Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2270
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: 214875
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Found at i:1065 original size:13 final size:13
Alignment explanation
Indices: 1047--1071 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1037 CAATTCTTCA
1047 TGTATCGATACAT
1 TGTATCGATACAT
1060 TGTATCGATACA
1 TGTATCGATACA
1072 ATGTGCCATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1146 original size:19 final size:19
Alignment explanation
Indices: 1119--1171 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
1109 ACTGCCAGTT
*
1119 TCATATATCGATACAATA-A
1 TCATGTATCGATACAA-AGA
1138 TCATGTATCG-TACAAAGGA
1 TCATGTATCGATACAAA-GA
*
1157 TAATGTATCGATACA
1 TCATGTATCGATACA
1172 TCTAGATGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
17 1 0.03
18 5 0.17
19 19 0.66
20 4 0.14
ACGTcount: A:0.42, C:0.15, G:0.13, T:0.30
Consensus pattern (19 bp):
TCATGTATCGATACAAAGA
Found at i:10929 original size:31 final size:31
Alignment explanation
Indices: 10891--10958 Score: 127
Period size: 31 Copynumber: 2.2 Consensus size: 31
10881 TTTAGGTTCT
*
10891 TATATAACCATTTTATTCTTCTTTAAGAATG
1 TATATAACCATTTTATTCTTCTTTAAGAACG
10922 TATATAACCATTTTATTCTTCTTTAAGAACG
1 TATATAACCATTTTATTCTTCTTTAAGAACG
10953 TATATA
1 TATATA
10959 TATAACTTCA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.34, C:0.13, G:0.06, T:0.47
Consensus pattern (31 bp):
TATATAACCATTTTATTCTTCTTTAAGAACG
Found at i:15137 original size:168 final size:165
Alignment explanation
Indices: 14615--15448 Score: 523
Period size: 167 Copynumber: 5.0 Consensus size: 165
14605 AATTCTTCAT
* * * *** *
14615 ATATTATCATTTAATTCATATATAAATCAGTTTGCAAAAATTCACAAATTTTCATGAGTTTTT-C
1 ATATTATCATTT-ATTCATAT-TAAATTAGTTTTCAAAAACTCATTCATTTTCATGAGTTTTTGA
* * ** *
14679 AA--TTT--TTGAAATTCCTTTATTTTGGAAAA-ATGAAGTTTTCTACTTCATAAA-TTTTTTCG
64 AATTTTTCCTTGAAATTCC-CTAGTTTCCAAAATACGAAGTTTTCTACTTCATAAATTTTTTTCG
14738 GGAGAATTTTTCTTAGTTTTTAATTTTTAAAATTATAAA
128 GGAG-ATTTTTCTTAGTTTTTAATTTTTAAAATTATAAA
* * * * * *
14777 ATATTATTATTTATTTCATATCAAATCT-GTTTTTAAAAACTCCTTCATTTTCATGAATGTTTGA
1 ATATTATCATTTA-TTCATATTAAAT-TAGTTTTCAAAAACTCATTCATTTTCATGAGTTTTTGA
* * * * * * * * *
14841 ATTTTTTCCTTGAAATTCTCTAGTTTCCGAAATATGGAGATTTATTCTCCAT-AATTTTTTTC-G
64 AATTTTTCCTTGAAATTCCCTAGTTTCCAAAATACGAAGTTTTCTACTTCATAAATTTTTTTCGG
* * *
14904 GAGGAATTTCTCTTGGTTTTTAATTTTTAAAATTTATGAA
129 GA-G-ATTTTTCTTAGTTTTTAATTTTTAAAA-TTATAAA
* * * ** * * *
14944 ATTTTTTGATTTAACCCACATTAAATTAGTTTTCCAAAACTCTTTCATTTTCATGAGTTTTTGAA
1 ATATTATCATTT-ATTCATATTAAATTAGTTTTCAAAAACTCATTCATTTTCATGAGTTTTTGAA
* * *
15009 ATATTTCCTTGAAATTACCCT-GTTTCTAAAATACGAAGTTTTCTACTTCGTAAATTTTTTTCAG
65 ATTTTTCCTTGAAATT-CCCTAGTTTCCAAAATACGAAGTTTTCTACTTCATAAATTTTTTTC-G
* * *
15073 GGAGATTTTTCTTTGTTTTTAATTTTTAAAACTCATCAA
128 GGAGATTTTTCTTAGTTTTTAATTTTTAAAA-TTATAAA
* * * * * *
15112 ATATCATCATTTGATTCATATTAAATTAGTTTTGAAAAATTAATTCATTTTCATAAGTTTTAG-A
1 ATATTATCATTT-ATTCATATTAAATTAGTTTTCAAAAACTCATTCATTTTCATGAGTTTTTGAA
* * * * * *
15176 ATTTTTCTTTGAAATGCCCT--TTTCTCGAAAAGT-TG-AGTTTTCTACTCCATAAATTCTTTTA
65 ATTTTTCCTTGAAATTCCCTAGTTTC-C-AAAA-TACGAAGTTTTCTACTTCATAAATTTTTTTC
* * ** * * **
15237 GAG-GA-TTTTCTTCGATTTAAAATTTTTAGAATTTCTCTA
127 GGGAGATTTTTCTTAG-TTTTTAATTTTTA-AAATTATAAA
* * * * * *
15276 ATATTGTCATTAAACTCCTATTAAACTAG-TTTCAAAAAATGCAATT-ATTTTCATGAG-TTTTG
1 ATATTATCATT-TATTCATATTAAATTAGTTTTCAAAAACT-C-ATTCATTTTCATGAGTTTTTG
* * * * *
15338 -AATTTTTTCTTCGAAATCTCCCTATTTTCGAAAA-ACTG-AGTTTTCTACTCCATAAA-TATTT
63 AAATTTTTCCTT-GAAAT-TCCCTAGTTTCCAAAATAC-GAAGTTTTCTACTTCATAAATTTTTT
* ** *
15399 TCGGAGAGATTTTTC-TCGATTTCAAATTTTTAAAATTCATCAA
125 TCGG-GAGATTTTTCTTAG-TTTTTAATTTTTAAAATT-ATAAA
15442 ATATTAT
1 ATATTAT
15449 TTTTAAACTC
Statistics
Matches: 524, Mismatches: 113, Indels: 66
0.75 0.16 0.09
Matches are distributed among these distances:
161 30 0.06
162 19 0.04
163 30 0.06
164 63 0.12
165 56 0.11
166 111 0.21
167 118 0.23
168 93 0.18
169 1 0.00
170 3 0.01
ACGTcount: A:0.31, C:0.13, G:0.09, T:0.47
Consensus pattern (165 bp):
ATATTATCATTTATTCATATTAAATTAGTTTTCAAAAACTCATTCATTTTCATGAGTTTTTGAAA
TTTTTCCTTGAAATTCCCTAGTTTCCAAAATACGAAGTTTTCTACTTCATAAATTTTTTTCGGGA
GATTTTTCTTAGTTTTTAATTTTTAAAATTATAAA
Found at i:15475 original size:166 final size:164
Alignment explanation
Indices: 15131--15511 Score: 425
Period size: 166 Copynumber: 2.3 Consensus size: 164
15121 TTTGATTCAT
* ** * *
15131 ATTAAATTAGTTTTGAAAAAT-TAATTCATTTTCATAAGTTTTAGAA-TTTTTCTTTGAAATGCC
1 ATTAAACTAGTTTCAAAAAATGCAATT-ATTTTCATAAGTTTT-GAATTTTTTCTTCGAAATGCC
** *
15194 CTTTTCTCGAAAAGTTGAGTTTTCTACTCCATAAATTCTTTTAGAGGATTTTCTTCGATTTAAAA
64 CTTTTCTCGAAAAACTGAGTTTTCTACTCCATAAATTCTTTCAGAGGATTTTCTTCGATTTAAAA
* * * *
15259 TTTTTAGAATTTCTCTAATATTGTCATTAAACTCCT
129 TTTTTAGAAATTCTCAAATATTATCATTAAACTCCC
* *
15295 ATTAAACTAGTTTCAAAAAATGCAATTATTTTCATGAGTTTTGAATTTTTTCTTCGAAATCTCCC
1 ATTAAACTAGTTTCAAAAAATGCAATTATTTTCATAAGTTTTGAATTTTTTCTTCGAAAT-GCCC
* *
15360 TATTT-TCGAAAAACTGAGTTTTCTACTCCATAAATAT-TTTCGGAGAGATTTT-TCTCGATTTC
65 T-TTTCTCGAAAAACTGAGTTTTCTACTCCATAAAT-TCTTTCAGAG-GATTTTCT-TCGATTTA
**
15422 AAATTTTTA-AAATTCATCAAATATTATTTTTAAACTCCC
126 AAATTTTTAGAAATTC-TCAAATATTATCATTAAACTCCC
* * * * *
15461 A-TAAAGTCAGTTTCAAGAAATTCAATTAATTTCATAAATTTTGAATTTTTT
1 ATTAAACT-AGTTTCAAAAAATGCAATTATTTTCATAAGTTTTGAATTTTTT
15512 TGTATATACT
Statistics
Matches: 184, Mismatches: 24, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
163 3 0.02
164 45 0.24
165 53 0.29
166 83 0.45
ACGTcount: A:0.33, C:0.13, G:0.09, T:0.45
Consensus pattern (164 bp):
ATTAAACTAGTTTCAAAAAATGCAATTATTTTCATAAGTTTTGAATTTTTTCTTCGAAATGCCCT
TTTCTCGAAAAACTGAGTTTTCTACTCCATAAATTCTTTCAGAGGATTTTCTTCGATTTAAAATT
TTTAGAAATTCTCAAATATTATCATTAAACTCCC
Found at i:20361 original size:30 final size:30
Alignment explanation
Indices: 20327--20736 Score: 109
Period size: 30 Copynumber: 13.6 Consensus size: 30
20317 ATCGCCCCTC
*
20327 TTGACTATATTCGATCAAGACCTTCCTCAT
1 TTGACTATATTCGATCAAGATCTTCCTCAT
* ** **
20357 TTGACTATATTCGGTCAA-ATTCACCCTCGC
1 TTGACTATATTCGATCAAGA-TCTTCCTCAT
* * *
20387 TTGACTGTATTC-AGTCAAGTTTTTCCTCAT
1 TTGACTATATTCGA-TCAAGATCTTCCTCAT
* * *
20417 TTGACTGTACTC-AGTCAA-ATCTTACC-CCT
1 TTGACTATATTCGA-TCAAGATCTT-CCTCAT
** * *
20446 CTCAACTATATTCGGTCAAGACCTTCCTCAT
1 -TTGACTATATTCGATCAAGATCTTCCTCAT
* **
20477 TTGACTGTATTCGATCAA-AT-TTCACCCTCGC
1 TTGACTATATTCGATCAAGATCTT---CCTCAT
* *
20508 TTGACTATATTC-AGTCAAG-TGTTTCCTTAT
1 TTGACTATATTCGA-TCAAGAT-CTTCCTCAT
* * *
20538 TTGACTATACTCAATCAA-ATCTTACC-CCT
1 TTGACTATATTCGATCAAGATCTT-CCTCAT
* * * * **
20567 CGTGACTGTATTTGGTCAAGGCCTTCCTCAT
1 -TTGACTATATTCGATCAAGATCTTCCTCAT
* * **
20598 TTTACTGTATTTC-ATCAA-AT-TTCACCCTCGC
1 TTGACTATA-TTCGATCAAGATCTT---CCTCAT
* *
20629 TTGACTGTATTC-AGTCAAG-TCTTTCCTTAT
1 TTGACTATATTCGA-TCAAGATC-TTCCTCAT
* * * *
20659 TTAACTGTACTCCG-TCAA-ATCTTACCTCTT
1 TTGACTATA-TTCGATCAAGATCTT-CCTCAT
* * * *
20689 TTGACTGTATTTGGTCAAGACCTTCCTCAT
1 TTGACTATATTCGATCAAGATCTTCCTCAT
*
20719 TTGACTGTATTCGATCAA
1 TTGACTATATTCGATCAA
20737 ACTTCACACT
Statistics
Matches: 273, Mismatches: 72, Indels: 70
0.66 0.17 0.17
Matches are distributed among these distances:
28 4 0.01
29 14 0.05
30 194 0.71
31 57 0.21
33 4 0.01
ACGTcount: A:0.23, C:0.26, G:0.12, T:0.39
Consensus pattern (30 bp):
TTGACTATATTCGATCAAGATCTTCCTCAT
Found at i:20556 original size:121 final size:121
Alignment explanation
Indices: 20321--20836 Score: 639
Period size: 121 Copynumber: 4.3 Consensus size: 121
20311 ATAAAAATCG
* * * *
20321 CCCCTCTTGACTATATTCGATCAAGACCTTCCTCATTTGACTATATTCGGTCAAA-TTCACCCTC
1 CCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTCGATCAAATTTCACCCTC
* * *
20385 GCTTGACTGTATTCAGTCAAGTTTTTCCTCATTTGACTGTACTCAGTCAAATCTTA
66 GCTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTTA
** *
20441 CCCCTCTCAACTATATTCGGTCAAGACCTTCCTCATTTGACTGTATTCGATCAAATTTCACCCTC
1 CCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTCGATCAAATTTCACCCTC
* * *
20506 GCTTGACTATATTCAGTCAAGTGTTTCCTTATTTGACTATACTCAATCAAATCTTA
66 GCTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTTA
* * * *
20562 CCCCTCGTGACTGTATTTGGTCAAGGCCTTCCTCATTTTACTGTATTTC-ATCAAATTTCACCCT
1 CCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTA-TTCGATCAAATTTCACCCT
* * * **
20626 CGCTTGACTGTATTCAGTCAAGTCTTTCCTTATTTAACTGTACTCCGTCAAATCTTA
65 CGCTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTTA
* * * * * *
20683 CCTCTTTTGACTGTATTTGGTCAAGACCTTCCTCATTTGACTGTATTCGATCAAACTTCACACTT
1 CCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTCGATCAAATTTCACCCTC
* * * *
20748 ACTT-AATAGTATTCAGACAAGACTTTCCTCATTTGACTGTACTCAATCAAA-CTTTA
66 GCTTGACTA-TATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATC-TTA
* *
20804 -CCCTGCTTAACTGTATTCGATCAAG-CCTCTCCT
1 CCCCT-CTTGACTGTATTCGGTCAAGACCT-TCCT
20837 TATCTACCTA
Statistics
Matches: 344, Mismatches: 45, Indels: 13
0.86 0.11 0.03
Matches are distributed among these distances:
120 62 0.18
121 279 0.81
122 3 0.01
ACGTcount: A:0.24, C:0.27, G:0.11, T:0.38
Consensus pattern (121 bp):
CCCCTCTTGACTGTATTCGGTCAAGACCTTCCTCATTTGACTGTATTCGATCAAATTTCACCCTC
GCTTGACTATATTCAGTCAAGTCTTTCCTCATTTGACTGTACTCAATCAAATCTTA
Found at i:22229 original size:167 final size:164
Alignment explanation
Indices: 21805--22265 Score: 464
Period size: 167 Copynumber: 2.8 Consensus size: 164
21795 TCAAAAAATG
** * * * *
21805 GAGTTTTCTACTTTGT-AATTTCTTCAGGAGAATTTTTCTTGGTTTTTATTTTTTAAAATTTATA
1 GAGTTTTCTACTCCGTAAATTT-TTCAGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * * * *
21869 AAATATTATTATTTATTTCATATTAAATCAGTTTTTAAAAACTCCTTCATTTTCATAATTTTTTA
65 AAATATTATCATTTA-TTCCTATTAAATTAGTTTTCAAAAACTCCTTCATTTTCATAATTTTTGA
* * *
21934 AATTTTTCCTTGAAATTCCCCGATTTTCGAAACATA
129 AATTTTTCCTTGAAATTACCAGATTTTCGAAACACA
* * * * *
21970 GAGATTTCTTCTCCATAATTTTTTTC-GGAGGGATTTTTCTTAGTTTTTAATTTTTAAAATTCAT
1 GAGTTTTCTACTCCGTAA-ATTTTTCAGGA-GGATTTTTCTTGGTTTTTAATTTTTAAAATTCAT
* * * * *
22034 CAAATTTTTTGATTTAACTCAC-ATTAAATTAGTTTTCAAAAACT-CTGTCATTTTCATGAGTTT
64 CAAATATTATCATTT-ATTC-CTATTAAATTAGTTTTCAAAAACTCCT-TCATTTTCAT-AATTT
* * * * *
22097 TTGAATTTTTTCCTTGAAATTACTATATTTTTGAAATACA
125 TTGAAATTTTTCCTTGAAATTACCAGATTTTCGAAACACA
*
22137 GAGTTTTCTACTCCGTAAATTGTTTCAGGAGGATTTTTCTTGGTTTTTAATATTTAAAATTCATC
1 GAGTTTTCTACTCCGTAAATT-TTTCAGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATC
* * * ** *
22202 AAATATCATCATTTGATTCCTATTAAATTA-TTTTTAAGAAATTAATTCATTTTCATAAGTTTTG
65 AAATATTATCATTT-ATTCCTATTAAATTAGTTTTCAA-AAACTCCTTCATTTTCATAATTTTTG
22266 GATTTTTTAT
Statistics
Matches: 239, Mismatches: 45, Indels: 23
0.78 0.15 0.07
Matches are distributed among these distances:
165 16 0.07
166 92 0.38
167 127 0.53
168 4 0.02
ACGTcount: A:0.30, C:0.12, G:0.09, T:0.50
Consensus pattern (164 bp):
GAGTTTTCTACTCCGTAAATTTTTCAGGAGGATTTTTCTTGGTTTTTAATTTTTAAAATTCATCA
AATATTATCATTTATTCCTATTAAATTAGTTTTCAAAAACTCCTTCATTTTCATAATTTTTGAAA
TTTTTCCTTGAAATTACCAGATTTTCGAAACACA
Found at i:22932 original size:11 final size:10
Alignment explanation
Indices: 22917--22952 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
22907 AAAAAGAGGG
22917 AAAAAAAGAA
1 AAAAAAAGAA
22927 AGAAAAAAGAA
1 A-AAAAAAGAA
*
22938 AAAACAAGAA
1 AAAAAAAGAA
22948 AAAAA
1 AAAAA
22953 TAGTGAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
10 13 0.57
11 10 0.43
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAAAAGAA
Found at i:25416 original size:19 final size:19
Alignment explanation
Indices: 25372--25427 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
25362 CTGCCAGTTT
**
25372 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
25392 CATGTATCGATGCAATGAA
1 CATGTATCGATACAATGAA
25411 CATGTATCGATACAATG
1 CATGTATCGATACAATG
25428 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 18 0.56
20 14 0.44
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:25430 original size:13 final size:13
Alignment explanation
Indices: 25412--25438 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
25402 TGCAATGAAC
25412 ATGTATCGATACA
1 ATGTATCGATACA
25425 ATGTATCGATACA
1 ATGTATCGATACA
25438 A
1 A
25439 AGCATAATGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:25449 original size:20 final size:20
Alignment explanation
Indices: 25424--25477 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
25414 GTATCGATAC
25424 AATGTATCGATACAAAGCAT
1 AATGTATCGATACAAAGCAT
*
25444 AATGTATCAATACAAAGCAT
1 AATGTATCGATACAAAGCAT
25464 AATGTATCGATACA
1 AATGTATCGATACA
25478 TTCAAGGGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.46, C:0.15, G:0.13, T:0.26
Consensus pattern (20 bp):
AATGTATCGATACAAAGCAT
Found at i:34188 original size:20 final size:20
Alignment explanation
Indices: 34163--34216 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
34153 GTTACAAGCA
34163 ATGTATCGATACAAT-TCATC
1 ATGTATCGATACAATGTC-TC
* *
34183 ATGTATCGATATAATGTCTT
1 ATGTATCGATACAATGTCTC
*
34203 ATGTATCAATACAA
1 ATGTATCGATACAA
34217 ATAGTGGTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 27 0.93
21 2 0.07
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (20 bp):
ATGTATCGATACAATGTCTC
Found at i:37390 original size:169 final size:167
Alignment explanation
Indices: 37083--37500 Score: 606
Period size: 169 Copynumber: 2.5 Consensus size: 167
37073 TCCAGACATC
* ** *
37083 AAAATTAATCAATTATCA-TATTTATTTCATATTAATTCAGTTTTTTAAAAAATTCATTCATTTT
1 AAAATTCATCAAACATCATTATTTATTTTATATTAATTCAGTTTTTT--AAAATTCATTCATTTT
* * *
37147 CATGAGTTTTTGATTTTTTTCCTTGATATTCTTCTTTTTCGAAATATAGTATTTTCAACTCCGTA
64 CATGAGTTTTTGATTTTTTTCCTTGAAATTCTTCTTTTTCGAAATACAGTATTTTCAACTCCATA
* * *
37212 AATTTTTTTCAAGGGGATTTTTCTTGGTTTTCAATTTTT
129 AACTTTTTTCAAGAGGATTTTTATTGGTTTTCAATTTTT
* *
37251 AAAATTCATCAAACATCATTATTTATTTTATATTAATTTAATTTTTTAAAATTCATTCATTTTCA
1 AAAATTCATCAAACATCATTATTTATTTTATATTAATTCAGTTTTTTAAAATTCATTCATTTTCA
* *
37316 TGAGTTTTTGATCTTTTTTCCTTGAAATTTCTTTTTTTTCGAAATACAGTGTTTTCAACTCCATA
66 TGAGTTTTTGAT-TTTTTTCCTTGAAA-TTCTTCTTTTTCGAAATACAGTATTTTCAACTCCATA
37381 AACTTTTTTCAAGAGGATTTTTATTGGTTTTCAATTTTT
129 AACTTTTTTCAAGAGGATTTTTATTGGTTTTCAATTTTT
** * *
37420 AAAATTCATCAAACATCATTATTTATTTTATATTAATTCAGTTTTAAAAAATTAATTCATTTGCA
1 AAAATTCATCAAACATCATTATTTATTTTATATTAATTCAGTTTTTTAAAATTCATTCATTTTCA
* *
37485 TGA-CTTTTGAATTTTT
66 TGAGTTTTTGATTTTTT
37501 CTTTCAAAAT
Statistics
Matches: 225, Mismatches: 22, Indels: 7
0.89 0.09 0.03
Matches are distributed among these distances:
167 35 0.16
168 34 0.15
169 156 0.69
ACGTcount: A:0.30, C:0.11, G:0.07, T:0.52
Consensus pattern (167 bp):
AAAATTCATCAAACATCATTATTTATTTTATATTAATTCAGTTTTTTAAAATTCATTCATTTTCA
TGAGTTTTTGATTTTTTTCCTTGAAATTCTTCTTTTTCGAAATACAGTATTTTCAACTCCATAAA
CTTTTTTCAAGAGGATTTTTATTGGTTTTCAATTTTT
Found at i:47496 original size:28 final size:28
Alignment explanation
Indices: 47455--47931 Score: 498
Period size: 28 Copynumber: 16.9 Consensus size: 28
47445 AATACGACCT
*
47455 TTTTCCAAAGCCCACAAGTCAATGGCATC
1 TTTT-CAAAGCCCACAAGTCAGTGGCATC
* * *
47484 TTTTCAAAACCCACAAGGCAGTGGCAAC
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
47512 TTTTTAAAGCCCAAAAGTCAGTGGTACC
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
47540 TTTTCAAAGCCCACAACGT-AGTGGCATC
1 TTTTCAAAGCCCACAA-GTCAGTGGCATC
*
47568 CTTTCAAAAGCCCACAAGTCAGTGGCAT-
1 TTTTC-AAAGCCCACAAGTCAGTGGCATC
47596 TCTTTCAAAGCCCACAAGTCAGTGGCATTC
1 T-TTTCAAAGCCCACAAGTCAGTGGCA-TC
47626 TTTT-AAAGCCCACAAGTCAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
* *
47653 CTTTCTAAGCCCACAAGTCAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
* * *
47681 CTTTCAAAGCCCATAAGTCAATGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
47709 CTTTCAAAATCCTATAAGTCAGTGGCATC
1 TTTTC-AAAGCCCACAAGTCAGTGGCATC
* * *
47738 ATTTCAAAAGCCCACAAG-CAAGTGGTACC
1 TTTTC-AAAGCCCACAAGTC-AGTGGCATC
* *
47767 TTTTCAAAGGCCACAAGTTAGTGGCATC
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
* *
47795 CTTTCAAAAGCCCACAAGTCAATGGCAT-
1 TTTTC-AAAGCCCACAAGTCAGTGGCATC
* *
47823 TCTTTCAAAGCCCACAACTCAGGGGCATC
1 T-TTTCAAAGCCCACAAGTCAGTGGCATC
*
47852 CTTTCAAAGCCCACAAGTCAGTGGCA-C
1 TTTTCAAAGCCCACAAGTCAGTGGCATC
* * * *
47879 CTTTCAAAAGCCAACAAGTCAATGGCAGC
1 TTTTC-AAAGCCCACAAGTCAGTGGCATC
* * *
47908 TTTTTAAAGCCCATAAGTTAGTGG
1 TTTTCAAAGCCCACAAGTCAGTGG
47932 TAACCCTATT
Statistics
Matches: 379, Mismatches: 54, Indels: 31
0.82 0.12 0.07
Matches are distributed among these distances:
27 11 0.03
28 262 0.69
29 105 0.28
30 1 0.00
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.24
Consensus pattern (28 bp):
TTTTCAAAGCCCACAAGTCAGTGGCATC
Found at i:47905 original size:113 final size:113
Alignment explanation
Indices: 47456--47905 Score: 570
Period size: 113 Copynumber: 4.0 Consensus size: 113
47446 ATACGACCTT
* * * * * *
47456 TTTCCAAAGCCCACAAGTCAATGGCA-TCTTTTCAAAACCCACAAGGCAGTGGCAACTTTTTAAA
1 TTTCAAAAGCCCACAAGTCAATGGCATTC-TTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAA
* *
47520 GCCCAAAAGTCAGTGGTACCTTTTCAAAGCCCACAACGT-AGTGGCATCC
65 GCCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAA-GTCAGTGGCATCC
* * *
47569 TTTCAAAAGCCCACAAGTCAGTGGCATTCTTTCAAAGCCCACAAGTCAGTGGCATTCTTTTAAAG
1 TTTCAAAAGCCCACAAGTCAATGGCATTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
*
47634 CCCACAAGTCAGTGGCATCC-TTTCTAAGCCCACAAGTCAGTGGCATCC
66 CCCACAAGTCAGTGGCA-CCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* * * * * *
47682 TTTC-AAAGCCCATAAGTCAATGGCATCCTTTCAAAATCCTATAAGTCAGTGGCATCATTTCAAA
1 TTTCAAAAGCCCACAAGTCAATGGCATTCTTTC-AAAGCCCACAAGTCAGTGGCATCCTTTC-AA
* * *
47746 AGCCCACAAG-CAAGTGGTACCTTTTCAAAGGCCACAAGTTAGTGGCATCC
64 AGCCCACAAGTC-AGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
* *
47796 TTTCAAAAGCCCACAAGTCAATGGCATTCTTTCAAAGCCCACAACTCAGGGGCATCCTTTCAAAG
1 TTTCAAAAGCCCACAAGTCAATGGCATTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
* *
47861 CCCACAAGTCAGTGGCACC-TTTCAAAAGCCAACAAGTCAATGGCA
66 CCCACAAGTCAGTGGCACCTTTTC-AAAGCCCACAAGTCAGTGGCA
47906 GCTTTTTAAA
Statistics
Matches: 291, Mismatches: 36, Indels: 20
0.84 0.10 0.06
Matches are distributed among these distances:
112 31 0.11
113 160 0.55
114 74 0.25
115 26 0.09
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (113 bp):
TTTCAAAAGCCCACAAGTCAATGGCATTCTTTCAAAGCCCACAAGTCAGTGGCATCCTTTCAAAG
CCCACAAGTCAGTGGCACCTTTTCAAAGCCCACAAGTCAGTGGCATCC
Found at i:47976 original size:31 final size:31
Alignment explanation
Indices: 47934--48029 Score: 93
Period size: 31 Copynumber: 3.1 Consensus size: 31
47924 GTTAGTGGTA
* *
47934 ACCCTATTCAAAGCCCACACAAGTTGGTGGC
1 ACCCTAGTCAAAGCCAACACAAGTTGGTGGC
** ** * *
47965 ACCCTAGTCAAAGCCTGCATGAGTTGGCGAC
1 ACCCTAGTCAAAGCCAACACAAGTTGGTGGC
* * *
47996 GCTCGAGTCAAAGCCAACACAAGTTGGTGGC
1 ACCCTAGTCAAAGCCAACACAAGTTGGTGGC
48027 ACC
1 ACC
48030 TATATCCGAG
Statistics
Matches: 47, Mismatches: 18, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.30, G:0.24, T:0.18
Consensus pattern (31 bp):
ACCCTAGTCAAAGCCAACACAAGTTGGTGGC
Found at i:48854 original size:168 final size:165
Alignment explanation
Indices: 48636--49055 Score: 590
Period size: 169 Copynumber: 2.5 Consensus size: 165
48626 AAATATTATC
* * *
48636 ATTTATTTCATATTAATTCAGTTTTCAAAAATTCATTCATTTTAATGAGTTTGTGATTTTCTTTC
1 ATTTATTTTATATTAATTCAGTTTTAAAAAATTCATTCATTTTCATGAGTTT-TGATTTT-TTTC
*
48701 TTGAAATTCTTTTTTTTTCGAAATACAATGTTTTCAACTCTGTAAATTTTTTTCAACAAGATTTG
64 TTGAAATTCTTTTTTTTT-GAAATACAATGTTTTCAACTCCGTAAATTTTTTTCAACAAGATTTG
*
48766 TCTTGGTTTTCAATTTTTAAAATTCATCGAACACCATT
128 TCTTGGTTTTCAATTTTTAAAATTCATCAAACACCATT
* *
48804 ATTTATTTTATATTAATTTAGTTTTTAAAAATTCATTCATTTTCATGAGTTTTTGATCTTTTTTC
1 ATTTATTTTATATTAATTCAGTTTTAAAAAATTCATTCATTTTCATGAG-TTTTGAT-TTTTTT-
* * * *
48869 CTTGAAATTTCTTTTTTTTTGAAATATAGTGTTTTCAACTCCGTAAATTTTTTTCAAGATGATTT
63 CTTGAAA-TTCTTTTTTTTTGAAATACAATGTTTTCAACTCCGTAAATTTTTTTCAACAAGATTT
* *
48934 TTCTTGGTTTTCAATTTTTAAAATTCATCAAACATCATT
127 GTCTTGGTTTTCAATTTTTAAAATTCATCAAACACCATT
* * * *
48973 ATTTATTTTATATTAATTCAATTTTAAAAAATTAATTCATTTTCATGACTTTTGA-ATTTTTCTT
1 ATTTATTTTATATTAATTCAGTTTTAAAAAATTCATTCATTTTCATGAGTTTTGATTTTTTTC-T
* *
49037 TGAAAATATTTTTTTTTGA
65 TGAAATTCTTTTTTTTTGA
49056 GAAATTGAGT
Statistics
Matches: 227, Mismatches: 20, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
165 13 0.06
166 11 0.05
168 58 0.26
169 133 0.59
170 12 0.05
ACGTcount: A:0.29, C:0.11, G:0.07, T:0.53
Consensus pattern (165 bp):
ATTTATTTTATATTAATTCAGTTTTAAAAAATTCATTCATTTTCATGAGTTTTGATTTTTTTCTT
GAAATTCTTTTTTTTTGAAATACAATGTTTTCAACTCCGTAAATTTTTTTCAACAAGATTTGTCT
TGGTTTTCAATTTTTAAAATTCATCAAACACCATT
Found at i:49049 original size:16 final size:17
Alignment explanation
Indices: 49028--49060 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
49018 TGACTTTTGA
49028 ATTTTTCTTTGA-AAAT
1 ATTTTTCTTTGAGAAAT
*
49044 ATTTTTTTTTGAGAAAT
1 ATTTTTCTTTGAGAAAT
49061 TGAGTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.30, C:0.03, G:0.09, T:0.58
Consensus pattern (17 bp):
ATTTTTCTTTGAGAAAT
Found at i:55924 original size:2 final size:2
Alignment explanation
Indices: 55863--55913 Score: 84
Period size: 2 Copynumber: 25.5 Consensus size: 2
55853 TGTTAAGATA
*
55863 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AG AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
55905 AT AG AT AT A
1 AT AT AT AT A
55914 CACACATATA
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
2 45 1.00
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:57095 original size:18 final size:18
Alignment explanation
Indices: 57072--57113 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
57062 GTGGTGAGAT
*
57072 CGAATATATATGCGTAAA
1 CGAATATATATACGTAAA
*
57090 CGAATATATATATGTAAA
1 CGAATATATATACGTAAA
57108 CGAATA
1 CGAATA
57114 AAAAGTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.48, C:0.10, G:0.14, T:0.29
Consensus pattern (18 bp):
CGAATATATATACGTAAA
Found at i:57369 original size:50 final size:51
Alignment explanation
Indices: 57301--57421 Score: 127
Period size: 50 Copynumber: 2.4 Consensus size: 51
57291 TCTAGAAAGA
* * * * * *
57301 AAATGAATCGATATATTTTTTATTATATCGAAACATTCTGG-GTTTGATCC
1 AAATGTATCGATACATTTTTCAATATATCGAAACATTATGGCGTTTGACCC
* * * *
57351 AAATGTATTGATACATTTTTCAATGTATCGATACATTATGGCTTTTTGACCC
1 AAATGTATCGATACATTTTTCAATATATCGAAACATTATGGC-GTTTGACCC
*
57403 AAATGTATCGACACATTTT
1 AAATGTATCGATACATTTT
57422 GGGTTTTGAC
Statistics
Matches: 57, Mismatches: 12, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
50 33 0.58
52 24 0.42
ACGTcount: A:0.31, C:0.14, G:0.13, T:0.41
Consensus pattern (51 bp):
AAATGTATCGATACATTTTTCAATATATCGAAACATTATGGCGTTTGACCC
Found at i:57450 original size:31 final size:32
Alignment explanation
Indices: 57372--57450 Score: 115
Period size: 31 Copynumber: 2.5 Consensus size: 32
57362 TACATTTTTC
*
57372 AATGTATCGATACATTATGGCTTTTTGACCCA
1 AATGTATCGATACATTATGGCGTTTTGACCCA
* *
57404 AATGTATCGACACATTTTGG-GTTTTGACCCA
1 AATGTATCGATACATTATGGCGTTTTGACCCA
*
57435 AATGTATCAATACATT
1 AATGTATCGATACATT
57451 CTTCAATGTA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 24 0.57
32 18 0.43
ACGTcount: A:0.30, C:0.18, G:0.15, T:0.37
Consensus pattern (32 bp):
AATGTATCGATACATTATGGCGTTTTGACCCA
Found at i:60604 original size:20 final size:20
Alignment explanation
Indices: 60578--60633 Score: 80
Period size: 19 Copynumber: 2.9 Consensus size: 20
60568 ACTGCCAGTT
*
60578 TCATGTATCGATACAATTG-
1 TCATGTATCGATACAATAGA
60597 TGCATGTATCGATACAA-AGA
1 T-CATGTATCGATACAATAGA
60617 TCATGTATCGATACAAT
1 TCATGTATCGATACAAT
60634 GTATCGATAC
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 17 0.52
20 16 0.48
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (20 bp):
TCATGTATCGATACAATAGA
Found at i:60637 original size:13 final size:13
Alignment explanation
Indices: 60619--60645 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
60609 TACAAAGATC
60619 ATGTATCGATACA
1 ATGTATCGATACA
60632 ATGTATCGATACA
1 ATGTATCGATACA
60645 A
1 A
60646 AGCATAATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:60641 original size:32 final size:33
Alignment explanation
Indices: 60600--60661 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
60590 ACAATTGTGC
* *
60600 ATGTATCGATACAAAG-ATCATGTATCGATACA
1 ATGTATCGATACAAAGCATAATATATCGATACA
60632 ATGTATCGATACAAAGCATAATATATCGAT
1 ATGTATCGATACAAAGCATAATATATCGAT
60662 GGATCCGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 16 0.59
33 11 0.41
ACGTcount: A:0.42, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACAAAGCATAATATATCGATACA
Found at i:61317 original size:21 final size:22
Alignment explanation
Indices: 61290--61335 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
61280 TTATAAAAAT
*
61290 TCTTTTTATTTCTTCCCCTTTG
1 TCTTTTTATTACTTCCCCTTTG
*
61312 TCTTTTTATTACTTCCCTTTTG
1 TCTTTTTATTACTTCCCCTTTG
61334 TC
1 TC
61336 AAATGCTGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.07, C:0.26, G:0.04, T:0.63
Consensus pattern (22 bp):
TCTTTTTATTACTTCCCCTTTG
Found at i:67243 original size:13 final size:13
Alignment explanation
Indices: 67225--67250 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
67215 TACAGCAAGT
67225 ATGTATCGATACA
1 ATGTATCGATACA
67238 ATGTATCGATACA
1 ATGTATCGATACA
67251 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:72172 original size:13 final size:13
Alignment explanation
Indices: 72154--72179 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72144 TACAGCAAGT
72154 ATGTATCGATACA
1 ATGTATCGATACA
72167 ATGTATCGATACA
1 ATGTATCGATACA
72180 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:74431 original size:21 final size:21
Alignment explanation
Indices: 74398--74442 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
74388 TTGCAAGTTG
*
74398 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
74420 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
74440 AAA
1 AAA
74443 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:78376 original size:13 final size:13
Alignment explanation
Indices: 78358--78393 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
78348 TTTTTCTTTA
*
78358 TATCGATACATTG
1 TATCGATACACTG
78371 TATCGATACACTG
1 TATCGATACACTG
78384 TATCGATACA
1 TATCGATACA
78394 GGGTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:78538 original size:21 final size:21
Alignment explanation
Indices: 78514--78560 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
78504 AAATCTTTTG
78514 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
78535 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
78555 CAAAAT
1 CAAAAT
78561 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:78557 original size:20 final size:19
Alignment explanation
Indices: 78516--78558 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
78506 ATCTTTTGCA
78516 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
78536 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
78556 AAA
1 AAA
78559 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:80850 original size:20 final size:21
Alignment explanation
Indices: 80827--80879 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
80817 ACAATTCAAA
** *
80827 GTATCGATACATGTTACA-AT
1 GTATCGATACATGGAAAAGAT
80847 GTATCGATACATGGAAAAGAT
1 GTATCGATACATGGAAAAGAT
80868 GTATCGATACAT
1 GTATCGATACAT
80880 TTCTTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (21 bp):
GTATCGATACATGGAAAAGAT
Found at i:80936 original size:13 final size:13
Alignment explanation
Indices: 80918--80943 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
80908 TACAGCAAGT
80918 ATGTATCGATACA
1 ATGTATCGATACA
80931 ATGTATCGATACA
1 ATGTATCGATACA
80944 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:89823 original size:27 final size:27
Alignment explanation
Indices: 89766--89823 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
89756 GTCTGTATAG
* * ** * *
89766 CCTACAATCCCTAGTGGAGTTGAACAG
1 CCTACAATCCCTAATGGAATAAAAAAC
89793 CCTACAATCCCTAATGGAATAAAAAAC
1 CCTACAATCCCTAATGGAATAAAAAAC
89820 CCTA
1 CCTA
89824 ATCTCCAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (27 bp):
CCTACAATCCCTAATGGAATAAAAAAC
Found at i:90145 original size:13 final size:13
Alignment explanation
Indices: 90083--90156 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
90073 CCTTTTGCCA
90083 TTTGTCAAGAAA-
1 TTTGTCAAGAAAC
90095 TTATCGTCAAG-AAC
1 TT-T-GTCAAGAAAC
* **
90109 TTTTGTCGAGAATG
1 -TTTGTCAAGAAAC
90123 TTTGTC-AGAAAC
1 TTTGTCAAGAAAC
*
90135 TTTGTCAAGAAAT
1 TTTGTCAAGAAAC
90148 TTTCGTCAA
1 TTT-GTCAA
90157 TACGACTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
12 12 0.24
13 22 0.45
14 13 0.27
15 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (13 bp):
TTTGTCAAGAAAC
Found at i:90155 original size:26 final size:27
Alignment explanation
Indices: 90083--90156 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
90073 CCTTTTGCCA
*
90083 TTTGTCAAGAAATTATCGTCAAGAACT
1 TTTGTCAAGAAATTTTCGTCAAGAACT
*
90110 TTTGTCGAG-AATGTTT-GTC-AGAAAC-
1 TTTGTCAAGAAAT-TTTCGTCAAG-AACT
90135 TTTGTCAAGAAATTTTCGTCAA
1 TTTGTCAAGAAATTTTCGTCAA
90157 TACGACTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
25 13 0.33
26 15 0.38
27 11 0.28
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (27 bp):
TTTGTCAAGAAATTTTCGTCAAGAACT
Found at i:90237 original size:28 final size:28
Alignment explanation
Indices: 90163--90934 Score: 778
Period size: 28 Copynumber: 27.2 Consensus size: 28
90153 TCAATACGAC
* *
90163 TCTTTTGAAAGCCCACAAGTCAGTGGCT
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90191 TCATTCTCAACGCCCACAAGTCAGTGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCA
*
90220 TCTTTTCAAAGCCCACAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90248 TCTTTTCAAGGCCCACAAGTCAGGGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90276 TCTTTTCAAGGCCCACAAGTCAGGGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
90304 TCTTTTCAAGGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
90332 TCTTTTCAAGGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90360 TCTTTTCAAAGCCCATAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90388 TCTTTTCAAAGCCCATAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90416 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90444 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
90472 CCCTTTCAAAGCCCACAAGTCAGAGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
90500 CCCTTTTCAAAACCTACATGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
90529 CCTTTTTCGAAGCCCACAAGTCAGTGGTAA
1 TC-TTTTCAAAGCCCACAAGTCAGTGG-CA
* * * *
90559 CTCTTTTCAAAGTCCATAACTCAATGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
** * * *
90588 TCAATTCAAGGCCCACCAGTCAGTCGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
90616 CCATTTCAAAGCCCATAAGTCAG-GGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
**
90643 TCAATTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90671 TCTTTTCAAAGCCCATAAGTAAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
90699 CCCTTTCAAAGCCCATAAGTTAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
90727 TCCTTTCAAATCCCACAAGTTA-TTGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90754 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90782 TCCTTTT-AAAGCCCACAAATCAGGGGCA
1 T-CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
90810 TCATTTCGAAG-CCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
90837 CCATTTCAAAGCCCACAAGTCAGTGCCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
90865 TCCCCTTTCAAAGCCCACATAAGTTAGTGGCAA
1 T--CTTTTCAAAGCCCAC--AAGTCAGTGGC-A
*
90898 CTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 -TCTTTTCAAAG-CC-CACAAGTCAGTGGCA
*
90929 CCTTTT
1 TCTTTT
90935 TTTAAGGCCT
Statistics
Matches: 633, Mismatches: 93, Indels: 34
0.83 0.12 0.04
Matches are distributed among these distances:
27 72 0.11
28 412 0.65
29 72 0.11
30 39 0.06
31 2 0.00
32 29 0.05
33 3 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:90949 original size:32 final size:32
Alignment explanation
Indices: 90647--90972 Score: 140
Period size: 28 Copynumber: 11.2 Consensus size: 32
90637 AGGGCATCAA
*
90647 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
90675 TTCAAAG-CC-CATAAGTAAGTGGC-AC-CCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
90703 TTCAAAG-CC-CATAAGTTAATGGC-A-TCCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
90731 TTCAAA-TCC-CACAAGTTA-TTGC-AC-CCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* *
90758 TTCAAAG-CC-CACAAGTCAGTGGCATC-CTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
90787 TT-AAAGCCCACA-AA-TCAGGGGC-A-TCAT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* *
90814 TTCGAAG--C-CACAAGTTAGTGGC-AC-CAT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * * * *
90841 TTCAAAG-CC-CACAAGTCAGTGCCATCCCCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
*
90871 TTCAAAGCCCACATAAGTTAGTGGCAACTCTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* *
90903 TTCAAAGCCCACACAAGTTAGTGGCACCTTTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * * ** * *
90935 TTTAAGGCCTACACAAGTCGGTGGCCACCCTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
90967 TTCAAA
1 TTCAAA
90973 TCACCACTTT
Statistics
Matches: 237, Mismatches: 42, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 43 0.18
28 95 0.40
29 10 0.04
30 11 0.05
31 2 0.01
32 71 0.30
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
Found at i:92333 original size:13 final size:13
Alignment explanation
Indices: 92315--92340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
92305 TACAGCAAGT
92315 ATGTATCGATACA
1 ATGTATCGATACA
92328 ATGTATCGATACA
1 ATGTATCGATACA
92341 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:94592 original size:21 final size:21
Alignment explanation
Indices: 94559--94603 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
94549 TTGCAAGTTG
*
94559 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
94581 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
94601 AAA
1 AAA
94604 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:98538 original size:13 final size:13
Alignment explanation
Indices: 98520--98555 Score: 63
Period size: 13 Copynumber: 2.8 Consensus size: 13
98510 TTTTTCTTTA
*
98520 TATCGATACATTG
1 TATCGATACACTG
98533 TATCGATACACTG
1 TATCGATACACTG
98546 TATCGATACA
1 TATCGATACA
98556 GGGTGATTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.33
Consensus pattern (13 bp):
TATCGATACACTG
Found at i:98700 original size:21 final size:21
Alignment explanation
Indices: 98676--98722 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
98666 AAATCTTTTG
98676 CAAAAT-ACTT-GTTTTTCACTT
1 CAAAATAACTTCGTTTTTCA--T
98697 C-AAATAACTTCGTTTTTCAT
1 CAAAATAACTTCGTTTTTCAT
98717 CAAAAT
1 CAAAAT
98723 CAGCATCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
20 6 0.26
21 9 0.39
22 8 0.35
ACGTcount: A:0.34, C:0.19, G:0.04, T:0.43
Consensus pattern (21 bp):
CAAAATAACTTCGTTTTTCAT
Found at i:98719 original size:20 final size:19
Alignment explanation
Indices: 98678--98720 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 19
98668 ATCTTTTGCA
98678 AAATACTTGTTTTTCACTTC
1 AAATACTTGTTTTTCAC-TC
98698 AAATAACTTCGTTTTTCA-TC
1 AAAT-ACTT-GTTTTTCACTC
98718 AAA
1 AAA
98721 ATCAGCATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
20 9 0.43
21 4 0.19
22 8 0.38
ACGTcount: A:0.33, C:0.19, G:0.05, T:0.44
Consensus pattern (19 bp):
AAATACTTGTTTTTCACTC
Found at i:101012 original size:20 final size:21
Alignment explanation
Indices: 100989--101041 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
100979 ACAATTCAAA
** *
100989 GTATCGATACATGTTACA-AT
1 GTATCGATACATGGAAAAGAT
101009 GTATCGATACATGGAAAAGAT
1 GTATCGATACATGGAAAAGAT
101030 GTATCGATACAT
1 GTATCGATACAT
101042 TTCTTGGCAG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 15 0.52
21 14 0.48
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (21 bp):
GTATCGATACATGGAAAAGAT
Found at i:101098 original size:13 final size:13
Alignment explanation
Indices: 101080--101105 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
101070 TACAGCAAGT
101080 ATGTATCGATACA
1 ATGTATCGATACA
101093 ATGTATCGATACA
1 ATGTATCGATACA
101106 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:109982 original size:27 final size:27
Alignment explanation
Indices: 109925--109982 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
109915 GTCTGTATAG
* * ** * *
109925 CCTACAATCCCTAGTGGAGTTGAACAG
1 CCTACAATCCCTAATGGAATAAAAAAC
109952 CCTACAATCCCTAATGGAATAAAAAAC
1 CCTACAATCCCTAATGGAATAAAAAAC
109979 CCTA
1 CCTA
109983 ATCTCCAGTA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.38, C:0.28, G:0.14, T:0.21
Consensus pattern (27 bp):
CCTACAATCCCTAATGGAATAAAAAAC
Found at i:110304 original size:13 final size:13
Alignment explanation
Indices: 110242--110315 Score: 55
Period size: 13 Copynumber: 5.6 Consensus size: 13
110232 CCTTTTGCCA
110242 TTTGTCAAGAAA-
1 TTTGTCAAGAAAC
110254 TTATCGTCAAG-AAC
1 TT-T-GTCAAGAAAC
* **
110268 TTTTGTCGAGAATG
1 -TTTGTCAAGAAAC
110282 TTTGTC-AGAAAC
1 TTTGTCAAGAAAC
*
110294 TTTGTCAAGAAAT
1 TTTGTCAAGAAAC
110307 TTTCGTCAA
1 TTT-GTCAA
110316 TACGACTCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 12
0.73 0.09 0.18
Matches are distributed among these distances:
12 12 0.24
13 22 0.45
14 13 0.27
15 2 0.04
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (13 bp):
TTTGTCAAGAAAC
Found at i:110314 original size:26 final size:27
Alignment explanation
Indices: 110242--110315 Score: 84
Period size: 26 Copynumber: 2.8 Consensus size: 27
110232 CCTTTTGCCA
*
110242 TTTGTCAAGAAATTATCGTCAAGAACT
1 TTTGTCAAGAAATTTTCGTCAAGAACT
*
110269 TTTGTCGAG-AATGTTT-GTC-AGAAAC-
1 TTTGTCAAGAAAT-TTTCGTCAAG-AACT
110294 TTTGTCAAGAAATTTTCGTCAA
1 TTTGTCAAGAAATTTTCGTCAA
110316 TACGACTCTT
Statistics
Matches: 39, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
25 13 0.33
26 15 0.38
27 11 0.28
ACGTcount: A:0.32, C:0.14, G:0.18, T:0.36
Consensus pattern (27 bp):
TTTGTCAAGAAATTTTCGTCAAGAACT
Found at i:110396 original size:28 final size:28
Alignment explanation
Indices: 110322--111093 Score: 787
Period size: 28 Copynumber: 27.2 Consensus size: 28
110312 TCAATACGAC
* *
110322 TCTTTTGAAAGCCCACAAGTCAGTGGCT
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110350 TCATTCTCAACGCCCACAAGTCAGTGGCA
1 TC-TTTTCAAAGCCCACAAGTCAGTGGCA
*
110379 TCTTTTCAAAGCCCACAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110407 TCTTTTCAAGGCCCACAAGTCAGGGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110435 TCTTTTCAAGGCCCACAAGTCAGGGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
110463 TCTTTTCAAGGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
*
110491 TCTTTTCAAGGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110519 TCTTTTCAAAGCCCATAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110547 TCTTTTCAAAGCCCATAAGTCAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110575 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110603 TCCTTTCAAAGCCCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
110631 CCCTTTCAAAGCCCACAAGTCAGAGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
110659 CCCTTTTCAAAACCTACATGTCAGTGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
110688 CCTTTTTCGAAGCCCACAAGTCAGTGGTAA
1 TC-TTTTCAAAGCCCACAAGTCAGTGG-CA
* * *
110718 CTCTTTTCAAAGTCCATAAGTCAATGGCA
1 -TCTTTTCAAAGCCCACAAGTCAGTGGCA
** * * *
110747 TCAATTCAAGGCCCACCAGTCAGTCGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
110775 CCATTTCAAAGCCCATAAGTCAG-GGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
**
110802 TCAATTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110830 TCTTTTCAAAGCCCATAAGTAAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * * *
110858 CCCTTTCAAAGCCCATAAGTTAATGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * * *
110886 TCCTTTCAAATCCCACAAGTTA-TTGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110913 CCCTTTCAAAGCCCACAAGTCAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
110941 TCCTTTT-AAAGCCCACAAATCAGGGGCA
1 T-CTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
110969 TCATTTCGAAG-CCACAAGTTAGTGGCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* * *
110996 CCATTTCAAAGCCCACAAGTCAGTGCCA
1 TCTTTTCAAAGCCCACAAGTCAGTGGCA
* *
111024 TCCCCTTTCAAAGCCCACATAAGTTAGTGGCAA
1 T--CTTTTCAAAGCCCAC--AAGTCAGTGGC-A
*
111057 CTCTTTTCAAAGCCCACACAAGTTAGTGGCA
1 -TCTTTTCAAAG-CC-CACAAGTCAGTGGCA
*
111088 CCTTTT
1 TCTTTT
111094 TTTAAGGCCT
Statistics
Matches: 635, Mismatches: 91, Indels: 34
0.84 0.12 0.04
Matches are distributed among these distances:
27 72 0.11
28 413 0.65
29 72 0.11
30 40 0.06
31 2 0.00
32 29 0.05
33 3 0.00
34 4 0.01
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.24
Consensus pattern (28 bp):
TCTTTTCAAAGCCCACAAGTCAGTGGCA
Found at i:111108 original size:32 final size:32
Alignment explanation
Indices: 110806--111131 Score: 140
Period size: 28 Copynumber: 11.2 Consensus size: 32
110796 AGGGCATCAA
*
110806 TTCAAAG-CC-CACAAGTCAGTGGC-A-TCTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
110834 TTCAAAG-CC-CATAAGTAAGTGGC-AC-CCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
110862 TTCAAAG-CC-CATAAGTTAATGGC-A-TCCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
110890 TTCAAA-TCC-CACAAGTTA-TTGC-AC-CCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* *
110917 TTCAAAG-CC-CACAAGTCAGTGGCATC-CTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * *
110946 TT-AAAGCCCACA-AA-TCAGGGGC-A-TCAT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* *
110973 TTCGAAG--C-CACAAGTTAGTGGC-AC-CAT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * * * *
111000 TTCAAAG-CC-CACAAGTCAGTGCCATCCCCT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
*
111030 TTCAAAGCCCACATAAGTTAGTGGCAACTCTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* *
111062 TTCAAAGCCCACACAAGTTAGTGGCACCTTTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
* * * ** * *
111094 TTTAAGGCCTACACAAGTCGGTGGCCACCCTT
1 TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
111126 TTCAAA
1 TTCAAA
111132 TCACCACTTT
Statistics
Matches: 237, Mismatches: 42, Indels: 34
0.76 0.13 0.11
Matches are distributed among these distances:
25 2 0.01
26 3 0.01
27 43 0.18
28 95 0.40
29 10 0.04
30 11 0.05
31 2 0.01
32 71 0.30
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.25
Consensus pattern (32 bp):
TTCAAAGCCCACACAAGTTAGTGGCAACTCTT
Found at i:112062 original size:50 final size:49
Alignment explanation
Indices: 111999--112169 Score: 198
Period size: 50 Copynumber: 3.6 Consensus size: 49
111989 AAGTCACAAT
*
111999 TTTACCCAAATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
1 TTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* *
112048 TTCTACCCAGATGTATCGATACATTTTTCAATGTATTGATACATGC-A--
1 TT-TACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
* * *
112095 --T---GA-ATGTATCGATATATTCTTCAATGTATCGATACATTCTATC
1 TTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
*
112138 TTTTACCCAGATGTATTGATACATTTTTCAAT
1 -TTTACCCAGATGTATCGATACATTTTTCAAT
112170 ATATTTATAC
Statistics
Matches: 99, Mismatches: 12, Indels: 21
0.75 0.09 0.16
Matches are distributed among these distances:
40 32 0.32
41 2 0.02
44 1 0.01
46 1 0.01
49 4 0.04
50 59 0.60
ACGTcount: A:0.30, C:0.18, G:0.11, T:0.42
Consensus pattern (49 bp):
TTTACCCAGATGTATCGATACATTTTTCAATGTATCGATACATTCTATC
Found at i:112133 original size:20 final size:20
Alignment explanation
Indices: 112007--112134 Score: 103
Period size: 20 Copynumber: 5.9 Consensus size: 20
111997 ATTTTACCCA
*
112007 AATGTATCGATACATTTTTC
1 AATGTATCGATACATTCTTC
112027 AATGTATCGATACATTCTATCTTCTACCC
1 AATGTATCGATACA---T-TC-T-T---C
*
112056 AGATGTATCGATACATTTTTC
1 A-ATGTATCGATACATTCTTC
* * * *
112077 AATGTATTGATACATGCATG
1 AATGTATCGATACATTCTTC
*
112097 AATGTATCGATATATTCTTC
1 AATGTATCGATACATTCTTC
112117 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
112135 ATCTTTTACC
Statistics
Matches: 85, Mismatches: 13, Indels: 20
0.72 0.11 0.17
Matches are distributed among these distances:
20 60 0.71
21 2 0.02
23 1 0.01
24 2 0.02
25 2 0.02
26 2 0.02
27 1 0.01
29 2 0.02
30 13 0.15
ACGTcount: A:0.30, C:0.17, G:0.12, T:0.41
Consensus pattern (20 bp):
AATGTATCGATACATTCTTC
Found at i:112160 original size:90 final size:90
Alignment explanation
Indices: 112007--112204 Score: 342
Period size: 90 Copynumber: 2.2 Consensus size: 90
111997 ATTTTACCCA
*
112007 AATGTATCGATACATTTTTCAATGTATCGATACATTCTATCTTCTACCCAGATGTATCGATACAT
1 AATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTCTACCCAGATGTATCGATACAT
*
112072 TTTTCAATGTATTGATACATGCATG
66 TTTTCAATATATTGATACATGCATG
* * *
112097 AATGTATCGATATATTCTTCAATGTATCGATACATTCTATCTTTTACCCAGATGTATTGATACAT
1 AATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTCTACCCAGATGTATCGATACAT
*
112162 TTTTCAATATATTTATACATGCATG
66 TTTTCAATATATTGATACATGCATG
112187 AATGTATCGATACATTCT
1 AATGTATCGATACATTCT
112205 GTATTTTTGC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 101 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.41
Consensus pattern (90 bp):
AATGTATCGATACATTCTTCAATGTATCGATACATTCTATCTTCTACCCAGATGTATCGATACAT
TTTTCAATATATTGATACATGCATG
Found at i:117050 original size:15 final size:15
Alignment explanation
Indices: 117032--117063 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
117022 CGAGTCAACC
117032 TCATCATTATCATCA
1 TCATCATTATCATCA
*
117047 TCATCATTTTCATCA
1 TCATCATTATCATCA
117062 TC
1 TC
117064 TTTGATGGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.44
Consensus pattern (15 bp):
TCATCATTATCATCA
Found at i:119433 original size:165 final size:167
Alignment explanation
Indices: 119244--119614 Score: 389
Period size: 167 Copynumber: 2.2 Consensus size: 167
119234 AAAATCTACT
* * *
119244 GAAAATATTTATGGAATAGAAAACTCGATT-TTTC-AGAAATA-GGA-AATTTTAA-AAGAAATT
1 GAAAACATTTATGGAGTAGAAAACTC-ATTATTTCGA-AAATAGGGATAATTTTAAGAA-AAA-A
** * * * * *
119304 ATTCAAAA-TTATAAAGATAAATTAATTTTTCAAAACTGATCTAATATGAAATAAATGACGATAT
62 ATGAAAAACTCATAAAGATAAATGAATATTTCAAAACTAATCTAATATGAAATAAATGACAATAT
*
119368 TTGATGAAATTTAAAAATTA-AAACCCAATAAAAATCCCTCC
127 TTGATGAAATTTAAAAATTAGAAA-CCAAGAAAAATCCCTCC
* * *
119409 GAAAACATTTATAGAGTGGAAAACTCCTTATTTCGAAAATAGGGATAATTTTAAGAAAAAAATGA
1 GAAAACATTTATGGAGTAGAAAACTCATTATTTCGAAAATAGGGATAATTTTAAGAAAAAAATGA
* * * * * * *
119474 AAAACTCATGAATATGAATGAATATTTGAAAACTAATTTAATATGAATTAAATGATAATATTTGA
66 AAAACTCATAAAGATAAATGAATATTTCAAAACTAATCTAATATGAAATAAATGACAATATTTGA
* **
119539 TGAATTTTAAAAATTAGAAACTGAGAAAAATCCCTCC
131 TGAAATTTAAAAATTAGAAACCAAGAAAAATCCCTCC
* * *
119576 AAAAACATTTGTGGAGTCGAAAACTC-TGTATTTCGAAAA
1 GAAAACATTTATGGAGTAGAAAACTCAT-TATTTCGAAAA
119615 CAATAATAAT
Statistics
Matches: 170, Mismatches: 28, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
164 2 0.01
165 31 0.18
166 11 0.06
167 121 0.71
168 5 0.03
ACGTcount: A:0.48, C:0.09, G:0.12, T:0.31
Consensus pattern (167 bp):
GAAAACATTTATGGAGTAGAAAACTCATTATTTCGAAAATAGGGATAATTTTAAGAAAAAAATGA
AAAACTCATAAAGATAAATGAATATTTCAAAACTAATCTAATATGAAATAAATGACAATATTTGA
TGAAATTTAAAAATTAGAAACCAAGAAAAATCCCTCC
Found at i:129221 original size:13 final size:13
Alignment explanation
Indices: 129203--129228 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
129193 CAATTTTTTG
129203 TGTATCGATACAT
1 TGTATCGATACAT
129216 TGTATCGATACAT
1 TGTATCGATACAT
129229 ACTTGCTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:133899 original size:15 final size:15
Alignment explanation
Indices: 133879--133909 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
133869 ATTTCGTTTG
*
133879 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
133894 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
133909 G
1 G
133910 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:144347 original size:20 final size:23
Alignment explanation
Indices: 144324--144374 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
144314 AGAAATTTAT
144324 CGATACATTA-TTA-AA-TGTAC
1 CGATACATTATTTACAATTGTAC
*
144344 CGATACA-TATTTACAATTGTAT
1 CGATACATTATTTACAATTGTAC
144366 CGATACATT
1 CGATACATT
144375 TCTCATTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 2 0.08
20 10 0.38
21 2 0.08
22 11 0.42
23 1 0.04
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.37
Consensus pattern (23 bp):
CGATACATTATTTACAATTGTAC
Found at i:144369 original size:22 final size:21
Alignment explanation
Indices: 144317--144394 Score: 76
Period size: 20 Copynumber: 3.8 Consensus size: 21
144307 CTGCTAAAGA
144317 AATT-TATCGATACATTATTA-
1 AATTGTATCGATACATT-TTAC
*
144337 AA-TGTACCGATACATATTTAC
1 AATTGTATCGATACAT-TTTAC
144358 AATTGTATCGATACATTTCT-C
1 AATTGTATCGATACATTT-TAC
*
144379 -ATTGTATCGATGCATT
1 AATTGTATCGATACATT
144395 ATGGGCTTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
19 1 0.02
20 30 0.60
21 6 0.12
22 13 0.26
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.41
Consensus pattern (21 bp):
AATTGTATCGATACATTTTAC
Found at i:155525 original size:187 final size:187
Alignment explanation
Indices: 155275--155627 Score: 411
Period size: 187 Copynumber: 1.9 Consensus size: 187
155265 TTTGTTTTAT
* * * **** *
155275 TGTATTGGCGTTAAGACCTGGTTAAACACTTTTCACCCTCGTTTGACTATATTGGTGTTAGGACT
1 TGTATTGGCATTAAGACCTGGTCAAACACTTTTCACCCTCGTTTGACTATACTAACATTAGGACC
* * * * * * **
155340 TGCTTAAATTCTTTTCGCCCTCGTTTAACTGTATTGATGTTATGACCTGGTCAAACTCTTTTTGC
66 TGCTCAAACTCTTTTCACCATCGTTTAACTATATTGATGTTAGGACCTGGTCAAACTCTTTTCAC
* * *
155405 CCTTGTTTGGCTGTATTGGTGTTAGGTTCTGGTCAAATTCATTTCACCCTCATTTGAC
131 CATTGTTTGACTGTATTAGTGTTA-GTTCTGGTCAAATTCATTTCACCCTCATTTGAC
* * *
155463 TGTATT-GCATTAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTATACTAACATTAGGACC
1 TGTATTGGCATTAAGACCTGGTCAAACACTTTTCACCCTCGTTTGACTATACTAACATTAGGACC
* * * ** * * *
155527 TGGTCAAACTCTTTTCATCATTGTTTGGCTATATTGGTGTTAGGACCTTGTCAAACTCTTTTCAT
66 TGCTCAAACTCTTTTCACCATCGTTTAACTATATTGATGTTAGGACCTGGTCAAACTCTTTTCAC
*
155592 CATTGTTTGACTGTATTAGTGTTAGTTTTGGTCAAA
131 CATTGTTTGACTGTATTAGTGTTAGTTCTGGTCAAA
155628 CTTTTGTCAT
Statistics
Matches: 134, Mismatches: 31, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
186 11 0.08
187 117 0.87
188 6 0.04
ACGTcount: A:0.20, C:0.20, G:0.18, T:0.42
Consensus pattern (187 bp):
TGTATTGGCATTAAGACCTGGTCAAACACTTTTCACCCTCGTTTGACTATACTAACATTAGGACC
TGCTCAAACTCTTTTCACCATCGTTTAACTATATTGATGTTAGGACCTGGTCAAACTCTTTTCAC
CATTGTTTGACTGTATTAGTGTTAGTTCTGGTCAAATTCATTTCACCCTCATTTGAC
Found at i:155614 original size:47 final size:47
Alignment explanation
Indices: 155192--155616 Score: 325
Period size: 47 Copynumber: 9.1 Consensus size: 47
155182 GCATTGGCGA
* * * * * **
155192 TAGGACCCTGTCAAACTCTTTTCATCCTCATTTGATTGTATTTGCAT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * * * * * *
155239 TAGGA-TTTGGTTAAACTCTTTTCACCTTTGTTTTATTGTATTGGCGT
1 TAGGACCTT-GTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * * * *
155286 TAAGACCTGGTTAAACACTTTTCACCCTCGTTTGACTATATTGGTGT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * * * *
155333 TAGGA-CTTGCTTAAATTCTTTTCGCCCTCGTTTAACTGTATTGATGT
1 TAGGACCTTG-TCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * ** * *
155380 TATGACCTGGTCAAACTCTTTTTGCCCTTGTTTGGCTGTATTGGTGT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
** * * * * **
155427 TAGGTTCTGGTCAAATTCATTTCACCCTCATTTGACTGTATT-GCAT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * ****
155473 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTATACTAACAT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * * * * *
155520 TAGGACCTGGTCAAACTCTTTTCATCATTGTTTGGCTATATTGGTGT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
* * * *
155567 TAGGACCTTGTCAAACTCTTTTCATCATTGTTTGACTGTATTAGTGT
1 TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
155614 TAG
1 TAG
155617 TTTTGGTCAA
Statistics
Matches: 301, Mismatches: 72, Indels: 10
0.79 0.19 0.03
Matches are distributed among these distances:
46 40 0.13
47 257 0.85
48 4 0.01
ACGTcount: A:0.20, C:0.20, G:0.17, T:0.43
Consensus pattern (47 bp):
TAGGACCTTGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGGTGT
Found at i:155626 original size:140 final size:140
Alignment explanation
Indices: 155201--155653 Score: 399
Period size: 140 Copynumber: 3.2 Consensus size: 140
155191 ATAGGACCCT
* * * ** ** * *
155201 GTCAAACTCTTTTCATCCTCATTTGATTGTATTTGCATTAGGATTTGGTTAAACTCTTTTCACCT
1 GTCAAACTCTTTTCACCCTCATTTGACTATATTAACATTAGGACCTGGTCAAACTCTTTTCACCA
*** * * * * *
155266 TTGTTTTATTGTATTGGCGTTAAGACCTGGTTAAACACTTTTCACCCTCGTTTGACTATATTGGT
66 TTGTTTGGCTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATT-GT
155331 GTTAGGACTTG
130 GTTAGGACTTG
* * * * * * * * ** * ** *
155342 CTTAAATTCTTTTCGCCCTCGTTTAACTGTATTGATGTTATGACCTGGTCAAACTCTTTTTGCCC
1 GTCAAACTCTTTTCACCCTCATTTGACTATATTAACATTAGGACCTGGTCAAACTCTTTTCACCA
** * * * **
155407 TTGTTTGGCTGTATTGGTGTTAGGTTCTGGTCAAATTCATTTCACCCTCATTTGACTGTATTGCA
66 TTGTTTGGCTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGTG
155472 TTAGGACCTT-
131 TTAGGA-CTTG
* * *
155482 GTCAAACTCTTTTCACCCTCGTTTGACTATACTAACATTAGGACCTGGTCAAACTCTTTTCATCA
1 GTCAAACTCTTTTCACCCTCATTTGACTATATTAACATTAGGACCTGGTCAAACTCTTTTCACCA
* * * * *
155547 TTGTTTGGCTATATTGGTGTTAGGACCTTGTCAAACTCTTTTCATCATTGTTTGACTGTATTAGT
66 TTGTTTGGCTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATT-GT
**
155612 GTTA-GTTTTG
130 GTTAGGACTTG
* *
155622 GTCAAACT-TTTGTCATCCTTATTTGACTATAT
1 GTCAAACTCTTT-TCACCCTCATTTGACTATAT
155654 CGATTATCAC
Statistics
Matches: 241, Mismatches: 67, Indels: 9
0.76 0.21 0.03
Matches are distributed among these distances:
139 5 0.02
140 134 0.56
141 102 0.42
ACGTcount: A:0.20, C:0.19, G:0.17, T:0.44
Consensus pattern (140 bp):
GTCAAACTCTTTTCACCCTCATTTGACTATATTAACATTAGGACCTGGTCAAACTCTTTTCACCA
TTGTTTGGCTGTATTGGTGTTAGGACCTGGTCAAACTCTTTTCACCCTCGTTTGACTGTATTGTG
TTAGGACTTG
Found at i:155792 original size:42 final size:43
Alignment explanation
Indices: 155746--155877 Score: 137
Period size: 43 Copynumber: 3.1 Consensus size: 43
155736 ATCAGTTAAG
*
155746 TTTTTTATCCTTTGTTGACTTGTCGGTTCAATC-CCATCAACC
1 TTTTTTATCCTTTGTTGACTTGTCGGTTCAATCTCGATCAACC
* * * * *
155788 TTTTTTATCCTTTGTTTACCTGTCAGCTT-AGTCTCGAGTAAATCC
1 TTTTTTATCCTTTGTTGACTTGTC-GGTTCAATCTCGA-TCAA-CC
* *
155833 --TTTTATCCTTTATTGACTTGTTGGTTCAATCTCGATCAACC
1 TTTTTTATCCTTTGTTGACTTGTCGGTTCAATCTCGATCAACC
155874 TTTT
1 TTTT
155878 CATCTTTATT
Statistics
Matches: 70, Mismatches: 13, Indels: 13
0.73 0.14 0.14
Matches are distributed among these distances:
41 2 0.03
42 31 0.44
43 32 0.46
44 3 0.04
45 2 0.03
ACGTcount: A:0.17, C:0.23, G:0.12, T:0.48
Consensus pattern (43 bp):
TTTTTTATCCTTTGTTGACTTGTCGGTTCAATCTCGATCAACC
Found at i:155933 original size:84 final size:85
Alignment explanation
Indices: 155748--155933 Score: 209
Period size: 84 Copynumber: 2.2 Consensus size: 85
155738 CAGTTAAGTT
* * * *
155748 TTTTATCCTTTGTTGACTTGTCGGTTCAATCCCATCAACCTTTTTTATCCTTTGTTTACCTGTCA
1 TTTTATACTTTGTTGACTTGTCGGTTCAATCCCATCAACCTTTTTCATCCTTTATTTACCTATCA
*
155813 GCTTAGTCTCGAGTAAATCC
66 GCTTAGTCTCAAGTAAATCC
* * * * *
155833 TTTTATCCTTTATTGACTTGTTGGTTCAATCTCGATCAACC-TTTTCAT-CTTTATTTACCTATT
1 TTTTATACTTTGTTGACTTGTCGGTTCAATC-CCATCAACCTTTTTCATCCTTTATTTACCTATC
* *
155896 GGTTTAGTCTCAAGT-AA-CC
65 AGCTTAGTCTCAAGTAAATCC
155915 TCTTTCATACTTTGTTGAC
1 T-TTT-ATACTTTGTTGAC
155934 CTGACTGCTT
Statistics
Matches: 86, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
82 3 0.03
83 5 0.06
84 35 0.41
85 35 0.41
86 8 0.09
ACGTcount: A:0.19, C:0.23, G:0.12, T:0.47
Consensus pattern (85 bp):
TTTTATACTTTGTTGACTTGTCGGTTCAATCCCATCAACCTTTTTCATCCTTTATTTACCTATCA
GCTTAGTCTCAAGTAAATCC
Found at i:159081 original size:143 final size:142
Alignment explanation
Indices: 158877--159258 Score: 475
Period size: 141 Copynumber: 2.7 Consensus size: 142
158867 GTATCCATGG
* * * * * *
158877 GGGTATGAAAATTTTCAAATCTTTTCGTATCATTTCGGTTGTCCATTAAGGTACAAAATGAATTT
1 GGGTATAAAAATCTTCAAAACTTTTCGTATCTTTTCGATTCTCCATTAAGGTACAAAATGAA-TT
*
158942 TTTTTGAAAACTAAAAATTAAATGAAAATTATTT-TCTTAATTTTTCAAAATTTCTAATATTCCT
65 TTTTTGAAAATTAAAAATTAAAT-AAAATTATTTCTCTTAATTTTTCAAAATTTCTAATATTCCT
* *
159006 ATGATTTTTCGTAG
129 ATGATTTTCCGTAA
* * * * *
159020 GGGTATAGAGATCTTCACAACTTTTCGTATCTTTTCGATTCCCCATTAAGGTACGAAATGAATTT
1 GGGTATAAAAATCTTCAAAACTTTTCGTATCTTTTCGATTCTCCATTAAGGTACAAAATGAATTT
* * **
159085 TTTTGAAAATTAAAAATTAAATAAAATT-TTTCTCTTGATTTTTCAAAATTTTTAATATTTTTAT
66 TTTTGAAAATTAAAAATTAAATAAAATTATTTCTCTTAATTTTTCAAAATTTCTAATATTCCTAT
*
159149 GGTTTTCCGTAA
131 GATTTTCCGTAA
* ** *
159161 GGTTATAAAAATCTTCAAAACTTTTCTGTATCTCTTT-GATTCTTGATTAAGGTACAAAATCAA-
1 GGGTATAAAAATCTTCAAAACTTTTC-GTATCT-TTTCGATTCTCCATTAAGGTACAAAATGAAT
159224 TTTTTTGAAAATTAAAAAATTAAATAAAAATTATT
64 TTTTTTGAAAATT-AAAAATTAAAT-AAAATTATT
159259 AATCATTTTT
Statistics
Matches: 205, Mismatches: 28, Indels: 11
0.84 0.11 0.05
Matches are distributed among these distances:
140 3 0.01
141 78 0.38
142 62 0.30
143 60 0.29
144 2 0.01
ACGTcount: A:0.35, C:0.11, G:0.10, T:0.43
Consensus pattern (142 bp):
GGGTATAAAAATCTTCAAAACTTTTCGTATCTTTTCGATTCTCCATTAAGGTACAAAATGAATTT
TTTTGAAAATTAAAAATTAAATAAAATTATTTCTCTTAATTTTTCAAAATTTCTAATATTCCTAT
GATTTTCCGTAA
Found at i:160225 original size:33 final size:33
Alignment explanation
Indices: 160181--160245 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
160171 TACCACTGTT
* * *
160181 TGTATCGATACATGGT-ACATTGTATCGATACAA
1 TGTATCAATACATGATGA-ATTGTATCAATACAA
160214 TGTATCAATACATGATGAATTGTATCAATACA
1 TGTATCAATACATGATGAATTGTATCAATACA
160246 TTCCTTCAAC
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.37, C:0.14, G:0.15, T:0.34
Consensus pattern (33 bp):
TGTATCAATACATGATGAATTGTATCAATACAA
Found at i:161846 original size:9 final size:9
Alignment explanation
Indices: 161818--161851 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
161808 GTCAACCATC
161818 AATGATGAT
1 AATGATGAT
* *
161827 AAAGATAAT
1 AATGATGAT
161836 AATGATGAT
1 AATGATGAT
161845 AATGATG
1 AATGATG
161852 GTGACTCGAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.50, C:0.00, G:0.21, T:0.29
Consensus pattern (9 bp):
AATGATGAT
Found at i:166390 original size:21 final size:22
Alignment explanation
Indices: 166366--166415 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
166356 ATCAAATCTT
* *
166366 CTTCAAATTTCTT-ATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
166387 CTTCAAAATACTTCATTTTTCA
1 CTTCAAAATACTTCATTTTTCA
166409 --TCAAAAT
1 CTTCAAAAT
166416 CATCAACAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 11 0.42
22 8 0.31
ACGTcount: A:0.32, C:0.20, G:0.00, T:0.48
Consensus pattern (22 bp):
CTTCAAAATACTTCATTTTTCA
Found at i:168113 original size:23 final size:23
Alignment explanation
Indices: 168076--168127 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
168066 TCAAAATAAA
* * *
168076 TTTTTATTAAGGGGGAGAAATTC
1 TTTTTATCAAAGGGGAGAAAATC
168099 TTTTTATCAAAGGGGAGAAAATC
1 TTTTTATCAAAGGGGAGAAAATC
168122 TTTTTA
1 TTTTTA
168128 ACCGATTATC
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.21, T:0.40
Consensus pattern (23 bp):
TTTTTATCAAAGGGGAGAAAATC
Found at i:168786 original size:32 final size:33
Alignment explanation
Indices: 168728--168790 Score: 94
Period size: 32 Copynumber: 1.9 Consensus size: 33
168718 CACCCAGATG
*
168728 TATCGATACATTATGCTTTGTATCGATACATTA
1 TATCGATACATTATGCATTGTATCGATACATTA
168761 TATCGATACATGT-T-CATTGTATCGATACAT
1 TATCGATACAT-TATGCATTGTATCGATACAT
168791 GGACAATTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 15 0.54
33 12 0.43
34 1 0.04
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (33 bp):
TATCGATACATTATGCATTGTATCGATACATTA
Found at i:168801 original size:20 final size:19
Alignment explanation
Indices: 168755--168811 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
168745 TTGTATCGAT
* *
168755 ACATTATATCGATACATGT
1 ACATTGTATCGATACATGG
*
168774 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
*
168793 ACAATTGTATCAATACATG
1 AC-ATTGTATCGATACATG
168812 AAATTGGTAG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.35, C:0.16, G:0.14, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:175081 original size:32 final size:30
Alignment explanation
Indices: 175035--175105 Score: 81
Period size: 31 Copynumber: 2.3 Consensus size: 30
175025 CACTAGGGTC
* *
175035 AAACCTA-AAGTCAAAGAGGTTGACCAAGGT
1 AAACCTATTAGTCAAA-AGGGTGACCAAGGT
*
175065 GAAACCTATTAGTCAAAAGGGTGACCAGGGT
1 -AAACCTATTAGTCAAAAGGGTGACCAAGGT
*
175096 AAACTTATTA
1 AAACCTATTA
175106 CTCGATAAGA
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 9 0.26
31 19 0.54
32 7 0.20
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (30 bp):
AAACCTATTAGTCAAAAGGGTGACCAAGGT
Found at i:176610 original size:44 final size:43
Alignment explanation
Indices: 176463--176620 Score: 138
Period size: 44 Copynumber: 3.6 Consensus size: 43
176453 GTGCAGATGT
** *
176463 ATGTGAAATGATGCAAATGCAAATGTCAGTAAAGAAGTAAATGC
1 ATGTGAAACAATGCAAATGC-AATGTCAGTAAAGAGGTAAATGC
* * * * * *
176507 TTGTGAAACAATGCAAATTCCAATGCCATTTAATG-GTGTAGATGC
1 ATGTGAAACAATGCAAA-TGCAATGTCA-GTAAAGAG-GTAAATGC
* * *
176552 ATGTGAAACGATGCAAATGCAAGTGTTAGTGAAGAGGTAAATGC
1 ATGTGAAACAATGCAAATGCAA-TGTCAGTAAAGAGGTAAATGC
*
176596 ATGTGAAATAATGCAAATGCCAATG
1 ATGTGAAACAATGCAAATG-CAATG
176621 CATCTAATGG
Statistics
Matches: 88, Mismatches: 20, Indels: 12
0.73 0.17 0.10
Matches are distributed among these distances:
44 53 0.60
45 35 0.40
ACGTcount: A:0.40, C:0.11, G:0.23, T:0.25
Consensus pattern (43 bp):
ATGTGAAACAATGCAAATGCAATGTCAGTAAAGAGGTAAATGC
Found at i:176671 original size:88 final size:89
Alignment explanation
Indices: 176448--176695 Score: 320
Period size: 89 Copynumber: 2.8 Consensus size: 89
176438 CAAGTATTGG
* * * *
176448 TAATGGTGCAGATGTATGTGAAATGATGCAAATGCAAATGTCAGTAAAGAAGTAAATGCTTGTGA
1 TAATGGTGCAGATGTATGTGAAATGATGCAAATGCAAGTGTCAGTGAAGAGGTAAATGCATGTGA
* * *
176513 AACAATGCAAATTCCAATGCCATT
66 AATAATGCAAATGCCAATGCCATC
* * * *
176537 TAATGGTGTAGATGCATGTGAAACGATGCAAATGCAAGTGTTAGTGAAGAGGTAAATGCATGTGA
1 TAATGGTGCAGATGTATGTGAAATGATGCAAATGCAAGTGTCAGTGAAGAGGTAAATGCATGTGA
176602 AATAATGCAAATGCCAATG-CATC
66 AATAATGCAAATGCCAATGCCATC
* * * * * * *
176625 TAATGGTGCAGAAGTATATGAAATAATGCAAATACAAGTATCAGTGAAGAGGAAAATGCATG-AA
1 TAATGGTGCAGATGTATGTGAAATGATGCAAATGCAAGTGTCAGTGAAGAGGTAAATGCATGTGA
176689 AATAATG
66 AATAATG
176696 TAGATGCAAA
Statistics
Matches: 137, Mismatches: 22, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
87 8 0.06
88 55 0.40
89 74 0.54
ACGTcount: A:0.41, C:0.10, G:0.23, T:0.25
Consensus pattern (89 bp):
TAATGGTGCAGATGTATGTGAAATGATGCAAATGCAAGTGTCAGTGAAGAGGTAAATGCATGTGA
AATAATGCAAATGCCAATGCCATC
Found at i:181224 original size:17 final size:16
Alignment explanation
Indices: 181202--181233 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
181192 TGTATTACAA
181202 AATGCATGTCATGAATC
1 AATGCATGT-ATGAATC
181219 AATGCATGTATGAAT
1 AATGCATGTATGAAT
181234 GCACATAGAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.38, C:0.12, G:0.19, T:0.31
Consensus pattern (16 bp):
AATGCATGTATGAATC
Found at i:183709 original size:32 final size:30
Alignment explanation
Indices: 183673--183731 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
183663 GAAATCAAAT
183673 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
183705 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
183732 CTTTGATCTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:185791 original size:15 final size:15
Alignment explanation
Indices: 185771--185801 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
185761 ATTTCGTTTG
*
185771 GAGCTTCTTCATTTT
1 GAGCTTCCTCATTTT
185786 GAGCTTCCTCATTTT
1 GAGCTTCCTCATTTT
185801 G
1 G
185802 GACATTTTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.23, G:0.16, T:0.48
Consensus pattern (15 bp):
GAGCTTCCTCATTTT
Found at i:187633 original size:21 final size:21
Alignment explanation
Indices: 187604--187648 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
187594 AAGTTTTTAT
*
187604 TTTTCTTAGCTAAC-TCATTA
1 TTTTCTTAGCCAACTTCATTA
*
187624 TTTTCATTAGCCAACTTCTTTA
1 TTTTC-TTAGCCAACTTCATTA
187646 TTT
1 TTT
187649 CAACTTGCAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 8 0.38
22 8 0.38
ACGTcount: A:0.22, C:0.20, G:0.04, T:0.53
Consensus pattern (21 bp):
TTTTCTTAGCCAACTTCATTA
Found at i:189565 original size:32 final size:30
Alignment explanation
Indices: 189529--189587 Score: 75
Period size: 32 Copynumber: 1.9 Consensus size: 30
189519 GAAATCAAAT
189529 ACAAAGAGCT-TAGAAAAATAATAACAATATGA
1 ACAAA-AGCTCTAGAAAAAT-ATAA-AATATGA
*
189561 ACAAAAGCTCTTGAAAAATATAAAATA
1 ACAAAAGCTCTAGAAAAATATAAAATA
189588 CTTTGATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
30 4 0.16
31 8 0.32
32 13 0.52
ACGTcount: A:0.59, C:0.10, G:0.10, T:0.20
Consensus pattern (30 bp):
ACAAAAGCTCTAGAAAAATATAAAATATGA
Found at i:192964 original size:10 final size:10
Alignment explanation
Indices: 192926--192963 Score: 58
Period size: 10 Copynumber: 3.8 Consensus size: 10
192916 TTGATACATT
192926 ACTGTTCACC
1 ACTGTTCACC
192936 ACTGTTCACC
1 ACTGTTCACC
*
192946 ACTGTTCATC
1 ACTGTTCACC
*
192956 ATTGTTCA
1 ACTGTTCA
192964 TGTATCGATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 26 1.00
ACGTcount: A:0.21, C:0.32, G:0.11, T:0.37
Consensus pattern (10 bp):
ACTGTTCACC
Found at i:192981 original size:13 final size:13
Alignment explanation
Indices: 192963--192988 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
192953 ATCATTGTTC
192963 ATGTATCGATACA
1 ATGTATCGATACA
192976 ATGTATCGATACA
1 ATGTATCGATACA
192989 TATGAATAGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:195091 original size:21 final size:21
Alignment explanation
Indices: 195067--195122 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
195057 AATATTCTTA
* *
195067 AAAAGAAATTAAATGAATTAG
1 AAAAGAAAATAAATAAATTAG
195088 AAAAGAAAATAAATAAATTAG
1 AAAAGAAAATAAATAAATTAG
* *
195109 AAGAGAAAAGAAAT
1 AAAAGAAAATAAAT
195123 GAGTTGCAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.14, T:0.18
Consensus pattern (21 bp):
AAAAGAAAATAAATAAATTAG
Found at i:197198 original size:20 final size:21
Alignment explanation
Indices: 197173--197217 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
197163 AATAAATTCA
197173 TGCTTTCATGAA-GTTATGT-T
1 TGCTTTCATGAATGTT-TGTCT
*
197193 TGCTTTTATGAATGTTTGTCT
1 TGCTTTCATGAATGTTTGTCT
197214 TGCT
1 TGCT
197218 ATTTTCTACA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 14 0.64
21 8 0.36
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.53
Consensus pattern (21 bp):
TGCTTTCATGAATGTTTGTCT
Found at i:198263 original size:21 final size:21
Alignment explanation
Indices: 198239--198279 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
198229 TTAAGTATAA
198239 ATAT-TTTTCAACTAATAAATC
1 ATATGTTTTCAACTAA-AAATC
*
198260 ATATGTTTTCAAGTAAAAAT
1 ATATGTTTTCAACTAAAAAT
198280 AATCTAAAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (21 bp):
ATATGTTTTCAACTAAAAATC
Found at i:198423 original size:33 final size:32
Alignment explanation
Indices: 198381--198443 Score: 90
Period size: 32 Copynumber: 1.9 Consensus size: 32
198371 CACCCAGATG
198381 TATCGATACATATTGCTTAGTATCGACACATTA
1 TATCGATACATATT-CTTAGTATCGACACATTA
* * *
198414 TATCGATACATGTTCTTGGTATCGATACAT
1 TATCGATACATATTCTTAGTATCGACACAT
198444 CATGAATTGT
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.38
Consensus pattern (32 bp):
TATCGATACATATTCTTAGTATCGACACATTA
Found at i:198580 original size:13 final size:13
Alignment explanation
Indices: 198562--198602 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
198552 TCATTGTTCA
198562 TGTATCGATACAT
1 TGTATCGATACAT
* *
198575 TGTATCGACACAC
1 TGTATCGATACAT
*
198588 TGTATCAATACAT
1 TGTATCGATACAT
198601 TG
1 TG
198603 AGCCCAACGG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:202164 original size:13 final size:13
Alignment explanation
Indices: 202146--202170 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
202136 ACAATGAACA
202146 TGTATCGATACAT
1 TGTATCGATACAT
202159 TGTATCGATACA
1 TGTATCGATACA
202171 AAGCATAATG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:205269 original size:131 final size:129
Alignment explanation
Indices: 205067--205470 Score: 537
Period size: 129 Copynumber: 3.1 Consensus size: 129
205057 TTCATCTCAA
* * *
205067 GGATACTCCAACCCCAGTTTTATTTCCT-AAGCATCAATTTTC-CATAATCGGGGATACTCCAAT
1 GGATACTCCAA-CCCAATTTTATTT-CTAAAACACCAATTTTCACA-AATCGGGGATACTCCAAT
* *
205130 CCCCTTATTTTCAAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
63 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
205195 GG
128 GG
205197 GGATACTCCAACCTCAATTTTATTTCTAAAACACCAATCTTTTCACAAAT-GGGGATACTCCAAT
1 GGATACTCCAACC-CAATTTTATTTCTAAAACACCAA--TTTTCACAAATCGGGGATACTCCAAT
*
205261 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
63 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
205326 GG
128 GG
* * * *
205328 GGATACTCCAACCCTATTTAATTTCTAAAACACTAAGTTTTCA-TAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCAATTTTATTTCTAAAACACCAA-TTTTCACAAATCGGGGATACTCCAATCC
* * * ** ** *
205392 CGTTATTTTCGCGGGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCAATTTTTCACAATCGG
65 CGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGG
* *
205457 GGACATTCCAACCC
1 GGATACTCCAACCC
205471 TGTTATTTTC
Statistics
Matches: 246, Mismatches: 22, Indels: 13
0.88 0.08 0.05
Matches are distributed among these distances:
128 3 0.01
129 94 0.38
130 48 0.20
131 91 0.37
132 8 0.03
133 2 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (129 bp):
GGATACTCCAACCCAATTTTATTTCTAAAACACCAATTTTCACAAATCGGGGATACTCCAATCCC
GTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGG
Found at i:205338 original size:51 final size:51
Alignment explanation
Indices: 205275--205393 Score: 136
Period size: 50 Copynumber: 2.3 Consensus size: 51
205265 TTATTTCCGA
* * * *
205275 GGGGATACTCCAACCCCGGCTTT-ATTTCTAAAATATTGA-TTTCTCACAATC
1 GGGGATACTCCAA-CCCGGATTTAATTTCTAAAACACTAAGTTT-TCACAATC
* *
205326 GGGGATACTCCAACCC-TATTTAATTTCTAAAACACTAAGTTTTCATAATC
1 GGGGATACTCCAACCCGGATTTAATTTCTAAAACACTAAGTTTTCACAATC
205376 GGGGATACTCCAATCCCG
1 GGGGATACTCCAA-CCCG
205394 TTATTTTCGC
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
49 3 0.05
50 36 0.62
51 19 0.33
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCGGATTTAATTTCTAAAACACTAAGTTTTCACAATC
Found at i:205415 original size:78 final size:75
Alignment explanation
Indices: 205325--205545 Score: 212
Period size: 79 Copynumber: 2.8 Consensus size: 75
205315 TTCTCACAAT
*
205325 CGGGGATACTCCAACCCTATTTAATTTCTAAAACACTAAGTTTTCATAATCGGGGATACTCCAAT
1 CGGGGATACTCCAACCCGATTT-ATTTCTAAAACA-TAA-TTTTCATAATCGGGGATACTCCAA-
205390 CCC-GTTATTTTCG
62 CCCTGTTATTTTCG
** * * * *
205403 CGGGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCAATTTTTCACAATCGGGGACATTCCAA
1 CGGGGATACTCCAACC-C-GATTTATTTCTAAAACAT-AA-TTTTCATAATCGGGGATACTCCAA
205468 CCCTGTTATTTTCG
62 CCCTGTTATTTTCG
* * * *
205482 AGGGAATACTTCAACCCCGATTTTATTT-TCAAAACATTAATTTTCTATAATCAGGGATACTCCA
1 CGGGGATACTCCAA-CCCGA-TTTATTTCT-AAAACA-TAATTTTC-ATAATCGGGGATACTCCA
205546 GCCCCGTTGT
Statistics
Matches: 116, Mismatches: 18, Indels: 17
0.77 0.12 0.11
Matches are distributed among these distances:
78 27 0.23
79 84 0.72
80 5 0.04
ACGTcount: A:0.29, C:0.24, G:0.14, T:0.33
Consensus pattern (75 bp):
CGGGGATACTCCAACCCGATTTATTTCTAAAACATAATTTTCATAATCGGGGATACTCCAACCCT
GTTATTTTCG
Found at i:205457 original size:129 final size:130
Alignment explanation
Indices: 205067--205471 Score: 539
Period size: 131 Copynumber: 3.1 Consensus size: 130
205057 TTCATCTCAA
* * * * *
205067 GGATACTCCAACCCCAGTTTTATTTCCT-AAGCATCAAT-TTTCCATAATCGGGGATACTCCAAT
1 GGATACTCCAACCCTA-TTTAATTT-CTAAAACACCAATCTTTTCATAATCGGGGATACTCCAAT
* *
205130 CCCCTTATTTTCAAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
64 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
205195 GG
129 GG
* * *
205197 GGATACTCCAACCTCAATTTTATTTCTAAAACACCAATCTTTTCACAAAT-GGGGATACTCCAAT
1 GGATACTCCAACC-CTATTTAATTTCTAAAACACCAATCTTTTCA-TAATCGGGGATACTCCAAT
*
205261 CCCGTTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
64 CCCGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATC
205326 GG
129 GG
* *
205328 GGATACTCCAACCCTATTTAATTTCTAAAACACTAA-GTTTTCATAATCGGGGATACTCCAATCC
1 GGATACTCCAACCCTATTTAATTTCTAAAACACCAATCTTTTCATAATCGGGGATACTCCAATCC
* * * ** ** *
205392 CGTTATTTTCGCGGGGATACTCCAACCTCGGCCTTATTTCTAAAGCATCAATTTTTCACAATCGG
66 CGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGG
* *
205457 GGACATTCCAACCCT
1 GGATACTCCAACCCT
205472 GTTATTTTCG
Statistics
Matches: 246, Mismatches: 24, Indels: 11
0.88 0.09 0.04
Matches are distributed among these distances:
128 3 0.01
129 93 0.38
130 49 0.20
131 98 0.40
132 3 0.01
ACGTcount: A:0.28, C:0.27, G:0.13, T:0.32
Consensus pattern (130 bp):
GGATACTCCAACCCTATTTAATTTCTAAAACACCAATCTTTTCATAATCGGGGATACTCCAATCC
CGTTATTTTCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAATATTGATTTCTCACAATCGG
Found at i:210581 original size:18 final size:18
Alignment explanation
Indices: 210560--210595 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
210550 CATCCGAGTC
210560 ACCATCATCATCATCATT
1 ACCATCATCATCATCATT
*
210578 ACCATCTTCATCATCATT
1 ACCATCATCATCATCATT
210596 GATGGTTGAC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.36
Consensus pattern (18 bp):
ACCATCATCATCATCATT
Found at i:213118 original size:21 final size:21
Alignment explanation
Indices: 213085--213125 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
213075 CTAAGTAAAA
213085 ATACATATTGTATCAATACAT
1 ATACATATTGTATCAATACAT
*
213106 ATAC-TATTGGTATTAATACA
1 ATACATATT-GTATCAATACA
213126 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACATATTGTATCAATACAT
Found at i:213190 original size:20 final size:20
Alignment explanation
Indices: 213164--213217 Score: 65
Period size: 20 Copynumber: 2.7 Consensus size: 20
213154 AACCCTGAAA
213164 AGTATCGATACACATTTAAAT
1 AGTATCGATACACA-TTAAAT
* **
213185 -GTATCGATACAGATTGCAT
1 AGTATCGATACACATTAAAT
213204 AGTATCGATACACA
1 AGTATCGATACACA
213218 CAAATATGTG
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
19 4 0.14
20 24 0.86
ACGTcount: A:0.39, C:0.17, G:0.15, T:0.30
Consensus pattern (20 bp):
AGTATCGATACACATTAAAT
Found at i:213296 original size:53 final size:53
Alignment explanation
Indices: 213206--213341 Score: 209
Period size: 53 Copynumber: 2.5 Consensus size: 53
213196 GATTGCATAG
* *
213206 TATCGATACACACAAATATGTGTCAATACAGGACATTGGCAGTAGCCAAATTTC
1 TATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTC
* * *
213260 TATCGATACACACAATATGTATCGATACAGGTCATTGGTAGTAGCCAAATTTG
1 TATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTC
*
213313 TATCGATACACAAAATATGTATCGATACA
1 TATCGATACACACAATATGTATCGATACA
213342 TTGGAAGTAG
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
53 63 0.83
54 13 0.17
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.28
Consensus pattern (53 bp):
TATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTTC
Found at i:213384 original size:10 final size:10
Alignment explanation
Indices: 213365--213395 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
213355 AATCTCATTT
213365 TCACTGTTCA
1 TCACTGTTCA
*
213375 TCACTATTCA
1 TCACTGTTCA
213385 TCACTGTTCA
1 TCACTGTTCA
213395 T
1 T
213396 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:213417 original size:21 final size:22
Alignment explanation
Indices: 213383--213459 Score: 140
Period size: 21 Copynumber: 3.6 Consensus size: 22
213373 CATCACTATT
213383 CATCACTGTTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
213405 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
213426 CATCACT-TTCATGTATCGATA
1 CATCACTGTTCATGTATCGATA
213447 CATCACTGTTCAT
1 CATCACTGTTCAT
213460 AGATCACTGT
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
21 42 0.78
22 12 0.22
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (22 bp):
CATCACTGTTCATGTATCGATA
Found at i:214416 original size:11 final size:11
Alignment explanation
Indices: 214400--214425 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
214390 ATAAAGAAAG
214400 AAAAAAACAAA
1 AAAAAAACAAA
214411 AAAAAAACAAA
1 AAAAAAACAAA
214422 AAAA
1 AAAA
214426 TGAAAAATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.92, C:0.08, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAACAAA
Done.