Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007872.1 Hibiscus syriacus cultivar Beakdansim tig00110247_pilon, whole genome shotgun sequence
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: 853105
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:3135 original size:30 final size:30
Alignment explanation
Indices: 3101--3161 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
3091 ATTCTACAAG
*
3101 TAAAGGCTTCAACTTTTTATTTATTTATTT
1 TAAAGACTTCAACTTTTTATTTATTTATTT
3131 TAAAGACTTCAACTTTTTATTTATTTATTT
1 TAAAGACTTCAACTTTTTATTTATTTATTT
3161 T
1 T
3162 CACACCCAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.28, C:0.10, G:0.05, T:0.57
Consensus pattern (30 bp):
TAAAGACTTCAACTTTTTATTTATTTATTT
Found at i:11582 original size:2 final size:2
Alignment explanation
Indices: 11575--11599 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11565 TCAGCTGTAA
11575 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
11600 GTATTAGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13482 original size:2 final size:2
Alignment explanation
Indices: 13475--13499 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13465 GGATCCTAAA
13475 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
13500 AAATTGTCGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:17156 original size:13 final size:14
Alignment explanation
Indices: 17138--17172 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 14
17128 TTTATATCTT
*
17138 ACCCTAACTTA-AA
1 ACCCTAAATTATAA
17151 ACCCTAAATTATAA
1 ACCCTAAATTATAA
17165 ACCCTAAA
1 ACCCTAAA
17173 ATAGGGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 10 0.50
14 10 0.50
ACGTcount: A:0.49, C:0.29, G:0.00, T:0.23
Consensus pattern (14 bp):
ACCCTAAATTATAA
Found at i:26303 original size:140 final size:139
Alignment explanation
Indices: 26082--26358 Score: 410
Period size: 140 Copynumber: 2.0 Consensus size: 139
26072 TTTCTATAGT
* *
26082 AAACCCAATTTATTATTTCCGTCCTTATTATATTGTCGTATTAATTTAGTCTTGGAAGTTATTCA
1 AAACCCAATTTATTATTTCCGTCCCTATTATATTGTCGCATTAATTTAGTCTTGGAAGTTATTCA
* *
26147 ATTACATCACTTTAGATCCTACCCCTAACTTAAAACCCAAAATTATATATCATAAACCCTAAACC
66 ATTACATCACTCTAGATCCTACCCCTAACTTAAAACCCAAAATTATAAATCATAAACCCTAAACC
*
26212 CTAAACTTA
131 ATAAACTTA
* * *
26221 AAACCCTAATTTATTATTTCCTTCCCTATTATATTTTCGCATTAATTTAGTCTTTGAAGTTATTC
1 AAACCC-AATTTATTATTTCCGTCCCTATTATATTGTCGCATTAATTTAGTCTTGGAAGTTATTC
* * ** * * *
26286 AATTGCATCACTCTAGATCTTATTCCTAACTTAAAACTCAAAATTATAAATCATAAACCTTAAAT
65 AATTACATCACTCTAGATCCTACCCCTAACTTAAAACCCAAAATTATAAATCATAAACCCTAAAC
26351 CATAAACT
130 CATAAACT
26359 CATAAACCTT
Statistics
Matches: 122, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
139 6 0.05
140 116 0.95
ACGTcount: A:0.35, C:0.21, G:0.05, T:0.39
Consensus pattern (139 bp):
AAACCCAATTTATTATTTCCGTCCCTATTATATTGTCGCATTAATTTAGTCTTGGAAGTTATTCA
ATTACATCACTCTAGATCCTACCCCTAACTTAAAACCCAAAATTATAAATCATAAACCCTAAACC
ATAAACTTA
Found at i:26342 original size:22 final size:22
Alignment explanation
Indices: 26317--26364 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
26307 ATTCCTAACT
*
26317 TAAAACTCAAAATTATAAA-TCA
1 TAAAACT-AAAATCATAAACTCA
* *
26339 TAAACCTTAAATCATAAACTCA
1 TAAAACTAAAATCATAAACTCA
26361 TAAA
1 TAAA
26365 CCTTAAACTC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
21 9 0.41
22 13 0.59
ACGTcount: A:0.56, C:0.17, G:0.00, T:0.27
Consensus pattern (22 bp):
TAAAACTAAAATCATAAACTCA
Found at i:29143 original size:179 final size:179
Alignment explanation
Indices: 28843--29193 Score: 612
Period size: 179 Copynumber: 2.0 Consensus size: 179
28833 ATACCTGAAA
* *
28843 TTTAGTTTTTGTTTCATTTTAGTACAACCAAAGCATATCTTATTGTTTTGAACGATTATTTTAAT
1 TTTAGTTTTTGTTTCATTTTAGTACAACAAAAGCATATCTTATTGTTTTGAACGATTAATTTAAT
*
28908 ATTACATTAATAAATCATAGAAAATAATTAAATCCGGGGATTAAATTTTAAAAAGTAAAAAGTAT
66 ATTACATTAATAAATCATAGAAAATAATTAAATCCGGGGATTAAATTTTAAAAAGTAAAAAGTAG
* *
28973 GATTGAAAATATTAGGGGCCTCAATTATAAAGGTAAAAAGTGCATGGAG
131 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGCATGGAG
* *
29022 TTTAGTTTTTGTTTCATTTTAGTACAACAAAAGTATATCTTATTGTTTTGAATGATTAATTTAAT
1 TTTAGTTTTTGTTTCATTTTAGTACAACAAAAGCATATCTTATTGTTTTGAACGATTAATTTAAT
* * *
29087 ATTATATTAATAAATCATAGAAAATAATTAAATTCGGGGCTTAAATTTTAAAAAGTAAAAAGTAG
66 ATTACATTAATAAATCATAGAAAATAATTAAATCCGGGGATTAAATTTTAAAAAGTAAAAAGTAG
29152 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTG
131 GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTG
29194 AGATTAAAAA
Statistics
Matches: 162, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
179 162 1.00
ACGTcount: A:0.41, C:0.07, G:0.15, T:0.37
Consensus pattern (179 bp):
TTTAGTTTTTGTTTCATTTTAGTACAACAAAAGCATATCTTATTGTTTTGAACGATTAATTTAAT
ATTACATTAATAAATCATAGAAAATAATTAAATCCGGGGATTAAATTTTAAAAAGTAAAAAGTAG
GATTAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGCATGGAG
Found at i:29204 original size:44 final size:43
Alignment explanation
Indices: 29141--29616 Score: 300
Period size: 44 Copynumber: 11.0 Consensus size: 43
29131 ATTTTAAAAA
*
29141 GTAAAAAGT-AGGATTAAAAAAATTAGGGGCCTCAATTATAAAG
1 GTAAAAAGTGA-GATTAAAAAAATTAAGGGCCTCAATTATAAAG
* *
29184 GTAAAAAGTGAGATT-AAAAAATT-AGAGGACTCAATTTTAAAG
1 GTAAAAAGTGAGATTAAAAAAATTAAG-GGCCTCAATTATAAAG
* * *
29226 G-AAAAATGTG-GTATTGAAAAAATT-AGGGAGCT-ACATTGTATAA-
1 GTAAAAA-GTGAG-ATTAAAAAAATTAAGGG-CCTCA-ATTATA-AAG
* * * **
29269 GTAAAAGGTG-GTATTGAAAAAATTAGGGGCCTCAATTATAATT
1 GTAAAAAGTGAG-ATTAAAAAAATTAAGGGCCTCAATTATAAAG
* * * *
29312 ATTACAAGTGAGATTAAAAAAAATTAAGGGCCTCAATTGTAAAG
1 GTAAAAAGTGAGATT-AAAAAAATTAAGGGCCTCAATTATAAAG
* *
29356 GTAAAAAGTGAGATTGCAAAAAA-TAAGAG-CTCAATTATAAAG
1 GTAAAAAGTGAGATT-AAAAAAATTAAGGGCCTCAATTATAAAG
* * * * *
29398 ATAAAAAGTGGGATTGAAAAAAATTAA-GGCAATCAATTATATAT
1 GTAAAAAGTGAGATT-AAAAAAATTAAGGGC-CTCAATTATAAAG
*
29442 GTAAAAAAGTGAGATTAAAAAAATTAAGAGCCTCAATTATAAA-
1 GT-AAAAAGTGAGATTAAAAAAATTAAGGGCCTCAATTATAAAG
* * **
29485 G-ACAAAAGATCA-AATAAAAAAATTTTAAGGTACTCAATTATAAAG
1 GTA-AAAAG-TGAGATTAAAAAAA--TTAAGGGCCTCAATTATAAAG
* * * * *
29530 ATAAAAAGTAAAATTAAAAAAAATT-AGAGCCTTCTATTATAAAG
1 GTAAAAAGTGAGATT-AAAAAAATTAAGGGCC-TCAATTATAAAG
** * * * * * *
29574 AAAAAAAAATTAAATGAAAAAAATTAAAGGACTCAATTATAAA
1 -GTAAAAAGTGAGATTAAAAAAATTAAGGGCCTCAATTATAAA
29617 AATAAAAAAT
Statistics
Matches: 345, Mismatches: 58, Indels: 59
0.75 0.13 0.13
Matches are distributed among these distances:
41 8 0.02
42 80 0.23
43 78 0.23
44 136 0.39
45 35 0.10
46 8 0.02
ACGTcount: A:0.52, C:0.07, G:0.16, T:0.25
Consensus pattern (43 bp):
GTAAAAAGTGAGATTAAAAAAATTAAGGGCCTCAATTATAAAG
Found at i:29220 original size:86 final size:85
Alignment explanation
Indices: 29130--29484 Score: 289
Period size: 86 Copynumber: 4.1 Consensus size: 85
29120 TCGGGGCTTA
*
29130 AATTTTAAAAAGTAAAAAGTAGGATT-AAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTG
1 AATTATAAAAA-TAAAAAGT-GGATTAAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTG
29194 AGATT-AAAAAATTAGAGGACTC
64 AGATTGAAAAAATTAGAGG-CTC
* * * * * *
29216 AATTTTAAAGGA-AAAATGTGGTATT-GAAAAAATTAGGGAG-CT-ACATTGTATAA-GTAAAAG
1 AATTATAAA-AATAAAAAGTGG-ATTAAAAAAAATTAGGG-GCCTCA-ATTATA-AAGGTAAAAA
*
29276 GTG-GTATTGAAAAAATTAGGGGCCTC
61 GTGAG-ATTGAAAAAATTAGAGG-CTC
** * * * *
29302 AATTATAATTATTACAAGTGAGATTAAAAAAAATTAAGGGCCTCAATTGTAAAGGTAAAAAGTGA
1 AATTATAAAAATAAAAAGTG-GATTAAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGA
*
29367 GATTGCAAAAAATAAGA-GCTC
65 GATTG-AAAAAATTAGAGGCTC
* * * * * *
29388 AATTATAAAGATAAAAAGTGGGATTGAAAAAAATTA-AGGCAATCAATTATATATGTAAAAAAGT
1 AATTATAAAAATAAAAAGT-GGATTAAAAAAAATTAGGGGC-CTCAATTATAAAGGT-AAAAAGT
* *
29452 GAGATTAAAAAAATTAAGAGCCTC
63 GAGATTGAAAAAATT-AGAGGCTC
29476 AATTATAAA
1 AATTATAAA
29485 GACAAAAGAT
Statistics
Matches: 218, Mismatches: 31, Indels: 38
0.76 0.11 0.13
Matches are distributed among these distances:
84 4 0.02
85 44 0.20
86 95 0.44
87 52 0.24
88 23 0.11
ACGTcount: A:0.49, C:0.06, G:0.19, T:0.26
Consensus pattern (85 bp):
AATTATAAAAATAAAAAGTGGATTAAAAAAAATTAGGGGCCTCAATTATAAAGGTAAAAAGTGAG
ATTGAAAAAATTAGAGGCTC
Found at i:29351 original size:87 final size:87
Alignment explanation
Indices: 29138--29580 Score: 271
Period size: 87 Copynumber: 5.1 Consensus size: 87
29128 TAAATTTTAA
* * *
29138 AAAG-TAAAAAGT-AGGATT-AAAAAAATTAGGGGC-CTCAATTATA-AAGGTAAAAAGTGAGAT
1 AAAGATAAAAAGTGA-GATTAAAAAAAATTA-AGGCAATCAATTGTATAA-GTAAAAAGTGAGAT
* *
29198 T-AAAAAATT-AGAGGACTCAATTTT
63 TGAAAAAATTAAGA-GCCTCAATTAT
* * * * *
29222 AAAGGA-AAAATGTG-GTATT-GAAAAAATT-AGG-GAGCTACATTGTATAAGTAAAAGGTG-GT
1 AAA-GATAAAAAGTGAG-ATTAAAAAAAATTAAGGCAATC-A-ATTGTATAAGTAAAAAGTGAG-
* *
29281 ATTGAAAAAATTAGGGGCCTCAATTAT
61 ATTGAAAAAATTAAGAGCCTCAATTAT
** * * *
29308 AATTATTACAAGTGAGATTAAAAAAAATTAAGGGC-CTCAATTGTA-AAGGTAAAAAGTGAGATT
1 AAAGATAAAAAGTGAGATTAAAAAAAATTAA-GGCAATCAATTGTATAA-GTAAAAAGTGAGATT
29371 GCAAAAAA-TAAGAG-CTCAATTAT
64 G-AAAAAATTAAGAGCCTCAATTAT
* * * * *
29394 AAAGATAAAAAGTGGGATTGAAAAAAATTAAGGCAATCAATTATATATGTAAAAAAGTGAGATTA
1 AAAGATAAAAAGTGAGATTAAAAAAAATTAAGGCAATCAATTGTATAAGT-AAAAAGTGAGATTG
29459 AAAAAATTAAGAGCCTCAATTAT
65 AAAAAATTAAGAGCCTCAATTAT
* * * * * * * * *
29482 AAAGA-CAAAAGATCA-AATAAAAAAATTTTAAGGTACTCAATTATA-AAGATAAAAAGTAAAAT
1 AAAGATAAAAAG-TGAGATTAAAAAAA-ATTAAGGCAATCAATTGTATAAG-TAAAAAGTGAGAT
* *
29544 TAAAAAAAATT-AGAGCCTTCTATTAT
63 T-GAAAAAATTAAGAGCC-TCAATTAT
*
29570 AAAGAAAAAAA
1 AAAGATAAAAA
29581 AATTAAATGA
Statistics
Matches: 283, Mismatches: 45, Indels: 57
0.74 0.12 0.15
Matches are distributed among these distances:
83 3 0.01
84 6 0.02
85 39 0.14
86 81 0.29
87 85 0.30
88 62 0.22
89 7 0.02
ACGTcount: A:0.51, C:0.07, G:0.17, T:0.25
Consensus pattern (87 bp):
AAAGATAAAAAGTGAGATTAAAAAAAATTAAGGCAATCAATTGTATAAGTAAAAAGTGAGATTGA
AAAAATTAAGAGCCTCAATTAT
Found at i:30110 original size:170 final size:172
Alignment explanation
Indices: 29816--30160 Score: 543
Period size: 170 Copynumber: 2.0 Consensus size: 172
29806 AACATTAGGG
** * * *
29816 TAAATTACATGTTTACTTCTTAAACTATCAGTTTTGATCTGTTTTAGTACTTAAATTTTTAATGT
1 TAAATTACATGTTTACCACTTAAACTATCAGTTTTGATATATTTTAG----T-AACTTTTAATGT
29881 TATGAAAACCATACCTGAAGTAAAGTTTTTGTTTCATTTTAGTACCTCACCACTGAAAAC-TTAA
61 TATGAAAACCATACCTGAAGTAAAGTTTTTGTTTCATTTTAGTACCTCACCACTGAAAACTTTAA
*
29945 GTTTTTGTTTCA-TTTAGTATCACGTTCAAAGTTTAGGTACTGAACAT
126 -TTTTTGTTTCATTTTAGTACCACGTTCAAAGTTTAGGTACTGAACAT
29992 TAAATTACATGTTTACCACTTAAACTATCAGTTTTGATATATTTTAG-AACTTTTAATGTTATGA
1 TAAATTACATGTTTACCACTTAAACTATCAGTTTTGATATATTTTAGTAACTTTTAATGTTATGA
* *
30056 AAACCATACCTGAAGTAAAGTTTTTGTTTCATTTTAGTACCTTACCATTGAAAACTTTAATTTTT
66 AAACCATACCTGAAGTAAAGTTTTTGTTTCATTTTAGTACCTCACCACTGAAAACTTTAATTTTT
30121 GTTTCATTTTAGTACCACGTTCAAAGTTTAGGTACTGAAC
131 GTTTCATTTTAGTACCACGTTCAAAGTTTAGGTACTGAAC
30161 GTGTTAAGTT
Statistics
Matches: 159, Mismatches: 8, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
170 80 0.50
171 36 0.23
176 43 0.27
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (172 bp):
TAAATTACATGTTTACCACTTAAACTATCAGTTTTGATATATTTTAGTAACTTTTAATGTTATGA
AAACCATACCTGAAGTAAAGTTTTTGTTTCATTTTAGTACCTCACCACTGAAAACTTTAATTTTT
GTTTCATTTTAGTACCACGTTCAAAGTTTAGGTACTGAACAT
Found at i:32325 original size:60 final size:60
Alignment explanation
Indices: 32196--32308 Score: 156
Period size: 60 Copynumber: 1.9 Consensus size: 60
32186 AAATTAATCT
* ** *
32196 TTAATCTTTTAAATATTCTGATTTCATCCCCAAACTATGGCTCTCATTCTAAAGTAGTCC
1 TTAATCTTTTAAACATTCTGATTTCATCCCCAAACTATGAATATCATTCTAAAGTAGTCC
* *
32256 TTAAACTTTTGAACATT-TGAATTTCATCCCCAAACTATGAATATCATTCTAAA
1 TTAATCTTTTAAACATTCTG-ATTTCATCCCCAAACTATGAATATCATTCTAAA
32309 TTGATTCCTG
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
59 2 0.04
60 44 0.96
ACGTcount: A:0.33, C:0.21, G:0.07, T:0.39
Consensus pattern (60 bp):
TTAATCTTTTAAACATTCTGATTTCATCCCCAAACTATGAATATCATTCTAAAGTAGTCC
Found at i:37160 original size:4 final size:4
Alignment explanation
Indices: 37144--37180 Score: 65
Period size: 4 Copynumber: 9.2 Consensus size: 4
37134 AAGCCCCAAG
*
37144 ACAT ACAT GCAT ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT A
37181 TTACATGCAT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 31 1.00
ACGTcount: A:0.49, C:0.24, G:0.03, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:45059 original size:14 final size:14
Alignment explanation
Indices: 45040--45067 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
45030 ATCATAACAA
45040 AATTATATAACTAT
1 AATTATATAACTAT
45054 AATTATATAACTAT
1 AATTATATAACTAT
45068 TCTTTCACTT
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:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATTATATAACTAT
Found at i:46186 original size:112 final size:112
Alignment explanation
Indices: 45940--46507 Score: 934
Period size: 112 Copynumber: 5.1 Consensus size: 112
45930 TTGTCAGTTT
* * * *
45940 GTGTCGATACTTTATAAAAATATATTGATCTAAAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
46005 GGTCTATAAATGACAAAAC------AGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
* *
46046 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACTGGTAAAAAAATGACAAAATC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
46111 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
46158 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * *
46223 GGTTTATAAATGACAAAATATGTAAAGCGCTACTGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
*
46270 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAAGT-AAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
46334 GATCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
46381 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * * *
46446 GGCCTATAAATGACAAAACAGGTAAAACGCTACCGAATATGTTGATA
66 GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
46493 GTGTCGATACTTTAT
1 GTGTCGATACTTTAT
46508 TATAAGTATC
Statistics
Matches: 430, Mismatches: 25, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
106 78 0.18
111 105 0.24
112 247 0.57
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (112 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAACAGGTAAAGCGCTACCGGATATATTGAAA
Found at i:46394 original size:223 final size:222
Alignment explanation
Indices: 45940--46507 Score: 921
Period size: 223 Copynumber: 2.6 Consensus size: 222
45930 TTGTCAGTTT
* * * *
45940 GTGTCGATACTTTATAAAAATATATTGATCTAAAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
*
46005 GGTCTATAAATGAC--AAA--ACAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAA
66 GGTCTATAAATGACAAAAAGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAA
** * *
46066 TGTATCGATCCATAACAATATAACTGGTAAAAAAATGACAAAATCGGTCTATAAATGACAAAACA
131 TGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACA
46131 GGTAAAGCGCTACCGGATATATTGAAA
196 GGTAAAGCGCTACCGGATATATTGAAA
46158 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* *
46223 GGTTTATAAATGACAAAATATGTAAAGCGCTACTGGATATATTGAAAGTGTCGATACTTTATAAA
66 GGTCTATAAATGACAAAA-A-GTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAA
46288 AATGTATCGATCCATAACAATATAACAAGT-AAAAAATGACAAAACCGATCTATAAATGACAAAA
129 AATGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAA
46352 CAGGTAAAGCGCTACCGGATATATTGAAA
194 CAGGTAAAGCGCTACCGGATATATTGAAA
46381 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
1 GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
* * * * *
46446 GGCCTATAAATGACAAAACAGGTAAAACGCTACCGAATATGTTGATAGTGTCGATACTTTAT
66 GGTCTATAAATGACAAAA-A-GTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTAT
46508 TATAAGTATC
Statistics
Matches: 324, Mismatches: 20, Indels: 7
0.92 0.06 0.02
Matches are distributed among these distances:
218 74 0.23
220 2 0.01
221 1 0.00
223 179 0.55
224 68 0.21
ACGTcount: A:0.45, C:0.14, G:0.15, T:0.25
Consensus pattern (222 bp):
GTGTCGATACTTTATAAAAATGTATCGATCCATAACAATATAACAGGTAAAAAAATGACAAAACC
GGTCTATAAATGACAAAAAGTAAAGCGCTACCGGATATATTGAAAGTGTCGATACTTTATAAAAA
TGTATCGATCCATAACAATATAACAAGTAAAAAAATGACAAAACCGATCTATAAATGACAAAACA
GGTAAAGCGCTACCGGATATATTGAAA
Found at i:46725 original size:162 final size:162
Alignment explanation
Indices: 46455--46787 Score: 553
Period size: 162 Copynumber: 2.1 Consensus size: 162
46445 CGGCCTATAA
* *
46455 ATGACAAAACAGGTAAAACGCTACCGAATATGTTGATAGTGTCGATACTTTATTATAAGTATCGA
1 ATGACAAAACAGATAAAACGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
* *
46520 CACTTTTGAAATTTAAAAGAGAAGAAGTTATATCGCTAATAAAGTGTCGATACTTTATAAAAATG
66 CACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATG
46585 TATCGATCCATAACAATATAACAAGTAAAAAT
131 TATCGATCCATAACAATATAACAAGTAAAAAT
* *
46617 ATGACAAAACCGATAAAGA-GCTACCGGATATGTTGAAAGTGTCGATACTTTATTATAAGTATCG
1 ATGACAAAACAGATAAA-ACGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATAAGTATCG
*
46681 ACACTTTTGGAATTTAAAAGAAAAGAAGTTATAGCG-TCAATAAAGTGTCGATACTTTATAAAAA
65 ACACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCT-AATAAAGTGTCGATACTTTATAAAAA
*
46745 TGTATCGATCCATAACAATATAACATGTAAAAAT
129 TGTATCGATCCATAACAATATAACAAGTAAAAAT
*
46779 ATGATAAAA
1 ATGACAAAA
46788 TCGGTCTCAA
Statistics
Matches: 160, Mismatches: 9, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
161 1 0.01
162 158 0.99
163 1 0.01
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (162 bp):
ATGACAAAACAGATAAAACGCTACCGAATATGTTGAAAGTGTCGATACTTTATTATAAGTATCGA
CACTTTTGAAATTTAAAAGAAAAGAAGTTATAGCGCTAATAAAGTGTCGATACTTTATAAAAATG
TATCGATCCATAACAATATAACAAGTAAAAAT
Found at i:47280 original size:23 final size:23
Alignment explanation
Indices: 47247--47294 Score: 69
Period size: 23 Copynumber: 2.1 Consensus size: 23
47237 AAATATGTCA
*
47247 ATATAAACGCTACCTATTACATT
1 ATATAAACGCTACCTAATACATT
* *
47270 ATATAAGCGCTACCTAATATATT
1 ATATAAACGCTACCTAATACATT
47293 AT
1 AT
47295 TGTACTTGAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.06, T:0.35
Consensus pattern (23 bp):
ATATAAACGCTACCTAATACATT
Found at i:47498 original size:24 final size:23
Alignment explanation
Indices: 47454--47498 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
47444 AACTATATAT
*
47454 ATACATAACATGGATGGATGCGC
1 ATACATAACATGGATGCATGCGC
*
47477 ATACATACACATGTATGCATGC
1 ATACATA-ACATGGATGCATGC
47499 ATGTTGCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 7 0.37
24 12 0.63
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (23 bp):
ATACATAACATGGATGCATGCGC
Found at i:51337 original size:10 final size:10
Alignment explanation
Indices: 51322--51351 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
51312 TATGATTAGC
*
51322 TTTATTTTAT
1 TTTATTTTAA
51332 TTTATTTTAA
1 TTTATTTTAA
51342 TTTATTTTAA
1 TTTATTTTAA
51352 AAGTAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTTAA
Found at i:51385 original size:16 final size:16
Alignment explanation
Indices: 51364--51394 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
51354 GTAAATATAT
51364 TAAATTCAAATAAATC
1 TAAATTCAAATAAATC
*
51380 TAAATTTAAATAAAT
1 TAAATTCAAATAAAT
51395 TTAATCTTCT
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:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (16 bp):
TAAATTCAAATAAATC
Found at i:61237 original size:24 final size:25
Alignment explanation
Indices: 61191--61238 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
61181 GAATGAAGTT
61191 TTTAAAAAATTTGGATTTTTTTAAGA
1 TTTAAAAAA-TTGGATTTTTTTAAGA
61217 TTTAAAAAA-TGG-TTTTATTTAA
1 TTTAAAAAATTGGATTTT-TTTAA
61239 ATTACATTTC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
23 4 0.19
24 8 0.38
26 9 0.43
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (25 bp):
TTTAAAAAATTGGATTTTTTTAAGA
Found at i:61476 original size:8 final size:8
Alignment explanation
Indices: 61463--61501 Score: 51
Period size: 8 Copynumber: 4.6 Consensus size: 8
61453 TTACAAACGC
61463 TTATTTTT
1 TTATTTTT
61471 TTATTTTAT
1 TTATTTT-T
*
61480 TTTTTTATT
1 TTATTT-TT
61489 TTATTTTT
1 TTATTTTT
61497 TTATT
1 TTATT
61502 AAGCCTTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
8 14 0.52
9 12 0.44
10 1 0.04
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (8 bp):
TTATTTTT
Found at i:61481 original size:13 final size:13
Alignment explanation
Indices: 61463--61501 Score: 78
Period size: 13 Copynumber: 3.0 Consensus size: 13
61453 TTACAAACGC
61463 TTATTTTTTTATT
1 TTATTTTTTTATT
61476 TTATTTTTTTATT
1 TTATTTTTTTATT
61489 TTATTTTTTTATT
1 TTATTTTTTTATT
61502 AAGCCTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 26 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (13 bp):
TTATTTTTTTATT
Found at i:68094 original size:21 final size:21
Alignment explanation
Indices: 68070--68110 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
68060 TTTTTTAAAA
*
68070 AAAATTAAAAGTTTAGGTATC
1 AAAACTAAAAGTTTAGGTATC
*
68091 AAAACTAATAGTTTAGGTAT
1 AAAACTAAAAGTTTAGGTAT
68111 TAAACGCATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.46, C:0.05, G:0.15, T:0.34
Consensus pattern (21 bp):
AAAACTAAAAGTTTAGGTATC
Found at i:69491 original size:2 final size:2
Alignment explanation
Indices: 69448--69472 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
69438 GTATTTAATC
69448 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
69473 AATTCACATG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:76588 original size:12 final size:11
Alignment explanation
Indices: 76558--76592 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
76548 ACGTCATCAA
76558 AAAATATTTTT
1 AAAATATTTTT
*
76569 AAACTATTTTT
1 AAAATATTTTT
76580 AAATATATTTTT
1 AAA-ATATTTTT
76592 A
1 A
76593 TAAGTGTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 13 0.62
12 8 0.38
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:77016 original size:31 final size:31
Alignment explanation
Indices: 76980--77038 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
76970 AACTTAAAAG
* *
76980 AGTTTTGCAATACTGAGATTTAAATAATTTT
1 AGTTTTACAATACTGAAATTTAAATAATTTT
77011 AGTTTTACAATACTGAAATTTAAATAAT
1 AGTTTTACAATACTGAAATTTAAATAAT
77039 CCATACAACT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
AGTTTTACAATACTGAAATTTAAATAATTTT
Found at i:77136 original size:22 final size:22
Alignment explanation
Indices: 77063--77127 Score: 130
Period size: 22 Copynumber: 3.0 Consensus size: 22
77053 TAATAAATTA
77063 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
77085 TTTAAAATAAATCAATCCATAT
1 TTTAAAATAAATCAATCCATAT
77107 TTTAAAATAAATCAATCCATA
1 TTTAAAATAAATCAATCCATA
77128 CTAATAAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 43 1.00
ACGTcount: A:0.51, C:0.14, G:0.00, T:0.35
Consensus pattern (22 bp):
TTTAAAATAAATCAATCCATAT
Found at i:77145 original size:54 final size:54
Alignment explanation
Indices: 77085--77386 Score: 184
Period size: 54 Copynumber: 5.6 Consensus size: 54
77075 CAATCCATAT
77085 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
* * ** * *
77139 TTTAAAATAAATCAATCCACACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAA
1 TTTAAAATAAATCAAT-C-CA-TATTTTAA-AATAAATCAATCCATA--CT--AATAAAT-TA
* * * * ** *
77202 TCTATACT-AATAAAT---TA-TTTAAAATAAATCAATCCATA-TGTTAAAATA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
** * ** ** *
77250 AAT-CAATCCATACTAATAAAT-TATTTAAAATAAATCAATCCATAC-AACTACA--A
1 TTTAAAATAAAT-C-AATCCATAT-TTTAAAATAAATCAATCCATACTAA-TAAATTA
77303 --T--AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
*
77353 TTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TTTAAAATAAATCAATCCATATTTTAAAATAAAT
77387 TATTTTAAAA
Statistics
Matches: 189, Mismatches: 32, Indels: 54
0.69 0.12 0.20
Matches are distributed among these distances:
47 2 0.01
48 34 0.18
49 8 0.04
50 9 0.05
51 2 0.01
52 1 0.01
53 2 0.01
54 81 0.43
55 7 0.04
56 3 0.02
57 4 0.02
58 16 0.08
60 1 0.01
62 13 0.07
63 6 0.03
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (54 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTA
Found at i:77198 original size:80 final size:78
Alignment explanation
Indices: 77053--77237 Score: 293
Period size: 80 Copynumber: 2.4 Consensus size: 78
77043 ACAACTACAA
* * **
77053 TAATAAATTATTTAAAATAAATCAAT-C-CATATTTTAAAATAAATCAATCCATATTTTAAAATA
1 TAATAAATTATTTAAAATAAATCAATCCACAAACTACAAAATAAATCAATCCATATTTTAAAATA
77116 AATCAATCCATAC
66 AATCAATCCATAC
77129 TAATAAATTATTTAAAATAAATCAATCCACACAACTACAATAATAAATCAATCCATATTTTAAAA
1 TAATAAATTATTTAAAATAAATCAATCCACA-AACTACAA-AATAAATCAATCCATATTTTAAAA
*
77194 TAAATCAATCTATAC
64 TAAATCAATCCATAC
77209 TAATAAATTATTTAAAATAAATCAATCCA
1 TAATAAATTATTTAAAATAAATCAATCCA
77238 TATGTTAAAA
Statistics
Matches: 100, Mismatches: 5, Indels: 4
0.92 0.05 0.04
Matches are distributed among these distances:
76 26 0.26
77 1 0.01
78 2 0.02
79 4 0.04
80 67 0.67
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.34
Consensus pattern (78 bp):
TAATAAATTATTTAAAATAAATCAATCCACAAACTACAAAATAAATCAATCCATATTTTAAAATA
AATCAATCCATAC
Found at i:77237 original size:134 final size:134
Alignment explanation
Indices: 77085--77386 Score: 568
Period size: 134 Copynumber: 2.3 Consensus size: 134
77075 CAATCCATAT
77085 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
77150 TCAATCCACACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCTATACTAATAA
66 TCAATCCACACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
77215 ATTA
131 ATTA
*
77219 TTTAAAATAAATCAATCCATATGTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
1 TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
*
77284 TCAATCCATACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
66 TCAATCCACACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
77349 ATTA
131 ATTA
*
77353 TTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TTTAAAATAAATCAATCCATATTTTAAAATAAAT
77387 TATTTTAAAA
Statistics
Matches: 163, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
134 163 1.00
ACGTcount: A:0.52, C:0.14, G:0.00, T:0.33
Consensus pattern (134 bp):
TTTAAAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAA
TCAATCCACACAACTACAATAATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAA
ATTA
Found at i:77248 original size:22 final size:22
Alignment explanation
Indices: 77220--77261 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
77210 AATAAATTAT
77220 TTAAAATAAATCAATCCATATG
1 TTAAAATAAATCAATCCATATG
77242 TTAAAATAAATCAATCCATA
1 TTAAAATAAATCAATCCATA
77262 CTAATAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.52, C:0.14, G:0.02, T:0.31
Consensus pattern (22 bp):
TTAAAATAAATCAATCCATATG
Found at i:77270 original size:22 final size:22
Alignment explanation
Indices: 77221--77269 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
77211 ATAAATTATT
**
77221 TAAAATAAATCAATCCATATGT
1 TAAAATAAATCAATCCATATAA
77243 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATA-TAA
77266 TAAA
1 TAAA
77270 TTATTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 19 0.79
23 5 0.21
ACGTcount: A:0.55, C:0.14, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAAATAAATCAATCCATATAA
Found at i:77308 original size:80 final size:80
Alignment explanation
Indices: 77224--77373 Score: 291
Period size: 80 Copynumber: 1.9 Consensus size: 80
77214 AATTATTTAA
77224 AATAAATCAATCCATATGTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATGTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
77289 CCATACAACTACAAT
66 CCATACAACTACAAT
*
77304 AATAAATCAATCCATATTTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
1 AATAAATCAATCCATATGTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
77369 CCATA
66 CCATA
77374 TTTTATAATA
Statistics
Matches: 69, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
80 69 1.00
ACGTcount: A:0.53, C:0.15, G:0.01, T:0.31
Consensus pattern (80 bp):
AATAAATCAATCCATATGTTAAAATAAATCAATCCATACTAATAAATTATTTAAAATAAATCAAT
CCATACAACTACAAT
Found at i:77350 original size:22 final size:23
Alignment explanation
Indices: 77275--77349 Score: 82
Period size: 22 Copynumber: 3.2 Consensus size: 23
77265 ATAAATTATT
77275 TAAAATAAATCAATCCATAC-AA
1 TAAAATAAATCAATCCATACTAA
**
77297 CTACAATAATAAATCAATCCATA-TTT
1 -T--AA-AATAAATCAATCCATACTAA
77323 TAAAATAAATCAATCCATACTAA
1 TAAAATAAATCAATCCATACTAA
77346 TAAA
1 TAAA
77350 TTATTTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
22 16 0.37
23 8 0.19
25 3 0.07
26 16 0.37
ACGTcount: A:0.55, C:0.17, G:0.00, T:0.28
Consensus pattern (23 bp):
TAAAATAAATCAATCCATACTAA
Found at i:77386 original size:36 final size:33
Alignment explanation
Indices: 77318--77431 Score: 119
Period size: 30 Copynumber: 3.5 Consensus size: 33
77308 AATCAATCCA
*
77318 TATTTTAAAATAAATCAATCCATACTAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
77351 TA-TTTAAAATAAATCAATCCATATTTTATAATAAAT
1 TATTTTAAAATAAATCAATCCATA----ATAATAAAT
* * *
77387 TATTTTAAAATAAAT-TAT--TTTATAATAAAT
1 TATTTTAAAATAAATCAATCCATAATAATAAAT
*
77417 TATTTTATAATAAAT
1 TATTTTAAAATAAAT
77432 TATTTTAAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
30 23 0.32
32 21 0.30
33 2 0.03
34 1 0.01
36 12 0.17
37 12 0.17
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (33 bp):
TATTTTAAAATAAATCAATCCATAATAATAAAT
Found at i:77392 original size:15 final size:15
Alignment explanation
Indices: 77372--77446 Score: 132
Period size: 15 Copynumber: 5.0 Consensus size: 15
77362 AATCAATCCA
77372 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
77387 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
77402 TATTTTATAATAAAT
1 TATTTTATAATAAAT
77417 TATTTTATAATAAAT
1 TATTTTATAATAAAT
*
77432 TATTTTAAAATAAAT
1 TATTTTATAATAAAT
77447 AACCTTATTA
Statistics
Matches: 57, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 57 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
TATTTTATAATAAAT
Found at i:78962 original size:2 final size:2
Alignment explanation
Indices: 78955--79030 Score: 152
Period size: 2 Copynumber: 38.0 Consensus size: 2
78945 TCCTAAACCT
78955 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
78997 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
79031 CATACTTTCT
Statistics
Matches: 74, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 74 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:79520 original size:31 final size:31
Alignment explanation
Indices: 79485--79548 Score: 83
Period size: 31 Copynumber: 2.1 Consensus size: 31
79475 AAGGCTAAGA
* * * *
79485 GACTAACATTGAACGGATCGATAATGTTAGG
1 GACTAAAATCGAACAGATCGATAACGTTAGG
*
79516 GACTAAAATCGAACATATCGATAACGTTAGG
1 GACTAAAATCGAACAGATCGATAACGTTAGG
79547 GA
1 GA
79549 TCATATCCTA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.39, C:0.14, G:0.23, T:0.23
Consensus pattern (31 bp):
GACTAAAATCGAACAGATCGATAACGTTAGG
Found at i:83036 original size:21 final size:20
Alignment explanation
Indices: 83006--83050 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
82996 TAAATTACGC
83006 ATTTAATACCTAAACTATC-A
1 ATTTAATACCTAAACT-TCTA
83026 ATTTAAATACCTAAACTTCTA
1 ATTT-AATACCTAAACTTCTA
83047 ATTT
1 ATTT
83051 TTTCAAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.42, C:0.18, G:0.00, T:0.40
Consensus pattern (20 bp):
ATTTAATACCTAAACTTCTA
Found at i:90466 original size:10 final size:11
Alignment explanation
Indices: 90451--90479 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
90441 TATATTTAAA
90451 TTAAAATA-TT
1 TTAAAATATTT
90461 TTAAAATATTT
1 TTAAAATATTT
90472 TTAAAATA
1 TTAAAATA
90480 AATTATCTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 8 0.44
11 10 0.56
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (11 bp):
TTAAAATATTT
Found at i:91446 original size:12 final size:12
Alignment explanation
Indices: 91429--91457 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
91419 TATATTTAAA
91429 TTAAAAATATTT
1 TTAAAAATATTT
91441 TT-AAAATATTT
1 TTAAAAATATTT
91452 TTAAAA
1 TTAAAA
91458 TAAATTATCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
11 11 0.69
12 5 0.31
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (12 bp):
TTAAAAATATTT
Found at i:91448 original size:11 final size:11
Alignment explanation
Indices: 91432--91459 Score: 56
Period size: 11 Copynumber: 2.5 Consensus size: 11
91422 ATTTAAATTA
91432 AAAATATTTTT
1 AAAATATTTTT
91443 AAAATATTTTT
1 AAAATATTTTT
91454 AAAATA
1 AAAATA
91460 AATTATCTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (11 bp):
AAAATATTTTT
Found at i:95564 original size:19 final size:20
Alignment explanation
Indices: 95540--95590 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
95530 AATGACAAAT
95540 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATATAC
* *
95559 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATATAC
95579 AAAATCGCAACG
1 AAAATCGCAACG
95591 TTAAAAAGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.43, C:0.24, G:0.18, T:0.16
Consensus pattern (20 bp):
AAAATCGCAACGCGATATAC
Found at i:95584 original size:20 final size:20
Alignment explanation
Indices: 95540--95863 Score: 177
Period size: 20 Copynumber: 15.6 Consensus size: 20
95530 AATGACAAAT
* *
95540 AAAATCGCAACGCGATAT-C
1 AAAATCGCAACGCGATTTAG
95559 AAAATCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
** ***
95579 AAAATCGCAACGTTAAAAAG
1 AAAATCGCAACGCGATTTAG
**
95599 AAAATCGCAACG-G-TCAAAAG
1 AAAATCGCAACGCGAT--TTAG
* **
95619 AAAATCGCAACGCGAGCTTCC
1 AAAATCGCAACGCGA-TTTAG
**
95640 AAGTTCGCAACGCGATTTAGAAG
1 AAAATCGCAACGCGATTT---AG
* * *
95663 AAAATCGCAATGCGATTGAT
1 AAAATCGCAACGCGATTTAG
** * *
95683 TGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
95703 AGAGTCGCAACGCGATTTAG
1 AAAATCGCAACGCGATTTAG
95723 AAGAGAGTCGCAACGCGATTTAG
1 AA-A-A-TCGCAACGCGATTTAG
95746 AAGAGAATCGCAACGCGATTTAG
1 -A-A-AATCGCAACGCGATTTAG
* * *
95769 AAGAGAATCGCAATGCGACTGAG
1 -A-A-AATCGCAACGCGATTTAG
* * * *
95792 AGAATCGCAATGCGACTGAG
1 AAAATCGCAACGCGATTTAG
* * *
95812 AGAATCGCAATGCGATTGAG
1 AAAATCGCAACGCGATTTAG
* *
95832 AGAATCGCAACGCGATCTAG
1 AAAATCGCAACGCGATTTAG
95852 AAAATCGCAACG
1 AAAATCGCAACG
95864 TTAAAAAGAA
Statistics
Matches: 249, Mismatches: 42, Indels: 27
0.78 0.13 0.08
Matches are distributed among these distances:
19 17 0.07
20 145 0.58
21 15 0.06
22 1 0.00
23 66 0.27
24 2 0.01
25 3 0.01
ACGTcount: A:0.39, C:0.20, G:0.24, T:0.17
Consensus pattern (20 bp):
AAAATCGCAACGCGATTTAG
Found at i:95677 original size:23 final size:21
Alignment explanation
Indices: 95644--95863 Score: 193
Period size: 20 Copynumber: 10.4 Consensus size: 21
95634 GCTTCCAAGT
*
95644 TCGCAACGCGATTTAGAAGAAAA
1 TCGCAACGCGA-TT-GAAGAGAA
* **
95667 TCGCAATGCGATTG-ATTGAA
1 TCGCAACGCGATTGAAGAGAA
* *
95687 TCGCAATGCGATTG-AGAGAG
1 TCGCAACGCGATTGAAGAGAA
*
95707 TCGCAACGCGATTTAGAAGAGAG
1 TCGCAACGCGA-TT-GAAGAGAA
95730 TCGCAACGCGATTTAGAAGAGAA
1 TCGCAACGCGA-TT-GAAGAGAA
95753 TCGCAACGCGATTTAGAAGAGAA
1 TCGCAACGCGA-TT-GAAGAGAA
* *
95776 TCGCAATGCGACTG-AGAGAA
1 TCGCAACGCGATTGAAGAGAA
* *
95796 TCGCAATGCGACTG-AGAGAA
1 TCGCAACGCGATTGAAGAGAA
*
95816 TCGCAATGCGATTG-AGAGAA
1 TCGCAACGCGATTGAAGAGAA
*
95836 TCGCAACGCGATCT--AGAAAA
1 TCGCAACGCGAT-TGAAGAGAA
95856 TCGCAACG
1 TCGCAACG
95864 TTAAAAAGAA
Statistics
Matches: 179, Mismatches: 14, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
20 99 0.55
21 5 0.03
22 4 0.02
23 71 0.40
ACGTcount: A:0.36, C:0.19, G:0.27, T:0.18
Consensus pattern (21 bp):
TCGCAACGCGATTGAAGAGAA
Found at i:95778 original size:109 final size:106
Alignment explanation
Indices: 95644--95853 Score: 312
Period size: 109 Copynumber: 2.0 Consensus size: 106
95634 GCTTCCAAGT
* ** * *
95644 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGATTGATTGAATCGCAATGCGATTGAGAGAGTC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
* *
95709 GCAACGCGATTTAGAAGAGAGTCGCAACGCGATTTAGAAGAGAA
66 GCAACGCGA-TT-G-AGAGAATCGCAACGCGATCTAGAAGAGAA
*
95753 TCGCAACGCGATTTAGAAGAGAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
1 TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
*
95818 GCAATGCGATTGAGAGAATCGCAACGCGATCTAGAA
66 GCAACGCGATTGAGAGAATCGCAACGCGATCTAGAA
95854 AATCGCAACG
Statistics
Matches: 92, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
106 22 0.24
107 1 0.01
108 2 0.02
109 67 0.73
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.19
Consensus pattern (106 bp):
TCGCAACGCGATTTAGAAGAAAATCGCAATGCGACTGAGAGAATCGCAATGCGACTGAGAGAATC
GCAACGCGATTGAGAGAATCGCAACGCGATCTAGAAGAGAA
Found at i:95873 original size:20 final size:20
Alignment explanation
Indices: 95850--95893 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
95840 AACGCGATCT
*
95850 AGAAAATCGCAACGTTAAAA
1 AGAAAATCGCAACGATAAAA
*
95870 AGAAAATCGCAACGATCAAA
1 AGAAAATCGCAACGATAAAA
95890 AGAA
1 AGAA
95894 TAGTTAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.16, G:0.16, T:0.11
Consensus pattern (20 bp):
AGAAAATCGCAACGATAAAA
Found at i:95982 original size:6 final size:6
Alignment explanation
Indices: 95971--96031 Score: 108
Period size: 6 Copynumber: 10.5 Consensus size: 6
95961 GACACGTATT
95971 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
96019 ACC-CG ACC-CG ACC
1 ACCACG ACCACG ACC
96032 CGAGACGAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 10 0.18
6 45 0.82
ACGTcount: A:0.31, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:96567 original size:20 final size:20
Alignment explanation
Indices: 96542--96585 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
96532 TTTTTAACTA
*
96542 TTCTTTTGACCGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
*
96562 TTCTTTTTAACGTTGCGATT
1 TTCTTTTGAACGTTGCGATT
96582 TTCT
1 TTCT
96586 AAATCGTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.11, C:0.18, G:0.16, T:0.55
Consensus pattern (20 bp):
TTCTTTTGAACGTTGCGATT
Found at i:96596 original size:20 final size:20
Alignment explanation
Indices: 96572--96788 Score: 164
Period size: 20 Copynumber: 10.4 Consensus size: 20
96562 TTCTTTTTAA
*
96572 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTCTCTAAATCG
* *
96592 TGTTGCGATTCTCTCAATCG
1 CGTTGCGATTCTCTAAATCG
* * *
96612 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
* * *
96632 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
* * * *
96652 CATTGCGAATCTCTCAGTCG
1 CGTTGCGATTCTCTAAATCG
*
96672 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-TC-TCTAAATCG
*
96695 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-TC-TCTAAATCG
* *
96718 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTCTCTAAATCG
** *
96738 CGTTGCGATTCAATCAATCG
1 CGTTGCGATTCTCTAAATCG
*
96758 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TTC-TCTAAATCG
96781 CGTTGCGA
1 CGTTGCGA
96789 ACTTGGAAGC
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
20 113 0.66
21 2 0.01
22 5 0.03
23 50 0.29
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (20 bp):
CGTTGCGATTCTCTAAATCG
Found at i:96618 original size:40 final size:40
Alignment explanation
Indices: 96574--96767 Score: 199
Period size: 40 Copynumber: 4.7 Consensus size: 40
96564 CTTTTTAACG
* **
96574 TTGCGATTTTCTAAATCGTGTTGCGATTCTCTCAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
96614 TTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
* * *
96654 TTGCGAATCTCTCAGTCGCATTGCGATTCTCTTCTAAATCGCA
1 TTGCGATTCTCTAAATCGCATTGCGATTCTC-TC--AATCGCA
* * *
96697 TTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGCG
1 TTGCGA-T-TC-TCTAAATCGCATTGCGATTCTCTCAATCGCA
** *
96740 TTGCGATTCAATCAATCGCATTGCGATT
1 TTGCGATTCTCTAAATCGCATTGCGATT
96768 TTCTTCTAAA
Statistics
Matches: 129, Mismatches: 19, Indels: 12
0.81 0.12 0.08
Matches are distributed among these distances:
40 78 0.60
41 4 0.03
42 1 0.01
43 24 0.19
45 4 0.03
46 18 0.14
ACGTcount: A:0.19, C:0.27, G:0.18, T:0.36
Consensus pattern (40 bp):
TTGCGATTCTCTAAATCGCATTGCGATTCTCTCAATCGCA
Found at i:96745 original size:86 final size:83
Alignment explanation
Indices: 96594--96788 Score: 243
Period size: 86 Copynumber: 2.3 Consensus size: 83
96584 CTAAATCGTG
* * *
96594 TTGCGATTCTC-TC--AATCGCATTGCGATTCTCTCAGTCGCATTGCGATTCTCTCAGTCGCATT
1 TTGCGATTCTCTTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGACTCTCTCAATCGCATT
** *
96656 GCGAATCTCTCAGTCGCA
66 GCGAATCAATCAATCGCA
*
96674 TTGCGATTCTCTTCTAAATCGCATTGCGATTCTCTTCTAAATCGCGTTGCGACTCTCTCAATCGC
1 TTGCGATTCTCTTCTAAATCGCATTGCGATTCTC-TC--AATCGCATTGCGACTCTCTCAATCGC
* *
96739 GTTGCGATTCAATCAATCGCA
63 ATTGCGAATCAATCAATCGCA
* *
96760 TTGCGATTTTCTTCTAAATCGCGTTGCGA
1 TTGCGATTCTCTTCTAAATCGCATTGCGA
96789 ACTTGGAAGC
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
80 11 0.11
81 2 0.02
83 18 0.18
84 2 0.02
86 65 0.66
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (83 bp):
TTGCGATTCTCTTCTAAATCGCATTGCGATTCTCTCAATCGCATTGCGACTCTCTCAATCGCATT
GCGAATCAATCAATCGCA
Found at i:96865 original size:20 final size:20
Alignment explanation
Indices: 96572--96892 Score: 153
Period size: 20 Copynumber: 15.6 Consensus size: 20
96562 TTCTTTTTAA
96572 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* * *
96592 TGTTGCGATTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
* * * *
96612 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * *
96632 CATTGCGATTCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
* * * * *
96652 CATTGCGAATCTCTCAGTCG
1 CGTTGCGATTTTCTAAATCG
*
96672 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
*
96695 CATTGCGATTCTCTTCTAAATCG
1 CGTTGCGA-T-T-TTCTAAATCG
* * *
96718 CGTTGCGACTCTCTCAATCG
1 CGTTGCGATTTTCTAAATCG
*** *
96738 CGTTGCGATTCAATCAATCG
1 CGTTGCGATTTTCTAAATCG
*
96758 CATTGCGATTTTCTTCTAAATCG
1 CGTTGCGA--TT-TTCTAAATCG
** ** *
96781 CGTTGCGAACTTGGAAGCTCG
1 CGTTGCGATTTTCTAA-ATCG
* *
96802 CGTTGCGATTTTCT--TTTG
1 CGTTGCGATTTTCTAAATCG
*** **
96820 ACCGTTGCGATTTTCTTTTTAA
1 --CGTTGCGATTTTCTAAATCG
96842 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCTAAATCG
* *
96862 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCTAAATCG
96881 CGTTGCGATTTT
1 CGTTGCGATTTT
96893 ATTGGTCATT
Statistics
Matches: 246, Mismatches: 44, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
18 2 0.01
19 17 0.07
20 158 0.64
21 14 0.06
22 5 0.02
23 50 0.20
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.39
Consensus pattern (20 bp):
CGTTGCGATTTTCTAAATCG
Found at i:96882 original size:19 final size:20
Alignment explanation
Indices: 96842--96892 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
96832 TTCTTTTTAA
*
96842 CGTTGCGATTTTCTAAATCG
1 CGTTGCGATTTTCGAAATCG
*
96862 CGTTGCGATTTT-GATATCG
1 CGTTGCGATTTTCGAAATCG
96881 CGTTGCGATTTT
1 CGTTGCGATTTT
96893 ATTGGTCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 17 0.59
20 12 0.41
ACGTcount: A:0.16, C:0.18, G:0.24, T:0.43
Consensus pattern (20 bp):
CGTTGCGATTTTCGAAATCG
Found at i:99578 original size:38 final size:37
Alignment explanation
Indices: 99473--99581 Score: 100
Period size: 38 Copynumber: 3.0 Consensus size: 37
99463 GAACCGAACA
* * * * *
99473 AAAAATATGTATCTTCCATCTGAATATGATCCGACTC
1 AAAAATATATATCATCCACCTGACTCTGATCCGACTC
* * *
99510 GAAAATTATATAT-ATCCTCC--ACTC-GATCCGATTC
1 -AAAAATATATATCATCCACCTGACTCTGATCCGACTC
99544 AAATAATATATATCATCCACCTGACTCTGATCCGACTC
1 AAA-AATATATATCATCCACCTGACTCTGATCCGACTC
99582 GAATTTTTGA
Statistics
Matches: 55, Mismatches: 11, Indels: 10
0.72 0.14 0.13
Matches are distributed among these distances:
33 3 0.05
34 17 0.31
35 8 0.15
37 8 0.15
38 19 0.35
ACGTcount: A:0.34, C:0.26, G:0.09, T:0.31
Consensus pattern (37 bp):
AAAAATATATATCATCCACCTGACTCTGATCCGACTC
Found at i:101090 original size:30 final size:31
Alignment explanation
Indices: 101054--101113 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
101044 CTTAGCTTTA
**
101054 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
101084 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
101114 GGCAACATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:102807 original size:19 final size:18
Alignment explanation
Indices: 102768--102812 Score: 56
Period size: 19 Copynumber: 2.5 Consensus size: 18
102758 TTGGAGTGCA
* *
102768 AAAAGAA-AGAAAAAGAT
1 AAAAGAAGAGAAAAACAG
102785 AAAAGAAGAGAAAAATCAG
1 AAAAGAAGAGAAAAA-CAG
102804 AAAAGAAGA
1 AAAAGAAGA
102813 AAAGTAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 7 0.29
18 7 0.29
19 10 0.42
ACGTcount: A:0.73, C:0.02, G:0.20, T:0.04
Consensus pattern (18 bp):
AAAAGAAGAGAAAAACAG
Found at i:105338 original size:30 final size:31
Alignment explanation
Indices: 105302--105361 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
105292 CTTAGCTTTA
**
105302 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
*
105332 TATTATGTTTGCATATCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
105362 GGAAGCATGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.28, C:0.08, G:0.10, T:0.53
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:106281 original size:19 final size:20
Alignment explanation
Indices: 106257--106307 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
106247 CGGCCAAGAG
* *
106257 CATGTATCTTCAT-TAAAAT
1 CATGTATTTTCATCAAAAAT
106276 CATGTATTTTCATCAAAAAT
1 CATGTATTTTCATCAAAAAT
106296 CATGTATTTTCA
1 CATGTATTTTCA
106308 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
19 12 0.41
20 17 0.59
ACGTcount: A:0.35, C:0.16, G:0.06, T:0.43
Consensus pattern (20 bp):
CATGTATTTTCATCAAAAAT
Found at i:106744 original size:19 final size:20
Alignment explanation
Indices: 106728--106772 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
106718 CTTTATTTCA
106728 TTTCATT-CTTATTATTTAT
1 TTTCATTACTTATTATTTAT
106747 TTTCATTACTTA-TA-TTAT
1 TTTCATTACTTATTATTTAT
106765 TATTCATT
1 T-TTCATT
106773 TTATTAAGTC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
18 5 0.21
19 15 0.62
20 4 0.17
ACGTcount: A:0.24, C:0.11, G:0.00, T:0.64
Consensus pattern (20 bp):
TTTCATTACTTATTATTTAT
Found at i:110897 original size:4 final size:4
Alignment explanation
Indices: 110888--111215 Score: 269
Period size: 4 Copynumber: 82.0 Consensus size: 4
110878 TTTGTAATAC
*
110888 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ACAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * *
110936 ATAT ATAT ACAT ATAT ACAT ATAT ATAT ATAC ATAT ATAT ACAT ACAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * * * * * * *
110984 ACAT ACAC ATAT ATAG ATAC ATAC ATAC ATAC ATAC ATAC ATAG ATAC
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * * * *
111032 ATAC ATAC ATAC ATAC ATAC ATAT ATAG ATAC ATAC ATAC ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * * * * * *
111080 ATAG ATAC ATAC ATAT ATAC ATAC ATAT ATAC ATAT ATAT ATAC ATAC
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * *
111128 ATAT ATAT ATAT ATAC ATAC ATAT ATAC ATAC ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
* * * *
111176 ATAC ATAC ATAT ATAC ATAC ATAT ATAT ATAT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
111216 GTGTGTGTGT
Statistics
Matches: 287, Mismatches: 37, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
4 287 1.00
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (4 bp):
ATAT
Found at i:110905 original size:12 final size:12
Alignment explanation
Indices: 110884--111215 Score: 339
Period size: 12 Copynumber: 28.0 Consensus size: 12
110874 CCTTTTTGTA
110884 ATACATATATAT
1 ATACATATATAT
110896 AT--ATATATAT
1 ATACATATATAT
*
110906 ATATATATATAT
1 ATACATATATAT
110918 ATACATATATAT
1 ATACATATATAT
*
110930 ATATATATATAT
1 ATACATATATAT
*
110942 ATACATATATAC
1 ATACATATATAT
110954 AT--ATATATAT
1 ATACATATATAT
110964 ATACATATATAT
1 ATACATATATAT
* * * *
110976 ACATACATACAT
1 ATACATATATAT
* *
110988 ACACATATATAG
1 ATACATATATAT
* *
111000 ATACATACATAC
1 ATACATATATAT
* *
111012 ATACATACATAC
1 ATACATATATAT
* * *
111024 ATAGATACATAC
1 ATACATATATAT
* *
111036 ATACATACATAC
1 ATACATATATAT
*
111048 ATACATATATAG
1 ATACATATATAT
* *
111060 ATACATACATAC
1 ATACATATATAT
* *
111072 ATATATATATAG
1 ATACATATATAT
*
111084 ATACATACATAT
1 ATACATATATAT
*
111096 ATACATACATAT
1 ATACATATATAT
111108 ATACATATATAT
1 ATACATATATAT
*
111120 ATACATACATAT
1 ATACATATATAT
* *
111132 ATATATATATAC
1 ATACATATATAT
*
111144 ATACATATATAC
1 ATACATATATAT
111156 ATACATATATAT
1 ATACATATATAT
* *
111168 ATATATATATAC
1 ATACATATATAT
*
111180 ATACATATATAC
1 ATACATATATAT
111192 ATACATATATAT
1 ATACATATATAT
*
111204 ATATATATATAT
1 ATACATATATAT
111216 GTGTGTGTGT
Statistics
Matches: 276, Mismatches: 40, Indels: 8
0.85 0.12 0.02
Matches are distributed among these distances:
10 19 0.07
12 257 0.93
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (12 bp):
ATACATATATAT
Found at i:111602 original size:29 final size:30
Alignment explanation
Indices: 111560--111621 Score: 108
Period size: 29 Copynumber: 2.1 Consensus size: 30
111550 ACTAGTCCTT
111560 AAATTCCTTAGGCTTCAGCATTTAAAC-TC
1 AAATTCCTTAGGCTTCAGCATTTAAACTTC
*
111589 AAATTCCTTAGGCTTCAGCATTTGAACTTC
1 AAATTCCTTAGGCTTCAGCATTTAAACTTC
111619 AAA
1 AAA
111622 ATTTATACGT
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 26 0.84
30 5 0.16
ACGTcount: A:0.32, C:0.23, G:0.11, T:0.34
Consensus pattern (30 bp):
AAATTCCTTAGGCTTCAGCATTTAAACTTC
Found at i:111821 original size:12 final size:12
Alignment explanation
Indices: 111806--111843 Score: 58
Period size: 12 Copynumber: 3.2 Consensus size: 12
111796 AAAAATTTGA
111806 ATAAATGAATTT
1 ATAAATGAATTT
*
111818 ATAAATGAATTG
1 ATAAATGAATTT
*
111830 ATAAATAAATTT
1 ATAAATGAATTT
111842 AT
1 AT
111844 TCGAGAACAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.53, C:0.00, G:0.08, T:0.39
Consensus pattern (12 bp):
ATAAATGAATTT
Found at i:111831 original size:116 final size:117
Alignment explanation
Indices: 111637--111869 Score: 337
Period size: 116 Copynumber: 2.0 Consensus size: 117
111627 TACGTGTTCA
* * *
111637 ATTTAATCTTTACTTTCATCAATTTTTAAAATATACAAAAAATAAAAAGCTGAATCAATGAATTA
1 ATTTAATCTTTACATTCATCAATATTTAAAATAT--AAAAAATAAAAAGCTGAATAAATGAATTA
* *
111702 ATAGATAAGTTGATAAATAAATTTATTTGAGAACATAAACAAATTGAATATACG
64 ATAAATAAGTTGATAAATAAATTTATTCGAGAACATAAACAAATTGAATATACG
** *
111756 ATTTAAT-TCTTACATTCATCAATATTTAAAATAT-AAAAATAAAAATTTGAATAAATGAATTTA
1 ATTTAATCT-TTACATTCATCAATATTTAAAATATAAAAAATAAAAAGCTGAATAAATGAATTAA
111819 TAAATGAA-TTGATAAATAAATTTATTCGAGAACATAAACAAATTGAATATA
65 TAAAT-AAGTTGATAAATAAATTTATTCGAGAACATAAACAAATTGAATATA
111870 TCTCTATTCA
Statistics
Matches: 104, Mismatches: 8, Indels: 7
0.87 0.07 0.06
Matches are distributed among these distances:
116 71 0.68
117 2 0.02
118 1 0.01
119 30 0.29
ACGTcount: A:0.50, C:0.07, G:0.07, T:0.35
Consensus pattern (117 bp):
ATTTAATCTTTACATTCATCAATATTTAAAATATAAAAAATAAAAAGCTGAATAAATGAATTAAT
AAATAAGTTGATAAATAAATTTATTCGAGAACATAAACAAATTGAATATACG
Found at i:111971 original size:24 final size:24
Alignment explanation
Indices: 111922--111978 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
111912 TTAAACTATC
* *
111922 AATTTTGATTTGTTTTAATACCTA
1 AATTTTAATTTGTTTTAAAACCTA
*
111946 AATTTTAATTT-TTTTCAAAACTTA
1 AATTTTAATTTGTTTT-AAAACCTA
*
111970 AAGTTTAAT
1 AATTTTAAT
111979 CTTGAACTGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 4 0.14
24 24 0.86
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (24 bp):
AATTTTAATTTGTTTTAAAACCTA
Found at i:114881 original size:27 final size:28
Alignment explanation
Indices: 114836--114888 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
114826 TTTTTTGTTG
* *
114836 TTGTCAAAATAGTTGCCTAAAGTATTTT
1 TTGTCAAAATAGGTACCTAAAGTATTTT
*
114864 TTGTC-AAATAGGTACCTAAATTATT
1 TTGTCAAAATAGGTACCTAAAGTATT
114889 CAATTTGTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 17 0.77
28 5 0.23
ACGTcount: A:0.34, C:0.11, G:0.13, T:0.42
Consensus pattern (28 bp):
TTGTCAAAATAGGTACCTAAAGTATTTT
Found at i:115055 original size:31 final size:30
Alignment explanation
Indices: 114976--115074 Score: 114
Period size: 29 Copynumber: 3.3 Consensus size: 30
114966 AGAAAAATTG
*
114976 AATACTTTAGGTACCTATTTTGACC-AAAA
1 AATACTTTAGATACCTATTTTGACCAAAAA
115005 AATACTTTA-ATTACCTATTTTGACCAAAAA
1 AATACTTTAGA-TACCTATTTTGACCAAAAA
* * *
115035 AATAAGTTTAGATACTTATTTCGACC-AAAA
1 AAT-ACTTTAGATACCTATTTTGACCAAAAA
*
115065 ATTACTTTAG
1 AATACTTTAG
115075 GTACTTAAAT
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
29 29 0.48
30 13 0.22
31 17 0.28
32 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.08, T:0.36
Consensus pattern (30 bp):
AATACTTTAGATACCTATTTTGACCAAAAA
Found at i:120941 original size:5 final size:5
Alignment explanation
Indices: 120931--120963 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
120921 TTTATTCTTC
120931 TATAT TATAT TATAT TATAT TATAT TATAT TAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TAT
120964 CTTCGTCAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATAT
Found at i:121021 original size:3 final size:3
Alignment explanation
Indices: 121013--121057 Score: 90
Period size: 3 Copynumber: 15.0 Consensus size: 3
121003 TTATCATATA
121013 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
121058 TTATTTTTAT
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 42 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:121640 original size:59 final size:60
Alignment explanation
Indices: 121569--121693 Score: 148
Period size: 60 Copynumber: 2.1 Consensus size: 60
121559 AGTTGAATGG
* * *
121569 CCATTTTGTAAC-TTTAATAGTTAAGGGACACAAAAAAACAAT-ATCCTATAGTCA-GGAGA
1 CCATTTTATAACTTTTAATAGTCAAGAGACACAAAAAAAC-ATCATCCTATAGTCAGGGA-A
* * * *
121628 CCATTTTATAACTTTTAATAGTCAAGAGACTCAATAAAACATCGTCTTATAGTCAGGGAA
1 CCATTTTATAACTTTTAATAGTCAAGAGACACAAAAAAACATCATCCTATAGTCAGGGAA
121688 CCATTT
1 CCATTT
121694 GTGTATTTTA
Statistics
Matches: 56, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
59 13 0.23
60 40 0.71
61 3 0.05
ACGTcount: A:0.39, C:0.17, G:0.14, T:0.30
Consensus pattern (60 bp):
CCATTTTATAACTTTTAATAGTCAAGAGACACAAAAAAACATCATCCTATAGTCAGGGAA
Found at i:123042 original size:2 final size:2
Alignment explanation
Indices: 123035--123062 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
123025 GTTTATAAGA
123035 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123063 GAATAAATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123529 original size:2 final size:2
Alignment explanation
Indices: 123522--123561 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
123512 AGTTCTAATA
123522 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
123562 TAGAACTCAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:136708 original size:74 final size:74
Alignment explanation
Indices: 136600--136746 Score: 213
Period size: 74 Copynumber: 2.0 Consensus size: 74
136590 TCAAATTGAT
* * *
136600 TTTTTCGAAAGATAAGATCAAATCACGTCAGGTTTAGGTTTAATGTGAAAAATACATGATCTAGT
1 TTTTTCAAAAGATAAGATCAAATCACATCAGGTTTAGGTTTAATGTGAAAAATACATGACCTAGT
136665 AATAATAGA
66 AATAATAGA
* * * * * *
136674 TTTTTCAAAAGATAAGTTCAAGTCATATCGGGTTTAGGTTTAATGTGAAAATTACTTGACCTAGT
1 TTTTTCAAAAGATAAGATCAAATCACATCAGGTTTAGGTTTAATGTGAAAAATACATGACCTAGT
136739 AATAATAG
66 AATAATAG
136747 TATGATCGAC
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
74 64 1.00
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.35
Consensus pattern (74 bp):
TTTTTCAAAAGATAAGATCAAATCACATCAGGTTTAGGTTTAATGTGAAAAATACATGACCTAGT
AATAATAGA
Found at i:139604 original size:13 final size:13
Alignment explanation
Indices: 139586--139659 Score: 94
Period size: 13 Copynumber: 5.3 Consensus size: 13
139576 GTCACAACCC
139586 GACCCGACCCGTT
1 GACCCGACCCGTT
139599 GACCCGACCCGTT
1 GACCCGACCCGTT
139612 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
*
139630 TACCCGACCCGTT
1 GACCCGACCCGTT
139643 GACCCGACCCGTT
1 GACCCGACCCGTT
139656 GACC
1 GACC
139660 GTTGACCCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
13 41 0.76
18 13 0.24
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:139618 original size:31 final size:31
Alignment explanation
Indices: 139582--139653 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
139572 ACCGGTCACA
139582 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
*
139613 ACCCGACCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
139644 ACCCGACCCG
1 ACCCGACCCG
139654 TTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.17, C:0.50, G:0.21, T:0.12
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCGTTG
Found at i:139653 original size:18 final size:18
Alignment explanation
Indices: 139599--139640 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
139589 CCGACCCGTT
139599 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
*
139617 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTGACCC
139635 GACCCG
1 GACCCG
139641 TTGACCCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.50, G:0.21, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:139672 original size:15 final size:15
Alignment explanation
Indices: 139648--139681 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
139638 CCGTTGACCC
*
139648 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
139663 GACCCATTGACCGTT
1 GACCCATTGACCGTT
139678 GACC
1 GACC
139682 ACTGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:140993 original size:18 final size:18
Alignment explanation
Indices: 140967--141002 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
140957 TCGAAAGGAC
*
140967 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
140985 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
141003 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:142176 original size:23 final size:23
Alignment explanation
Indices: 142150--142223 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
142140 AATTCTATTA
*
142150 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
142173 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
142196 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
142220 TGAT
1 TGAT
142224 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:142211 original size:24 final size:24
Alignment explanation
Indices: 142156--142230 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
142146 ATTATGATCC
142156 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
142179 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
142203 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
142227 TGAC
1 TGAC
142231 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:144438 original size:13 final size:13
Alignment explanation
Indices: 144420--144493 Score: 94
Period size: 13 Copynumber: 5.3 Consensus size: 13
144410 GTCACAACCC
144420 GACCCGACCCGTT
1 GACCCGACCCGTT
144433 GACCCGACCCGTT
1 GACCCGACCCGTT
144446 GACCCGACCCGACCCGTT
1 -----GACCCGACCCGTT
*
144464 TACCCGACCCGTT
1 GACCCGACCCGTT
144477 GACCCGACCCGTT
1 GACCCGACCCGTT
144490 GACC
1 GACC
144494 GTTGACCCAT
Statistics
Matches: 54, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
13 41 0.76
18 13 0.24
ACGTcount: A:0.16, C:0.47, G:0.22, T:0.15
Consensus pattern (13 bp):
GACCCGACCCGTT
Found at i:144452 original size:31 final size:31
Alignment explanation
Indices: 144416--144487 Score: 135
Period size: 31 Copynumber: 2.3 Consensus size: 31
144406 ACCGGTCACA
144416 ACCCGACCCGACCCGTTGACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
*
144447 ACCCGACCCGACCCGTTTACCCGACCCGTTG
1 ACCCGACCCGACCCGTTGACCCGACCCGTTG
144478 ACCCGACCCG
1 ACCCGACCCG
144488 TTGACCGTTG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.17, C:0.50, G:0.21, T:0.12
Consensus pattern (31 bp):
ACCCGACCCGACCCGTTGACCCGACCCGTTG
Found at i:144487 original size:18 final size:18
Alignment explanation
Indices: 144433--144474 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
144423 CCGACCCGTT
144433 GACCCGACCCGTTGACCC
1 GACCCGACCCGTTGACCC
*
144451 GACCCGACCCGTTTACCC
1 GACCCGACCCGTTGACCC
144469 GACCCG
1 GACCCG
144475 TTGACCCGAC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.17, C:0.50, G:0.21, T:0.12
Consensus pattern (18 bp):
GACCCGACCCGTTGACCC
Found at i:144506 original size:15 final size:15
Alignment explanation
Indices: 144482--144515 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
144472 CCGTTGACCC
*
144482 GACCCGTTGACCGTT
1 GACCCATTGACCGTT
144497 GACCCATTGACCGTT
1 GACCCATTGACCGTT
144512 GACC
1 GACC
144516 ACTGTTGACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.18, C:0.35, G:0.24, T:0.24
Consensus pattern (15 bp):
GACCCATTGACCGTT
Found at i:145828 original size:18 final size:18
Alignment explanation
Indices: 145802--145837 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
145792 TCGAAAGGAC
*
145802 TGAAGTAAATGATAAGAT
1 TGAAGTAAATAATAAGAT
*
145820 TGAATTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
145838 CGGATGGAAG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.53, C:0.00, G:0.17, T:0.31
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:147010 original size:23 final size:23
Alignment explanation
Indices: 146984--147057 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
146974 AATTCTATTA
*
146984 TGATCCTGACCTGGATTCTGATC
1 TGATCATGACCTGGATTCTGATC
*
147007 TGAT-ATTGACATGGATTCTGATC
1 TGATCA-TGACCTGGATTCTGATC
*
147030 TGATACATGACCTGGATTCTGATA
1 TGAT-CATGACCTGGATTCTGATC
147054 TGAT
1 TGAT
147058 ACTTGACTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 24 0.55
24 19 0.43
25 1 0.02
ACGTcount: A:0.24, C:0.18, G:0.22, T:0.36
Consensus pattern (23 bp):
TGATCATGACCTGGATTCTGATC
Found at i:147045 original size:24 final size:24
Alignment explanation
Indices: 146990--147064 Score: 116
Period size: 24 Copynumber: 3.2 Consensus size: 24
146980 ATTATGATCC
146990 TGACCTGGATTCTGATCTGATA-T
1 TGACCTGGATTCTGATCTGATACT
* *
147013 TGACATGGATTCTGATCTGATACA
1 TGACCTGGATTCTGATCTGATACT
*
147037 TGACCTGGATTCTGATATGATACT
1 TGACCTGGATTCTGATCTGATACT
147061 TGAC
1 TGAC
147065 TTGAATTATG
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
23 21 0.46
24 25 0.54
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.36
Consensus pattern (24 bp):
TGACCTGGATTCTGATCTGATACT
Found at i:151585 original size:3 final size:3
Alignment explanation
Indices: 151577--151615 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
151567 ATCGAATATC
151577 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
151616 TCTGGGAAAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:153669 original size:14 final size:14
Alignment explanation
Indices: 153650--153676 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
153640 TATCGTATGC
153650 AATATCCACTTTCA
1 AATATCCACTTTCA
153664 AATATCCACTTTC
1 AATATCCACTTTC
153677 TTTCGACTTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.30, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATCCACTTTCA
Found at i:158029 original size:47 final size:47
Alignment explanation
Indices: 157975--158064 Score: 126
Period size: 47 Copynumber: 1.9 Consensus size: 47
157965 TCATTCTAAT
* * *
157975 TTGGTCTCCGAACTTTTGAATGTTCCAAATTCATTCCCAAACTACGG
1 TTGGTCTCCAAACTCTTGAATGTTCCAAATTCATCCCCAAACTACGG
* * *
158022 TTGGTCTCTAAACTCTTGAATGTTTCAATTTCATCCCCAAACT
1 TTGGTCTCCAAACTCTTGAATGTTCCAAATTCATCCCCAAACT
158065 TTTGAAAGAT
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
47 37 1.00
ACGTcount: A:0.26, C:0.26, G:0.12, T:0.37
Consensus pattern (47 bp):
TTGGTCTCCAAACTCTTGAATGTTCCAAATTCATCCCCAAACTACGG
Found at i:162621 original size:2 final size:2
Alignment explanation
Indices: 162614--162650 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
162604 AATATTGTAC
162614 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
162651 GGGTAAATGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:162950 original size:31 final size:32
Alignment explanation
Indices: 162907--162981 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 32
162897 TATGATTTTA
* **
162907 TAGGGATTAAAACGGACT-AAAACTTATAGTT
1 TAGGCATTAAAACAAACTAAAAACTTATAGTT
162938 TAGGCATTAAAACAAACTAAAAAACTTATAGTT
1 TAGGCATTAAAACAAACT-AAAAACTTATAGTT
*
162971 TAGGCACTAAA
1 TAGGCATTAAA
162982 TGCGCAGTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
31 15 0.39
33 23 0.61
ACGTcount: A:0.47, C:0.12, G:0.15, T:0.27
Consensus pattern (32 bp):
TAGGCATTAAAACAAACTAAAAACTTATAGTT
Found at i:163992 original size:29 final size:29
Alignment explanation
Indices: 163952--164007 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
163942 TAGTAAGGGT
163952 AAAGTACAAAAATAGTCATTCGACTATTA
1 AAAGTACAAAAATAGTCATTCGACTATTA
* *
163981 AAAGTTAC-AAAATAGTCCTTTGACTAT
1 AAAG-TACAAAAATAGTCATTCGACTAT
164008 AGTATTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.45, C:0.14, G:0.11, T:0.30
Consensus pattern (29 bp):
AAAGTACAAAAATAGTCATTCGACTATTA
Found at i:169641 original size:18 final size:17
Alignment explanation
Indices: 169618--169653 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
169608 GGTAAAGCGC
169618 TATCTAAAACATTAATTT
1 TATCTAAAACATT-ATTT
*
169636 TATCTAAAATATTATTT
1 TATCTAAAACATTATTT
169653 T
1 T
169654 CGCTAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 5 0.29
18 12 0.71
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (17 bp):
TATCTAAAACATTATTT
Found at i:173340 original size:32 final size:33
Alignment explanation
Indices: 173295--173358 Score: 94
Period size: 32 Copynumber: 2.0 Consensus size: 33
173285 TTACCCTAAA
* * *
173295 CCCGACCCCGACCCGAATATCACACTTAAAAAT
1 CCCGACCCCGACCCAAACATCAAACTTAAAAAT
173328 CCCGA-CCCGACCCAAACATCAAACTTAAAAA
1 CCCGACCCCGACCCAAACATCAAACTTAAAAA
173359 ATCTGACCCG
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 23 0.82
33 5 0.18
ACGTcount: A:0.41, C:0.39, G:0.08, T:0.12
Consensus pattern (33 bp):
CCCGACCCCGACCCAAACATCAAACTTAAAAAT
Found at i:178056 original size:49 final size:49
Alignment explanation
Indices: 177984--178081 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
177974 CCCACTCCTT
177984 CCGGCTCTCGTAATCGTGATCATCCCTCTGCAGCTCGTATCAACAAATC
1 CCGGCTCTCGTAATCGTGATCATCCCTCTGCAGCTCGTATCAACAAATC
*
178033 CCGGCTCTCGTAATCGTGATCATCCCTCTGCAGCTCGTATCGACAAATC
1 CCGGCTCTCGTAATCGTGATCATCCCTCTGCAGCTCGTATCAACAAATC
178082 GGGCAAGAAT
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.21, C:0.35, G:0.17, T:0.27
Consensus pattern (49 bp):
CCGGCTCTCGTAATCGTGATCATCCCTCTGCAGCTCGTATCAACAAATC
Found at i:179576 original size:32 final size:31
Alignment explanation
Indices: 179540--179617 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 31
179530 AGTACCTAAA
* *
179540 ATATTTTTTGATCAAAATAAATATTTAAAGTT
1 ATATTCTTTG-TCAAAATAAATACTTAAAGTT
* *
179572 ATATTCTTTGTCAAAGTAAGTACTTAAAG-T
1 ATATTCTTTGTCAAAATAAATACTTAAAGTT
*
179602 AT-TT-TATGTCAAAATA
1 ATATTCTTTGTCAAAATA
179618 TGTACCTAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
28 10 0.25
29 2 0.05
30 3 0.08
31 16 0.40
32 9 0.22
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (31 bp):
ATATTCTTTGTCAAAATAAATACTTAAAGTT
Found at i:179613 original size:28 final size:28
Alignment explanation
Indices: 179528--179632 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 28
179518 CTTTTTCATT
*
179528 TAAGTACCTAAAATATTTTTTGATCAAAA
1 TAAGTACCTAAAGTATTTTTTG-TCAAAA
* ** *
179557 TAAATATTTAAAGTTATATTCTTTGTCAAAG
1 TAAGTACCTAAAG-TAT-TT-TTTGTCAAAA
* *
179588 TAAGTACTTAAAGTATTTTATGTCAAAA
1 TAAGTACCTAAAGTATTTTTTGTCAAAA
* *
179616 TATGTACCTAAACTATT
1 TAAGTACCTAAAGTATT
179633 CAAACTTTTT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
28 22 0.36
29 11 0.18
30 6 0.10
31 18 0.30
32 4 0.07
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (28 bp):
TAAGTACCTAAAGTATTTTTTGTCAAAA
Found at i:181634 original size:23 final size:21
Alignment explanation
Indices: 181592--181638 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 21
181582 CTTTGTTGAG
181592 TTTCATGACTTTAAAAAATTAC
1 TTTCATGACTTTAAAAAATT-C
181614 TTTCATG-CTTTTAAAAAAATTC
1 TTTCATGAC-TTT-AAAAAATTC
181636 TTT
1 TTT
181639 GAATTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 1 0.04
22 14 0.61
23 8 0.35
ACGTcount: A:0.36, C:0.13, G:0.04, T:0.47
Consensus pattern (21 bp):
TTTCATGACTTTAAAAAATTC
Found at i:181670 original size:4 final size:4
Alignment explanation
Indices: 181661--181686 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
181651 AACATGGTGA
181661 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
181687 GAGAAAGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:181826 original size:16 final size:16
Alignment explanation
Indices: 181805--181852 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
181795 GCTTAAATTT
181805 AATTAAATAAAATTAA
1 AATTAAATAAAATTAA
* *
181821 AATTAAATATAATGAA
1 AATTAAATAAAATTAA
* *
181837 AGTATAAAAAAAATTA
1 AAT-TAAATAAAATTA
181853 TCTTGGGCAT
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 16 0.64
17 9 0.36
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
AATTAAATAAAATTAA
Found at i:194255 original size:23 final size:23
Alignment explanation
Indices: 194228--194278 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
194218 AAACATGTCA
*
194228 AAAGACAGAGAAAAATATATCAT
1 AAAGACAAAGAAAAATATATCAT
* * *
194251 AAAGACAAATAAAAATGTGTCAT
1 AAAGACAAAGAAAAATATATCAT
194274 AAAGA
1 AAAGA
194279 TAAACTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.61, C:0.08, G:0.14, T:0.18
Consensus pattern (23 bp):
AAAGACAAAGAAAAATATATCAT
Found at i:194534 original size:14 final size:15
Alignment explanation
Indices: 194485--194536 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
194475 TTTTGCAATT
194485 TGAATTACTGGAAAA
1 TGAATTACTGGAAAA
* **
194500 TGAATTACTAGAATT
1 TGAATTACTGGAAAA
194515 TGAATT-CTGGAAAA
1 TGAATTACTGGAAAA
194529 TGAATTAC
1 TGAATTAC
194537 ATTTATGGAA
Statistics
Matches: 30, Mismatches: 6, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
14 11 0.37
15 19 0.63
ACGTcount: A:0.42, C:0.08, G:0.17, T:0.33
Consensus pattern (15 bp):
TGAATTACTGGAAAA
Found at i:194545 original size:20 final size:20
Alignment explanation
Indices: 194522--194568 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
194512 ATTTGAATTC
194522 TGGAAAATGAATTACATTTA
1 TGGAAAATGAATTACATTTA
*
194542 TGGAAAATGAATTACATTTT
1 TGGAAAATGAATTACATTTA
194562 TGGAAAA
1 TGGAAAA
194569 CATCTGGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.45, C:0.04, G:0.17, T:0.34
Consensus pattern (20 bp):
TGGAAAATGAATTACATTTA
Found at i:194920 original size:25 final size:23
Alignment explanation
Indices: 194888--194949 Score: 65
Period size: 25 Copynumber: 2.6 Consensus size: 23
194878 TATCTTTACT
194888 AAAA-TATTAT-TTAAATATATAA
1 AAAATTATTATATTAAATATA-AA
194910 ATAATATTATTCATTATTAAATATAAA
1 A-AA-ATTATT-A-TATTAAATATAAA
194937 AAAATTATTATAT
1 AAAATTATTATAT
194950 ATTATTAAAT
Statistics
Matches: 34, Mismatches: 0, Indels: 11
0.76 0.00 0.24
Matches are distributed among these distances:
22 1 0.03
23 5 0.15
24 2 0.06
25 10 0.29
26 3 0.09
27 4 0.12
28 9 0.26
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (23 bp):
AAAATTATTATATTAAATATAAA
Found at i:194931 original size:28 final size:28
Alignment explanation
Indices: 194891--194994 Score: 97
Period size: 28 Copynumber: 3.6 Consensus size: 28
194881 CTTTACTAAA
*
194891 ATATTATTTAAATATATAAATAA-TATTAT
1 ATATTA-TTAAATATA-AAAAAATTATTAT
194920 -TCATTATTAAATATAAAAAAATTATTAT
1 AT-ATTATTAAATATAAAAAAATTATTAT
* *
194948 ATATTATTAAATA-AAAATATATATCTTATT
1 ATATTATTAAATATAAAA-AAAT-TATTA-T
194978 ATATTATTATAATATAA
1 ATATTATTA-AATATAA
194995 TTGATTATTT
Statistics
Matches: 64, Mismatches: 3, Indels: 13
0.80 0.04 0.16
Matches are distributed among these distances:
27 9 0.14
28 30 0.47
29 9 0.14
30 10 0.16
31 4 0.06
32 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (28 bp):
ATATTATTAAATATAAAAAAATTATTAT
Found at i:194963 original size:25 final size:26
Alignment explanation
Indices: 194891--195082 Score: 81
Period size: 30 Copynumber: 6.8 Consensus size: 26
194881 CTTTACTAAA
*
194891 ATATTATTTAAATATATAAATAATATTAT
1 ATATTA-TTAAATA-A-AAATATTATTAT
*
194920 -TCATTATTAAATATAAAAAAATTATTAT
1 AT-ATTATT-AA-ATAAAAATATTATTAT
194948 ATATTATTAAATAAAAATATATATCTTATT
1 ATATTATTAAATAAAAATAT-TA--TTA-T
* *
194978 ATATTATTATAATATAATTGATTATTTTAT
1 ATATTATTA-AATAAAAAT-ATTA--TTAT
*
195008 ATAATATTAAAAATATAAAAT-TATATTATT
1 ATATTATT--AAATA-AAAATAT-TATTA-T
* * *
195038 ATAAATATT-AATAAATATATT-TTAA
1 AT-ATTATTAAATAAAAATATTATTAT
195063 ATATT-TT-AATAAATAATATT
1 ATATTATTAAATAAA-AATATT
195083 TTGATGAAAA
Statistics
Matches: 132, Mismatches: 13, Indels: 41
0.71 0.07 0.22
Matches are distributed among these distances:
23 8 0.06
24 7 0.05
25 2 0.02
26 12 0.09
27 9 0.07
28 24 0.18
29 14 0.11
30 25 0.19
31 25 0.19
32 6 0.05
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (26 bp):
ATATTATTAAATAAAAATATTATTAT
Found at i:195047 original size:12 final size:12
Alignment explanation
Indices: 195030--195082 Score: 51
Period size: 12 Copynumber: 4.7 Consensus size: 12
195020 ATATAAAATT
195030 ATATTATTATAA
1 ATATTATTATAA
195042 ATATTA--ATAA
1 ATATTATTATAA
*
195052 ATA-TATTTTAA
1 ATATTATTATAA
195063 ATATT-TTAATAA
1 ATATTATT-ATAA
*
195075 ATAATATT
1 ATATTATT
195083 TTGATGAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 9
0.73 0.07 0.20
Matches are distributed among these distances:
9 2 0.06
10 7 0.21
11 8 0.24
12 14 0.42
13 2 0.06
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (12 bp):
ATATTATTATAA
Found at i:195056 original size:16 final size:16
Alignment explanation
Indices: 195005--195056 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
194995 TTGATTATTT
195005 TATATAATATTAA-AAA
1 TATA-AATATTAATAAA
* *
195021 TATAAA-ATTATATTAT
1 TATAAATATTA-ATAAA
195037 TATAAATATTAATAAA
1 TATAAATATTAATAAA
195053 TATA
1 TATA
195057 TTTTAAATAT
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
14 4 0.14
15 3 0.10
16 18 0.62
17 4 0.14
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
TATAAATATTAATAAA
Found at i:195056 original size:24 final size:23
Alignment explanation
Indices: 195006--195082 Score: 70
Period size: 23 Copynumber: 3.3 Consensus size: 23
194996 TGATTATTTT
*
195006 ATATAATATTAAAA-ATATAA-AA
1 ATATATTATTAAAATAT-TAATAA
*
195028 TTATATTATTATAAATATTAATAA
1 ATATATTATTA-AAATATTAATAA
*
195052 ATATATT-TTAAATATTTTAATAA
1 ATATATTATTAAA-ATATTAATAA
195075 ATAATATT
1 AT-ATATT
195083 TTGATGAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
22 11 0.24
23 20 0.43
24 15 0.33
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATATTATTAAAATATTAATAA
Found at i:195063 original size:21 final size:23
Alignment explanation
Indices: 195034--195084 Score: 70
Period size: 21 Copynumber: 2.3 Consensus size: 23
195024 AAAATTATAT
*
195034 TATTATAAATA-TTAATAAAT-A
1 TATTTTAAATATTTAATAAATAA
195055 TATTTTAAATATTTTAATAAATAA
1 TATTTTAAATA-TTTAATAAATAA
195079 TATTTT
1 TATTTT
195085 GATGAAAATG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 10 0.38
23 9 0.35
24 7 0.27
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (23 bp):
TATTTTAAATATTTAATAAATAA
Found at i:195324 original size:49 final size:49
Alignment explanation
Indices: 195269--195364 Score: 138
Period size: 49 Copynumber: 2.0 Consensus size: 49
195259 CAGAGAATGA
* * *
195269 ATTACGTAAAACAAACACCGAAAAATATTTTATGGAAAACGAATTACGT
1 ATTACGTAAAACAAACACCGAAAAACATTTTACGAAAAACGAATTACGT
* * *
195318 ATTACGTGAAACAAACACGGAAAAACATTTTCCGAAAAACGAATTAC
1 ATTACGTAAAACAAACACCGAAAAACATTTTACGAAAAACGAATTAC
195365 ATGAAACAAA
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.49, C:0.17, G:0.12, T:0.22
Consensus pattern (49 bp):
ATTACGTAAAACAAACACCGAAAAACATTTTACGAAAAACGAATTACGT
Found at i:198687 original size:60 final size:60
Alignment explanation
Indices: 198623--198784 Score: 190
Period size: 59 Copynumber: 2.7 Consensus size: 60
198613 AGAATGTTTA
* * *
198623 AAAAGTTTAGGGACTAATTTAAAATGAAGGTCATAGTTTAAGGAAGT-AATTTAAATATTC
1 AAAAGTTTAAGGACTAATTTAAAATGAAGGTCATAGTTTAAGGAA-TAAAATGAAATATTC
* * ** *
198683 AAAAGTTTAAAGACTAATTTATAATGATA-ACCATAGTTTAAGG-ATAAAATGAAATATTT
1 AAAAGTTTAAGGACTAATTTAAAATGA-AGGTCATAGTTTAAGGAATAAAATGAAATATTC
198742 AAAAGTTTAAGGACTAATTTAAAATG-AGGATCATAG-TTAAGGA
1 AAAAGTTTAAGGACTAATTTAAAATGAAGG-TCATAGTTTAAGGA
198785 CATGTGATAA
Statistics
Matches: 85, Mismatches: 12, Indels: 11
0.79 0.11 0.10
Matches are distributed among these distances:
57 1 0.01
58 7 0.08
59 40 0.47
60 36 0.42
61 1 0.01
ACGTcount: A:0.46, C:0.05, G:0.17, T:0.32
Consensus pattern (60 bp):
AAAAGTTTAAGGACTAATTTAAAATGAAGGTCATAGTTTAAGGAATAAAATGAAATATTC
Found at i:198703 original size:28 final size:28
Alignment explanation
Indices: 198657--198764 Score: 92
Period size: 28 Copynumber: 3.7 Consensus size: 28
198647 TGAAGGTCAT
*
198657 AGTTTAAGGAAGTAATTTAAATATTCAAA
1 AGTTTAAGG-ACTAATTTAAATATTCAAA
* * * *
198686 AGTTTAAAGACTAATTTATAATGATAACCAT
1 AGTTTAAGGACTAATTTA-AAT-AT-TCAAA
* * *
198717 AGTTTAAGGA-TAAAATGAAATATTTAAA
1 AGTTTAAGGACT-AATTTAAATATTCAAA
198745 AGTTTAAGGACTAATTTAAA
1 AGTTTAAGGACTAATTTAAA
198765 ATGAGGATCA
Statistics
Matches: 60, Mismatches: 14, Indels: 11
0.71 0.16 0.13
Matches are distributed among these distances:
28 25 0.42
29 14 0.23
30 6 0.10
31 15 0.25
ACGTcount: A:0.48, C:0.05, G:0.13, T:0.34
Consensus pattern (28 bp):
AGTTTAAGGACTAATTTAAATATTCAAA
Found at i:201848 original size:163 final size:161
Alignment explanation
Indices: 201519--202083 Score: 753
Period size: 166 Copynumber: 3.5 Consensus size: 161
201509 TTTCGATTGC
* * * * * *
201519 CACTTCTCCGACTGGTACAAATTGAAG-AATCGAAAATGCCGAAAGGAAAATGAAATTTACAACA
1 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAAAGGAAAACG-AACTTACAACA
* * * *
201583 AATGACTGGAGTCTTTA-TG-T--ACCATGTCCATGTGGTAGTTAAGCTCTAGAAAACACTGATC
65 AATGACTGGAGTTTTTACTGATGAACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGAT-
* *
201644 GTTACATACCCCTTTCGATTGCCTTACCTAATA
129 GTTTCATATCCCTTTCGATTGCCTTACCTAATA
* * *
201677 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAAAGGAAAACGAACTTCCCAATA
1 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAAAGGAAAACGAACTT-ACAACA
*
201742 AAAGACTGGAGTTTTTAACTGATGAACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGAT
65 AATGACTGGAGTTTTT-ACTGATGAACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGAT
201807 GTTTCATATCCCTTTCGATTGCCTTACCTAATA
129 GTTTCATATCCCTTTCGATTGCCTTACCTAATA
* *
201840 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAACGGAAAACGAACTATACAACA
1 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAAAGGAAAACGAACT-TACAACA
* ** * *
201905 AATGACTGGAGTTCCTATGCACCAAAGAACCATGTTCATGCGGTGGTTATGCTCTAGAAAACACT
65 AATGACTGGAGTT--T-T-TACTGATGAACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACT
* *
201970 GATGTTTCATATCCCTTTCAATTGCCTTACCTAAAA
126 GATGTTTCATATCCCTTTCGATTGCCTTACCTAATA
* * *
202006 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAACGGAAAATGAACTATACAGCA
1 CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAAAGGAAAACGAACT-TACAACA
202071 AATGACTGGAGTT
65 AATGACTGGAGTT
202084 CCTATGCACC
Statistics
Matches: 365, Mismatches: 30, Indels: 16
0.89 0.07 0.04
Matches are distributed among these distances:
158 28 0.08
159 40 0.11
160 1 0.00
161 2 0.01
162 1 0.00
163 103 0.28
164 38 0.10
165 1 0.00
166 151 0.41
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.26
Consensus pattern (161 bp):
CACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAAAGGAAAACGAACTTACAACAA
ATGACTGGAGTTTTTACTGATGAACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGATGT
TTCATATCCCTTTCGATTGCCTTACCTAATA
Found at i:202023 original size:166 final size:166
Alignment explanation
Indices: 201603--202113 Score: 787
Period size: 166 Copynumber: 3.1 Consensus size: 166
201593 GTCTTTATGT
* * * * *
201603 ACCATGTCCATGTGGTAGTTAAGCTCTAGAAAACACTGATCGTTACATACCCCTTTCGATTGCCT
1 ACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGAT-GTTTCATATCCCTTTCGATTGCCT
*
201668 TACCTAATACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAAAGGAAAACGAAC
65 TACCTAATACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAACGGAAAACGAAC
* * * ** ** *
201733 T-TCCCAATAAAAGACTGGAGTT--T-TTAACTGATGA
130 TAT-ACAACAAATGACTGGAGTTCCTATGCACCAAAGA
201767 ACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGATGTTTCATATCCCTTTCGATTGCCTT
1 ACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGATGTTTCATATCCCTTTCGATTGCCTT
201832 ACCTAATACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAACGGAAAACGAACT
66 ACCTAATACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAACGGAAAACGAACT
201897 ATACAACAAATGACTGGAGTTCCTATGCACCAAAGA
131 ATACAACAAATGACTGGAGTTCCTATGCACCAAAGA
* *
201933 ACCATGTTCATGCGGTGGTTATGCTCTAGAAAACACTGATGTTTCATATCCCTTTCAATTGCCTT
1 ACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGATGTTTCATATCCCTTTCGATTGCCTT
* * *
201998 ACCTAAAACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGCCGAACGGAAAATGAACT
66 ACCTAATACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAACGGAAAACGAACT
*
202063 ATACAGCAAATGACTGGAGTTCCTATGCACCAAAGA
131 ATACAACAAATGACTGGAGTTCCTATGCACCAAAGA
*
202099 ACCGTGTTCATGTGG
1 ACCATGTTCATGTGG
202114 CATTTAAGCT
Statistics
Matches: 321, Mismatches: 22, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
163 103 0.32
164 38 0.12
165 1 0.00
166 179 0.56
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.26
Consensus pattern (166 bp):
ACCATGTTCATGTGGTGGTTATGCTCTAGAAAACACTGATGTTTCATATCCCTTTCGATTGCCTT
ACCTAATACACTTCTCCGACTAGCACAAATCGAAGAAATCGGAAATGTCGAACGGAAAACGAACT
ATACAACAAATGACTGGAGTTCCTATGCACCAAAGA
Found at i:202578 original size:3 final size:3
Alignment explanation
Indices: 202570--202594 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
202560 AGCATCAAAT
202570 GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA G
202595 GGACCCACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (3 bp):
GAA
Done.