATGGTACAAGATTTG
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
* * *
36529787 CCGTTACGACTACAATCTTTCCCATCACATCTC
66 CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
*
36529820 TAAGGTATAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
* * * * *
36529885 CCATTGCGGCTTTAGTCTTTCCCATCTCGTCTC
66 CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
* * * * * *
36529918 TAAGGTACAAGGTTCACCGTTACGGCTTTAACCTTTCTCTTCATATCTGCATGGTACACGATTCG
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
**
36529983 CCGTTGCGGCTTCAATCTTTCCCATCATGTCTC
66 CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
* * * *
36530016 TAAGGTACAAGGTTCGCCATTGCGACTTCAACCTTTCCCTCCATATCTCCATGGTACATGATTCG
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
* * ** * *
36530081 CTGTTACGGCTTCAATCTTTTGCATCATATTTC
66 CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
** * * * *
36530114 TAAGGTACAAGGTTTGCCATTGCGGTTTCAACCTTTCCCTTCATATTTCCATGGTACAAGATTCG
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
* * ** * *
36530179 CCATTGTGGCTTCAATCTTTCTTATCACGTCTT
66 CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
** *
36530212 TAAGGTACAAGGTTTGCCGTTGCGGCTTCAATCTTTCCCT
1 TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCT
36530252 TCAAACTTGT
Statistics
Matches: 460, Mismatches: 70, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
98 460 1.00
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (98 bp):
TAAGGTACAAGGTTCACCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
CCGTTGCGGCTTCAATCTTTCCCATCACATCTC
Found at i:36530199 original size:49 final size:49
Alignment explanation
Indices: 36529640--36530254 Score: 502
Period size: 49 Copynumber: 12.6 Consensus size: 49
36529630 ATAAGGTTCA
* *
36529640 CCGTTGCGGCTTCAA-CTTTTCCCTCCATATCTCTATAGTACAAGATTCG
1 CCGTTGCGGCTTCAATC-TTTCCCTTCATATCTCTATGGTACAAGATTCG
* * * * * * *
36529689 TCGTTGCGGCTTCAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCA
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * * * *
36529738 CCGTAGCGGCTTCAACCTTT-CCTTCCATATCCCCATGGTACAAGATTTG
1 CCGTTGCGGCTTCAATCTTTCCCTT-CATATCTCTATGGTACAAGATTCG
* * * * * * * * *
36529787 CCGTTACGACTACAATCTTTCCCATCACATCTCTAAGGTATAAGGTTCA
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * *
36529836 CCGTTGCGGCTTCAACCTTTCCCTCCATATCTCCATGGTACAAGATTCG
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * * * * * * *
36529885 CCATTGCGGCTTTAGTCTTTCCCATC-TCGTCTCTAAGGTACAAGGTTCA
1 CCGTTGCGGCTTCAATCTTTCCCTTCAT-ATCTCTATGGTACAAGATTCG
* * * * *
36529934 CCGTTACGGCTTTAACCTTTCTCTTCATATCTGC-ATGGTACACGATTCG
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCT-CTATGGTACAAGATTCG
* * * *
36529983 CCGTTGCGGCTTCAATCTTTCCCATCATGTCTCTAAGGTACAAGGTTCG
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * * * * *
36530032 CCATTGCGACTTCAACCTTTCCCTCCATATCTCCATGGTACATGATTCG
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * ** * * * * *
36530081 CTGTTACGGCTTCAATCTTTTGCATCATATTTCTAAGGTACAAGGTTTG
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * * * *
36530130 CCATTGCGGTTTCAACCTTTCCCTTCATATTTCCATGGTACAAGATTCG
1 CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
* * * ** * * * *
36530179 CCATTGTGGCTTCAATCTTT-CTTATCACGTCTTTAAGGTACAAGGTTTG
1 CCGTTGCGGCTTCAATCTTTCCCT-TCATATCTCTATGGTACAAGATTCG
36530228 CCGTTGCGGCTTCAATCTTTCCCTTCA
1 CCGTTGCGGCTTCAATCTTTCCCTTCA
36530255 AACTTGTAGA
Statistics
Matches: 427, Mismatches: 130, Indels: 18
0.74 0.23 0.03
Matches are distributed among these distances:
48 7 0.02
49 412 0.96
50 8 0.02
ACGTcount: A:0.20, C:0.29, G:0.16, T:0.35
Consensus pattern (49 bp):
CCGTTGCGGCTTCAATCTTTCCCTTCATATCTCTATGGTACAAGATTCG
Found at i:36530778 original size:112 final size:114
Alignment explanation
Indices: 36530640--36530850 Score: 304
Period size: 112 Copynumber: 1.9 Consensus size: 114
36530630 TTCCTTATAA
* **
36530640 CGTTATTTCAAATGCAAAAAATGCTTGAATCAAGGTTGTAA-GTGGAT-GAAATTGTGTTTTATT
1 CGTTATTTCAAATGCAAAAAATGCTTGAAT-AAGGTTATAAGGTGGATAG-AATTGAATTTTATT
* *
36530703 GGAGACAAAGCTCATATGAATGAAAAGATTACAAATCATTCGTCCACTAAC
64 AGAGACAAAGCTCATATGAATGAAAAGATTAAAAATCATTCGTCCACTAAC
36530754 CGTTATTTC-AATGC-AAAAATGCTTGAATAAGGTTATAAGGTGGATAGAATTGAATTTTATTAG
1 CGTTATTTCAAATGCAAAAAATGCTTGAATAAGGTTATAAGGTGGATAGAATTGAATTTTATTAG
* * *
36530817 AGGCAAAGCTCTTATGAATGAAAATATTAAAAAT
66 AGACAAAGCTCATATGAATGAAAAGATTAAAAAT
36530851 GACAAACATT
Statistics
Matches: 87, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
111 9 0.10
112 63 0.72
113 6 0.07
114 9 0.10
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.32
Consensus pattern (114 bp):
CGTTATTTCAAATGCAAAAAATGCTTGAATAAGGTTATAAGGTGGATAGAATTGAATTTTATTAG
AGACAAAGCTCATATGAATGAAAAGATTAAAAATCATTCGTCCACTAAC
Found at i:36531225 original size:11 final size:10
Alignment explanation
Indices: 36531185--36531223 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
36531175 TTCTTTCTTC
*
36531185 TTCTTCTTTTT
1 TTCTT-TTTAT
36531196 TTCTTTTTAT
1 TTCTTTTTAT
36531206 TTCTTTTTAT
1 TTCTTTTTAT
*
36531216 TTATTTTT
1 TTCTTTTT
36531224 TAGGGTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
10 21 0.81
11 5 0.19
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (10 bp):
TTCTTTTTAT
Found at i:36532104 original size:16 final size:18
Alignment explanation
Indices: 36532075--36532112 Score: 62
Period size: 16 Copynumber: 2.2 Consensus size: 18
36532065 TCATCTTGAC
36532075 TTTTTCATTCTTTTCTTT
1 TTTTTCATTCTTTTCTTT
36532093 TTTTTC-TT-TTTTCTTT
1 TTTTTCATTCTTTTCTTT
36532109 TTTT
1 TTTT
36532113 ATTGGGTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 12 0.60
17 2 0.10
18 6 0.30
ACGTcount: A:0.03, C:0.13, G:0.00, T:0.84
Consensus pattern (18 bp):
TTTTTCATTCTTTTCTTT
Found at i:36536321 original size:30 final size:30
Alignment explanation
Indices: 36536285--36536452 Score: 164
Period size: 30 Copynumber: 5.6 Consensus size: 30
36536275 GGAAAAATGA
*
36536285 GGTCAAAATCAAAATTTTAGAAAGTTT-AGG
1 GGTCAAAATCAAATTTTTAGAAAGTTTGA-G
**
36536315 GGTCAAAATGTAATTTTTAGAAAGTTTGAG
1 GGTCAAAATCAAATTTTTAGAAAGTTTGAG
* ** * *
36536345 GGTTAAAATTGAATTTTTAAAAAGTTCGAG
1 GGTCAAAATCAAATTTTTAGAAAGTTTGAG
* *
36536375 GGTCAAAA-CTGAATTTTTAGGAAA--TTAAGG
1 GGTCAAAATC-AAATTTTTA-GAAAGTTTGA-G
*
36536405 GGTCAAATTCAAATTTTTAGAAAGTTTGAG
1 GGTCAAAATCAAATTTTTAGAAAGTTTGAG
*
36536435 GGTCAAATTCAAATTTTT
1 GGTCAAAATCAAATTTTT
36536453 GGATAAAATA
Statistics
Matches: 115, Mismatches: 16, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
29 6 0.05
30 101 0.88
31 8 0.07
ACGTcount: A:0.39, C:0.06, G:0.20, T:0.35
Consensus pattern (30 bp):
GGTCAAAATCAAATTTTTAGAAAGTTTGAG
Found at i:36537430 original size:19 final size:20
Alignment explanation
Indices: 36537408--36537461 Score: 58
Period size: 19 Copynumber: 2.7 Consensus size: 20
36537398 TTTCATTACA
36537408 TTTTTTCTTTTTTTCTTT-T
1 TTTTTTCTTTTTTTCTTTAT
*
36537427 TTTTTGTC-TTTCTTCTTTAT
1 TTTTT-TCTTTTTTTCTTTAT
*
36537447 CTTTTTCTTTGTTTT
1 TTTTTTCTTT-TTTT
36537462 TTCATCTTTG
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
19 16 0.57
20 9 0.32
21 3 0.11
ACGTcount: A:0.02, C:0.13, G:0.04, T:0.81
Consensus pattern (20 bp):
TTTTTTCTTTTTTTCTTTAT
Found at i:36537457 original size:25 final size:24
Alignment explanation
Indices: 36537411--36537458 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
36537401 CATTACATTT
* *
36537411 TTTCTTTTTTTCTTTTTTTTTGTC
1 TTTCTTTTTATCTTTTTCTTTGTC
36537435 TTTCTTCTTTATCTTTTTCTTTGT
1 TTTCTT-TTTATCTTTTTCTTTGT
36537459 TTTTTCATCT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.02, C:0.15, G:0.04, T:0.79
Consensus pattern (24 bp):
TTTCTTTTTATCTTTTTCTTTGTC
Found at i:36540387 original size:23 final size:23
Alignment explanation
Indices: 36540341--36540395 Score: 65
Period size: 23 Copynumber: 2.4 Consensus size: 23
36540331 CATATATAGG
*
36540341 GTTCACATACTACTAACATGTGA
1 GTTCACATACTACTAACATATGA
* **
36540364 GTTCACATACTGCTATTATATGA
1 GTTCACATACTACTAACATATGA
*
36540387 GTTCGCATA
1 GTTCACATA
36540396 ATAGACATAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.31, C:0.20, G:0.15, T:0.35
Consensus pattern (23 bp):
GTTCACATACTACTAACATATGA
Found at i:36545227 original size:49 final size:49
Alignment explanation
Indices: 36545155--36545249 Score: 156
Period size: 49 Copynumber: 1.9 Consensus size: 49
36545145 GAAAGGCCAT
36545155 ATCTTAGAAATAAGTGAGTGCATAAAGAAAAGGTAGCTAAATTGGTTAC
1 ATCTTAGAAATAAGTGAGTGCATAAAGAAAAGGTAGCTAAATTGGTTAC
* *
36545204 ATCTTAGATATAAGTGTA-TGCATAAAGAAAAGGTGGCTAAATTGGT
1 ATCTTAGAAATAAGTG-AGTGCATAAAGAAAAGGTAGCTAAATTGGT
36545250 ATTTATCTGC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
49 42 0.98
50 1 0.02
ACGTcount: A:0.41, C:0.07, G:0.23, T:0.28
Consensus pattern (49 bp):
ATCTTAGAAATAAGTGAGTGCATAAAGAAAAGGTAGCTAAATTGGTTAC
Found at i:36545897 original size:14 final size:14
Alignment explanation
Indices: 36545878--36545905 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
36545868 AAAGTAACTC
36545878 TTCTTTTTCTTTTT
1 TTCTTTTTCTTTTT
36545892 TTCTTTTTCTTTTT
1 TTCTTTTTCTTTTT
36545906 CATTATAGTT
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:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (14 bp):
TTCTTTTTCTTTTT
Found at i:36547550 original size:9 final size:9
Alignment explanation
Indices: 36547536--36547713 Score: 75
Period size: 9 Copynumber: 19.7 Consensus size: 9
36547526 AAATTCTATC
36547536 ATTTTTATA
1 ATTTTTATA
36547545 ATTTTTATA
1 ATTTTTATA
* *
36547554 CTTTTTTTA
1 ATTTTTATA
* * *
36547563 GTTTTAATT
1 ATTTTTATA
36547572 ATTTTT-TCA
1 ATTTTTAT-A
*
36547581 ATTTTTTATT
1 A-TTTTTATA
*
36547591 ATTTTTATT
1 ATTTTTATA
36547600 A-TTTTAT-
1 ATTTTTATA
*
36547607 ATTTTTAAA
1 ATTTTTATA
* *
36547616 AATTCTA-A
1 ATTTTTATA
*
36547624 TTTTTTATA
1 ATTTTTATA
*
36547633 AATTTTATAA
1 ATTTTTAT-A
* *
36547643 ATTCTATTTTT
1 ATT-T-TTATA
*
36547654 ATTTTTAAA
1 ATTTTTATA
36547663 TATTTTTATA
1 -ATTTTTATA
36547673 TTATTTTTAATA
1 --ATTTTT-ATA
36547685 A-TTTTAT-
1 ATTTTTATA
36547692 ATTTTTA-A
1 ATTTTTATA
*
36547700 ATTTGTAT-
1 ATTTTTATA
36547708 ATTTTT
1 ATTTTT
36547714 TGAAAACTCT
Statistics
Matches: 127, Mismatches: 27, Indels: 31
0.69 0.15 0.17
Matches are distributed among these distances:
7 2 0.02
8 35 0.28
9 53 0.42
10 19 0.15
11 12 0.09
12 6 0.05
ACGTcount: A:0.30, C:0.02, G:0.01, T:0.67
Consensus pattern (9 bp):
ATTTTTATA
Found at i:36547577 original size:55 final size:53
Alignment explanation
Indices: 36547509--36547612 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 53
36547499 TTTATATAAT
*
36547509 TTTTAATTTTTTTTTTCAA-ATTCTATCATTTTTATAATTTTTATACTTTTTTTAG
1 TTTTAA-TTATTTTTTCAATATTCTATCATTTTTATAA-TTTTATA-TTTTTTTAG
* * * *
36547564 TTTTAATTATTTTTTCAATTTTTTATTATTTTTATTATTTTATATTTTT
1 TTTTAATTATTTTTTCAATATTCTATCATTTTTATAATTTTATATTTTT
36547613 AAAAATTCTA
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
53 5 0.12
54 18 0.42
55 20 0.47
ACGTcount: A:0.23, C:0.05, G:0.01, T:0.71
Consensus pattern (53 bp):
TTTTAATTATTTTTTCAATATTCTATCATTTTTATAATTTTATATTTTTTTAG
Found at i:36547609 original size:19 final size:18
Alignment explanation
Indices: 36547536--36547609 Score: 62
Period size: 19 Copynumber: 4.0 Consensus size: 18
36547526 AAATTCTATC
*
36547536 ATTTTTATAATTTTTATACT
1 ATTTTT-TAA-TTTTATATT
*
36547556 -TTTTTTAGTTTTA-ATT
1 ATTTTTTAATTTTATATT
*
36547572 ATTTTTTCAATTTTTTATT
1 ATTTTTT-AATTTTATATT
*
36547591 ATTTTTATTATTTTATATT
1 ATTTTT-TAATTTTATATT
36547610 TTTAAAAATT
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
16 2 0.05
17 11 0.25
18 7 0.16
19 23 0.52
20 1 0.02
ACGTcount: A:0.24, C:0.03, G:0.01, T:0.72
Consensus pattern (18 bp):
ATTTTTTAATTTTATATT
Found at i:36547644 original size:26 final size:24
Alignment explanation
Indices: 36547596--36547653 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 24
36547586 TTATTATTTT
*
36547596 TATTATTTTATATTTTTAAAAATTC
1 TATT-TTTTATAATTTTAAAAATTC
*
36547621 TAATTTTTTATAAATTTTATAAATTC
1 T-ATTTTTTAT-AATTTTAAAAATTC
36547647 TATTTTT
1 TATTTTT
36547654 ATTTTTAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 13 0.45
26 16 0.55
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.62
Consensus pattern (24 bp):
TATTTTTTATAATTTTAAAAATTC
Found at i:36547668 original size:10 final size:10
Alignment explanation
Indices: 36547653--36547701 Score: 50
Period size: 10 Copynumber: 5.1 Consensus size: 10
36547643 ATTCTATTTT
36547653 TATTTTTAAA
1 TATTTTTAAA
*
36547663 TATTTTTATAT
1 TATTTTTA-AA
36547674 TATTTTT-AA
1 TATTTTTAAA
*
36547683 TAATTTT--A
1 TATTTTTAAA
36547691 TATTTTTAAA
1 TATTTTTAAA
36547701 T
1 T
36547702 TTGTATATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
8 7 0.22
9 7 0.22
10 10 0.31
11 8 0.25
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (10 bp):
TATTTTTAAA
Found at i:36547684 original size:20 final size:21
Alignment explanation
Indices: 36547652--36547694 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
36547642 AATTCTATTT
*
36547652 TTATTTTTAAATATTTTTATA
1 TTATTTTTAAATAATTTTATA
36547673 TTATTTTT-AATAATTTTATA
1 TTATTTTTAAATAATTTTATA
36547693 TT
1 TT
36547695 TTTAAATTTG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 13 0.62
21 8 0.38
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTATTTTTAAATAATTTTATA
Found at i:36547714 original size:17 final size:17
Alignment explanation
Indices: 36547537--36547714 Score: 84
Period size: 17 Copynumber: 10.3 Consensus size: 17
36547527 AATTCTATCA
36547537 TTTTTATAATTTTTATACT
1 TTTTTATAA-TTTTATA-T
*
36547556 TTTTT-TAGTTTTAATTAT
1 TTTTTATAATTTT-A-TAT
* *
36547574 TTTTT-CAATTTTTTATT
1 TTTTTATAATTTTATA-T
*
36547591 ATTTTTATTATTTTATAT
1 -TTTTTATAATTTTATAT
* * *
36547609 TTTTAAAAATTCTA-AT
1 TTTTTATAATTTTATAT
*
36547625 TTTTTATAAATTTTATAA
1 TTTTTAT-AATTTTATAT
* *
36547643 ATTCTAT--TTTTAT-T
1 TTTTTATAATTTTATAT
** *
36547657 TTTAAATATTTTTATATT
1 TTTTTATAATTTTATA-T
36547675 ATTTTTAATAATTTTATA-
1 -TTTTT-ATAATTTTATAT
36547693 TTTTTA-AATTTGTATAT
1 TTTTTATAATTT-TATAT
36547710 TTTTT
1 TTTTT
36547715 GAAAACTCTA
Statistics
Matches: 120, Mismatches: 24, Indels: 32
0.68 0.14 0.18
Matches are distributed among these distances:
14 4 0.03
15 11 0.09
16 20 0.17
17 31 0.26
18 27 0.22
19 17 0.14
20 10 0.08
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.67
Consensus pattern (17 bp):
TTTTTATAATTTTATAT
Found at i:36548658 original size:25 final size:28
Alignment explanation
Indices: 36548598--36548660 Score: 78
Period size: 25 Copynumber: 2.3 Consensus size: 28
36548588 TGATGCTATA
36548598 ATTTTTTAACAAATAAATTTTAAATATTT
1 ATTTTTTAACAAATAAATTTT-AATATTT
* *
36548627 ATATTTTAA-AAAT-AATTTT-ATTTTT
1 ATTTTTTAACAAATAAATTTTAATATTT
36548652 ATTTTTTAA
1 ATTTTTTAA
36548661 TATAAAAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
25 13 0.42
27 6 0.19
28 4 0.13
29 8 0.26
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (28 bp):
ATTTTTTAACAAATAAATTTTAATATTT
Found at i:36550614 original size:30 final size:30
Alignment explanation
Indices: 36550554--36550614 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
36550544 CCTAATTTAA
* *
36550554 TTAGGGATTAAATTGAACTTTTAGTGAAAT
1 TTAGGGATTAAATTGAACTTTAAGTAAAAT
* *
36550584 TTAGGGATTAAATTGAGCTTTAATTAAAAT
1 TTAGGGATTAAATTGAACTTTAAGTAAAAT
36550614 T
1 T
36550615 ATGTGCCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.38, C:0.03, G:0.18, T:0.41
Consensus pattern (30 bp):
TTAGGGATTAAATTGAACTTTAAGTAAAAT
Found at i:36553417 original size:29 final size:30
Alignment explanation
Indices: 36553375--36553476 Score: 100
Period size: 30 Copynumber: 3.4 Consensus size: 30
36553365 TTTCGAGGGT
*
36553375 AAAATGTAATTTTTGATGAAATTGGGGTTA
1 AAAATGGAATTTTTGATGAAATTGGGGTTA
** *
36553405 AAAATGGAATTTTTGA-GAGTTTGGGGGT-
1 AAAATGGAATTTTTGATGAAATTGGGGTTA
* * * **
36553433 AAAACGGTAATTTTTGGTGGAACCGGGGTTA
1 AAAATGG-AATTTTTGATGAAATTGGGGTTA
36553464 AAAATGGAATTTT
1 AAAATGGAATTTT
36553477 AGAAAGTTTG
Statistics
Matches: 56, Mismatches: 13, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
28 6 0.11
29 17 0.30
30 27 0.48
31 6 0.11
ACGTcount: A:0.33, C:0.03, G:0.28, T:0.35
Consensus pattern (30 bp):
AAAATGGAATTTTTGATGAAATTGGGGTTA
Found at i:36553461 original size:59 final size:58
Alignment explanation
Indices: 36553369--36553506 Score: 186
Period size: 59 Copynumber: 2.3 Consensus size: 58
36553359 TTTGACTTTC
* ** * *
36553369 GAGGGTAAAATGTAATTTTTGATGAAATTGGGGTTAAAAATGGAATTTTTGAGAGTTT
1 GAGGGTAAAAGGTAATTTTTGATGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTT
* * *
36553427 GGGGGTAAAACGGTAATTTTTGGTGGAACCGGGGTTAAAAATGGAATTTTAGAAAGTTT
1 GAGGGTAAAA-GGTAATTTTTGATGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTT
36553486 GAGGGTAAAATGGTAATTTTT
1 GAGGGTAAAA-GGTAATTTTT
36553507 CAAAAGTTTT
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
58 9 0.13
59 60 0.87
ACGTcount: A:0.33, C:0.02, G:0.30, T:0.35
Consensus pattern (58 bp):
GAGGGTAAAAGGTAATTTTTGATGAAACCGGGGTTAAAAATGGAATTTTAGAAAGTTT
Found at i:36554603 original size:26 final size:26
Alignment explanation
Indices: 36554554--36554603 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
36554544 CATTTTTTTG
* **
36554554 AAATAATATTTATTATTATTATTATT
1 AAATAATATTTATTATAACAATTATT
*
36554580 AAATATTATTTATTATAACAATTA
1 AAATAATATTTATTATAACAATTA
36554604 ATATTTGATT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 20 1.00
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (26 bp):
AAATAATATTTATTATAACAATTATT
Found at i:36555286 original size:6 final size:6
Alignment explanation
Indices: 36555265--36555343 Score: 60
Period size: 6 Copynumber: 13.8 Consensus size: 6
36555255 GTAAATGGAC
* *
36555265 ATTT-A ATTTAA TTTTAA ATTTAA ATTTATA A--TAA ATTTAA ATTT-T
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTA-A ATTTAA ATTTAA ATTTAA
** * *
36555310 ATGCAA ATTTAA ATTCAA A-ATAA ATTTAA ATTTA
1 ATTTAA ATTTAA ATTTAA ATTTAA ATTTAA ATTTA
36555344 TCTCATTGGG
Statistics
Matches: 56, Mismatches: 12, Indels: 11
0.71 0.15 0.14
Matches are distributed among these distances:
4 2 0.04
5 11 0.20
6 41 0.73
7 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (6 bp):
ATTTAA
Found at i:36555286 original size:12 final size:12
Alignment explanation
Indices: 36555265--36555343 Score: 60
Period size: 11 Copynumber: 6.9 Consensus size: 12
36555255 GTAAATGGAC
36555265 ATTT-AATTTAA
1 ATTTAAATTTAA
*
36555276 TTTTAAATTTAA
1 ATTTAAATTTAA
36555288 ATTTATAA--TAA
1 ATTTA-AATTTAA
*
36555299 ATTTAAATTT-T
1 ATTTAAATTTAA
**
36555310 ATGCAAATTTAA
1 ATTTAAATTTAA
* *
36555322 ATTCAAA-ATAA
1 ATTTAAATTTAA
36555333 ATTTAAATTTA
1 ATTTAAATTTA
36555344 TCTCATTGGG
Statistics
Matches: 52, Mismatches: 10, Indels: 11
0.71 0.14 0.15
Matches are distributed among these distances:
10 2 0.04
11 28 0.54
12 20 0.38
13 2 0.04
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (12 bp):
ATTTAAATTTAA
Found at i:36555299 original size:17 final size:17
Alignment explanation
Indices: 36555279--36555344 Score: 82
Period size: 17 Copynumber: 3.9 Consensus size: 17
36555269 AATTTAATTT
36555279 TAAATTTAAATTTATAA
1 TAAATTTAAATTTATAA
36555296 TAAATTTAAATTT-T-A
1 TAAATTTAAATTTATAA
* *
36555311 TGCAAATTTAAATTCAAAA
1 T--AAATTTAAATTTATAA
36555330 TAAATTTAAATTTAT
1 TAAATTTAAATTTAT
36555345 CTCATTGGGC
Statistics
Matches: 41, Mismatches: 4, Indels: 8
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.05
16 1 0.02
17 36 0.88
19 2 0.05
ACGTcount: A:0.50, C:0.03, G:0.02, T:0.45
Consensus pattern (17 bp):
TAAATTTAAATTTATAA
Found at i:36556439 original size:15 final size:15
Alignment explanation
Indices: 36556416--36556464 Score: 53
Period size: 15 Copynumber: 3.3 Consensus size: 15
36556406 TGCTTACTTG
*
36556416 TATGTAAATTGTTTA
1 TATGCAAATTGTTTA
* *
36556431 TATGCAAATTGCTAA
1 TATGCAAATTGTTTA
* *
36556446 TATGCGAATTGTTTG
1 TATGCAAATTGTTTA
36556461 TATG
1 TATG
36556465 TGAACTGTTT
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.31, C:0.06, G:0.18, T:0.45
Consensus pattern (15 bp):
TATGCAAATTGTTTA
Found at i:36559431 original size:9 final size:9
Alignment explanation
Indices: 36559419--36559445 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
36559409 GTTTGTAAGA
36559419 TTTTGGGCC
1 TTTTGGGCC
36559428 TTTTGGGCC
1 TTTTGGGCC
36559437 TTTTGGGCC
1 TTTTGGGCC
36559446 AAGTTTAGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.00, C:0.22, G:0.33, T:0.44
Consensus pattern (9 bp):
TTTTGGGCC
Found at i:36559848 original size:38 final size:38
Alignment explanation
Indices: 36559746--36559994 Score: 104
Period size: 38 Copynumber: 6.4 Consensus size: 38
36559736 GCCCCTACGG
* *
36559746 TTAGGGTAAGAGATTAAGTG-TTCCAATTTGCTCTATGA
1 TTAGGGTAAAAGATTGAGTGCTT-CAATTTGCTCTATGA
* * *
36559784 -TCGGGATAAGAA-ATTGCA-TGTCTTCAATTTTCTCTCTGA
1 TTAGGG-TAA-AAGATTG-AGTG-CTTCAATTTGCTCTATGA
* *
36559823 TTAGGGTAAAAGATTGAGTGCTTCAATCTGCTCCATGA
1 TTAGGGTAAAAGATTGAGTGCTTCAATTTGCTCTATGA
* * * * *
36559861 -TCGAAGTAAGAA-ATTGGTGTGTCTTCAATCTGC-CTTCTGA
1 TTAG-GGTAA-AAGATT-GAGTG-CTTCAATTTGCTC-TATGA
* * * *
36559901 TTAAGGTAAAAGATTG-GATGCTTCAATCTGCCCCATGA
1 TTAGGGTAAAAGATTGAG-TGCTTCAATTTGCTCTATGA
** * *
36559939 TCGGGGTAAGAGATTAGTGTGTCTTCAATTTGCCTTCTA--A
1 TTAGGGTAAAAGATT-GAGTG-CTTCAATTTG-C-TCTATGA
*
36559979 TTAAGGTAAAAGATTG
1 TTAGGGTAAAAGATTG
36559995 GATGCTCCCC
Statistics
Matches: 158, Mismatches: 31, Indels: 43
0.68 0.13 0.19
Matches are distributed among these distances:
37 6 0.04
38 58 0.37
39 41 0.26
40 49 0.31
41 2 0.01
42 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.22, T:0.35
Consensus pattern (38 bp):
TTAGGGTAAAAGATTGAGTGCTTCAATTTGCTCTATGA
Found at i:36559913 original size:78 final size:78
Alignment explanation
Indices: 36559818--36560339 Score: 687
Period size: 78 Copynumber: 6.9 Consensus size: 78
36559808 CAATTTTCTC
* * ** *
36559818 TCTGATTAGGGTAAAAGATT-GAGTGCTTCAATCTGCTCCATGATCGAAGTAAGAAATTGGTGTG
1 TCTGATTAAGGTAAAAGATTGGA-TGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTG
36559882 TCTTCAATCTGCCT
65 TCTTCAATCTGCCT
*
36559896 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGTGT
1 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
*
36559961 CTTCAATTTGCCT
66 CTTCAATCTGCCT
*
36559974 TCTAATTAAGGTAAAAGATTGGATG-------CT-CCCCATGATCGGGGTAAGAGATTGGTGTGT
1 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
*
36560031 CTTCAATCTACCT
66 CTTCAATCTGCCT
* * *
36560044 TGTGATTAAGGTAAAAGATTGGATGCTTCAATTTGCCCTATGATCGGGGTAAGAGATTGGT-TGT
1 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
*
36560108 CTTCAATCTGCCA
66 CTTCAATCTGCCT
* * * *
36560121 TCTGATTAAGGTAAAA-A-TGGAT--TT-AATTTACCCCATGATCGGGGTAAGATATTGATGTGT
1 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
* *
36560181 CTTCAATTTACCT
66 CTTCAATCTGCCT
* * * * *
36560194 TTTGATTAAGGTTAAAGATTAGATACTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGTGTGT
1 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
36560259 CTTCAATCTGCCT
66 CTTCAATCTGCCT
* * *
36560272 TCTGATTAAGGTAAAAGAATGGATGCTTCAATCTGCCCCATGATTGGGGTAAAAGATTGGTGTGT
1 TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
36560337 CTT
66 CTT
36560340 TACTGCAATG
Statistics
Matches: 388, Mismatches: 41, Indels: 30
0.85 0.09 0.07
Matches are distributed among these distances:
70 63 0.16
71 2 0.01
72 28 0.07
73 29 0.07
74 1 0.00
75 9 0.02
76 1 0.00
77 32 0.08
78 221 0.57
79 2 0.01
ACGTcount: A:0.27, C:0.15, G:0.24, T:0.34
Consensus pattern (78 bp):
TCTGATTAAGGTAAAAGATTGGATGCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGT
CTTCAATCTGCCT
Found at i:36560039 original size:148 final size:149
Alignment explanation
Indices: 36559855--36560298 Score: 633
Period size: 150 Copynumber: 3.0 Consensus size: 149
36559845 TCAATCTGCT
** *
36559855 CCATGATCGAAGTAAGAAATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGGTAAAAGATTGGAT
1 CCATGATCGGGGTAAGAAATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAAAGATTGGAT
* * *
36559920 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTAGTGTGTCTTCAATTTGCCTTCTAATTAAGG
66 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
36559985 TAAAAGATTGGATGCT-CC
131 TAAAAGATTGGATGCTACC
* *
36560003 CCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTTGTGATTAAGGTAAAAGATTGGAT
1 CCATGATCGGGGTAAGAAATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAAAGATTGGAT
* * *
36560068 GCTTCAATTTGCCCTATGATCGGGGTAAGAGATTGGT-TGTCTTCAATCTGCCATCTGATTAAGG
66 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
** *
36560132 TAAAAATGGATTTAAT-TTACC
131 T-AAAA--GATTGGATGCTACC
* * * * * *
36560153 CCATGATCGGGGTAAGATATTGATGTGTCTTCAATTTACCTTTTGATTAAGGTTAAAGATTAGAT
1 CCATGATCGGGGTAAGAAATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAAAGATTGGAT
* *
36560218 ACTTCAATCTGCCCCATGATTGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
66 GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
*
36560283 TAAAAGAATGGATGCT
131 TAAAAGATTGGATGCT
36560299 TCAATCTGCC
Statistics
Matches: 261, Mismatches: 29, Indels: 11
0.87 0.10 0.04
Matches are distributed among these distances:
147 25 0.10
148 103 0.39
149 2 0.01
150 104 0.40
151 27 0.10
ACGTcount: A:0.27, C:0.15, G:0.23, T:0.34
Consensus pattern (149 bp):
CCATGATCGGGGTAAGAAATTGGTGTGTCTTCAATCTACCTTCTGATTAAGGTAAAAGATTGGAT
GCTTCAATCTGCCCCATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTTCTGATTAAGG
TAAAAGATTGGATGCTACC
Found at i:36560095 original size:38 final size:38
Alignment explanation
Indices: 36560005--36560331 Score: 180
Period size: 38 Copynumber: 8.6 Consensus size: 38
36559995 GATGCTCCCC
* * * * *
36560005 ATGATCGGGGTAAGAGATTGGTGTGTCTTCAATCTACCTT
1 ATGATTGGGGTAAAAGATTGG-ATG-CTTCAATCTGCCCT
* ** *
36560045 GTGATTAAGGTAAAAGATTGGATGCTTCAATTTGCCCT
1 ATGATTGGGGTAAAAGATTGGATGCTTCAATCTGCCCT
* * * *
36560083 ATGATCGGGGTAAGAGATTGGTTGTCTTCAATCTGCCAT
1 ATGATTGGGGTAAAAGATTGGATG-CTTCAATCTGCCCT
* ** * * *
36560122 CTGATTAAGGTAAAA-A-TGGAT--TT-AATTTACCCC
1 ATGATTGGGGTAAAAGATTGGATGCTTCAATCTGCCCT
* * * * * *
36560155 ATGATCGGGGTAAGATATT-GATGTGTCTTCAATTTACCTT
1 ATGATTGGGGTAAAAGATTGGA--TG-CTTCAATCTGCCCT
* ** * * * *
36560195 TTGATTAAGGTTAAAGATTAGATACTTCAATCTGCCCC
1 ATGATTGGGGTAAAAGATTGGATGCTTCAATCTGCCCT
* * *
36560233 ATGATTGGGGTAAGAGATTGGTGTGTCTTCAATCTGCCTT
1 ATGATTGGGGTAAAAGATTGG-ATG-CTTCAATCTGCCCT
* ** * *
36560273 CTGATTAAGGTAAAAGAATGGATGCTTCAATCTGCCCC
1 ATGATTGGGGTAAAAGATTGGATGCTTCAATCTGCCCT
36560311 ATGATTGGGGTAAAAGATTGG
1 ATGATTGGGGTAAAAGATTGG
36560332 TGTGTCTTTA
Statistics
Matches: 207, Mismatches: 68, Indels: 26
0.69 0.23 0.09
Matches are distributed among these distances:
33 16 0.08
34 5 0.02
35 1 0.00
36 1 0.00
37 4 0.02
38 84 0.41
39 30 0.14
40 64 0.31
41 2 0.01
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.34
Consensus pattern (38 bp):
ATGATTGGGGTAAAAGATTGGATGCTTCAATCTGCCCT
Found at i:36576803 original size:367 final size:367
Alignment explanation
Indices: 36576130--36576866 Score: 1276
Period size: 367 Copynumber: 2.0 Consensus size: 367
36576120 ATTAACTATC
36576130 TAAACAATAAAATTTCATAACCAAATTTTAATACGATACTAATGACCTCGTAAATATTAAATAAT
1 TAAACAATAAAATTTCATAACCAAATTTTAATACGATACTAATGACCTCGTAAATATTAAATAAT
*
36576195 TAATATTTACGGTCTGACACATCGAAGTTGTAGACTCGAAACCACCAGTCTTGATCACATTGAGA
66 TAATATTTACAGTCTGACACATCGAAGTTGTAGACTCGAAACCACCAGTCTTGATCACATTGAGA
*
36576260 AATAAACTAATTAGTAAATCCTCATTTAACTAGGATTTAATTGCAATTTATAAAAACTTAAAGAA
131 AATAAACTAATTAGTAAATCCTCATTTAACTAGAATTTAATTGCAATTTATAAAAACTTAAAGAA
*
36576325 TTCCACATTATTTCTATTATTAGGCCGTTTAAGAAAGGTCCAATTACACAATTGGTCCTTCAATT
196 TTCCACATTATTTCTATTATTAGGCCGTTTAAGAAAGGTCCAATTACACAATTGATCCTTCAATT
*
36576390 ATATTAAATTCCAATCAAACAAACTTATTTTCAATTTAATCTTAAACTAATTAGGAATAAATGAA
261 ATATTAAATTCCAATCAAACAAACTTATTTTCAATTTAACCTTAAACTAATTAGGAATAAATGAA
* *
36576455 AAAATAACCCAAAATTTCATTTCCACCACCGGTTGGACTTTT
326 AAAATAACCCAAAATTTCATATCCACCACCGCTTGGACTTTT
* *
36576497 TAAACAATAAAATTTCATAACCTAATTTTAATACGATACTAATTACCTCGTAAATATTAAATAAT
1 TAAACAATAAAATTTCATAACCAAATTTTAATACGATACTAATGACCTCGTAAATATTAAATAAT
* * * *
36576562 TAATATTTACAGTCTGACATATCGAAGTTGTGGACTCGAAACCATCATTCTTGATCACATTGAGA
66 TAATATTTACAGTCTGACACATCGAAGTTGTAGACTCGAAACCACCAGTCTTGATCACATTGAGA
* * *
36576627 AATAAACTAATTAGTAAATCCTCATTTAATTAGAATTTAATTGCAATTTATCAAAACTTAAATAA
131 AATAAACTAATTAGTAAATCCTCATTTAACTAGAATTTAATTGCAATTTATAAAAACTTAAAGAA
* *
36576692 TTCCACATTATTTGTATTGTTAGGCCGTTTAAGAAAGGTCCAATTACACAATTGATCCTTCAATT
196 TTCCACATTATTTCTATTATTAGGCCGTTTAAGAAAGGTCCAATTACACAATTGATCCTTCAATT
* *
36576757 ATATTAAATTCCAATCAAACAAACTTATTTTCAATTTAGCCTTAAACTAATTAGGACTAAATGAA
261 ATATTAAATTCCAATCAAACAAACTTATTTTCAATTTAACCTTAAACTAATTAGGAATAAATGAA
* * *
36576822 GAAATAACCCAAATTTTCATATCCACCACCGCTTGGAGTTTT
326 AAAATAACCCAAAATTTCATATCCACCACCGCTTGGACTTTT
36576864 TAA
1 TAA
36576867 CCATGGTTTA
Statistics
Matches: 348, Mismatches: 22, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
367 348 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (367 bp):
TAAACAATAAAATTTCATAACCAAATTTTAATACGATACTAATGACCTCGTAAATATTAAATAAT
TAATATTTACAGTCTGACACATCGAAGTTGTAGACTCGAAACCACCAGTCTTGATCACATTGAGA
AATAAACTAATTAGTAAATCCTCATTTAACTAGAATTTAATTGCAATTTATAAAAACTTAAAGAA
TTCCACATTATTTCTATTATTAGGCCGTTTAAGAAAGGTCCAATTACACAATTGATCCTTCAATT
ATATTAAATTCCAATCAAACAAACTTATTTTCAATTTAACCTTAAACTAATTAGGAATAAATGAA
AAAATAACCCAAAATTTCATATCCACCACCGCTTGGACTTTT
Found at i:36580061 original size:19 final size:17
Alignment explanation
Indices: 36580019--36580061 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 17
36580009 ACTTTCCTAT
36580019 AATTAATATATTATTAA
1 AATTAATATATTATTAA
36580036 ATCATTAATATATTATCATAA
1 A--ATTAATATATTAT--TAA
36580057 AATTA
1 AATTA
36580062 TTTAAATAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
17 1 0.05
19 17 0.77
21 4 0.18
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
AATTAATATATTATTAA
Found at i:36592793 original size:17 final size:18
Alignment explanation
Indices: 36592771--36592806 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36592761 TAAATGAGTT
36592771 AATTAGGAT-TAAATTGG
1 AATTAGGATATAAATTGG
*
36592788 AATTAGGGTATAAATTGG
1 AATTAGGATATAAATTGG
36592806 A
1 A
36592807 TAGAAATTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.42, C:0.00, G:0.25, T:0.33
Consensus pattern (18 bp):
AATTAGGATATAAATTGG
Found at i:36593126 original size:18 final size:18
Alignment explanation
Indices: 36593103--36593139 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
36593093 TTTGTGATCA
36593103 AAATTGAAAGTGAAAGTG
1 AAATTGAAAGTGAAAGTG
* *
36593121 AAATTGGAATTGAAAGTG
1 AAATTGAAAGTGAAAGTG
36593139 A
1 A
36593140 TATGAATTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.00, G:0.27, T:0.24
Consensus pattern (18 bp):
AAATTGAAAGTGAAAGTG
Found at i:36594719 original size:23 final size:22
Alignment explanation
Indices: 36594688--36594731 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
36594678 AAAGAAATAA
*
36594688 AATTAACCCAATTTAATTAATT
1 AATTAACCCAAATTAATTAATT
*
36594710 AATTCAACCCAAATTATTTAAT
1 AATT-AACCCAAATTAATTAAT
36594732 GAAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.45, C:0.16, G:0.00, T:0.39
Consensus pattern (22 bp):
AATTAACCCAAATTAATTAATT
Found at i:36607096 original size:228 final size:228
Alignment explanation
Indices: 36606699--36607153 Score: 865
Period size: 228 Copynumber: 2.0 Consensus size: 228
36606689 TCAATGTAAC
*
36606699 TGGCTCCGATGTACTTACCCTGAAAGGCCCTCTTGAAGGCATCCCACATTACCGGCTCAGGTCGA
1 TGGCTCCGATGTACTTACCCTGAAAGGCCCTCTTGAAGGCATCCCACATTACCGGCCCAGGTCGA
*
36606764 AGGCTTTATTCCACAATTAACCACCATTGATAGGCCTAATCTCGTAACAAAGATACTACACCTCT
66 AGGCTCTATTCCACAATTAACCACCATTGATAGGCCTAATCTCGTAACAAAGATACTACACCTCT
*
36606829 CAATTTCTGTACCGGAGTGCAGTCCAGATCATTCATGATGTGCTTGGTTGCCTCGAGCCAGTACT
131 CAATTTCTGTACCGGAGTGCAGTCCAGATCATTCATGATGCGCTTGGTTGCCTCGAGCCAGTACT
36606894 CTAGCACTGTAAGAGCAACCCTAGTAACACCTT
196 CTAGCACTGTAAGAGCAACCCTAGTAACACCTT
*
36606927 TGGCTCCGATGTACTTACCTTGAAAGGCCCTCTTGAAGGCATCCCACATTACCGGCCCAGGTCGA
1 TGGCTCCGATGTACTTACCCTGAAAGGCCCTCTTGAAGGCATCCCACATTACCGGCCCAGGTCGA
36606992 AGGCTCTATTCCACAATTAACCACCATTGATAGGCCTAATCTCGTAACAAAGATACTACACCTCT
66 AGGCTCTATTCCACAATTAACCACCATTGATAGGCCTAATCTCGTAACAAAGATACTACACCTCT
*
36607057 CAATTTCTGTATCGGAGTGCAGTCCAGATCATTCATGATGCGCTTGGTTGCCTCGAGCCAGTACT
131 CAATTTCTGTACCGGAGTGCAGTCCAGATCATTCATGATGCGCTTGGTTGCCTCGAGCCAGTACT
36607122 CTAGCACTGTAAGAGCAACCCTAGTAACACCT
196 CTAGCACTGTAAGAGCAACCCTAGTAACACCT
36607154 CTGAATAACT
Statistics
Matches: 222, Mismatches: 5, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
228 222 1.00
ACGTcount: A:0.26, C:0.29, G:0.19, T:0.26
Consensus pattern (228 bp):
TGGCTCCGATGTACTTACCCTGAAAGGCCCTCTTGAAGGCATCCCACATTACCGGCCCAGGTCGA
AGGCTCTATTCCACAATTAACCACCATTGATAGGCCTAATCTCGTAACAAAGATACTACACCTCT
CAATTTCTGTACCGGAGTGCAGTCCAGATCATTCATGATGCGCTTGGTTGCCTCGAGCCAGTACT
CTAGCACTGTAAGAGCAACCCTAGTAACACCTT
Found at i:36608691 original size:21 final size:21
Alignment explanation
Indices: 36608667--36608724 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 21
36608657 TAGTGCAGAT
*
36608667 TTCTACCGATACAAGTGACAG
1 TTCTACCGATACAAGTGACAC
* *
36608688 TTCTACCAATACAAGTGACTC
1 TTCTACCGATACAAGTGACAC
* *
36608709 TTCTATCGAAACAAGT
1 TTCTACCGATACAAGT
36608725 CTTACTTTTA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.34, C:0.24, G:0.14, T:0.28
Consensus pattern (21 bp):
TTCTACCGATACAAGTGACAC
Found at i:36610751 original size:56 final size:56
Alignment explanation
Indices: 36610635--36610753 Score: 134
Period size: 56 Copynumber: 2.1 Consensus size: 56
36610625 TTGACCCACG
* * *
36610635 CCCGTGTGGCACAAAACAGTATGTACACACGGTCTAACACACGCCTGTGGGCTTCG
1 CCCGTGTGGCACAAAACAGTATGTACACACAGTCTAACACACGCCTGTGGGCTACA
* * * * *
36610691 CCCGTGTGTCACTAAACAGTATGTACACTCAGTCTAGCACATGACC-GTGGG-TACAA
1 CCCGTGTGGCACAAAACAGTATGTACACACAGTCTAACACACG-CCTGTGGGCTAC-A
36610747 CCCGTGT
1 CCCGTGT
36610754 ATGTCCTGCA
Statistics
Matches: 53, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
55 2 0.04
56 49 0.92
57 2 0.04
ACGTcount: A:0.25, C:0.29, G:0.24, T:0.22
Consensus pattern (56 bp):
CCCGTGTGGCACAAAACAGTATGTACACACAGTCTAACACACGCCTGTGGGCTACA
Found at i:36612231 original size:17 final size:17
Alignment explanation
Indices: 36612209--36612241 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
36612199 TATTTTTTTA
36612209 ATTTTAATTTT-ATTAAT
1 ATTTT-ATTTTAATTAAT
36612226 ATTTTATTTTAATTAA
1 ATTTTATTTTAATTAA
36612242 ATTGAGTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (17 bp):
ATTTTATTTTAATTAAT
Found at i:36622600 original size:61 final size:61
Alignment explanation
Indices: 36622535--36622655 Score: 163
Period size: 61 Copynumber: 2.0 Consensus size: 61
36622525 ATATTTGAAA
* * *
36622535 TATTTTAATATAATTTA-ATATAAAAATAATTATATTAAAATGTTATTAAATTATATATTAG
1 TATTTTAAT-TAAATTATATATAAAAATAATTATATTAAAATATGATTAAATTATATATTAG
* * * *
36622596 TATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATGATTAAATTATTTATTA
1 TATTTTAATTAAATTATATATAAAAATAATTATATTAAAATATGATTAAATTATATATTA
36622656 TCATTATTAG
Statistics
Matches: 52, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
60 6 0.12
61 46 0.88
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.50
Consensus pattern (61 bp):
TATTTTAATTAAATTATATATAAAAATAATTATATTAAAATATGATTAAATTATATATTAG
Found at i:36622628 original size:24 final size:23
Alignment explanation
Indices: 36622562--36622628 Score: 66
Period size: 24 Copynumber: 2.9 Consensus size: 23
36622552 ATATAAAAAT
*
36622562 AATTATA-TTAA-AATGTTATTA
1 AATTATATTTAATAATATTATTA
* * *
36622583 AATTATATATTAGTATTTTTATTA
1 AATTATAT-TTAATAATATTATTA
36622607 AATTATATTTAATAATAATTAT
1 AATTATATTTAATAAT-ATTAT
36622629 ATTAAAATAT
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
21 7 0.19
23 9 0.25
24 20 0.56
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (23 bp):
AATTATATTTAATAATATTATTA
Found at i:36624462 original size:14 final size:15
Alignment explanation
Indices: 36624427--36624466 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
36624417 AATGTCAAAC
36624427 TAAAATAGAATGAAAA
1 TAAAATA-AATGAAAA
*
36624443 TAAAATAAAT-AAAG
1 TAAAATAAATGAAAA
36624457 TAAAATAAAT
1 TAAAATAAAT
36624467 CTTGTTGTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 13 0.57
15 3 0.13
16 7 0.30
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.23
Consensus pattern (15 bp):
TAAAATAAATGAAAA
Found at i:36627735 original size:30 final size:30
Alignment explanation
Indices: 36627672--36627736 Score: 80
Period size: 30 Copynumber: 2.2 Consensus size: 30
36627662 AGAACATCGT
*
36627672 CACACAACAAACATGTAGCACAGGAAAAAA
1 CACACAACAAACATGTAGCACACGAAAAAA
*
36627702 CACACAACAAATATGTA-C-CACGAACAAAGA
1 CACACAACAAACATGTAGCACACGAA-AAA-A
36627732 CACAC
1 CACAC
36627737 CTCAAACGAG
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 5 0.16
29 4 0.13
30 22 0.71
ACGTcount: A:0.54, C:0.28, G:0.11, T:0.08
Consensus pattern (30 bp):
CACACAACAAACATGTAGCACACGAAAAAA
Found at i:36630812 original size:29 final size:29
Alignment explanation
Indices: 36630768--36630823 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
36630758 ATCAACATGC
36630768 GATAACACAACACAGAATAAAATCATATA
1 GATAACACAACACAGAATAAAATCATATA
* *
36630797 GATAACACAACTCAGAATAATATCATA
1 GATAACACAACACAGAATAAAATCATA
36630824 CAAGGTGTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.55, C:0.18, G:0.07, T:0.20
Consensus pattern (29 bp):
GATAACACAACACAGAATAAAATCATATA
Found at i:36635098 original size:36 final size:36
Alignment explanation
Indices: 36635058--36635130 Score: 137
Period size: 36 Copynumber: 2.0 Consensus size: 36
36635048 AAGGAGCTTG
36635058 AATCTGTATTATACAAAGACTAGGTTCGCAACATCT
1 AATCTGTATTATACAAAGACTAGGTTCGCAACATCT
*
36635094 AATCTTTATTATACAAAGACTAGGTTCGCAACATCT
1 AATCTGTATTATACAAAGACTAGGTTCGCAACATCT
36635130 A
1 A
36635131 CTCTAGGCAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (36 bp):
AATCTGTATTATACAAAGACTAGGTTCGCAACATCT
Found at i:36643067 original size:51 final size:51
Alignment explanation
Indices: 36642900--36643192 Score: 424
Period size: 51 Copynumber: 5.7 Consensus size: 51
36642890 ATTTCATTTC
* * *
36642900 ATTCATTTACTCACGATGACACATAGCCACCGGACCTCATAATCCATAAAGG
1 ATTCATTTACTCACGATGACACATAGCCATCGGACCT-TTAATCCGTAAAGG
* * *
36642952 ATTCATATACTCACGATGACACATAGCCACCGGACCTCATAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACATAGCCATCGGACCT-TTAATCCGTAAAGG
*
36643004 ATTCATATACTCACGATGACACATAGCCATCGGACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACATAGCCATCGGACCTTTAATCCGTAAAGG
* *
36643055 ATTCATTTACTCACGATGACACTTAGTCATCGGACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACATAGCCATCGGACCTTTAATCCGTAAAGG
* * ** *
36643106 ATTCATTTACTCATGATGACACTTAGTTATCGAACCTTTAATCCGTAAAGG
1 ATTCATTTACTCACGATGACACATAGCCATCGGACCTTTAATCCGTAAAGG
* *
36643157 ATTCATTTACTCACGATGACACTTAGTCATCGGACC
1 ATTCATTTACTCACGATGACACATAGCCATCGGACC
36643193 CTTTCTTTTA
Statistics
Matches: 228, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
51 142 0.62
52 86 0.38
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.28
Consensus pattern (51 bp):
ATTCATTTACTCACGATGACACATAGCCATCGGACCTTTAATCCGTAAAGG
Found at i:36646146 original size:28 final size:28
Alignment explanation
Indices: 36646030--36646180 Score: 103
Period size: 28 Copynumber: 5.4 Consensus size: 28
36646020 ATTCGAGCCC
* *
36646030 AGAA-CAAAATAACGCTC-TTCTCGAGCA
1 AGAATCAAAATACCGCTCTTTC-CGAGCT
* * * *
36646057 AGTACCAGAATATCGCTCTTTCCGAGCT
1 AGAATCAAAATACCGCTCTTTCCGAGCT
* *** *
36646085 AGAAT-AAGAATATCGCTCTTTTTAAGCC
1 AGAATCAA-AATACCGCTCTTTCCGAGCT
*
36646113 AAAATCAAAATACCGCTCTTTCCGAGCT
1 AGAATCAAAATACCGCTCTTTCCGAGCT
* **
36646141 AGAATCATAATACCATTCTTTCCGAGC-
1 AGAATCAAAATACCGCTCTTTCCGAGCT
*
36646168 CGAAATCAAAATA
1 AG-AATCAAAATA
36646181 ATGCTTTACC
Statistics
Matches: 96, Mismatches: 23, Indels: 9
0.75 0.18 0.07
Matches are distributed among these distances:
27 5 0.05
28 86 0.90
29 5 0.05
ACGTcount: A:0.36, C:0.25, G:0.13, T:0.26
Consensus pattern (28 bp):
AGAATCAAAATACCGCTCTTTCCGAGCT
Found at i:36646161 original size:56 final size:56
Alignment explanation
Indices: 36646065--36646180 Score: 142
Period size: 56 Copynumber: 2.1 Consensus size: 56
36646055 CAAGTACCAG
* * * **
36646065 AATATCGCTCTTTCCGAGCTAGAATAAGAATATCGCTCTTTTTAAGCCAAAATCAA
1 AATACCGCTCTTTCCGAGCTAGAATAAGAATACCACTCTTTCCAAGCCAAAATCAA
* * * * *
36646121 AATACCGCTCTTTCCGAGCTAGAATCATAATACCATTCTTTCCGAGCCGAAATCAA
1 AATACCGCTCTTTCCGAGCTAGAATAAGAATACCACTCTTTCCAAGCCAAAATCAA
36646177 AATA
1 AATA
36646181 ATGCTTTACC
Statistics
Matches: 50, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
56 50 1.00
ACGTcount: A:0.35, C:0.24, G:0.12, T:0.28
Consensus pattern (56 bp):
AATACCGCTCTTTCCGAGCTAGAATAAGAATACCACTCTTTCCAAGCCAAAATCAA
Found at i:36646209 original size:28 final size:28
Alignment explanation
Indices: 36646177--36646339 Score: 143
Period size: 28 Copynumber: 5.9 Consensus size: 28
36646167 CCGAAATCAA
* *
36646177 AATAATGCTTTACCCAAGCAAGATGTAG
1 AATAATGCTCTACCCGAGCAAGATGTAG
36646205 AATAATGCTCTACCCGAGCAAGAT-TCA-
1 AATAATGCTCTACCCGAGCAAGATGT-AG
* * * *
36646232 AAGTAACGCTCTACTCGAGCTATATGTAG
1 AA-TAATGCTCTACCCGAGCAAGATGTAG
* * *
36646261 AGTAATGCTCTA-CCGAGTAAGATTTAG
1 AATAATGCTCTACCCGAGCAAGATGTAG
* * * * * *
36646288 AGTAACGGTCTACCTGAGCCATATGTAG
1 AATAATGCTCTACCCGAGCAAGATGTAG
*
36646316 AATAATGCTTTACCCGAGCAAGAT
1 AATAATGCTCTACCCGAGCAAGAT
36646340 TCAGAGTAAC
Statistics
Matches: 103, Mismatches: 27, Indels: 10
0.74 0.19 0.07
Matches are distributed among these distances:
27 23 0.22
28 78 0.76
29 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (28 bp):
AATAATGCTCTACCCGAGCAAGATGTAG
Found at i:36646331 original size:111 final size:112
Alignment explanation
Indices: 36646199--36646431 Score: 312
Period size: 111 Copynumber: 2.1 Consensus size: 112
36646189 CCCAAGCAAG
* * * *
36646199 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAAAGTAACGCTCTACTCGAGCT-ATATGTAG-A
1 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAAAGTAACACTATACCCGAG-TGATAAGTAGAA
* *
36646262 GTAATGCTCTACC-GAGTAAGATTTAGAGTAACGGTCTACCT-GAGCCAT
65 G-AATGCTCTACCTGAGTAAGATTCAGAGTAACGCTCTA-CTAGAGCCAT
* * *
36646310 ATGTAGAATAATGCTTTACCCGAGCAAGATTCAGAGTAACACTATGCCCGAGTGATAAGTAGAAG
1 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAAAGTAACACTATACCCGAGTGATAAGTAGAAG
36646375 AATGCTCTACCTGAGTAAGATTCAGAGTAACGCTCTACTAGAGCCAT
66 AATGCTCTACCTGAGTAAGATTCAGAGTAACGCTCTACTAGAGCCAT
* *
36646422 GTGTAAAATA
1 ATGTAGAATA
36646432 TCACTCTATC
Statistics
Matches: 107, Mismatches: 11, Indels: 7
0.86 0.09 0.06
Matches are distributed among these distances:
110 1 0.01
111 66 0.62
112 40 0.37
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.25
Consensus pattern (112 bp):
ATGTAGAATAATGCTCTACCCGAGCAAGATTCAAAGTAACACTATACCCGAGTGATAAGTAGAAG
AATGCTCTACCTGAGTAAGATTCAGAGTAACGCTCTACTAGAGCCAT
Found at i:36646372 original size:56 final size:55
Alignment explanation
Indices: 36646199--36646412 Score: 250
Period size: 56 Copynumber: 3.9 Consensus size: 55
36646189 CCCAAGCAAG
* *
36646199 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAAAGTAACGCTCTACTCGAGCTAT
1 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACCCGAG-TAT
* * * * * *
36646255 ATGTAGAGTAATGCTCTA-CCGAGTAAGATTTAGAGTAACGGTCTACCTGAGCCAT
1 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACCCGAG-TAT
* * * *
36646310 ATGTAGAATAATGCTTTACCCGAGCAAGATTCAGAGTAACACTATGCCCGAGTGAT
1 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACCCGAGT-AT
* * * *
36646366 AAGTAGAAGAATGCTCTACCTGAGTAAGATTCAGAGTAACGCTCTAC
1 ATGTAGAATAATGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTAC
36646413 TAGAGCCATG
Statistics
Matches: 130, Mismatches: 26, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
55 46 0.35
56 84 0.65
ACGTcount: A:0.34, C:0.20, G:0.21, T:0.25
Consensus pattern (55 bp):
ATGTAGAATAATGCTCTACCCGAGCAAGATTCAGAGTAACGCTCTACCCGAGTAT
Found at i:36646409 original size:28 final size:27
Alignment explanation
Indices: 36646187--36646412 Score: 109
Period size: 28 Copynumber: 8.1 Consensus size: 27
36646177 AATAATGCTT
* * * *
36646187 TACCCAAGCAAGATGTAGAATAATGCTC
1 TACCCGAGTAAGAT-TAGAGTAACGCTC
* *
36646215 TACCCGAGCAAGATTCAAAGTAACGCTC
1 TACCCGAGTAAGATT-AGAGTAACGCTC
* * *
36646243 TACTCGAGCT-ATATGTAGAGTAATGCTC
1 TACCCGAG-TAAGAT-TAGAGTAACGCTC
*
36646271 TA-CCGAGTAAGATTTAGAGTAACGGTC
1 TACCCGAGTAAGA-TTAGAGTAACGCTC
* ** * * * *
36646298 TACCTGAGCCATATGTAGAATAATGCTT
1 TACCCGAGTAAGAT-TAGAGTAACGCTC
* * *
36646326 TACCCGAGCAAGATTCAGAGTAACACTA
1 TACCCGAGTAAGATT-AGAGTAACGCTC
* * *
36646354 TGCCCGAGTGATA-AGTAGAAG-AATGCTC
1 TACCCGAGT-A-AGATTAG-AGTAACGCTC
*
36646382 TACCTGAGTAAGATTCAGAGTAACGCTC
1 TACCCGAGTAAGATT-AGAGTAACGCTC
36646410 TAC
1 TAC
36646413 TAGAGCCATG
Statistics
Matches: 146, Mismatches: 38, Indels: 28
0.69 0.18 0.13
Matches are distributed among these distances:
26 2 0.01
27 27 0.18
28 110 0.75
29 6 0.04
30 1 0.01
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (27 bp):
TACCCGAGTAAGATTAGAGTAACGCTC
Found at i:36663771 original size:18 final size:18
Alignment explanation
Indices: 36663748--36663794 Score: 85
Period size: 18 Copynumber: 2.6 Consensus size: 18
36663738 AGAAGCTCCC
36663748 AAGAAGAAGGAGAAGGGG
1 AAGAAGAAGGAGAAGGGG
*
36663766 AAGAAGAAAGAGAAGGGG
1 AAGAAGAAGGAGAAGGGG
36663784 AAGAAGAAGGA
1 AAGAAGAAGGA
36663795 AAAATAAGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (18 bp):
AAGAAGAAGGAGAAGGGG
Found at i:36671639 original size:40 final size:40
Alignment explanation
Indices: 36671584--36671789 Score: 286
Period size: 40 Copynumber: 5.2 Consensus size: 40
36671574 ATGAGATATA
* **
36671584 TCAAGCTTCGGCTTAGCAGGCTACGAGTTGGTGTTAAGAT
1 TCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAAGAT
*
36671624 TCAAGCTACGGCTTAGTAGGCTACGAGCCGGTGTTAAGAT
1 TCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAAGAT
* * *
36671664 TCAAGCTACGGTTTAGCAGGCTATGAGCCGGTGTTAGGAT
1 TCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAAGAT
* *
36671704 TCAAGCTACGGCTTAACAGGCTACGAGCCGGTGTTAAGAC
1 TCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAAGAT
* * * *
36671744 TCAAGCTACGGCATAGCAGGCTACAAGTCGGTGTTAATAT
1 TCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAAGAT
*
36671784 ACAAGC
1 TCAAGC
36671790 CAACTTAAGG
Statistics
Matches: 146, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 146 1.00
ACGTcount: A:0.26, C:0.20, G:0.29, T:0.25
Consensus pattern (40 bp):
TCAAGCTACGGCTTAGCAGGCTACGAGCCGGTGTTAAGAT
Found at i:36673926 original size:22 final size:22
Alignment explanation
Indices: 36673884--36673926 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
36673874 TAAAGTGGGC
*
36673884 CATGCAAATTAATTTAATTAAA
1 CATGCAAATTAATTCAATTAAA
*
36673906 CATG-AAATTATATTCATTTAA
1 CATGCAAATTA-ATTCAATTAA
36673927 TTGGCATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.47, C:0.09, G:0.05, T:0.40
Consensus pattern (22 bp):
CATGCAAATTAATTCAATTAAA
Found at i:36675829 original size:23 final size:23
Alignment explanation
Indices: 36675788--36675831 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
36675778 TGTCCCATTC
*
36675788 TATCTCACCTCCTTATTTCTCTT
1 TATCTCACCTCCCTATTTCTCTT
36675811 TATCTCACCTTCCCT-TTTCTC
1 TATCTCACC-TCCCTATTTCTC
36675832 CCTGCTTAGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.11, C:0.39, G:0.00, T:0.50
Consensus pattern (23 bp):
TATCTCACCTCCCTATTTCTCTT
Found at i:36682087 original size:12 final size:12
Alignment explanation
Indices: 36682070--36682110 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
36682060 TGTAGAAGGC
36682070 ATAAAATAAAAG
1 ATAAAATAAAAG
*
36682082 ATAAAATAAAAT
1 ATAAAATAAAAG
36682094 AGT-AAATAAAAG
1 A-TAAAATAAAAG
36682106 A-AAAA
1 ATAAAA
36682111 GCTTGAGTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
11 3 0.12
12 21 0.84
13 1 0.04
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (12 bp):
ATAAAATAAAAG
Found at i:36691767 original size:18 final size:16
Alignment explanation
Indices: 36691731--36691772 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
36691721 AGGTAGTTGC
36691731 TTGCATTTCATTTTCA
1 TTGCATTTCATTTTCA
*
36691747 TTGCATTGTTATTTGTCA
1 TTGCATT-TCATTT-TCA
36691765 TTGCATTT
1 TTGCATTT
36691773 TTCATATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 7 0.30
17 6 0.26
18 10 0.43
ACGTcount: A:0.17, C:0.14, G:0.12, T:0.57
Consensus pattern (16 bp):
TTGCATTTCATTTTCA
Found at i:36692398 original size:7 final size:7
Alignment explanation
Indices: 36692371--36692402 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
36692361 AATGTTGAAT
36692371 GAGAAAA
1 GAGAAAA
36692378 -AGAAAA
1 GAGAAAA
36692384 GA-AAAA
1 GAGAAAA
36692390 GAGAAAA
1 GAGAAAA
36692397 GAGAAA
1 GAGAAA
36692403 GAAAAATTGC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
6 12 0.52
7 11 0.48
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (7 bp):
GAGAAAA
Found at i:36695197 original size:53 final size:53
Alignment explanation
Indices: 36695117--36695223 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
36695107 ACGAGCTGTG
36695117 GAGAATTCGCAATAAATGTCGAACCTCAGCCATCGGTAAGACATCTAAGACCA
1 GAGAATTCGCAATAAATGTCGAACCTCAGCCATCGGTAAGACATCTAAGACCA
36695170 GAGAATTCGCAATAAATGTCGAACCTCAGCCATCGGTAAGACATCTAAGACCA
1 GAGAATTCGCAATAAATGTCGAACCTCAGCCATCGGTAAGACATCTAAGACCA
36695223 G
1 G
36695224 TACCTATATA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19
Consensus pattern (53 bp):
GAGAATTCGCAATAAATGTCGAACCTCAGCCATCGGTAAGACATCTAAGACCA
Found at i:36695516 original size:115 final size:115
Alignment explanation
Indices: 36695314--36695528 Score: 333
Period size: 115 Copynumber: 1.9 Consensus size: 115
36695304 ACGATGCTGC
* * *
36695314 TCACACAAGCTGTGGAGAATCCGCAATAAATGTCGGACCTTAGCCATCGGTAAGACATCTAAGAC
1 TCACACAAGCTGTGGAGAATCCGCAACAAATGTCGGACCTCAGCCATCGATAAGACATCTAAGAC
* *
36695379 CAGCACCCATATAACATGTAATGCTCACACGAGCTATGAAATGGGCCTGT
66 CAACACCCATATAACAAGTAATGCTCACACGAGCTATGAAATGGGCCTGT
* * *
36695429 TCACACTAGCTGTGGAGAATCCGCAACCAATG-CAGGACCTCAGCCATCGATAGGACATCTAAGA
1 TCACACAAGCTGTGGAGAATCCGCAACAAATGTC-GGACCTCAGCCATCGATAAGACATCTAAGA
*
36695493 TCAACACCCATATAACAAGTAATGCTCACACGAGCT
65 CCAACACCCATATAACAAGTAATGCTCACACGAGCT
36695529 GTATCTGTAA
Statistics
Matches: 90, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
114 1 0.01
115 89 0.99
ACGTcount: A:0.34, C:0.27, G:0.20, T:0.20
Consensus pattern (115 bp):
TCACACAAGCTGTGGAGAATCCGCAACAAATGTCGGACCTCAGCCATCGATAAGACATCTAAGAC
CAACACCCATATAACAAGTAATGCTCACACGAGCTATGAAATGGGCCTGT
Found at i:36699307 original size:22 final size:22
Alignment explanation
Indices: 36699277--36699330 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
36699267 AGCGAAAAAA
*
36699277 CAGACAGCACAGATGTGCATAT
1 CAGAAAGCACAGATGTGCATAT
*
36699299 CAGAAAGCACAGATGTGCGTAT
1 CAGAAAGCACAGATGTGCATAT
36699321 CAGAAAGCAC
1 CAGAAAGCAC
36699331 TGAAATGCTA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.39, C:0.22, G:0.24, T:0.15
Consensus pattern (22 bp):
CAGAAAGCACAGATGTGCATAT
Found at i:36713303 original size:25 final size:25
Alignment explanation
Indices: 36713264--36713389 Score: 128
Period size: 25 Copynumber: 4.9 Consensus size: 25
36713254 TAGCTCGGTG
*
36713264 GAGCAAATATTCTGTCTGGCTCATAA
1 GAGC-AATATTCTGTCTGGCTCGTAA
**
36713290 GAGCAATATTCTGTCTCACTCGTAA
1 GAGCAATATTCTGTCTGGCTCGTAA
* *
36713315 GAGCGATATTCTGTCTGGCTGGTAA
1 GAGCAATATTCTGTCTGGCTCGTAA
* * *
36713340 GAGCGATATTCTATATGGGCTCGTAA
1 GAGCAATATTCTGTCT-GGCTCGTAA
*
36713366 GAGCTAAAATT-TGTCTGAGCTCGT
1 GAGC-AATATTCTGTCTG-GCTCGT
36713390 TTGAACTAAA
Statistics
Matches: 83, Mismatches: 14, Indels: 6
0.81 0.14 0.06
Matches are distributed among these distances:
25 54 0.65
26 25 0.30
27 4 0.05
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (25 bp):
GAGCAATATTCTGTCTGGCTCGTAA
Found at i:36726690 original size:19 final size:18
Alignment explanation
Indices: 36726646--36726697 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
36726636 AGGATGAAGA
36726646 TTAA-ACTTTT-ATTTTT
1 TTAAGACTTTTAATTTTT
*
36726662 TGAAGA-TTTTAATTTATT
1 TTAAGACTTTTAATTT-TT
36726680 TTAAGACTTTTAATTTTT
1 TTAAGACTTTTAATTTTT
36726698 GGGATAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
16 7 0.23
17 5 0.17
18 9 0.30
19 9 0.30
ACGTcount: A:0.29, C:0.04, G:0.06, T:0.62
Consensus pattern (18 bp):
TTAAGACTTTTAATTTTT
Found at i:36730858 original size:23 final size:23
Alignment explanation
Indices: 36730831--36730876 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
36730821 TTCTGTATAT
36730831 TCGTCCACAACAAATATTAATTG
1 TCGTCCACAACAAATATTAATTG
36730854 TCGTCCACAACAAATATTAATTG
1 TCGTCCACAACAAATATTAATTG
36730877 AAGACTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.39, C:0.22, G:0.09, T:0.30
Consensus pattern (23 bp):
TCGTCCACAACAAATATTAATTG
Found at i:36741907 original size:24 final size:24
Alignment explanation
Indices: 36741880--36741927 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
36741870 TTTGAACTCA
* *
36741880 AAAGCTTCGTTTTAGCTATTTTGC
1 AAAGCCTCATTTTAGCTATTTTGC
36741904 AAAGCCTCATTTTAGCTATTTTGC
1 AAAGCCTCATTTTAGCTATTTTGC
36741928 TCTTAATTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.23, C:0.19, G:0.15, T:0.44
Consensus pattern (24 bp):
AAAGCCTCATTTTAGCTATTTTGC
Found at i:36748797 original size:25 final size:26
Alignment explanation
Indices: 36748727--36748791 Score: 114
Period size: 26 Copynumber: 2.5 Consensus size: 26
36748717 AATTTAGTAG
36748727 TTAGTAGGTGAAAGATCAAGAGTTTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
*
36748753 TTAGTAGATGAAAGATCAAGAG-TTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
36748778 TTAGTAGGTGAAAG
1 TTAGTAGGTGAAAG
36748792 GCCAAGGGTC
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
25 16 0.43
26 21 0.57
ACGTcount: A:0.37, C:0.03, G:0.28, T:0.32
Consensus pattern (26 bp):
TTAGTAGGTGAAAGATCAAGAGTTTT
Found at i:36748975 original size:23 final size:23
Alignment explanation
Indices: 36748945--36748990 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
36748935 TGTTAATTCG
36748945 ATTTTCAGTTTTCAAATCGGTAT
1 ATTTTCAGTTTTCAAATCGGTAT
*
36748968 ATTTTCAGTTTTCAAATTGGTAT
1 ATTTTCAGTTTTCAAATCGGTAT
36748991 CAGAGCTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.11, G:0.13, T:0.50
Consensus pattern (23 bp):
ATTTTCAGTTTTCAAATCGGTAT
Found at i:36753181 original size:26 final size:26
Alignment explanation
Indices: 36753116--36753179 Score: 103
Period size: 26 Copynumber: 2.5 Consensus size: 26
36753106 AATTTAGTAG
*
36753116 TTAGTAGGTGAAAGATTAAGAGTTTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
*
36753142 TTAGTAGATGAAAGATCAAGAG-TTT
1 TTAGTAGGTGAAAGATCAAGAGTTTT
36753167 TTAGTAGGTGAAA
1 TTAGTAGGTGAAA
36753180 AGCCAATGGT
Statistics
Matches: 35, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
25 15 0.43
26 20 0.57
ACGTcount: A:0.38, C:0.02, G:0.27, T:0.34
Consensus pattern (26 bp):
TTAGTAGGTGAAAGATCAAGAGTTTT
Found at i:36756506 original size:18 final size:18
Alignment explanation
Indices: 36756485--36756522 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
36756475 TAAATTTTCG
36756485 AATTCGAAT-AACTCGAAT
1 AATTCGAATAAAC-CGAAT
36756503 AATTCGAATAAACCGAAT
1 AATTCGAATAAACCGAAT
36756521 AA
1 AA
36756523 AACTATATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.84
19 3 0.16
ACGTcount: A:0.50, C:0.16, G:0.11, T:0.24
Consensus pattern (18 bp):
AATTCGAATAAACCGAAT
Found at i:36757254 original size:3 final size:3
Alignment explanation
Indices: 36757242--36757273 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
36757232 AAAATATTAT
36757242 ATA ATAA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA A
36757274 AACAAATAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:36760106 original size:16 final size:16
Alignment explanation
Indices: 36760085--36760119 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
36760075 ATTTTCAGCA
36760085 TTTA-TTTATTTTTATT
1 TTTATTTTA-TTTTATT
36760101 TTTATTTTATTTTATT
1 TTTATTTTATTTTATT
36760117 TTT
1 TTT
36760120 TTGAAAAAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 14 0.78
17 4 0.22
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (16 bp):
TTTATTTTATTTTATT
Found at i:36761733 original size:52 final size:52
Alignment explanation
Indices: 36761652--36761890 Score: 388
Period size: 52 Copynumber: 4.6 Consensus size: 52
36761642 TTCTCATTTG
*
36761652 ATACTCACAATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
36761704 ATGCTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
* ** * **
36761756 ATACTCATGATGACACATAGTCATCAAACCTTATAATCTATAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
36761808 ATACTCACGATGACACATAGTCATCGGTCCTCATAATCCGTAAAGGATTCAT
1 ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
*
36761860 ATACTCATGATGACACATAGTCATCGGACCT
1 ATACTCACGATGACACATAGTCATCGGACCT
36761891 TTTGCATTTA
Statistics
Matches: 169, Mismatches: 18, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
52 169 1.00
ACGTcount: A:0.35, C:0.24, G:0.14, T:0.27
Consensus pattern (52 bp):
ATACTCACGATGACACATAGTCATCGGACCTCATAATCCGTAAAGGATTCAT
Found at i:36762331 original size:18 final size:16
Alignment explanation
Indices: 36762300--36762335 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 16
36762290 CCTCAATACC
36762300 ATTTCATTTCAATTTA
1 ATTTCATTTCAATTTA
36762316 ATTTCATTCCTCAATTTA
1 ATTTCATT--TCAATTTA
36762334 AT
1 AT
36762336 ATTTACTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.44
18 10 0.56
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTCATTTCAATTTA
Found at i:36769920 original size:11 final size:11
Alignment explanation
Indices: 36769904--36769936 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
36769894 AGTTCACAAA
36769904 ATTATTTTTCC
1 ATTATTTTTCC
*
36769915 ATTATTTTTCA
1 ATTATTTTTCC
36769926 ATTATTTTTCC
1 ATTATTTTTCC
36769937 CTCAATACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.21, C:0.15, G:0.00, T:0.64
Consensus pattern (11 bp):
ATTATTTTTCC
Found at i:36771711 original size:58 final size:58
Alignment explanation
Indices: 36771623--36771768 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 58
36771613 ATATATTATA
* *
36771623 ATTTTTACT-AATTCATATTTTAATAATAATTATATTAAAA-AT-ATT-ATTAAATTACAT
1 ATTTTTATTAAATT-ATA-TTTAATAATAATTATATTAAAATATAATTAAATAAATTA-AT
* *
36771680 ATTATTTTATTAAATTGTATTTAATAATAATTATGTTAAAATATAATTAAATAAATTAAT
1 A-T-TTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
*
36771740 ATTTTTATTCAATTATATTTAATAATAAT
1 ATTTTTATTAAATTATATTTAATAATAAT
36771769 CATTAAAATT
Statistics
Matches: 77, Mismatches: 6, Indels: 11
0.82 0.06 0.12
Matches are distributed among these distances:
57 1 0.01
58 47 0.61
59 11 0.14
60 10 0.13
61 8 0.10
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.50
Consensus pattern (58 bp):
ATTTTTATTAAATTATATTTAATAATAATTATATTAAAATATAATTAAATAAATTAAT
Found at i:36771959 original size:16 final size:16
Alignment explanation
Indices: 36771938--36772008 Score: 88
Period size: 16 Copynumber: 4.4 Consensus size: 16
36771928 TGAATTACTG
*
36771938 ATTACAACTCTATTCC
1 ATTACAGCTCTATTCC
* *
36771954 ATTACAGTTATATTCC
1 ATTACAGCTCTATTCC
*
36771970 ATTACAGTTCTATTCC
1 ATTACAGCTCTATTCC
* *
36771986 ATTACATCTCTATTCT
1 ATTACAGCTCTATTCC
36772002 ATTACAG
1 ATTACAG
36772009 GGAACCAAAC
Statistics
Matches: 47, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.30, C:0.24, G:0.04, T:0.42
Consensus pattern (16 bp):
ATTACAGCTCTATTCC
Found at i:36772731 original size:109 final size:110
Alignment explanation
Indices: 36772576--36772776 Score: 248
Period size: 109 Copynumber: 1.8 Consensus size: 110
36772566 TTTTTTTTAC
* * * * *
36772576 TTAGGGAATTCGATAAATTGTGTCCTAACGTGTTGAGTATGATTTTTCATT-GACTTTAAAG-AA
1 TTAGGGAACTCGAGAAATTGTGTCCTAACGTATTGAGTATGATTTTTCATTAAAC-CT-AAGTAA
*
36772639 TTAAATATCCTATTT-AAAATCGATAAATATTCAATGTTCATTTATT
64 TTAAACATCCTATTTAAAAATCGATAAATATTCAATGTTCATTTATT
* * * *
36772685 TTAGGGAACTCGAGAAATTGTG-CTCTAATGTATTGGGTATTATTTTTCTTTAAACCTAAGTAAT
1 TTAGGGAACTCGAGAAATTGTGTC-CTAACGTATTGAGTATGATTTTTCATTAAACCTAAGTAAT
*
36772749 TGAACATCCTATTTAAAAATCGATAAAT
65 TAAACATCCTATTTAAAAATCGATAAAT
36772777 GTTCTTTGTT
Statistics
Matches: 77, Mismatches: 11, Indels: 7
0.81 0.12 0.07
Matches are distributed among these distances:
108 4 0.05
109 58 0.75
110 15 0.19
ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40
Consensus pattern (110 bp):
TTAGGGAACTCGAGAAATTGTGTCCTAACGTATTGAGTATGATTTTTCATTAAACCTAAGTAATT
AAACATCCTATTTAAAAATCGATAAATATTCAATGTTCATTTATT
Found at i:36776503 original size:19 final size:19
Alignment explanation
Indices: 36776479--36776530 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 19
36776469 GCATGTTAGC
36776479 TTTTAATTAATTTAAA-ATT
1 TTTTAA-TAATTTAAATATT
*
36776498 TTTTAAAATATTTTAAATATT
1 TTTT--AATAATTTAAATATT
*
36776519 TGTTAATAATTT
1 TTTTAATAATTT
36776531 TTGTACTTTT
Statistics
Matches: 27, Mismatches: 3, Indels: 6
0.75 0.08 0.17
Matches are distributed among these distances:
19 11 0.41
20 8 0.30
21 8 0.30
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (19 bp):
TTTTAATAATTTAAATATT
Done.