Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold64
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: 7997333
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 95991 characters in sequence are not A, C, G, or T
File 34 of 45
Found at i:5993143 original size:21 final size:20
Alignment explanation
Indices: 5993114--5993160 Score: 58
Period size: 21 Copynumber: 2.3 Consensus size: 20
5993104 TAAAAAACTT
5993114 TAAATATAAAAAAAGAAAAA
1 TAAATATAAAAAAAGAAAAA
* *
5993134 TAAATTATAAATAAAGACAAA
1 TAAA-TATAAAAAAAGAAAAA
*
5993155 TTAATA
1 TAAATA
5993161 AAGACAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.23
Consensus pattern (20 bp):
TAAATATAAAAAAAGAAAAA
Found at i:5993162 original size:14 final size:14
Alignment explanation
Indices: 5993143--5993170 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
5993133 ATAAATTATA
5993143 AATAAAGACAAATT
1 AATAAAGACAAATT
5993157 AATAAAGACAAATT
1 AATAAAGACAAATT
5993171 TTTGGTATTT
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:0.64, C:0.07, G:0.07, T:0.21
Consensus pattern (14 bp):
AATAAAGACAAATT
Found at i:5993314 original size:2 final size:2
Alignment explanation
Indices: 5993307--5993339 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
5993297 GATGATTTTA
5993307 AT AT AT AT 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 AT AT AT AT A
5993340 GATGAAAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5995955 original size:20 final size:20
Alignment explanation
Indices: 5995930--5996056 Score: 67
Period size: 20 Copynumber: 5.7 Consensus size: 20
5995920 TTGCCTGCTT
5995930 TGTATCGATACATTGAATAA
1 TGTATCGATACATTGAATAA
5995950 TGTATCGATACATCTTGGTAAAAAACCTAGA
1 TGTATCGATACA--TT-G-----AA--TA-A
*
5995981 TGTATCGATACAATG-ATAAA
1 TGTATCGATACATTGAAT-AA
* **
5996001 TGTATTGATACAATTTGAAGCA
1 TGTATCGATAC-A-TTGAATAA
* *
5996023 TGTATCGATACATTTATTAA
1 TGTATCGATACATTGAATAA
5996043 TGTATCGATACATT
1 TGTATCGATACATT
5996057 TCCTTGGCAG
Statistics
Matches: 82, Mismatches: 10, Indels: 30
0.67 0.08 0.25
Matches are distributed among these distances:
20 42 0.51
21 3 0.04
22 16 0.20
23 2 0.02
28 3 0.04
29 1 0.01
30 2 0.02
31 13 0.16
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (20 bp):
TGTATCGATACATTGAATAA
Found at i:5996057 original size:20 final size:20
Alignment explanation
Indices: 5995980--5996057 Score: 77
Period size: 20 Copynumber: 3.8 Consensus size: 20
5995970 AAAAACCTAG
* *
5995980 ATGTATCGATACAATGATAA
1 ATGTATCGATACATTTATAA
* *
5996000 ATGTATTGATACAATTTGA-AGC
1 ATGTATCGATAC-ATTT-ATA-A
*
5996022 ATGTATCGATACATTTATTA
1 ATGTATCGATACATTTATAA
5996042 ATGTATCGATACATTT
1 ATGTATCGATACATTT
5996058 CCTTGGCAGT
Statistics
Matches: 47, Mismatches: 7, Indels: 8
0.76 0.11 0.13
Matches are distributed among these distances:
20 28 0.60
21 7 0.15
22 12 0.26
ACGTcount: A:0.37, C:0.10, G:0.14, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACATTTATAA
Found at i:6000283 original size:20 final size:20
Alignment explanation
Indices: 6000253--6000307 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 20
6000243 AAATACCCAG
* *
6000253 ATGTTTCGATACATTTTTCA
1 ATGTATCGATACATTTATCA
* * *
6000273 ATGTATTGATACATGTATGA
1 ATGTATCGATACATTTATCA
6000293 ATGTATCGATACATT
1 ATGTATCGATACATT
6000308 CTGTCTTTTT
Statistics
Matches: 28, Mismatches: 7, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.31, C:0.11, G:0.15, T:0.44
Consensus pattern (20 bp):
ATGTATCGATACATTTATCA
Found at i:6001249 original size:20 final size:20
Alignment explanation
Indices: 6001213--6001250 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6001203 AGCCTTTGAC
**
6001213 CATGCATTTTTTTTATGTTT
1 CATGCATTTTTAATATGTTT
6001233 CATGCATTTTTAATATGT
1 CATGCATTTTTAATATGT
6001251 CCAGCATCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.21, C:0.11, G:0.11, T:0.58
Consensus pattern (20 bp):
CATGCATTTTTAATATGTTT
Found at i:6003798 original size:20 final size:20
Alignment explanation
Indices: 6003756--6003794 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
6003746 CGTGTAAATG
* *
6003756 TATCGATACAATTTTTGATA
1 TATCGATACAATATTTGAAA
6003776 TATCGATAC-ATATTTGAAA
1 TATCGATACAATATTTGAAA
6003795 ATATAGCCGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.41
Consensus pattern (20 bp):
TATCGATACAATATTTGAAA
Found at i:6003863 original size:13 final size:13
Alignment explanation
Indices: 6003845--6003870 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6003835 CAATTTTTTG
6003845 TGTATCGATACAT
1 TGTATCGATACAT
6003858 TGTATCGATACAT
1 TGTATCGATACAT
6003871 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:6012259 original size:79 final size:79
Alignment explanation
Indices: 6012124--6012685 Score: 804
Period size: 79 Copynumber: 7.1 Consensus size: 79
6012114 AACGAGGCTA
* * ** *
6012124 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCAGGGTTGTAGTATCCCTTCGA
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
6012189 AAATAACGGGGTTG
66 AAATAACGGGGTTG
6012203 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
* *
6012268 AAACAACAGGGTTG
66 AAATAACGGGGTTG
* * * *
6012282 GAGTATCCCTGATTACGAAAAATTGAAGTTTTAGAAATAAAACCGGGGTTAGAGTATCCCCGTGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
6012347 AAATAACGGGGTTG
66 AAATAACGGGGTTG
* * * * *
6012361 GAGTATCCCCGATTATGAAAAATTGATGTTTTAGAAATGAAACCGGGGCTGGAGTATCCCCACGA
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
6012426 AAATAACGGGGTTG
66 AAATAACGGGGTTG
* * *
6012440 GAGTATCCCCGATTATGAAAAATTGAAGTTTTAGAAATAAAACTGGGGTTGGAGTATCCCCGCGG
1 GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
*
6012505 AAACAACGGGGTTG
66 AAATAACGGGGTTG
* * * *
6012519 GAGTAT-CCTCGATTATGAGAAATTAATATTTTAGAAATAAAACCGGGGTTGCAGTATCCCCGCG
1 GAGTATCCCT-GATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCG
* *
6012583 GATACAACGGGGTTG
65 GAAATAACGGGGTTG
* * * * **
6012598 GAGTAT-CCTCGATTATGAGAAATTAATATTTTAGAAATAAAAGCGGGGTTGGAGTATCCCCTTG
1 GAGTATCCCT-GATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCG
6012662 GAAATAACGGGGTTG
65 GAAATAACGGGGTTG
6012677 GAGTATCCC
1 GAGTATCCC
6012686 CGATGATTAA
Statistics
Matches: 438, Mismatches: 43, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
78 2 0.00
79 434 0.99
80 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.26, T:0.26
Consensus pattern (79 bp):
GAGTATCCCTGATTATGAAAAATTGATGTTTTAGAAATAAAACCGGGGTTGGAGTATCCCCGCGG
AAATAACGGGGTTG
Found at i:6012704 original size:27 final size:29
Alignment explanation
Indices: 6012641--6012716 Score: 113
Period size: 27 Copynumber: 2.7 Consensus size: 29
6012631 GAAATAAAAG
*
6012641 CGGGGTTGGAGTATCCCC-TTGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGGAAATAA
*
6012669 CGGGGTTGGAGTATCCCCGAT-G-ATTAA
1 CGGGGTTGGAGTATCCCCGATGGAAATAA
6012696 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
6012717 TGTGAAAAAT
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
27 25 0.56
28 19 0.42
29 1 0.02
ACGTcount: A:0.21, C:0.20, G:0.34, T:0.25
Consensus pattern (29 bp):
CGGGGTTGGAGTATCCCCGATGGAAATAA
Found at i:6014184 original size:35 final size:35
Alignment explanation
Indices: 6014129--6014433 Score: 565
Period size: 35 Copynumber: 8.7 Consensus size: 35
6014119 CATTTTTTTT
*
6014129 CATCATTCCATACCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
6014164 CATCATTCCATGCCTCCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
*
6014199 CATCATTCCATGCCTACATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
6014234 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
6014269 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
6014304 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
6014339 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
6014374 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
* *
6014409 CATCATTCTATGCCTTTATTTTTAT
1 CATCATTCCATGCCTTCATTTTTAT
6014434 TATTTTTTTT
Statistics
Matches: 264, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
35 264 1.00
ACGTcount: A:0.21, C:0.31, G:0.05, T:0.43
Consensus pattern (35 bp):
CATCATTCCATGCCTTCATTTTTATATTCCATGCC
Found at i:6014993 original size:42 final size:41
Alignment explanation
Indices: 6014901--6015003 Score: 111
Period size: 42 Copynumber: 2.5 Consensus size: 41
6014891 CACTTTTTTT
* * *
6014901 TTGAGGACAAAGAAAAAG-ATAATGAAATAGGTGCTGCTCC
1 TTGAGGACAAAGAAAAAGAAAAAAGAAATAGGTCCTGCTCC
* *
6014941 TTGAGGACAAAGAAAAAGAAGAAAAGGAA-AGTGTCCTGCTTC
1 TTGAGGACAAAGAAAAAGAA-AAAAGAAATAG-GTCCTGCTCC
6014983 TTGAGGACAAAGTGAAAAAGA
1 TTGAGGACAAA--GAAAAAGA
6015004 GTACGTCTCA
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
40 18 0.34
41 3 0.06
42 24 0.45
44 8 0.15
ACGTcount: A:0.46, C:0.11, G:0.26, T:0.17
Consensus pattern (41 bp):
TTGAGGACAAAGAAAAAGAAAAAAGAAATAGGTCCTGCTCC
Found at i:6015146 original size:45 final size:45
Alignment explanation
Indices: 6015082--6015194 Score: 172
Period size: 45 Copynumber: 2.5 Consensus size: 45
6015072 AAGAAAAATA
*
6015082 AAGTGCGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
1 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
* * * *
6015127 AAGTGTGTCATGCTTTTTGAGGACACAAGAGAAAAGAAGGGAAGG
1 AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
*
6015172 AAGTGTGTCCTGCTCTTTAAGGA
1 AAGTGTGTCCTGCTCTTTGAGGA
6015195 TTGAAAAGTG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.35, C:0.12, G:0.31, T:0.21
Consensus pattern (45 bp):
AAGTGTGTCCTGCTCTTTGAGGACAAAAGAGAAAAGAAGGGAAAG
Found at i:6015329 original size:61 final size:61
Alignment explanation
Indices: 6015179--6015340 Score: 177
Period size: 61 Copynumber: 2.7 Consensus size: 61
6015169 AGGAAGTGTG
* * * **
6015179 TCCTGCTCTTTAAGGATTGAAAAGTGCCACCAACTCGTGTGGTCTTTGAAAAGAAAAGGCA
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGCA
* * * * *
6015240 TCTTACTCTTTGAGGACTG-GAAGATGCCACTAATTAGTGTGGGATTTGCAAAA-AGAAA-GCA
1 TCCTGCTCTTTGAGGACTGAAAAG-TGCCACCAACTAGTGTGGGATTTG-AAAAGA-AAAGGCA
*
6015301 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTTGTGT
1 TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGT
6015341 AGGCTTTAAA
Statistics
Matches: 81, Mismatches: 16, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
60 3 0.04
61 68 0.84
62 10 0.12
ACGTcount: A:0.30, C:0.19, G:0.23, T:0.28
Consensus pattern (61 bp):
TCCTGCTCTTTGAGGACTGAAAAGTGCCACCAACTAGTGTGGGATTTGAAAAGAAAAGGCA
Found at i:6020909 original size:79 final size:79
Alignment explanation
Indices: 6020791--6021287 Score: 667
Period size: 79 Copynumber: 6.3 Consensus size: 79
6020781 TAGAGATAAC
* * * * * * *
6020791 AACGGGGCTAGAGTATCCCTGATTATGAAAATTTGATGTTTTAGAAATAAAATCGAGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGT
**
6020856 ATCCATTCGGAAAT
66 ATCCCCTCGGAAAT
*
6020870 AACGGGGTTGGAGTATCCTCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGT
* *
6020935 ATCCCCGCGGAAAC
66 ATCCCCTCGGAAAT
* * **
6020949 AACGGGGTTGAAGTATCCTCGATTACAAAAAATTGAA-GTTTTAGAAATAAAACCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AATGTTTTAGAAATAAAACCGGGGTTGGAG
* *
6021013 TATCCCCGCTGAAAT
65 TATCCCCTCGGAAAT
* * * ** *
6021028 AACGGAGTTGGAGTATCCCCAATTATGAAAAATTGATGTTTTAGAAATAAAACTAGAGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGT
6021093 ATCCCCTCGGAAAT
66 ATCCCCTCGGAAAT
*
6021107 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTGAA-GTTTTAGAAATAAAATCGGGGTTGGAG
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATT-AATGTTTTAGAAATAAAACCGGGGTTGGAG
* *
6021171 TAT-CCCTGTGGAAAC
65 TATCCCCT-CGGAAAT
* * * *
6021186 AACAGGGTTGGAGTATCCCCGATTATGAGAAATTAATATTTTAAAAATAAAACCGGGGTTGGAGT
1 AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGT
6021251 ATCCCCTCGGAAAT
66 ATCCCCTCGGAAAT
6021265 AACGGGGTTGGAGTATCCCCGAT
1 AACGGGGTTGGAGTATCCCCGAT
6021288 GATTAACGGG
Statistics
Matches: 366, Mismatches: 46, Indels: 12
0.86 0.11 0.03
Matches are distributed among these distances:
78 7 0.02
79 352 0.96
80 7 0.02
ACGTcount: A:0.34, C:0.14, G:0.25, T:0.27
Consensus pattern (79 bp):
AACGGGGTTGGAGTATCCCCGATTATGAAAAATTAATGTTTTAGAAATAAAACCGGGGTTGGAGT
ATCCCCTCGGAAAT
Found at i:6021302 original size:27 final size:28
Alignment explanation
Indices: 6021239--6021314 Score: 100
Period size: 27 Copynumber: 2.8 Consensus size: 28
6021229 AAAATAAAAC
***
6021239 CGGGGTTGGAGTATCCCCTCGGAAATAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
6021267 CGGGGTTGGAGTATCCCCGATG-ATTAA
1 CGGGGTTGGAGTATCCCCGATGAAATAA
*
6021294 CGGGGTTGGACTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
6021315 TGTGAAAAAT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
27 24 0.56
28 19 0.44
ACGTcount: A:0.21, C:0.22, G:0.33, T:0.24
Consensus pattern (28 bp):
CGGGGTTGGAGTATCCCCGATGAAATAA
Found at i:6022722 original size:21 final size:21
Alignment explanation
Indices: 6022688--6022797 Score: 68
Period size: 21 Copynumber: 5.8 Consensus size: 21
6022678 GCTTTCATTT
6022688 TTTTTCATCATTCCATGCCTCCA
1 TTTTT-AT-ATTCCATGCCTCCA
6022711 TTTTTATATTCCATG-C-CCA
1 TTTTTATATTCCATGCCTCCA
*
6022730 ----T-CATTCCATGCCTCCA
1 TTTTTATATTCCATGCCTCCA
*
6022746 TTTTTATATTCTATG-C-CCA
1 TTTTTATATTCCATGCCTCCA
* *
6022765 ----T-CATTCCATGCCTTCA
1 TTTTTATATTCCATGCCTCCA
6022781 TTTTTATATTCCATGCC
1 TTTTTATATTCCATGCC
6022798 CATCATTCCA
Statistics
Matches: 66, Mismatches: 7, Indels: 30
0.64 0.07 0.29
Matches are distributed among these distances:
14 15 0.23
15 4 0.06
16 5 0.08
19 6 0.09
20 4 0.06
21 25 0.38
22 2 0.03
23 5 0.08
ACGTcount: A:0.19, C:0.31, G:0.05, T:0.45
Consensus pattern (21 bp):
TTTTTATATTCCATGCCTCCA
Found at i:6022732 original size:35 final size:35
Alignment explanation
Indices: 6022693--6022822 Score: 233
Period size: 35 Copynumber: 3.7 Consensus size: 35
6022683 CATTTTTTTT
6022693 CATCATTCCATGCCTCCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTCCATTTTTATATTCCATGCC
*
6022728 CATCATTCCATGCCTCCATTTTTATATTCTATGCC
1 CATCATTCCATGCCTCCATTTTTATATTCCATGCC
*
6022763 CATCATTCCATGCCTTCATTTTTATATTCCATGCC
1 CATCATTCCATGCCTCCATTTTTATATTCCATGCC
*
6022798 CATCATTCCATGCCTTCATTTTTAT
1 CATCATTCCATGCCTCCATTTTTAT
6022823 TATTTTTTTT
Statistics
Matches: 92, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 92 1.00
ACGTcount: A:0.20, C:0.32, G:0.05, T:0.43
Consensus pattern (35 bp):
CATCATTCCATGCCTCCATTTTTATATTCCATGCC
Found at i:6022849 original size:12 final size:13
Alignment explanation
Indices: 6022829--6022857 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
6022819 TTATTATTTT
6022829 TTTTGAATTTTAA
1 TTTTGAATTTTAA
6022842 TTTT-AATTTTAA
1 TTTTGAATTTTAA
6022854 TTTT
1 TTTT
6022858 TGATTTTTAC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.69
Consensus pattern (13 bp):
TTTTGAATTTTAA
Found at i:6027222 original size:10 final size:10
Alignment explanation
Indices: 6027207--6027269 Score: 94
Period size: 10 Copynumber: 6.5 Consensus size: 10
6027197 CTTCATACCT
6027207 AAAAAAAAC-
1 AAAAAAAACA
*
6027216 AAAAAAAATA
1 AAAAAAAACA
*
6027226 GAAAAAAAC-
1 AAAAAAAACA
6027235 AAAAAAAACA
1 AAAAAAAACA
6027245 AAAAAAAACA
1 AAAAAAAACA
6027255 AAAAAAAACA
1 AAAAAAAACA
6027265 AAAAA
1 AAAAA
6027270 GCAAAAAACT
Statistics
Matches: 48, Mismatches: 4, Indels: 3
0.87 0.07 0.05
Matches are distributed among these distances:
9 16 0.33
10 32 0.67
ACGTcount: A:0.89, C:0.08, G:0.02, T:0.02
Consensus pattern (10 bp):
AAAAAAAACA
Found at i:6027232 original size:19 final size:18
Alignment explanation
Indices: 6027206--6027298 Score: 107
Period size: 19 Copynumber: 4.9 Consensus size: 18
6027196 CCTTCATACC
6027206 TAAAAAAAACAAAAAAAA
1 TAAAAAAAACAAAAAAAA
6027224 TAGAAAAAAACAAAAAAAA
1 TA-AAAAAAACAAAAAAAA
*
6027243 CAAAAAAAAACAAAAAAAA
1 -TAAAAAAAACAAAAAAAA
*
6027262 -ACAAAAAAGCAAAAAACTAA
1 TA-AAAAAAACAAAAAA--AA
*
6027282 TAAAAATAACAAAAAAA
1 TAAAAAAAACAAAAAAA
6027299 CAGAAAAAGG
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
17 1 0.02
18 16 0.25
19 32 0.49
20 15 0.23
21 1 0.02
ACGTcount: A:0.84, C:0.09, G:0.02, T:0.05
Consensus pattern (18 bp):
TAAAAAAAACAAAAAAAA
Found at i:6027238 original size:28 final size:27
Alignment explanation
Indices: 6027207--6027306 Score: 107
Period size: 28 Copynumber: 3.6 Consensus size: 27
6027197 CTTCATACCT
6027207 AAAAAAAACAAAAAAAATAGAAAAAAAC
1 AAAAAAAACAAAAAAAATA-AAAAAAAC
6027235 AAAAAAAACAAAAAAAA-ACAAAAAAA-
1 AAAAAAAACAAAAAAAATA-AAAAAAAC
*
6027261 AACAAAAAAGCAAAAAACTAATAAAAATAAC
1 AA-AAAAAA-CAAAAAA--AATAAAAAAAAC
*
6027292 -AAAAAAACAGAAAAA
1 AAAAAAAACAAAAAAA
6027307 GGGTCTAGAT
Statistics
Matches: 63, Mismatches: 3, Indels: 14
0.79 0.04 0.17
Matches are distributed among these distances:
26 3 0.05
27 14 0.22
28 30 0.48
29 6 0.10
30 9 0.14
31 1 0.02
ACGTcount: A:0.84, C:0.09, G:0.03, T:0.04
Consensus pattern (27 bp):
AAAAAAAACAAAAAAAATAAAAAAAAC
Found at i:6027287 original size:1 final size:1
Alignment explanation
Indices: 6027207--6027269 Score: 63
Period size: 1 Copynumber: 63.0 Consensus size: 1
6027197 CTTCATACCT
* * * * * * *
6027207 AAAAAAAACAAAAAAAATAGAAAAAAACAAAAAAAACAAAAAAAAACAAAAAAAAACAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
6027270 GCAAAAAACT
Statistics
Matches: 48, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 48 1.00
ACGTcount: A:0.89, C:0.08, G:0.02, T:0.02
Consensus pattern (1 bp):
A
Found at i:6027306 original size:10 final size:9
Alignment explanation
Indices: 6027207--6027298 Score: 96
Period size: 9 Copynumber: 9.8 Consensus size: 9
6027197 CTTCATACCT
6027207 AAAAAAAAC
1 AAAAAAAAC
*
6027216 AAAAAAAAT
1 AAAAAAAAC
6027225 AGAAAAAAAC
1 A-AAAAAAAC
6027235 AAAAAAAAC
1 AAAAAAAAC
6027244 AAAAAAAAAC
1 -AAAAAAAAC
6027254 AAAAAAAA-
1 AAAAAAAAC
*
6027262 ACAAAAAAGC
1 A-AAAAAAAC
*
6027272 AAAAAACTAAT
1 AAAAAA--AAC
*
6027283 AAAAATAAC
1 AAAAAAAAC
6027292 AAAAAAA
1 AAAAAAA
6027299 CAGAAAAAGG
Statistics
Matches: 69, Mismatches: 8, Indels: 12
0.78 0.09 0.13
Matches are distributed among these distances:
8 1 0.01
9 44 0.64
10 18 0.26
11 6 0.09
ACGTcount: A:0.85, C:0.09, G:0.02, T:0.04
Consensus pattern (9 bp):
AAAAAAAAC
Found at i:6028609 original size:28 final size:28
Alignment explanation
Indices: 6028569--6029060 Score: 630
Period size: 28 Copynumber: 17.5 Consensus size: 28
6028559 GTTAATGGCT
*
6028569 CACAAGTCAGTGGCATCTTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
*
6028597 CACAAGTCAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* *
6028625 CACAAGTCGGTGGCATCCTTTCAAAACC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
6028653 CACAAGTCAGTGGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* *
6028681 CATAAGTCAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* * *
6028709 CAAAAGTCAATGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* *
6028737 CACAAGCCAGTGGCATCTTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
*
6028765 CACAAGTCAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* *
6028793 TACGTAAGTCAGTGGCACCCTTTCAAAGCC
1 CAC--AAGTCAGTGGCATCCTTTCAAAGCC
* *
6028823 CACATAAGTCAGTCGCACCCTTTCAAAGCC
1 CAC--AAGTCAGTGGCATCCTTTCAAAGCC
*
6028853 CACAAGTCAGTGGTATCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* *
6028881 CACAAGTTAGTGGCATTCTTTTCAAAGCC
1 CACAAGTCAGTGGCA-TCCTTTCAAAGCC
* * *
6028910 TACAAGTTAGTGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
*
6028938 CACAAGTCAATGGCATCCTTTC---GCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
*
6028963 CACAAGTCAGTAGCATCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* * *
6028991 CACAATTCAATGGCACCCTTTCAAAGCC
1 CACAAGTCAGTGGCATCCTTTCAAAGCC
* * *
6029019 CACAAGTCAGGGGCACTCTTTTCAAGGCC
1 CACAAGTCAGTGGCA-TCCTTTCAAAGCC
*
6029048 CACAAGCCAGTGG
1 CACAAGTCAGTGG
6029061 TAACTCTTTT
Statistics
Matches: 407, Mismatches: 50, Indels: 13
0.87 0.11 0.03
Matches are distributed among these distances:
25 23 0.06
28 282 0.69
29 47 0.12
30 55 0.14
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.22
Consensus pattern (28 bp):
CACAAGTCAGTGGCATCCTTTCAAAGCC
Found at i:6029069 original size:30 final size:28
Alignment explanation
Indices: 6029009--6029081 Score: 83
Period size: 30 Copynumber: 2.5 Consensus size: 28
6028999 AATGGCACCC
* *
6029009 TTTCAAAGCCCACAAGTCAGGGGCACTCT
1 TTTC-AAGCCCACAAGCCAGGGGAACTCT
*
6029038 TTTCAAGGCCCACAAGCCAGTGGTAACTCT
1 TTTCAA-GCCCACAAGCCAG-GGGAACTCT
6029068 TTTCATAGCCCACA
1 TTTCA-AGCCCACA
6029082 TGAGTCGATG
Statistics
Matches: 38, Mismatches: 3, Indels: 5
0.83 0.07 0.11
Matches are distributed among these distances:
28 2 0.05
29 16 0.42
30 19 0.50
31 1 0.03
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (28 bp):
TTTCAAGCCCACAAGCCAGGGGAACTCT
Found at i:6029299 original size:49 final size:45
Alignment explanation
Indices: 6029202--6029314 Score: 120
Period size: 49 Copynumber: 2.4 Consensus size: 45
6029192 CGCTAGCATC
* * *
6029202 GAATCAGCATATTGGCACTTTTATTAGCCCAATGTCGCTAGTCCT
1 GAATCAGCACATTGGCACTTTTATTAGCCCAATGTCACTAGGCCT
*
6029247 GAATCAGCACATTGGTCCACTTTTCCCTTAGCCCAATGTCACT-GGCCTT
1 GAATCAGCACATTGG--CACTTTT--ATTAGCCCAATGTCACTAGGCC-T
**
6029296 GAATTGGCACATTGGCACT
1 GAATCAGCACATTGGCACT
6029315 CTTCTCATCT
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
45 14 0.25
47 11 0.19
48 3 0.05
49 29 0.51
ACGTcount: A:0.23, C:0.27, G:0.19, T:0.31
Consensus pattern (45 bp):
GAATCAGCACATTGGCACTTTTATTAGCCCAATGTCACTAGGCCT
Found at i:6030796 original size:19 final size:19
Alignment explanation
Indices: 6030762--6030800 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
6030752 ACTATGCATT
*
6030762 TTTTTATTATGTTTCATGCA
1 TTTTTAATATGTTTCA-GCA
6030782 TTTTTAATATG-TTCAGCA
1 TTTTTAATATGTTTCAGCA
6030800 T
1 T
6030801 CTCATTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.23, C:0.10, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTTTAATATGTTTCAGCA
Found at i:6040476 original size:23 final size:23
Alignment explanation
Indices: 6040446--6040494 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
6040436 TATCGCCTGG
6040446 GTCGAGCGCACGTCCTGACACTA
1 GTCGAGCGCACGTCCTGACACTA
6040469 GTCGAGCGCACGTCCTGACACTA
1 GTCGAGCGCACGTCCTGACACTA
6040492 GTC
1 GTC
6040495 ATTATAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.20, C:0.35, G:0.27, T:0.18
Consensus pattern (23 bp):
GTCGAGCGCACGTCCTGACACTA
Found at i:6042475 original size:171 final size:170
Alignment explanation
Indices: 6042229--6042539 Score: 489
Period size: 171 Copynumber: 1.8 Consensus size: 170
6042219 TAAAATCTAG
*
6042229 AGAAAACAAATAAAATAAAATAAAATAAATTGGTGTGAATCTGAGTTCAAGTTGGGTTTGTAAAA
1 AGAAAACAAATAAAATAAAATAAAATAAATTGGTGTGAATCTGAGTTCAAGTTGGGTTTGCAAAA
* * * * *
6042294 TATCCTCCCTAACCCAATATATGTTACTTAAAAAAAGTTTAAATACTAAATGATTTATTTTATCT
66 GATCCTCCCTAACCAAAAATATATCACTTAAAAAAAGTTTAAATACTAAATGATTTATTTTATCT
6042359 GTAGAAACTTCAATAAATAGAATTAAAAAAAAAAAAGAAA
131 GTAGAAACTTCAATAAATAGAATTAAAAAAAAAAAAGAAA
*
6042399 AGAAAACACATAAAATAAAAAATAAAA-AAATTGGTGTGAATCTGAGTTCAAGTTGGGTTTGCAA
1 AGAAAACAAATAAAAT--AAAATAAAATAAATTGGTGTGAATCTGAGTTCAAGTTGGGTTTGCAA
* ***
6042463 AAGATTCTCCCTAACCAAAAATATATCACTTTGGAAAAGTTTAAATACTAAATGATTTATTTTAT
64 AAGATCCTCCCTAACCAAAAATATATCACTTAAAAAAAGTTTAAATACTAAATGATTTATTTTAT
*
6042528 CTTTAGAAACTT
129 CTGTAGAAACTT
6042540 TTTTCTCACT
Statistics
Matches: 127, Mismatches: 12, Indels: 3
0.89 0.08 0.02
Matches are distributed among these distances:
170 15 0.12
171 103 0.81
172 9 0.07
ACGTcount: A:0.47, C:0.10, G:0.12, T:0.31
Consensus pattern (170 bp):
AGAAAACAAATAAAATAAAATAAAATAAATTGGTGTGAATCTGAGTTCAAGTTGGGTTTGCAAAA
GATCCTCCCTAACCAAAAATATATCACTTAAAAAAAGTTTAAATACTAAATGATTTATTTTATCT
GTAGAAACTTCAATAAATAGAATTAAAAAAAAAAAAGAAA
Found at i:6042741 original size:8 final size:8
Alignment explanation
Indices: 6042728--6042753 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
6042718 CAAAAAGTCA
6042728 TTAAAATT
1 TTAAAATT
6042736 TTAAAATT
1 TTAAAATT
6042744 TTAAAATT
1 TTAAAATT
6042752 TT
1 TT
6042754 TTGATCATAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (8 bp):
TTAAAATT
Found at i:6043302 original size:3 final size:3
Alignment explanation
Indices: 6043296--6043324 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
6043286 AAAAAAATAA
6043296 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
6043325 ACAGAAAAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:6044358 original size:10 final size:11
Alignment explanation
Indices: 6044336--6044425 Score: 50
Period size: 11 Copynumber: 8.4 Consensus size: 11
6044326 TTTAAATTTT
6044336 ATATTTATTAA
1 ATATTTATTAA
6044347 ATATTT-TTAA
1 ATATTTATTAA
*
6044357 ATATATATATAA
1 ATATTTAT-TAA
6044369 ATTAATTTAATTAA
1 A-T-ATTT-ATTAA
6044383 AT-TTTA--AA
1 ATATTTATTAA
*
6044391 TTTATTTATT--
1 -ATATTTATTAA
**
6044401 ATA-TTATTTT
1 ATATTTATTAA
6044411 ATATTTATTAA
1 ATATTTATTAA
6044422 ATAT
1 ATAT
6044426 ATCATATTTA
Statistics
Matches: 61, Mismatches: 6, Indels: 24
0.67 0.07 0.26
Matches are distributed among these distances:
8 7 0.11
9 3 0.05
10 17 0.28
11 19 0.31
12 4 0.07
13 2 0.03
14 7 0.11
15 2 0.03
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATTTATTAA
Found at i:6044416 original size:23 final size:23
Alignment explanation
Indices: 6044383--6044447 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 23
6044373 ATTTAATTAA
* * *
6044383 ATTTTAAATTTATTTATTATATT
1 ATTTTATATTTATTTAATATATC
*
6044406 ATTTTATATTTATTAAATATATC
1 ATTTTATATTTATTTAATATATC
6044429 ATATTTATATTATATTTAA
1 AT-TTTATATT-TATTTAA
6044448 AATTATTAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
23 21 0.60
24 8 0.23
25 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (23 bp):
ATTTTATATTTATTTAATATATC
Found at i:6044740 original size:2 final size:2
Alignment explanation
Indices: 6044720--6044762 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
6044710 TTTGCTTAAC
* * *
6044720 AT AT -T AT AA AT AA AT AT AT AT AT AT AT AT AT AT GT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
6044761 AT
1 AT
6044763 TTCATTTTGG
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
1 1 0.03
2 33 0.97
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (2 bp):
AT
Found at i:6047269 original size:15 final size:15
Alignment explanation
Indices: 6047251--6047279 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
6047241 TTAATTTTTA
6047251 TTAAATTATTTTAAG
1 TTAAATTATTTTAAG
6047266 TTAAATTATTTTAA
1 TTAAATTATTTTAA
6047280 ATTTTAAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.55
Consensus pattern (15 bp):
TTAAATTATTTTAAG
Found at i:6049632 original size:51 final size:50
Alignment explanation
Indices: 6049577--6049677 Score: 193
Period size: 51 Copynumber: 2.0 Consensus size: 50
6049567 CATATGCGCC
6049577 CCGGAGAAATGGGAAACATAGAGACATAAAATGACCTCTGGATTTCATTTT
1 CCGGAGAAATGGGAAACATAGAGACATAAAATG-CCTCTGGATTTCATTTT
6049628 CCGGAGAAATGGGAAACATAGAGACATAAAATGCCTCTGGATTTCATTTT
1 CCGGAGAAATGGGAAACATAGAGACATAAAATGCCTCTGGATTTCATTTT
6049678 GAAAACTGGA
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 17 0.34
51 33 0.66
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
CCGGAGAAATGGGAAACATAGAGACATAAAATGCCTCTGGATTTCATTTT
Found at i:6051448 original size:20 final size:22
Alignment explanation
Indices: 6051421--6051478 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
6051411 CTGGACATGT
6051421 TAAAAAAAA-CATGAAACATAA
1 TAAAAAAAAGCATGAAACATAA
6051442 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAA-GCATGAAACATAA
*
6051465 TAAAAAAATGCATG
1 TAAAAAAAAGCATG
6051479 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 9 0.26
22 5 0.15
23 20 0.59
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAAAAAAGCATGAAACATAA
Found at i:6051456 original size:23 final size:23
Alignment explanation
Indices: 6051421--6051478 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
6051411 CTGGACATGT
6051421 TAAAAAAAA--CATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
6051442 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
6051465 T-AAAAAAATGCATG
1 TAAAAAAAATGCATG
6051479 GTCAAAGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.26
22 13 0.37
23 13 0.37
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (23 bp):
TAAAAAAAATGCATGAAACATAA
Found at i:6052415 original size:20 final size:20
Alignment explanation
Indices: 6052386--6052460 Score: 89
Period size: 20 Copynumber: 3.8 Consensus size: 20
6052376 AAAAAGACAT
6052386 AATGTATCGATACATT-ATA
1 AATGTATCGATACATTCATA
*
6052405 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
6052426 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
6052446 AATGTATCGATACAT
1 AATGTATCGATACAT
6052461 CAAGGTAAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
20 43 0.93
21 3 0.07
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:6052454 original size:40 final size:39
Alignment explanation
Indices: 6052383--6052460 Score: 104
Period size: 40 Copynumber: 2.0 Consensus size: 39
6052373 GGTAAAAAGA
*
6052383 CATAATGTATCGATACATTATAGAATATATCGATACATT
1 CATAATGTATCGATACATTATAAAATATATCGATACATT
* *
6052422 CATACATGTATCGATATATTGA-AAAATGTATCGATACAT
1 CATA-ATGTATCGATACATT-ATAAAATATATCGATACAT
6052461 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
39 4 0.12
40 29 0.85
41 1 0.03
ACGTcount: A:0.41, C:0.13, G:0.12, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTATAAAATATATCGATACATT
Found at i:6053586 original size:32 final size:28
Alignment explanation
Indices: 6053069--6054367 Score: 766
Period size: 27 Copynumber: 46.2 Consensus size: 28
6053059 CACTGACACA
* **
6053069 TGTGGGCTTTGAAAAGAGTGTTACTGACT
1 TGTGGGCTTTG-AAAGGGTGCCACTGACT
* *
6053098 TACGTGAGCTTTAAAAGGGTGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
*
6053128 TGCGTGGGCTTTGAAAGGATGCCACTGACT
1 T--GTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6053158 CGTGAGCTTTGAAAGAGTGCCACT-ACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
6053185 TGTGGGCTTTGAAA-GGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6053212 CGTGGGCTTTGAAAAGGTACCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
6053240 CGTGGGC-TTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
6053267 TGTGGGCTTTGAAAGAGTGCTACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
6053295 CGTGGGCTTTGAAAAGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
6053323 TGCGTGGGCTTTGAAAAGAGTGCCACTGACTT
1 T--GTGGGCTTTG-AAAGGGTGCCACTGAC-T
* *
6053355 GTGTGGGCTTTGAAAAGGTGCCACTAACTT
1 -TGTGGGCTTTGAAAGGGTGCCACTGAC-T
*
6053385 GTGTGGGCTTTAAAAGGGTGCCACTGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
6053414 TGTGGGCTTTGAAAGAGTGCCACTGAAT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6053442 TGTGGGCTTCGCAATGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
6053470 TGTGGGCTTCGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6053498 TGTGGGCTCTGAAAGGGCGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
6053526 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
6053554 TGTGTGAGCTTTGAAATGGGTTGCCACCGACTT
1 TGTG-G-GCTTTGAAA-GGG-TGCCACTGAC-T
* *
6053587 GTGTGGGCTTTGAAATGGGTTACCACCGACTT
1 -TGTGGGCTTTGAAA-GGG-TGCCACTGAC-T
* *
6053619 GTGTGGGCTTTGGAATGGGTTGCCACCGACTT
1 -TGTGGGCTTT-GAAAGGG-TGCCACTGAC-T
* *
6053651 GTGTGGGCTTTGGAATGGGTTGCCACCGACT
1 -TGTGGGCTTT-GAAAGGG-TGCCACTGACT
* * * * *
6053682 TGT-GGATTTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
6053709 TGTGGGC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6053736 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6053763 TGTGGACTTTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * * *
6053791 TGTCGAC-TTAAAAGAGATGCCACGGAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTGACT
* * * *
6053819 TATGGAC-TTAAAAGGGTGCCAC-GTAGT
1 TGTGGGCTTTGAAAGGGTGCCACTG-ACT
* * * *
6053846 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6053873 TGTGGTC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
6053900 TGTGGAC-TTAAAAGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6053927 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6053954 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
6053981 TGTGGTC-TTAAAAGGGATGTCACAGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
6054009 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6054036 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
6054063 TGTGGAC-TTAAAAAGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * ** * *
6054090 TGTGGAC-TTAAAAGAATGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6054117 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6054144 TGTGGTC-TTAAAAGGGATGCCACAGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
6054172 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * * *
6054199 TATGGAC-TTAAAAGAGATGCCAC-GAAGT
1 TGTGGGCTTTGAAAG-GGTGCCACTG-ACT
* * * *
6054227 TGTGGAC-TTAAAAGGGATGCCACGGAGT
1 TGTGGGCTTTGAAAGGG-TGCCACTGACT
* * * *
6054255 TGTGGAC-TTAAAAGGGTGCCACAGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6054282 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6054309 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * * *
6054336 TGTGGAC-TTAAAAGGGTGCCACGGAGT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
6054363 TGTGG
1 TGTGG
6054368 ACTTAAAAAG
Statistics
Matches: 1138, Mismatches: 104, Indels: 58
0.88 0.08 0.04
Matches are distributed among these distances:
26 9 0.01
27 522 0.46
28 359 0.32
29 9 0.01
30 102 0.09
31 36 0.03
32 91 0.08
33 6 0.01
34 4 0.00
ACGTcount: A:0.24, C:0.17, G:0.33, T:0.26
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:6054048 original size:163 final size:162
Alignment explanation
Indices: 6053671--6054404 Score: 1157
Period size: 163 Copynumber: 4.5 Consensus size: 162
6053661 TGGAATGGGT
* * * * *
6053671 TGCCACCGACTTGTGGATTTAAAAGGATGCCACGGAGTTGTGGGCTTAAAAGGGTGCCACGGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
* *
6053736 TGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTTAAAAGGGTGCCACAGAGTTGTCGACTTA
66 TGTGGACTTAAAAGGATGCCACGGAGTTGTGGAC-TTAAAAGGGTGCCACAGAGTTGTGGACTTA
* *
6053801 AAAGAGATGCCACGGAGTTATGGACTTAAAAGGG
130 AAAG-GGTGCCACGGAGTTGTGGACTTAAAAGGG
*
6053835 TGCCAC-GTAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGGTGCCACGGAG
1 TGCCACAG-AGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
*
6053899 TTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTA
65 TTGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTA
*
6053964 AAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGG
130 AAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
*
6053997 ATGTCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
1 -TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAG
* **
6054062 TTGTGGACTTAAAAAGG-TGCCACAGAGTTGTGGACTTAAAAGAATGCCACAGAGTTGTGGACTT
65 TTGTGGACTT-AAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTT
*
6054126 AAAAGGGTGCCACGGAGTTGTGGTCTTAAAAGGG
129 AAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * *
6054160 ATGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTATGGACTTAAAAGAGATGCCACGAA
1 -TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAG-GGTGCCACGGA
6054225 GTTGTGGACTTAAAAGGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACT
64 GTTGTGGACTTAAAA-GGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACT
6054290 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
128 TAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
* * * *
6054325 TGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAAGATGCCACAGAGT
1 TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
6054390 TGTGGACTTTAAAAG
66 TGTGGAC-TTAAAAG
6054405 AAAATGCCAC
Statistics
Matches: 533, Mismatches: 29, Indels: 17
0.92 0.05 0.03
Matches are distributed among these distances:
162 26 0.05
163 254 0.48
164 176 0.33
165 77 0.14
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (162 bp):
TGCCACAGAGTTGTGGACTTAAAAGGGTGCCACGGAGTTGTGGACTTAAAAGGGTGCCACGGAGT
TGTGGACTTAAAAGGATGCCACGGAGTTGTGGACTTAAAAGGGTGCCACAGAGTTGTGGACTTAA
AAGGGTGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:6054405 original size:27 final size:27
Alignment explanation
Indices: 6053671--6054404 Score: 1144
Period size: 27 Copynumber: 26.9 Consensus size: 27
6053661 TGGAATGGGT
* * * *
6053671 TGCCACCGACTTGTGGATTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6053698 TGCCACGGAGTTGTGGGCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6053725 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6053752 TGCCACGGAGTTGTGGACTTTAAAAGGG
1 TGCCACGGAGTTGTGGAC-TTAAAAGGG
* * *
6053780 TGCCACAGAGTTGTCGACTTAAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAG-GG
*
6053808 TGCCACGGAGTTATGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6053835 TGCCACGTAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6053862 TGCCACGGAGTTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6053889 TGCCACGGAGTTGTGGACTTAAAAGGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6053916 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6053943 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6053970 TGCCACGGAGTTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
6053997 ATGTCACAGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
6054025 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6054052 TGCCACGGAGTTGTGGACTTAAAAAGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* **
6054079 TGCCACAGAGTTGTGGACTTAAAAGAA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6054106 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6054133 TGCCACGGAGTTGTGGTCTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6054160 ATGCCACAGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
* *
6054188 TGCCACGGAGTTATGGACTTAAAAGAGA
1 TGCCACGGAGTTGTGGACTTAAAAG-GG
*
6054216 TGCCACGAAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6054243 ATGCCACGGAGTTGTGGACTTAAAAGGG
1 -TGCCACGGAGTTGTGGACTTAAAAGGG
*
6054271 TGCCACAGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6054298 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
6054325 TGCCACGGAGTTGTGGACTTAAAAGGG
1 TGCCACGGAGTTGTGGACTTAAAAGGG
* *
6054352 TGCCACGGAGTTGTGGACTTAAAAAGA
1 TGCCACGGAGTTGTGGACTTAAAAGGG
*
6054379 TGCCACAGAGTTGTGGACTTTAAAAG
1 TGCCACGGAGTTGTGGAC-TTAAAAG
6054405 AAAATGCCAC
Statistics
Matches: 650, Mismatches: 50, Indels: 13
0.91 0.07 0.02
Matches are distributed among these distances:
27 497 0.76
28 153 0.24
ACGTcount: A:0.28, C:0.15, G:0.34, T:0.23
Consensus pattern (27 bp):
TGCCACGGAGTTGTGGACTTAAAAGGG
Found at i:6060162 original size:51 final size:51
Alignment explanation
Indices: 6060107--6060208 Score: 195
Period size: 51 Copynumber: 2.0 Consensus size: 51
6060097 CATATGCGCC
*
6060107 CCGGAGAAATGGGAAATATAGAGACATAAAATGACCTCTGGATTTCATTTT
1 CCGGAGAAATGGGAAACATAGAGACATAAAATGACCTCTGGATTTCATTTT
6060158 CCGGAGAAATGGGAAACATAGAGACATAAAATGACCTCTGGATTTCATTTT
1 CCGGAGAAATGGGAAACATAGAGACATAAAATGACCTCTGGATTTCATTTT
6060209 GAAAACTAGA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 50 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.26
Consensus pattern (51 bp):
CCGGAGAAATGGGAAACATAGAGACATAAAATGACCTCTGGATTTCATTTT
Found at i:6061977 original size:20 final size:22
Alignment explanation
Indices: 6061950--6062007 Score: 91
Period size: 23 Copynumber: 2.6 Consensus size: 22
6061940 CTGGACATGT
6061950 TAAAAAAAA-CATGAAACATAA
1 TAAAAAAAAGCATGAAACATAA
6061971 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAA-GCATGAAACATAA
*
6061994 TAAAAAAATGCATG
1 TAAAAAAAAGCATG
6062008 GTCAAAGGCT
Statistics
Matches: 34, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
21 9 0.26
22 5 0.15
23 20 0.59
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (22 bp):
TAAAAAAAAGCATGAAACATAA
Found at i:6061985 original size:23 final size:23
Alignment explanation
Indices: 6061950--6062007 Score: 95
Period size: 22 Copynumber: 2.7 Consensus size: 23
6061940 CTGGACATGT
6061950 TAAAAAAAA--CATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
6061971 TAAAAAAAATGCATGAAACATAA
1 TAAAAAAAATGCATGAAACATAA
6061994 T-AAAAAAATGCATG
1 TAAAAAAAATGCATG
6062008 GTCAAAGGCT
Statistics
Matches: 35, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
21 9 0.26
22 13 0.37
23 13 0.37
ACGTcount: A:0.66, C:0.09, G:0.09, T:0.17
Consensus pattern (23 bp):
TAAAAAAAATGCATGAAACATAA
Found at i:6062963 original size:20 final size:20
Alignment explanation
Indices: 6062916--6062990 Score: 80
Period size: 20 Copynumber: 3.8 Consensus size: 20
6062906 AAAAAGACAT
*
6062916 AATGTATCGATACATT-GTA
1 AATGTATCGATACATTCATA
*
6062935 GAATATATCGATACATTCATA
1 -AATGTATCGATACATTCATA
* * * *
6062956 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTCATA
6062976 AATGTATCGATACAT
1 AATGTATCGATACAT
6062991 CAAGGTAAAA
Statistics
Matches: 45, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (20 bp):
AATGTATCGATACATTCATA
Found at i:6062984 original size:40 final size:39
Alignment explanation
Indices: 6062913--6062990 Score: 111
Period size: 40 Copynumber: 2.0 Consensus size: 39
6062903 GGTAAAAAGA
* *
6062913 CATAATGTATCGATACATTGTAGAATATATCGATACATT
1 CATAATGTATCGATACATTGAAAAATATATCGATACATT
* *
6062952 CATACATGTATCGATATATTGAAAAATGTATCGATACAT
1 CATA-ATGTATCGATACATTGAAAAATATATCGATACAT
6062991 CAAGGTAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
39 4 0.12
40 30 0.88
ACGTcount: A:0.40, C:0.13, G:0.13, T:0.35
Consensus pattern (39 bp):
CATAATGTATCGATACATTGAAAAATATATCGATACATT
Found at i:6065881 original size:27 final size:27
Alignment explanation
Indices: 6065825--6065884 Score: 68
Period size: 27 Copynumber: 2.2 Consensus size: 27
6065815 AATTTATTAT
* *
6065825 ATTTATATTAAGTAATTAATATATAGA
1 ATTTATATTAAGTAAATAATATATAAA
**
6065852 ATTTATATTATTTAAATAATA-ATTAAA
1 ATTTATATTAAGTAAATAATATA-TAAA
6065879 ATTTAT
1 ATTTAT
6065885 TAGAATTATA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 1 0.04
27 27 0.96
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
ATTTATATTAAGTAAATAATATATAAA
Found at i:6068216 original size:19 final size:20
Alignment explanation
Indices: 6068176--6068227 Score: 72
Period size: 19 Copynumber: 2.7 Consensus size: 20
6068166 TTGATAATTG
6068176 TATTA-ATTATATTTAAAAA
1 TATTATATTATATTTAAAAA
**
6068195 TATTATATTATATTT-ATTA
1 TATTATATTATATTTAAAAA
6068214 TATTATATTATATT
1 TATTATATTATATT
6068228 ATTTTATTCT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 21 0.70
20 9 0.30
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TATTATATTATATTTAAAAA
Found at i:6068235 original size:5 final size:5
Alignment explanation
Indices: 6068194--6068234 Score: 66
Period size: 5 Copynumber: 8.4 Consensus size: 5
6068184 ATATTTAAAA
*
6068194 ATATT ATATT ATATT -TATT ATATT ATATT ATATT ATTTT AT
1 ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT AT
6068235 TCTTATTTAT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
4 4 0.12
5 30 0.88
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (5 bp):
ATATT
Found at i:6072610 original size:14 final size:14
Alignment explanation
Indices: 6072591--6072621 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
6072581 ATGTGTGTAT
*
6072591 TATTATTAATTATA
1 TATTATTAATCATA
6072605 TATTATTAATCATA
1 TATTATTAATCATA
6072619 TAT
1 TAT
6072622 CATATCTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (14 bp):
TATTATTAATCATA
Found at i:6078301 original size:2 final size:2
Alignment explanation
Indices: 6078294--6078318 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
6078284 GAAGTCTTTA
6078294 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
6078319 AGGTTAAATA
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:6081253 original size:32 final size:32
Alignment explanation
Indices: 6081212--6081282 Score: 124
Period size: 32 Copynumber: 2.2 Consensus size: 32
6081202 TATATAAAAT
6081212 AATTATGATGGATATAAAATTTAATTCTTATA
1 AATTATGATGGATATAAAATTTAATTCTTATA
*
6081244 AATTATGATGGATATAAAATTTAATTTTTATA
1 AATTATGATGGATATAAAATTTAATTCTTATA
*
6081276 GATTATG
1 AATTATG
6081283 CCGATATTTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.11, T:0.45
Consensus pattern (32 bp):
AATTATGATGGATATAAAATTTAATTCTTATA
Found at i:6082623 original size:18 final size:18
Alignment explanation
Indices: 6082602--6082639 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6082592 TGAATGTAAT
6082602 AAAT-TTTAATAATAATAA
1 AAATATTTAA-AATAATAA
*
6082620 AAATATTTAAAATGATAA
1 AAATATTTAAAATAATAA
6082638 AA
1 AA
6082640 TTAGTGATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 13 0.72
19 5 0.28
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATATTTAAAATAATAA
Found at i:6083685 original size:29 final size:29
Alignment explanation
Indices: 6083626--6083685 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
6083616 ATTTAGATTA
** *
6083626 TTCAATATTTTAATTTTTACCCATAATTT
1 TTCAATATAATAATTTTTACCAATAATTT
*
6083655 TTCAATATAATAATTTTTATTCAATAATTT
1 TTCAATATAATAATTTTTA-CCAATAATTT
6083685 T
1 T
6083686 AAAAAATTAA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.35, C:0.10, G:0.00, T:0.55
Consensus pattern (29 bp):
TTCAATATAATAATTTTTACCAATAATTT
Found at i:6086684 original size:15 final size:15
Alignment explanation
Indices: 6086657--6086708 Score: 61
Period size: 15 Copynumber: 3.4 Consensus size: 15
6086647 TGTGTAAATA
6086657 TAATTTT-ATTTTAT
1 TAATTTTAATTTTAT
* *
6086671 TTATTTTAATTTTAA
1 TAATTTTAATTTTAT
6086686 TAATTTTAAATATTTAT
1 TAATTTT-AAT-TTTAT
6086703 TAATTT
1 TAATTT
6086709 CCCAAATATA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
14 6 0.19
15 12 0.39
16 3 0.10
17 10 0.32
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (15 bp):
TAATTTTAATTTTAT
Found at i:6086880 original size:18 final size:18
Alignment explanation
Indices: 6086859--6086896 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
6086849 TATTACGGTA
6086859 ATTAATTTT-ATCATTACC
1 ATTAATTTTAATCA-TACC
6086877 ATTAATTTTAATCATACC
1 ATTAATTTTAATCATACC
6086895 AT
1 AT
6086897 CCATTTAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 15 0.79
19 4 0.21
ACGTcount: A:0.37, C:0.16, G:0.00, T:0.47
Consensus pattern (18 bp):
ATTAATTTTAATCATACC
Found at i:6087963 original size:22 final size:22
Alignment explanation
Indices: 6087938--6088007 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 22
6087928 TTTTACTCTT
* *
6087938 TTTAATTTTTAT-TTAATAATAA
1 TTTAATTTTAATATAAATAAT-A
*
6087960 TTTACTTTTAATATAAATAATA
1 TTTAATTTTAATATAAATAATA
* *
6087982 TTTAA-ATT-AT-TAAATAATT
1 TTTAATTTTAATATAAATAATA
6088001 TTTAATT
1 TTTAATT
6088008 ATTTATAATA
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
19 13 0.33
20 2 0.05
21 2 0.05
22 15 0.38
23 7 0.18
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (22 bp):
TTTAATTTTAATATAAATAATA
Found at i:6088025 original size:22 final size:19
Alignment explanation
Indices: 6087965--6088028 Score: 71
Period size: 19 Copynumber: 3.4 Consensus size: 19
6087955 AATAATTTAC
6087965 TTTTAA-TA-TAAATAATA
1 TTTTAATTATTAAATAATA
*
6087982 TTTAAATTATTAAATAAT-
1 TTTTAATTATTAAATAATA
6088000 TTTTAATTATTTATAATATATA
1 TTTTAATTA-TTA-AATA-ATA
6088022 TTTTAAT
1 TTTTAAT
6088029 ATAATATTTT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
17 5 0.13
18 10 0.26
19 11 0.28
20 4 0.10
21 2 0.05
22 7 0.18
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTTAATTATTAAATAATA
Found at i:6088158 original size:20 final size:20
Alignment explanation
Indices: 6088107--6088159 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
6088097 ATCATATCAC
* * *
6088107 TAATTTTAATTTCATCATTT
1 TAATATTAATCTCATCATTA
6088127 TAATATTCAATCTCATC-TTA
1 TAATATT-AATCTCATCATTA
6088147 TAATAATTAATCT
1 TAAT-ATTAATCT
6088160 TATTACCATT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
20 17 0.61
21 11 0.39
ACGTcount: A:0.36, C:0.13, G:0.00, T:0.51
Consensus pattern (20 bp):
TAATATTAATCTCATCATTA
Found at i:6094681 original size:51 final size:51
Alignment explanation
Indices: 6094575--6094672 Score: 135
Period size: 51 Copynumber: 1.9 Consensus size: 51
6094565 ATAAAGTAAC
* *
6094575 CAAAGCCCAACATAGCTAGTCCTATTCTGTGAAATTAACCCCTATTAGAAA
1 CAAAGCCCAACATAGCTAGTCCTATCCTGTGAAATTAACCCATATTAGAAA
* * *
6094626 CAAAGCCCAACATAGCTAGTTCTA-CCTAGTGAAGTTAGCCCATATTA
1 CAAAGCCCAACATAGCTAGTCCTATCCT-GTGAAATTAACCCATATTA
6094673 AGAGCAAAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 39 0.95
ACGTcount: A:0.36, C:0.26, G:0.13, T:0.26
Consensus pattern (51 bp):
CAAAGCCCAACATAGCTAGTCCTATCCTGTGAAATTAACCCATATTAGAAA
Found at i:6094888 original size:60 final size:58
Alignment explanation
Indices: 6094768--6094889 Score: 163
Period size: 58 Copynumber: 2.1 Consensus size: 58
6094758 GAACCTACCA
* * * * * *
6094768 TTTTAGAAATAGGTTGAGCTTAGGAATAAATTTTATTTTTTTCTTTAAGTCAAACATG
1 TTTTAGAAATAGGTTGAGCTTAAGAACAAATCTAATCTTTTTATTTAAGTCAAACATG
*
6094826 TTTTAGAAATAGGTTGAGCTTAAGAACAAACTCTAACTCTTTTTATTTAAGTCAAATATG
1 TTTTAGAAATAGGTTGAGCTTAAGAACAAA-TCTAA-TCTTTTTATTTAAGTCAAACATG
6094886 TTTT
1 TTTT
6094890 TCTAGAAATA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
58 28 0.51
59 3 0.05
60 24 0.44
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (58 bp):
TTTTAGAAATAGGTTGAGCTTAAGAACAAATCTAATCTTTTTATTTAAGTCAAACATG
Found at i:6095704 original size:20 final size:21
Alignment explanation
Indices: 6095676--6095721 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
6095666 GGACCTAGGG
* *
6095676 TATCGATACATT-GTCTAATA
1 TATCAATACATTAGGCTAATA
*
6095696 TATCAATACATTAGGCTAATG
1 TATCAATACATTAGGCTAATA
6095717 TATCA
1 TATCA
6095722 GTCGCAACGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (21 bp):
TATCAATACATTAGGCTAATA
Found at i:6096660 original size:27 final size:27
Alignment explanation
Indices: 6096622--6096691 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
6096612 ATTGAAAAAC
6096622 GGGGTTGGAGTATCCCCTTAGAGGAAT
1 GGGGTTGGAGTATCCCCTTAGAGGAAT
*
6096649 GGGGTTGGAGTATCCCCTTGGAGGAAT
1 GGGGTTGGAGTATCCCCTTAGAGGAAT
6096676 GGGGTTGGAGTA-CCCC
1 GGGGTTGGAGTATCCCC
6096692 GATGACGACA
Statistics
Matches: 42, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
26 4 0.10
27 38 0.90
ACGTcount: A:0.19, C:0.17, G:0.40, T:0.24
Consensus pattern (27 bp):
GGGGTTGGAGTATCCCCTTAGAGGAAT
Found at i:6101276 original size:26 final size:26
Alignment explanation
Indices: 6101240--6101314 Score: 141
Period size: 26 Copynumber: 2.8 Consensus size: 26
6101230 AATGAGTTCA
6101240 ATTAGTGCCCAAGTAGATCATATTCG
1 ATTAGTGCCCAAGTAGATCATATTCG
6101266 ATTAGTGCCCAAGTAGATCATATTCG
1 ATTAGTGCCCAAGTAGATCATATTCG
6101292 ATTAGTGCCCAAGTAGGATCATA
1 ATTAGTGCCCAAGTA-GATCATA
6101315 AGTCATACAT
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
26 41 0.85
27 7 0.15
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.29
Consensus pattern (26 bp):
ATTAGTGCCCAAGTAGATCATATTCG
Found at i:6102659 original size:7 final size:7
Alignment explanation
Indices: 6102606--6102670 Score: 55
Period size: 7 Copynumber: 9.7 Consensus size: 7
6102596 TATGCAACAA
*
6102606 ACAACAC
1 ACAATAC
6102613 ACAATAC
1 ACAATAC
* *
6102620 A-TATTC
1 ACAATAC
*
6102626 ATAATAC
1 ACAATAC
6102633 ACAAT-C
1 ACAATAC
6102639 ACAAT-C
1 ACAATAC
*
6102645 ATAATAC
1 ACAATAC
6102652 ACAATAC
1 ACAATAC
*
6102659 ACAATAT
1 ACAATAC
6102666 ACAAT
1 ACAAT
6102671 CTCAATATAC
Statistics
Matches: 47, Mismatches: 9, Indels: 4
0.78 0.15 0.07
Matches are distributed among these distances:
6 15 0.32
7 32 0.68
ACGTcount: A:0.54, C:0.25, G:0.00, T:0.22
Consensus pattern (7 bp):
ACAATAC
Found at i:6106192 original size:16 final size:16
Alignment explanation
Indices: 6106171--6106203 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
6106161 GAAATTCCAC
6106171 GTACCAACCTAATTTT
1 GTACCAACCTAATTTT
6106187 GTACCAACCTAATTTT
1 GTACCAACCTAATTTT
6106203 G
1 G
6106204 AAACATTGCC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.36
Consensus pattern (16 bp):
GTACCAACCTAATTTT
Found at i:6106850 original size:16 final size:17
Alignment explanation
Indices: 6106815--6106849 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 17
6106805 CGAAAAAGAA
6106815 TTTATTTATTATTTTAT
1 TTTATTTATTATTTTAT
6106832 TTTA-TTATTATTTT-T
1 TTTATTTATTATTTTAT
6106847 TTT
1 TTT
6106850 TGAAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 10 0.56
17 4 0.22
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (17 bp):
TTTATTTATTATTTTAT
Found at i:6107238 original size:16 final size:16
Alignment explanation
Indices: 6107217--6107252 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
6107207 AACAAGAATT
**
6107217 TCAACAAAATTTAGCA
1 TCAACAAAATCAAGCA
6107233 TCAACAAAATCAAGCA
1 TCAACAAAATCAAGCA
6107249 TCAA
1 TCAA
6107253 ACCTTTATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.53, C:0.22, G:0.06, T:0.19
Consensus pattern (16 bp):
TCAACAAAATCAAGCA
Found at i:6107916 original size:53 final size:53
Alignment explanation
Indices: 6107850--6107963 Score: 165
Period size: 53 Copynumber: 2.2 Consensus size: 53
6107840 CATTTTCCCA
* *
6107850 TTGCTTTGTTGGTTTTTTTCTTTTTACCCATGCTCCCCATTCTTCTCCATCAT
1 TTGCTTTGCTGGTTTTTTTCTTTTTACCCATACTCCCCATTCTTCTCCATCAT
* * ** *
6107903 TTTCTTTGCTGGTTTTTTTCTTTTTGCCCATACTCCTTATTCTTCTCTATCAT
1 TTGCTTTGCTGGTTTTTTTCTTTTTACCCATACTCCCCATTCTTCTCCATCAT
6107956 TTGCTTTG
1 TTGCTTTG
6107964 TTGTCTTTCA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.09, C:0.25, G:0.10, T:0.56
Consensus pattern (53 bp):
TTGCTTTGCTGGTTTTTTTCTTTTTACCCATACTCCCCATTCTTCTCCATCAT
Found at i:6108239 original size:44 final size:43
Alignment explanation
Indices: 6108176--6108930 Score: 531
Period size: 44 Copynumber: 17.4 Consensus size: 43
6108166 TGTTGCTTTT
*
6108176 TCAAAGCCGACAGGCAGACTTAAGGATAAAGAAAGTCTCTAAGG
1 TCAAAGCCGACAGGCAGACTTAAGGA-AAAGGAAGTCTCTAAGG
* * * * * *
6108220 TCAAAGCCAATAAGCAGACTTGAGGGAAAATGAAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCTAAGG
* * * * * * *
6108264 TCAAAACCAACAGGTAGACTTGAGGAAAAAGGAAGTTTTTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGG-AAAAGGAAGTCTCTAAGG
* * * *
6108308 TCAAAGTCGACAGGCAGACTTGAGGGTAAAGGAAGCCT-TCAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCT-AAGG
* ** * * * *
6108352 ACAAAGCCGACAAACAAACTTAAGGAAAA-AAAGTCTCCAAAG
1 TCAAAGCCGACAGGCAGACTTAAGGAAAAGGAAGTCTCTAAGG
* * * * *
6108394 TGAAAGTCAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGGA-AAAGGAAGTCTCTAAGG
* * * * * *
6108438 ACAAAGCTGACAGGCAAACTTGAGGATAAAGAAAGTCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGGA-AAAGGAAGTCTCTAAGG
* ** *
6108482 TCAAAACCGACAGGCAGACTTAAGGGAAAATAAAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTTAA-GGAAAAGGAAGTCTCTAAGG
* * * *
6108526 TCAAAG-CTA-AGGCAGACTTGAGGGTAAAGGAAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCTAAGG
* * ** * *
6108568 ACAGAGTTGACAAGCAGACTTAAGG-AAAGGAAGTCTCTAGGG
1 TCAAAGCCGACAGGCAGACTTAAGGAAAAGGAAGTCTCTAAGG
* * * *
6108610 TCAAAGTCAACAGGCAAACTTGAGGGAAAAGGAAGTCTCTAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCTAAGG
* * **
6108654 TCAAAGCTGACAGGCAGACTTGAGGATAAAATAAGTCT-TCAAGG
1 TCAAAGCCGACAGGCAGACTTAAGGA-AAAGGAAGTCTCT-AAGG
* * * ** * *
6108698 ACAAAGCTGACAGGCAAACTTGTGGGAAAAGGAAGTCTCCAGGG
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCTAAGG
** * * *
6108742 TCAAAGTAGATAGGCAGACTTGAGGGAAAGGAAAGTCT-TCAAGG
1 TCAAAGCCGACAGGCAGACTTAAGGAAAAGG-AAGTCTCT-AAGG
* * * *
6108786 TCAAAGCCGATAGACAGACTTGAAGGTAAATGAAGTCTCTATA-G
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCTA-AGG
* * *
6108830 ACAAAGCCGACAGGCAGAC-TAAGG-AAAGGAAGTCTCCAGGG
1 TCAAAGCCGACAGGCAGACTTAAGGAAAAGGAAGTCTCTAAGG
* * * * *
6108871 TCAAAACCGATAGGCAGACTTGAGGGAAAAGGGAGTCTCCAAGG
1 TCAAAGCCGACAGGCAGACTT-AAGGAAAAGGAAGTCTCTAAGG
*
6108915 TCAAAGCCGATAGGCA
1 TCAAAGCCGACAGGCA
6108931 AAGTAGGGGA
Statistics
Matches: 552, Mismatches: 133, Indels: 52
0.75 0.18 0.07
Matches are distributed among these distances:
41 29 0.05
42 92 0.17
43 37 0.07
44 373 0.68
45 21 0.04
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.16
Consensus pattern (43 bp):
TCAAAGCCGACAGGCAGACTTAAGGAAAAGGAAGTCTCTAAGG
Found at i:6108329 original size:88 final size:88
Alignment explanation
Indices: 6108176--6108994 Score: 628
Period size: 88 Copynumber: 9.4 Consensus size: 88
6108166 TGTTGCTTTT
* * * * * * *
6108176 TCAAAGCCGACAGGCAGACTT-AAGGATAAAGAAAGTCTCTAAGGTCAAAGCCAATAAGCAGACT
1 TCAAAGCCGACAGGCAGACTTGAGGGA-AAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACT
*
6108240 TGAGGGAAAATGAAGTCTCCAAGG
65 TGAGGGAAAAGGAAGTCTCCAAGG
* * * * * ** *
6108264 TCAAAACCAACAGGTAGACTTGAGGAAAAAGGAAGTTTTTAGGGTCAAAGTCGACAGGCAGACTT
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT
* * *
6108329 GAGGGTAAAGGAAGCCTTCAAGG
66 GAGGGAAAAGGAAGTCTCCAAGG
* ** * * * * * *
6108352 ACAAAGCCGACAAACAAACTT-AAGGAAAA-AAAGTCTCCAAAGTGAAAGTCAACAGGCAGACTT
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT
* *
6108415 GA-GGATAAAGGAAGTCTCTAGGG
66 GAGGGA-AAAGGAAGTCTCCAAGG
* * * * * * **
6108438 ACAAAGCTGACAGGCAAACTTGA-GGATAAAGAAAGTCTCTAGGGTCAAAACCGACAGGCAGACT
1 TCAAAGCCGACAGGCAGACTTGAGGGA-AAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACT
* **
6108502 TAAGGGAAAATAAAGTCTCCAAGG
65 TGAGGGAAAAGGAAGTCTCCAAGG
* * * * * *
6108526 TCAAAG-CTA-AGGCAGACTTGAGGGTAAAGGAAGTCTCCAAGGACAGAGTTGACAAGCAGACTT
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT
* * *
6108589 -AAGG-AAAGGAAGTCTCTAGGG
66 GAGGGAAAAGGAAGTCTCCAAGG
* * * *
6108610 TCAAAGTCAACAGGCAAACTTGAGGGAAAAGGAAGTCTCTAAGGTCAAAG-CTGACAGGCAGACT
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTC-GACAGGCAGACT
** *
6108674 TGA-GGATAAAATAAGTCTTCAAGG
65 TGAGGGA-AAAGGAAGTCTCCAAGG
* * * * * * *
6108698 ACAAAGCTGACAGGCAAACTTGTGGGAAAAGGAAGTCTCCAGGGTCAAAGTAGATAGGCAGACTT
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT
*
6108763 GAGGG-AAAGGAAAGTCTTCAAGG
66 GAGGGAAAAGG-AAGTCTCCAAGG
* * * * * * * *
6108786 TCAAAGCCGATAGACAGACTTGAAGGTAAATGAAGTCTCTATA-GACAAAGCCGACAGGCAGAC-
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCA-AGGTCAAAGTCGACAGGCAGACT
* *
6108849 T-AAGG-AAAGGAAGTCTCCAGGG
65 TGAGGGAAAAGGAAGTCTCCAAGG
* * * * * * * *
6108871 TCAAAACCGATAGGCAGACTTGAGGGAAAAGGGAGTCTCCAAGGTCAAAGCCGATAGGCAAAGTA
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT
* * *
6108936 G-GGGATAAAAGAAGTTTTCAAGG
66 GAGGGA-AAAGGAAGTCTCCAAGG
* * * * *
6108959 ACAAAACCGATAGGTAGACTTGAGGGAAAAGTAAGT
1 TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGT
6108995 ATCTTTTTGA
Statistics
Matches: 573, Mismatches: 136, Indels: 44
0.76 0.18 0.06
Matches are distributed among these distances:
84 20 0.03
85 67 0.12
86 160 0.28
87 18 0.03
88 300 0.52
89 8 0.01
ACGTcount: A:0.40, C:0.16, G:0.28, T:0.16
Consensus pattern (88 bp):
TCAAAGCCGACAGGCAGACTTGAGGGAAAAGGAAGTCTCCAAGGTCAAAGTCGACAGGCAGACTT
GAGGGAAAAGGAAGTCTCCAAGG
Found at i:6108424 original size:86 final size:88
Alignment explanation
Indices: 6108310--6108476 Score: 232
Period size: 86 Copynumber: 1.9 Consensus size: 88
6108300 TTTTAGGGTC
* *
6108310 AAAGTCGACAGGCAGACTTGAGGGTAAAGGAAGCCT-TCAAGGACAAAGCCGACAAACAAACTTA
1 AAAGTCAACAGGCAGACTTGAGGATAAAGGAAGCCTCT-AAGGACAAAGCCGACAAACAAACTTA
6108374 AGGA-AAA-AAAGTCTCCAAAGTG
65 AGGATAAAGAAAGTCTCCAAAGTG
* * * ** *
6108396 AAAGTCAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAGGGACAAAGCTGACAGGCAAACTTGA
1 AAAGTCAACAGGCAGACTTGAGGATAAAGGAAGCCTCTAAGGACAAAGCCGACAAACAAACTTAA
6108461 GGATAAAGAAAGTCTC
66 GGATAAAGAAAGTCTC
6108477 TAGGGTCAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
86 58 0.83
87 4 0.06
88 8 0.11
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (88 bp):
AAAGTCAACAGGCAGACTTGAGGATAAAGGAAGCCTCTAAGGACAAAGCCGACAAACAAACTTAA
GGATAAAGAAAGTCTCCAAAGTG
Found at i:6108425 original size:130 final size:129
Alignment explanation
Indices: 6108176--6108921 Score: 542
Period size: 130 Copynumber: 5.7 Consensus size: 129
6108166 TGTTGCTTTT
* * *
6108176 TCAAAGCCGACAGGCAGACTTAAGGATAAAGAAAGTCTCTAAGGTCAAAGCCAATAAGCAGACTT
1 TCAAAG-CGACAGGCAGACTTGAGGATAAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTT
* * * * * * *
6108241 GAGGGAAAATGAAGTCTCCAAGGTCAAAACCAACAGGTAGACTTGAGGAAAAAGGAAGTTTTTAG
65 -AAGGAAAATAAAGTCTCCAAGGTC-AAAGCAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAG
6108306 GG
128 GG
* * * * * *
6108308 TCAAAGTCGACAGGCAGACTTGAGGGTAAAGGAAGCCT-TCAAGGACAAAGCCGACAAACAAACT
1 TCAAAG-CGACAGGCAGACTTGAGGATAAAGAAAGTCTCT-AAGGTCAAAGCCGACAAGCAGACT
* *
6108372 TAAGGAAAA-AAAGTCTCCAAAGTGAAAGTCAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAG
64 TAAGGAAAATAAAGTCTCCAAGGTCAAAG-CAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAG
6108436 GG
128 GG
* * * * *
6108438 ACAAAGCTGACAGGCAAACTTGAGGATAAAGAAAGTCTCTAGGGTCAAAACCGACAGGCAGACTT
1 TCAAAGC-GACAGGCAGACTTGAGGATAAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTT
* * * *
6108503 AAGGGAAAATAAAGTCTCCAAGGTCAAAGCTA-AGGCAGACTTGAGGGTAAAGGAAGTCTCCAAG
65 AA-GGAAAATAAAGTCTCCAAGGTCAAAGCAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAGG
6108567 G
129 G
* * * * * * * * * * *
6108568 ACAGAGTTGACAAGCAGACTTAAGG--AAAGGAAGTCTCTAGGGTCAAAGTCAACAGGCAAACTT
1 TCAAAG-CGACAGGCAGACTTGAGGATAAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTT
* ** * * **
6108631 GAGGGAAAAGGAAGTCTCTAAGGTCAAAGCTGACAGGCAGACTTGAGGATAAAATAAGTCT-TCA
65 -AAGGAAAATAAAGTCTCCAAGGTCAAAGC-AACAGGCAGACTTGAGGATAAAGGAAGTCTCT-A
*
6108695 AGG
127 GGG
* * * * * * ** * *
6108698 ACAAAGCTGACAGGCAAACTTGTGGGA-AAAGGAAGTCTCCAGGGTCAAAGTAGATAGGCAGACT
1 TCAAAGC-GACAGGCAGACTTG-AGGATAAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACT
* ** * * * * *
6108762 TGAGGGAAAGGAAAGTCTTCAAGGTCAAAGCCGATAGACAGACTTGAAGG-TAAATGAAGTCTCT
64 T-AAGGAAAATAAAGTCTCCAAGGTCAAAG-CAACAGGCAGACTTG-AGGATAAAGGAAGTCTCT
**
6108826 ATAG
126 AGGG
* * * * * * * *
6108830 ACAAAGCCGACAGGCAGAC-TAAGG--AAAGGAAGTCTCCAGGGTCAAAACCGATAGGCAGACTT
1 TCAAAG-CGACAGGCAGACTTGAGGATAAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTT
* ***
6108892 GAGGGAAAAGGGAGTCTCCAAGGTCAAAGC
65 -AAGGAAAATAAAGTCTCCAAGGTCAAAGC
6108922 CGATAGGCAA
Statistics
Matches: 510, Mismatches: 86, Indels: 40
0.80 0.14 0.06
Matches are distributed among these distances:
128 58 0.11
129 66 0.13
130 192 0.38
131 20 0.04
132 168 0.33
133 6 0.01
ACGTcount: A:0.40, C:0.17, G:0.27, T:0.16
Consensus pattern (129 bp):
TCAAAGCGACAGGCAGACTTGAGGATAAAGAAAGTCTCTAAGGTCAAAGCCGACAAGCAGACTTA
AGGAAAATAAAGTCTCCAAGGTCAAAGCAACAGGCAGACTTGAGGATAAAGGAAGTCTCTAGGG
Found at i:6110051 original size:11 final size:11
Alignment explanation
Indices: 6110037--6110071 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
6110027 TGGGTTTTCA
6110037 TCTTTTTTTTT
1 TCTTTTTTTTT
*
6110048 TCTTTTCTTTT
1 TCTTTTTTTTT
6110059 TCTTCTTTTTTT
1 TCTT-TTTTTTT
6110071 T
1 T
6110072 AAGCATAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (11 bp):
TCTTTTTTTTT
Found at i:6110058 original size:14 final size:13
Alignment explanation
Indices: 6110039--6110071 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 13
6110029 GGTTTTCATC
6110039 TTTTTTTT-TTCT
1 TTTTTTTTCTTCT
6110051 TTTCTTTTTCTTCT
1 TTT-TTTTTCTTCT
6110065 TTTTTTT
1 TTTTTTT
6110072 AAGCATAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.16
13 9 0.47
14 7 0.37
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTCT
Found at i:6121939 original size:16 final size:16
Alignment explanation
Indices: 6121908--6121942 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
6121898 TACAAGAATT
**
6121908 TCAACAAAATTTAGCA
1 TCAACAAAATCAAGCA
6121924 TCAACAAAATCAAGCA
1 TCAACAAAATCAAGCA
6121940 TCA
1 TCA
6121943 TACCTACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.51, C:0.23, G:0.06, T:0.20
Consensus pattern (16 bp):
TCAACAAAATCAAGCA
Found at i:6122632 original size:53 final size:54
Alignment explanation
Indices: 6122539--6122647 Score: 166
Period size: 53 Copynumber: 2.0 Consensus size: 54
6122529 CTTTTTCCCA
*
6122539 TTGCTTTGCTGGTTTTTTTTCTTTTTACCCATGCTCCTCATTCTTCTCCATCAT
1 TTGCTTTGCTGGTTTTTTTTCTTTTTACCCATACTCCTCATTCTTCTCCATCAT
* * * *
6122593 TTGCTTTGCTGG-TTTTTTTCTTTTTGCCTATACTTCTCATTCTTCTCCATTAT
1 TTGCTTTGCTGGTTTTTTTTCTTTTTACCCATACTCCTCATTCTTCTCCATCAT
6122646 TT
1 TT
6122648 TTTTTGTTGT
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
53 38 0.76
54 12 0.24
ACGTcount: A:0.09, C:0.25, G:0.09, T:0.57
Consensus pattern (54 bp):
TTGCTTTGCTGGTTTTTTTTCTTTTTACCCATACTCCTCATTCTTCTCCATCAT
Found at i:6123082 original size:21 final size:21
Alignment explanation
Indices: 6123053--6123104 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
6123043 TTTTTTGGAT
* *
6123053 TTTGTTTTTTTGTTAATTTTA
1 TTTGATTTTTTATTAATTTTA
6123074 TTTGATTTTTTATTAA-TTTA
1 TTTGATTTTTTATTAATTTTA
6123094 -TT-ATTTTTTAT
1 TTTGATTTTTTAT
6123105 ATTTTCTTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 9 0.31
19 2 0.07
20 4 0.14
21 14 0.48
ACGTcount: A:0.19, C:0.00, G:0.06, T:0.75
Consensus pattern (21 bp):
TTTGATTTTTTATTAATTTTA
Found at i:6123114 original size:17 final size:18
Alignment explanation
Indices: 6123058--6123119 Score: 63
Period size: 17 Copynumber: 3.3 Consensus size: 18
6123048 TGGATTTTGT
*
6123058 TTTTTTGTTAATTTTATTTGA
1 TTTTTTATTAA-TTTA-TT-A
6123079 TTTTTTATTAATTTATTA
1 TTTTTTATTAATTTATTA
* *
6123097 TTTTTTA-TATTTTCTTA
1 TTTTTTATTAATTTATTA
6123114 TTTTTT
1 TTTTTT
6123120 TATGTTGAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
17 14 0.37
18 8 0.21
19 2 0.05
20 4 0.11
21 10 0.26
ACGTcount: A:0.19, C:0.02, G:0.03, T:0.76
Consensus pattern (18 bp):
TTTTTTATTAATTTATTA
Found at i:6127646 original size:38 final size:39
Alignment explanation
Indices: 6127596--6127671 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 39
6127586 CTAGGGAGAA
6127596 AAAATCTCTTTAACCGATTATCAAGGGGGA-AAATTTTG
1 AAAATCTCTTTAACCGATTATCAAGGGGGAGAAATTTTG
*
6127634 AAAATCTCTTTAACTGATTATCAAGGGGGAGAAATTTT
1 AAAATCTCTTTAACCGATTATCAAGGGGGAGAAATTTT
6127672 TAACGAAAGT
Statistics
Matches: 36, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
38 29 0.81
39 7 0.19
ACGTcount: A:0.37, C:0.12, G:0.18, T:0.33
Consensus pattern (39 bp):
AAAATCTCTTTAACCGATTATCAAGGGGGAGAAATTTTG
Found at i:6128283 original size:20 final size:19
Alignment explanation
Indices: 6128237--6128293 Score: 87
Period size: 19 Copynumber: 2.9 Consensus size: 19
6128227 TTGTATCAAT
*
6128237 ACATTGTATCGATACATGT
1 ACATTGTATCGATACATGG
*
6128256 TCATTGTATCGATACATGG
1 ACATTGTATCGATACATGG
6128275 ACAATTGTATCGATACATG
1 AC-ATTGTATCGATACATG
6128294 AAACTGGCAG
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.35
Consensus pattern (19 bp):
ACATTGTATCGATACATGG
Found at i:6128355 original size:13 final size:13
Alignment explanation
Indices: 6128337--6128389 Score: 55
Period size: 13 Copynumber: 4.5 Consensus size: 13
6128327 TCGATCATGG
6128337 TACATTGTATCGA
1 TACATTGTATCGA
*
6128350 TACATTGTATTGA
1 TACATTGTATCGA
6128363 TACA-TG-AT-G-
1 TACATTGTATCGA
6128372 -A-ATTGTATCGA
1 TACATTGTATCGA
6128383 TACATTG
1 TACATTG
6128390 CTTCTAACGG
Statistics
Matches: 33, Mismatches: 1, Indels: 12
0.72 0.02 0.26
Matches are distributed among these distances:
7 1 0.03
8 3 0.09
9 2 0.06
10 2 0.06
11 2 0.06
12 3 0.09
13 20 0.61
ACGTcount: A:0.32, C:0.11, G:0.17, T:0.40
Consensus pattern (13 bp):
TACATTGTATCGA
Found at i:6132221 original size:20 final size:21
Alignment explanation
Indices: 6132180--6132232 Score: 72
Period size: 20 Copynumber: 2.6 Consensus size: 21
6132170 ATAATAAGGC
6132180 AATGTATCGATACATAAGTG-
1 AATGTATCGATACATAAGTGA
***
6132200 AATGTATCGATACATGCTTGA
1 AATGTATCGATACATAAGTGA
6132221 AATGTATCGATA
1 AATGTATCGATA
6132233 TAGGACTATA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.59
21 12 0.41
ACGTcount: A:0.38, C:0.11, G:0.19, T:0.32
Consensus pattern (21 bp):
AATGTATCGATACATAAGTGA
Found at i:6132287 original size:20 final size:20
Alignment explanation
Indices: 6132262--6132315 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
6132252 GAAAGGAAAT
* * *
6132262 TGTATCAATACATTTTTTAA
1 TGTATCGATACATTTCTCAA
*
6132282 TGTATCGATACATTTCTCAT
1 TGTATCGATACATTTCTCAA
6132302 TGTATCGATACATT
1 TGTATCGATACATT
6132316 CTGGGTTTTG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.30, C:0.15, G:0.09, T:0.46
Consensus pattern (20 bp):
TGTATCGATACATTTCTCAA
Found at i:6136985 original size:19 final size:19
Alignment explanation
Indices: 6136941--6136996 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
6136931 CTGCCAGTTT
**
6136941 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
*
6136961 CATGTATCAATACAATGAA
1 CATGTATCGATACAATGAA
6136980 CATGTATCGATACAATG
1 CATGTATCGATACAATG
6136997 CATCGATACA
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:0.38, C:0.18, G:0.14, T:0.30
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:6139327 original size:21 final size:23
Alignment explanation
Indices: 6139297--6139338 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
6139287 GATTTTGATA
*
6139297 AAAAATTAAG-TATTTTGAAGTG
1 AAAAATTAAGAAATTTTGAAGTG
6139319 AAAAA-TAAGAAATTTTGAAG
1 AAAAATTAAGAAATTTTGAAG
6139339 AAAGGATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.31
Consensus pattern (23 bp):
AAAAATTAAGAAATTTTGAAGTG
Found at i:6143816 original size:19 final size:19
Alignment explanation
Indices: 6143772--6143827 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
6143762 CTGCCAGTTT
**
6143772 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
6143792 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
* *
6143811 CATGTATTGATATAATG
1 CATGTATCGATACAATG
6143828 TATCGATACA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
19 17 0.53
20 15 0.47
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:6159267 original size:5 final size:6
Alignment explanation
Indices: 6159250--6159277 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
6159240 ATAATATCTC
6159250 TCTTTT TCTTTT TCTTTT TCTTTT TCTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTT
6159278 GACTATTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (6 bp):
TCTTTT
Found at i:6159837 original size:27 final size:27
Alignment explanation
Indices: 6159799--6159874 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 27
6159789 AAAATTTAAT
* * **
6159799 TAAAGAGTTTAATTAAAATTTTTATGTA
1 TAAA-AGTTTAATAAAAATTTCTATACA
*
6159827 TAAAAGTTTAATAAAAAATTCTATACA
1 TAAAAGTTTAATAAAAATTTCTATACA
*
6159854 TAAAAGTTTAATCAAAATTTC
1 TAAAAGTTTAATAAAAATTTC
6159875 ATGTGTGAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 37 0.90
28 4 0.10
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (27 bp):
TAAAAGTTTAATAAAAATTTCTATACA
Found at i:6160452 original size:33 final size:32
Alignment explanation
Indices: 6160407--6160471 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
6160397 ATACACCTAG
*
6160407 ATGTATCAATACATATTGCTTAGTATCGATACA
1 ATGTATCAATACATATTGATTA-TATCGATACA
* *
6160440 ATGTATCGATACATGTTGATTATATCGATACA
1 ATGTATCAATACATATTGATTATATCGATACA
6160472 TCATGAATTA
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
32 10 0.34
33 19 0.66
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (32 bp):
ATGTATCAATACATATTGATTATATCGATACA
Found at i:6160483 original size:20 final size:19
Alignment explanation
Indices: 6160443--6160489 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
6160433 CGATACAATG
**
6160443 TATCGATACATGTTGATTA
1 TATCGATACATCATGATTA
6160462 TATCGATACATCATGAATTA
1 TATCGATACATCATG-ATTA
*
6160482 TATTGATA
1 TATCGATA
6160490 TATAAAATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 13 0.54
20 11 0.46
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.40
Consensus pattern (19 bp):
TATCGATACATCATGATTA
Found at i:6160611 original size:23 final size:23
Alignment explanation
Indices: 6160551--6160613 Score: 108
Period size: 23 Copynumber: 2.7 Consensus size: 23
6160541 ATTACTGTTA
*
6160551 ATCACTGTTCATATATCACTATT
1 ATCACTGTTCATGTATCACTATT
6160574 ATCACTGTTCATGTATCACTATT
1 ATCACTGTTCATGTATCACTATT
*
6160597 ATCACTGTTCTTGTATC
1 ATCACTGTTCATGTATC
6160614 GATACAGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.25, C:0.22, G:0.08, T:0.44
Consensus pattern (23 bp):
ATCACTGTTCATGTATCACTATT
Found at i:6160626 original size:13 final size:13
Alignment explanation
Indices: 6160608--6160663 Score: 52
Period size: 13 Copynumber: 4.8 Consensus size: 13
6160598 TCACTGTTCT
6160608 TGTATCGATACAG
1 TGTATCGATACAG
*
6160621 TGTATCGATATAG
1 TGTATCGATACAG
*
6160634 TG--T-GA-ATA-
1 TGTATCGATACAG
6160642 -GTATCGATACAG
1 TGTATCGATACAG
6160654 TGTATCGATA
1 TGTATCGATA
6160664 TAGTATGAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
7 1 0.03
9 4 0.11
10 4 0.11
11 3 0.09
13 23 0.66
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (13 bp):
TGTATCGATACAG
Found at i:6160647 original size:33 final size:33
Alignment explanation
Indices: 6160609--6160685 Score: 145
Period size: 33 Copynumber: 2.3 Consensus size: 33
6160599 CACTGTTCTT
*
6160609 GTATCGATACAGTGTATCGATATAGTGTGAATA
1 GTATCGATACAGTGTATCGATATAGTATGAATA
6160642 GTATCGATACAGTGTATCGATATAGTATGAATA
1 GTATCGATACAGTGTATCGATATAGTATGAATA
6160675 GTATCGATACA
1 GTATCGATACA
6160686 ATGAGCCCAA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.35, C:0.10, G:0.22, T:0.32
Consensus pattern (33 bp):
GTATCGATACAGTGTATCGATATAGTATGAATA
Found at i:6161198 original size:36 final size:35
Alignment explanation
Indices: 6161140--6161208 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 35
6161130 AGTGATTGTG
* *
6161140 AGGTTCTATCTTAGCCTTTGAAAAAGATAGGGAGAA
1 AGGTTCTATCTTAGCCTGTG-AAAAGATAAGGAGAA
*
6161176 AGGTTCTATTTTAG-CTCGTGAAAAGATAAGGAG
1 AGGTTCTATCTTAGCCT-GTGAAAAGATAAGGAG
6161209 GTTTCTATCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 14 0.48
36 15 0.52
ACGTcount: A:0.35, C:0.10, G:0.26, T:0.29
Consensus pattern (35 bp):
AGGTTCTATCTTAGCCTGTGAAAAGATAAGGAGAA
Found at i:6161694 original size:116 final size:116
Alignment explanation
Indices: 6161484--6161694 Score: 262
Period size: 116 Copynumber: 1.8 Consensus size: 116
6161474 CGTTAACACA
* * * * * *
6161484 ATTTTATCCCTTTTTTATCATTGTAACTCTTCTTAACCAATTTTGACTAAATTTGATCAATTTTG
1 ATTTTATCCATCTTTTATCATCGTAACTATTCTTAACCAATTTTGACTAAATTTGATCAAGTTTC
* * * *
6161549 GCCTATTTTGACAAGGGTTTGATCGAATTTAACCTAAGGCAATTTTGTTTG
66 ACCTAATTAGACAAGGGTTTGATCAAATTTAACCTAAGGCAATTTTGTTTG
* * **
6161600 ATTTTATCCATCTTTTATCATCGTAACTATTCTTAACCAATTTTGATTGAATTTGATTGAGTTTC
1 ATTTTATCCATCTTTTATCATCGTAACTATTCTTAACCAATTTTGACTAAATTTGATCAAGTTTC
**
6161665 ACCTAATTAGACTTGGGTTTGA-CTAAATTT
66 ACCTAATTAGACAAGGGTTTGATC-AAATTT
6161695 GATTGGTCCA
Statistics
Matches: 78, Mismatches: 16, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
115 1 0.01
116 77 0.99
ACGTcount: A:0.27, C:0.15, G:0.12, T:0.46
Consensus pattern (116 bp):
ATTTTATCCATCTTTTATCATCGTAACTATTCTTAACCAATTTTGACTAAATTTGATCAAGTTTC
ACCTAATTAGACAAGGGTTTGATCAAATTTAACCTAAGGCAATTTTGTTTG
Found at i:6161700 original size:20 final size:20
Alignment explanation
Indices: 6161649--6161700 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 20
6161639 ATTTTGATTG
*
6161649 AATTTGATTGAGTTTCACCT
1 AATTTGATTGGGTTTCACCT
* *
6161669 AATTAGACTTGGGTTTGA-CT
1 AATTTGA-TTGGGTTTCACCT
6161689 AAATTTGATTGG
1 -AATTTGATTGG
6161701 TCCATTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
20 12 0.46
21 14 0.54
ACGTcount: A:0.27, C:0.10, G:0.21, T:0.42
Consensus pattern (20 bp):
AATTTGATTGGGTTTCACCT
Found at i:6162072 original size:11 final size:11
Alignment explanation
Indices: 6162040--6162074 Score: 61
Period size: 11 Copynumber: 3.2 Consensus size: 11
6162030 CATGTGAAAT
*
6162040 TTTTAATTAAT
1 TTTTAATTAAA
6162051 TTTTAATTAAA
1 TTTTAATTAAA
6162062 TTTTAATTAAA
1 TTTTAATTAAA
6162073 TT
1 TT
6162075 CTCATATATG
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTAATTAAA
Found at i:6162098 original size:27 final size:26
Alignment explanation
Indices: 6162060--6162117 Score: 64
Period size: 28 Copynumber: 2.2 Consensus size: 26
6162050 TTTTTAATTA
*
6162060 AATTTTAATT-AAATTCTCATATATGG
1 AATTTTAATTAAAATTCTCACATAT-G
* *
6162086 AATTTTCATTTAAAATTTTCACATATG
1 AATTTT-AATTAAAATTCTCACATATG
6162113 AATTT
1 AATTT
6162118 ACATGTGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 6 0.22
27 9 0.33
28 12 0.44
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (26 bp):
AATTTTAATTAAAATTCTCACATATG
Found at i:6162128 original size:28 final size:28
Alignment explanation
Indices: 6162070--6162129 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 28
6162060 AATTTTAATT
* * *
6162070 AAATTCTCATATATGGAATTTTCATTTA
1 AAATTCTCACATATGGAATTTACATTGA
*
6162098 AAATTTTCACATAT-GAATTTACATGTGA
1 AAATTCTCACATATGGAATTTACAT-TGA
6162126 AAAT
1 AAAT
6162130 AGAATTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
27 9 0.33
28 18 0.67
ACGTcount: A:0.40, C:0.10, G:0.08, T:0.42
Consensus pattern (28 bp):
AAATTCTCACATATGGAATTTACATTGA
Found at i:6163085 original size:34 final size:35
Alignment explanation
Indices: 6163047--6163113 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
6163037 CCTTACAACA
6163047 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
6163081 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
6163114 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:6163590 original size:13 final size:13
Alignment explanation
Indices: 6163572--6163597 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6163562 CAATTTTTTG
6163572 TGTATCGATACAT
1 TGTATCGATACAT
6163585 TGTATCGATACAT
1 TGTATCGATACAT
6163598 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:6165422 original size:13 final size:13
Alignment explanation
Indices: 6165404--6165428 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
6165394 ACTGAAGTAA
6165404 TGTATCGATACAT
1 TGTATCGATACAT
6165417 TGTATCGATACA
1 TGTATCGATACA
6165429 ATCTGGAAAA
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:6166028 original size:23 final size:24
Alignment explanation
Indices: 6165983--6166029 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
6165973 CAAAGAATTG
*
6165983 AACACAAATTCAATTAAGCACAAA
1 AACACAAATTCAATTAAGAACAAA
6166007 AACAC-AATTCAATTGAA-AACAAA
1 AACACAAATTCAATT-AAGAACAAA
6166030 TTTTCAACAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.60, C:0.19, G:0.04, T:0.17
Consensus pattern (24 bp):
AACACAAATTCAATTAAGAACAAA
Found at i:6168646 original size:34 final size:35
Alignment explanation
Indices: 6168608--6168674 Score: 102
Period size: 37 Copynumber: 1.9 Consensus size: 35
6168598 CCTTACAACA
6168608 CTATC-TTTC-AAGGCTAAGATAGAAACCTCTCTCT
1 CTATCTTTTCAAAGGCTAAGATAG-AACCTCTCTCT
6168642 CTATCTTTTTCAAAGGCTAAGATAGAACCTCTC
1 CTATC-TTTTCAAAGGCTAAGATAGAACCTCTC
6168675 AATCACTTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
34 5 0.17
36 12 0.40
37 13 0.43
ACGTcount: A:0.30, C:0.25, G:0.12, T:0.33
Consensus pattern (35 bp):
CTATCTTTTCAAAGGCTAAGATAGAACCTCTCTCT
Found at i:6169151 original size:13 final size:13
Alignment explanation
Indices: 6169133--6169158 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6169123 CAATTTTTTG
6169133 TGTATCGATACAT
1 TGTATCGATACAT
6169146 TGTATCGATACAT
1 TGTATCGATACAT
6169159 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:6170290 original size:2 final size:2
Alignment explanation
Indices: 6170283--6170326 Score: 79
Period size: 2 Copynumber: 22.0 Consensus size: 2
6170273 ATCATCAAAA
*
6170283 AT AT AT AT AC 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 AT
6170325 AT
1 AT
6170327 CTAACTCTCT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:6170418 original size:38 final size:38
Alignment explanation
Indices: 6170349--6170527 Score: 160
Period size: 38 Copynumber: 4.7 Consensus size: 38
6170339 ACAAGTTGTG
* ** *
6170349 AATAAAAACTACTATTTTAAATAGGTAGCACGGTTCAA
1 AATAAAAACTACTATTCTAAACCGGTGGCACGGTTCAA
* *
6170387 AATAAAAACTATTATTCTAAACCGGTGGCACGGTTCGA
1 AATAAAAACTACTATTCTAAACCGGTGGCACGGTTCAA
* * * *
6170425 AATGAAAATTACTATTCTAAACCGGTAGCACAGTTCAA
1 AATAAAAACTACTATTCTAAACCGGTGGCACGGTTCAA
* * ** * * * *
6170463 TACAAAAACTTTTATTCTTATCCGGTGACACGATTCAA
1 AATAAAAACTACTATTCTAAACCGGTGGCACGGTTCAA
* * * *
6170501 TACAAAAACTACTATTTTTAACCGGTG
1 AATAAAAACTACTATTCTAAACCGGTG
6170528 ACATGGTTTG
Statistics
Matches: 113, Mismatches: 28, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
38 113 1.00
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (38 bp):
AATAAAAACTACTATTCTAAACCGGTGGCACGGTTCAA
Found at i:6170524 original size:76 final size:76
Alignment explanation
Indices: 6170352--6170526 Score: 199
Period size: 76 Copynumber: 2.3 Consensus size: 76
6170342 AGTTGTGAAT
** * * *
6170352 AAAAACTACTATTTTAAATAGGTAGCACGGTTCAAAATAAAAACTATTATTCTAAACCGGTGGCA
1 AAAAACTACTATTTTAAACCGGTAGCACAGTTCAAAACAAAAACTATTATTCTAAACCGGTGACA
* *
6170417 CGGTTCGAAAT
66 CGATTCGAAAC
* * * * * * *
6170428 GAAAATTACTATTCTAAACCGGTAGCACAGTTCAATACAAAAACTTTTATTCTTATCCGGTGACA
1 AAAAACTACTATTTTAAACCGGTAGCACAGTTCAAAACAAAAACTATTATTCTAAACCGGTGACA
6170493 CGATTC-AATAC
66 CGATTCGAA-AC
*
6170504 AAAAACTACTATTTTTAACCGGT
1 AAAAACTACTATTTTAAACCGGT
6170527 GACATGGTTT
Statistics
Matches: 80, Mismatches: 18, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
75 2 0.03
76 78 0.98
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (76 bp):
AAAAACTACTATTTTAAACCGGTAGCACAGTTCAAAACAAAAACTATTATTCTAAACCGGTGACA
CGATTCGAAAC
Found at i:6171353 original size:21 final size:22
Alignment explanation
Indices: 6171324--6171373 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
6171314 AAATTAATAA
*
6171324 AACTGAAATTTATATTATTTTT
1 AACTGAAATATATATTATTTTT
*
6171346 AACT-AAATATATTTTA-TTTT
1 AACTGAAATATATATTATTTTT
*
6171366 AACCGAAA
1 AACTGAAA
6171374 ATAATATCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 13 0.54
22 4 0.17
ACGTcount: A:0.42, C:0.08, G:0.04, T:0.46
Consensus pattern (22 bp):
AACTGAAATATATATTATTTTT
Found at i:6176557 original size:43 final size:44
Alignment explanation
Indices: 6176464--6176594 Score: 158
Period size: 43 Copynumber: 3.0 Consensus size: 44
6176454 TTTTAGCTAG
* * * ** ***
6176464 CCAAAATAAAATTTAACTTGAAAACCAAGTCTTAGTTATTA-TA
1 CCAAAATAGAATTTGACTTGGAAACCAAGTCTTAACTGCCATTA
*
6176507 CCAAAATAGAATTTGAGTTGGAAACCAAGTCTTAACTGCCATTA
1 CCAAAATAGAATTTGACTTGGAAACCAAGTCTTAACTGCCATTA
*
6176551 CC-AAATAGAATTTGACTTGGAAACCAAGTCTTAACTGCTATTA
1 CCAAAATAGAATTTGACTTGGAAACCAAGTCTTAACTGCCATTA
6176594 C
1 C
6176595 TTATCTTCTC
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
43 72 0.95
44 4 0.05
ACGTcount: A:0.40, C:0.18, G:0.12, T:0.30
Consensus pattern (44 bp):
CCAAAATAGAATTTGACTTGGAAACCAAGTCTTAACTGCCATTA
Found at i:6178079 original size:22 final size:22
Alignment explanation
Indices: 6178051--6178092 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
6178041 TGGCTTTAAA
*
6178051 TCATGGTTGAAGACTGTTTTCT
1 TCATGGTTGAAGACTCTTTTCT
6178073 TCATGGTTGAAGACTCTTTT
1 TCATGGTTGAAGACTCTTTT
6178093 TGGCAACTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.14, G:0.21, T:0.45
Consensus pattern (22 bp):
TCATGGTTGAAGACTCTTTTCT
Found at i:6181253 original size:43 final size:43
Alignment explanation
Indices: 6181189--6181308 Score: 179
Period size: 43 Copynumber: 2.8 Consensus size: 43
6181179 TAACCAGCCG
* *
6181189 AAATAGAATTAGACTTAGAAACCAAGTCTTAGCTACC-ATACC
1 AAATAGAATTTGACTTGGAAACCAAGTCTTAGCTACCAATACC
* *
6181231 AAAATAGAATTTGAGTTGGAAACCAAGTCTTAGCTGCCAATACC
1 -AAATAGAATTTGACTTGGAAACCAAGTCTTAGCTACCAATACC
*
6181275 AAATAGAATTTAACTTGGAAACCAAGTCTTAGCT
1 AAATAGAATTTGACTTGGAAACCAAGTCTTAGCT
6181309 GCTATTACTT
Statistics
Matches: 70, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
43 65 0.93
44 5 0.07
ACGTcount: A:0.41, C:0.18, G:0.15, T:0.26
Consensus pattern (43 bp):
AAATAGAATTTGACTTGGAAACCAAGTCTTAGCTACCAATACC
Found at i:6183597 original size:16 final size:16
Alignment explanation
Indices: 6183578--6183653 Score: 59
Period size: 16 Copynumber: 4.7 Consensus size: 16
6183568 AATAATATAA
*
6183578 ATATATTATAAAATTT
1 ATATAATATAAAATTT
*
6183594 ATATAATATAAATTATT
1 ATATAATATAAAAT-TT
6183611 A-AT-ATATTAAAATTT
1 ATATAATA-TAAAATTT
* *
6183626 AAATAAATATAAAATAT
1 ATAT-AATATAAAATTT
6183643 AT-TAATTATAA
1 ATATAA-TATAA
6183654 TTATAATATA
Statistics
Matches: 49, Mismatches: 5, Indels: 12
0.74 0.08 0.18
Matches are distributed among these distances:
15 8 0.16
16 27 0.55
17 11 0.22
18 3 0.06
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATAATATAAAATTT
Found at i:6183600 original size:27 final size:28
Alignment explanation
Indices: 6183569--6183682 Score: 99
Period size: 32 Copynumber: 3.9 Consensus size: 28
6183559 ATATATAAAA
6183569 ATAATATAAATATATTA-TAAAATTTAT
1 ATAATATAAATATATTATTAAAATTTAT
*
6183596 ATAATATAAATTATTAATATATTAAAATTTAA
1 ATAATATAAA-TA-T-AT-TATTAAAATTTAT
*
6183628 ATAAATATAAAATATATTAATTATAATTATAAT
1 AT-AATAT-AAATATATT-ATTAAAATT-T-AT
*
6183661 ATACTA-AAATATATTA-TAAAAT
1 ATAATATAAATATATTATTAAAAT
6183683 ATAAAGCGTA
Statistics
Matches: 72, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
27 10 0.14
28 7 0.10
29 2 0.03
30 12 0.17
31 12 0.17
32 16 0.22
33 10 0.14
34 3 0.04
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (28 bp):
ATAATATAAATATATTATTAAAATTTAT
Found at i:6183626 original size:32 final size:37
Alignment explanation
Indices: 6183557--6183659 Score: 110
Period size: 34 Copynumber: 2.9 Consensus size: 37
6183547 TATATCAAAA
* *
6183557 AAATATATA-AAAATAATATAAATATATTATAAAATTT
1 AAATAAATATAAAAT-ATATTAATATATTATAAAATTT
*
6183594 ATAT-AATAT-AAAT-TATTAATATA-T-TAAAATTT
1 AAATAAATATAAAATATATTAATATATTATAAAATTT
6183626 AAATAAATATAAAATATATTAATTATAATTATAA
1 AAATAAATATAAAATATATTAA-TAT-ATTATAA
6183660 TATACTAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 14
0.75 0.06 0.19
Matches are distributed among these distances:
32 11 0.20
33 6 0.11
34 13 0.24
35 6 0.11
36 10 0.19
37 4 0.07
38 1 0.02
39 3 0.06
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (37 bp):
AAATAAATATAAAATATATTAATATATTATAAAATTT
Done.